Query 002364
Match_columns 930
No_of_seqs 461 out of 4038
Neff 9.8
Searched_HMMs 46136
Date Thu Mar 28 22:22:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002364.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002364hhsearch_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 3E-88 6.4E-93 701.2 52.2 777 27-859 22-845 (897)
2 KOG4440 NMDA selective glutama 100.0 7.3E-82 1.6E-86 656.5 40.6 748 26-859 30-857 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 7.3E-76 1.6E-80 634.4 58.5 768 30-854 37-851 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 5.9E-65 1.3E-69 605.2 56.1 595 215-859 5-624 (656)
5 cd06392 PBP1_iGluR_delta_1 N-t 100.0 7.6E-47 1.7E-51 412.2 39.7 362 33-421 1-399 (400)
6 cd06393 PBP1_iGluR_Kainate_Glu 100.0 4.8E-46 1E-50 415.3 40.0 366 31-422 2-383 (384)
7 cd06374 PBP1_mGluR_groupI Liga 100.0 6.6E-46 1.4E-50 424.7 40.0 375 26-422 4-469 (472)
8 cd06361 PBP1_GPC6A_like Ligand 100.0 1.6E-45 3.5E-50 410.2 40.4 336 45-419 34-396 (403)
9 cd06375 PBP1_mGluR_groupII Lig 100.0 2.7E-45 5.9E-50 415.5 41.2 364 30-416 1-454 (458)
10 cd06362 PBP1_mGluR Ligand bind 100.0 2E-45 4.4E-50 420.7 40.6 370 30-420 1-450 (452)
11 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 2.1E-45 4.6E-50 401.9 38.6 357 33-420 1-363 (364)
12 cd06365 PBP1_Pheromone_recepto 100.0 4.3E-45 9.3E-50 415.7 39.3 367 30-416 1-452 (469)
13 cd06364 PBP1_CaSR Ligand-bindi 100.0 1.3E-44 2.8E-49 414.0 42.1 372 27-417 8-494 (510)
14 cd06376 PBP1_mGluR_groupIII Li 100.0 3.1E-44 6.8E-49 410.3 41.0 366 30-416 1-452 (463)
15 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1E-43 2.2E-48 387.0 40.0 363 33-420 1-371 (372)
16 cd06391 PBP1_iGluR_delta_2 N-t 100.0 1.2E-43 2.6E-48 392.1 40.1 366 33-421 1-399 (400)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.5E-43 3.3E-48 396.5 40.6 372 33-420 1-381 (382)
18 cd06366 PBP1_GABAb_receptor Li 100.0 1.5E-43 3.2E-48 392.3 37.0 338 33-422 1-348 (350)
19 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 4.4E-43 9.6E-48 391.4 40.9 336 29-417 17-364 (377)
20 cd06386 PBP1_NPR_C_like Ligand 100.0 6.7E-43 1.5E-47 389.6 39.3 350 36-418 4-380 (387)
21 cd06363 PBP1_Taste_receptor Li 100.0 1.4E-42 3.1E-47 390.9 39.4 352 28-417 3-396 (410)
22 cd06367 PBP1_iGluR_NMDA N-term 100.0 6.8E-43 1.5E-47 388.2 36.2 339 31-416 2-351 (362)
23 cd06370 PBP1_Speract_GC_like L 100.0 1.3E-42 2.9E-47 390.3 36.9 352 32-412 1-390 (404)
24 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 8.4E-42 1.8E-46 375.5 40.0 361 33-421 1-370 (371)
25 cd06385 PBP1_NPR_A Ligand-bind 100.0 4.7E-42 1E-46 387.0 38.6 356 33-418 1-392 (405)
26 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 8.9E-42 1.9E-46 376.6 39.1 362 33-421 1-369 (370)
27 cd06372 PBP1_GC_G_like Ligand- 100.0 7.3E-42 1.6E-46 383.9 38.5 355 33-418 1-387 (391)
28 cd06371 PBP1_sensory_GC_DEF_li 100.0 8.3E-42 1.8E-46 379.7 37.1 348 33-414 1-369 (382)
29 cd06373 PBP1_NPR_like Ligand b 100.0 6.5E-42 1.4E-46 385.0 36.3 357 33-418 1-390 (396)
30 cd06352 PBP1_NPR_GC_like Ligan 100.0 3.4E-41 7.4E-46 379.2 38.4 359 33-419 1-384 (389)
31 cd06382 PBP1_iGluR_Kainate N-t 100.0 3.4E-41 7.3E-46 369.4 31.7 316 33-420 1-326 (327)
32 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.3E-40 4.9E-45 371.9 38.7 356 33-418 1-393 (399)
33 cd06394 PBP1_iGluR_Kainate_KA1 100.0 5.5E-41 1.2E-45 359.9 28.3 323 33-421 1-332 (333)
34 KOG1056 Glutamate-gated metabo 100.0 2.7E-39 5.8E-44 365.4 37.1 392 26-459 26-494 (878)
35 PRK15404 leucine ABC transport 100.0 8.6E-39 1.9E-43 353.8 37.4 338 28-408 22-364 (369)
36 cd06368 PBP1_iGluR_non_NMDA_li 100.0 9.6E-38 2.1E-42 342.2 32.6 316 33-420 1-323 (324)
37 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 2.7E-37 5.7E-42 340.6 34.9 328 33-403 1-334 (334)
38 PF01094 ANF_receptor: Recepto 100.0 2.1E-37 4.6E-42 343.9 33.5 334 48-404 2-348 (348)
39 cd06346 PBP1_ABC_ligand_bindin 100.0 5.6E-37 1.2E-41 333.2 30.5 304 33-400 1-310 (312)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 1.5E-36 3.3E-41 335.8 33.8 328 33-402 1-344 (345)
41 cd06381 PBP1_iGluR_delta_like 100.0 4.5E-36 9.8E-41 328.2 36.6 332 33-420 1-362 (363)
42 cd06345 PBP1_ABC_ligand_bindin 100.0 2.9E-36 6.4E-41 332.9 34.1 321 33-395 1-338 (344)
43 cd06350 PBP1_GPCR_family_C_lik 100.0 3.6E-36 7.7E-41 333.4 32.6 308 33-417 1-340 (348)
44 cd06348 PBP1_ABC_ligand_bindin 100.0 6.8E-36 1.5E-40 330.2 34.6 334 33-400 1-343 (344)
45 cd06355 PBP1_FmdD_like Peripla 100.0 3.2E-35 7E-40 324.0 35.7 337 33-411 1-345 (348)
46 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.1E-35 2.4E-40 324.6 31.6 304 78-422 43-355 (362)
47 COG0683 LivK ABC-type branched 100.0 4.4E-35 9.6E-40 323.5 34.9 339 29-407 8-356 (366)
48 cd06340 PBP1_ABC_ligand_bindin 100.0 2.5E-35 5.5E-40 325.2 31.5 324 33-396 1-342 (347)
49 TIGR03669 urea_ABC_arch urea A 100.0 1.1E-34 2.5E-39 319.8 36.0 340 32-415 1-349 (374)
50 cd06344 PBP1_ABC_ligand_bindin 100.0 5.2E-35 1.1E-39 321.0 31.8 320 33-396 1-327 (332)
51 cd06329 PBP1_SBP_like_3 Peripl 100.0 7.5E-35 1.6E-39 321.0 32.5 316 33-392 1-334 (342)
52 cd06343 PBP1_ABC_ligand_bindin 100.0 8.8E-34 1.9E-38 315.7 36.8 342 29-408 4-362 (362)
53 TIGR03407 urea_ABC_UrtA urea A 100.0 8.8E-34 1.9E-38 313.8 36.4 330 32-403 1-337 (359)
54 cd06331 PBP1_AmiC_like Type I 100.0 3.8E-34 8.3E-39 314.5 32.9 320 33-394 1-326 (333)
55 cd06349 PBP1_ABC_ligand_bindin 100.0 7.8E-34 1.7E-38 313.1 34.4 330 33-407 1-339 (340)
56 cd06347 PBP1_ABC_ligand_bindin 100.0 1.1E-33 2.4E-38 311.9 34.1 320 33-396 1-329 (334)
57 cd06327 PBP1_SBP_like_1 Peripl 100.0 7.1E-34 1.5E-38 312.5 30.5 320 33-396 1-330 (334)
58 cd06357 PBP1_AmiC Periplasmic 100.0 5.8E-33 1.2E-37 307.4 37.1 339 33-412 1-347 (360)
59 cd06359 PBP1_Nba_like Type I p 100.0 2.4E-33 5.3E-38 307.9 33.4 324 33-401 1-331 (333)
60 cd06330 PBP1_Arsenic_SBP_like 100.0 2E-33 4.4E-38 310.8 32.6 325 33-395 1-338 (346)
61 cd06336 PBP1_ABC_ligand_bindin 100.0 1.3E-33 2.9E-38 311.5 30.7 324 33-398 1-344 (347)
62 cd06328 PBP1_SBP_like_2 Peripl 100.0 6.6E-33 1.4E-37 303.9 33.0 316 33-392 1-325 (333)
63 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1.1E-33 2.4E-38 310.1 26.1 330 41-397 7-354 (368)
64 PF13458 Peripla_BP_6: Peripla 100.0 6E-33 1.3E-37 307.3 32.3 332 31-404 1-339 (343)
65 cd06360 PBP1_alkylbenzenes_lik 100.0 2.3E-32 4.9E-37 301.5 34.3 325 33-398 1-332 (336)
66 cd06356 PBP1_Amide_Urea_BP_lik 100.0 4E-32 8.6E-37 297.9 33.1 317 33-392 1-325 (334)
67 cd06358 PBP1_NHase Type I peri 100.0 6.3E-32 1.4E-36 296.7 33.5 315 33-392 1-324 (333)
68 PF13433 Peripla_BP_5: Peripla 100.0 8E-32 1.7E-36 280.6 31.4 316 32-391 1-325 (363)
69 cd06334 PBP1_ABC_ligand_bindin 100.0 5.2E-32 1.1E-36 297.6 31.3 325 33-392 1-347 (351)
70 cd06335 PBP1_ABC_ligand_bindin 100.0 7.9E-32 1.7E-36 297.4 32.6 319 33-392 1-337 (347)
71 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 1.3E-31 2.9E-36 294.6 32.6 315 33-416 1-322 (328)
72 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 8.4E-31 1.8E-35 280.3 36.9 339 29-420 16-374 (382)
73 cd06332 PBP1_aromatic_compound 100.0 6.3E-31 1.4E-35 289.8 33.9 320 33-396 1-327 (333)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 1.8E-30 3.9E-35 287.4 28.4 330 33-408 1-357 (357)
75 KOG1055 GABA-B ion channel rec 100.0 9.6E-31 2.1E-35 285.4 20.3 369 28-419 38-432 (865)
76 cd06326 PBP1_STKc_like Type I 100.0 1E-28 2.2E-33 272.4 33.1 319 32-391 1-328 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 5.1E-29 1.1E-33 272.8 25.3 301 33-392 1-328 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 2.5E-28 5.5E-33 265.1 26.0 299 45-402 10-314 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 3E-27 6.5E-32 261.0 31.0 308 33-383 1-318 (341)
80 cd06269 PBP1_glutamate_recepto 100.0 5.8E-27 1.3E-31 253.8 29.0 224 33-264 1-235 (298)
81 cd06333 PBP1_ABC-type_HAAT_lik 100.0 2.2E-26 4.8E-31 250.6 30.1 278 33-326 1-293 (312)
82 cd04509 PBP1_ABC_transporter_G 100.0 1.8E-26 3.9E-31 250.0 27.7 280 33-324 1-290 (299)
83 cd06268 PBP1_ABC_transporter_L 99.9 1.2E-24 2.6E-29 235.6 28.4 280 33-326 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 4.6E-24 1E-28 221.5 29.2 324 46-419 18-367 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 4.3E-21 9.2E-26 201.0 21.1 219 463-808 23-243 (247)
86 PRK10797 glutamate and asparta 99.9 7.6E-21 1.6E-25 203.4 22.1 224 463-809 38-272 (302)
87 PF00497 SBP_bac_3: Bacterial 99.8 1.4E-20 2.9E-25 194.7 16.2 221 467-808 1-224 (225)
88 PRK15010 ABC transporter lysin 99.8 8.2E-20 1.8E-24 192.7 21.5 222 463-808 24-254 (260)
89 PRK11260 cystine transporter s 99.8 7.7E-20 1.7E-24 193.6 20.7 223 462-809 38-262 (266)
90 PRK11917 bifunctional adhesin/ 99.8 1.3E-19 2.8E-24 190.0 21.8 219 463-807 36-258 (259)
91 TIGR01096 3A0103s03R lysine-ar 99.8 2.1E-19 4.5E-24 189.1 20.7 218 465-807 24-250 (250)
92 PRK15007 putative ABC transpor 99.8 2.5E-19 5.4E-24 187.4 21.1 217 464-808 20-242 (243)
93 PRK15437 histidine ABC transpo 99.8 4.4E-19 9.5E-24 187.0 20.3 222 464-809 25-255 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 7.2E-19 1.6E-23 186.9 19.2 223 463-808 31-261 (275)
95 PRK10859 membrane-bound lytic 99.8 8.4E-18 1.8E-22 191.7 19.3 223 462-809 40-267 (482)
96 PF00060 Lig_chan: Ligand-gate 99.7 4.3E-19 9.3E-24 169.8 1.3 107 586-692 1-115 (148)
97 PRK09959 hybrid sensory histid 99.7 8.1E-17 1.7E-21 207.4 21.1 217 463-808 300-520 (1197)
98 TIGR03870 ABC_MoxJ methanol ox 99.7 1.7E-16 3.7E-21 165.4 16.8 208 466-806 1-241 (246)
99 TIGR02285 conserved hypothetic 99.7 2.4E-16 5.1E-21 167.0 17.1 229 464-808 17-261 (268)
100 COG0834 HisJ ABC-type amino ac 99.7 1.2E-15 2.7E-20 163.0 19.6 225 463-808 32-264 (275)
101 cd00134 PBPb Bacterial peripla 99.7 2.8E-15 6E-20 153.5 20.3 214 467-807 1-218 (218)
102 PRK09959 hybrid sensory histid 99.7 8.4E-16 1.8E-20 198.0 18.2 227 455-809 48-278 (1197)
103 smart00062 PBPb Bacterial peri 99.7 4.8E-15 1E-19 151.7 19.3 215 466-807 1-219 (219)
104 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 8.5E-15 1.8E-19 151.9 18.7 210 467-807 2-228 (232)
105 cd01391 Periplasmic_Binding_Pr 99.6 2.4E-13 5.2E-18 144.1 23.9 216 33-262 1-220 (269)
106 PF04348 LppC: LppC putative l 99.4 3.8E-11 8.1E-16 137.1 23.1 310 29-404 217-534 (536)
107 smart00079 PBPe Eukaryotic hom 99.3 7.2E-12 1.6E-16 117.4 11.9 123 681-808 1-133 (134)
108 COG4623 Predicted soluble lyti 99.3 4.7E-11 1E-15 121.4 14.3 221 463-808 21-247 (473)
109 cd01537 PBP1_Repressors_Sugar_ 98.9 1.1E-07 2.4E-12 100.5 20.1 202 33-254 1-208 (264)
110 TIGR01098 3A0109s03R phosphate 98.9 2E-08 4.3E-13 105.7 14.0 199 464-793 31-254 (254)
111 cd01536 PBP1_ABC_sugar_binding 98.8 8.2E-07 1.8E-11 94.1 23.0 206 33-258 1-214 (267)
112 PRK00489 hisG ATP phosphoribos 98.8 2.8E-08 6E-13 105.4 11.2 164 523-808 51-219 (287)
113 cd06267 PBP1_LacI_sugar_bindin 98.7 8.7E-07 1.9E-11 93.7 20.0 204 33-256 1-209 (264)
114 PF10613 Lig_chan-Glu_bd: Liga 98.7 4.9E-09 1.1E-13 80.9 1.1 49 486-534 14-65 (65)
115 cd06300 PBP1_ABC_sugar_binding 98.7 3.1E-06 6.7E-11 90.1 22.7 202 33-251 1-211 (272)
116 cd06325 PBP1_ABC_uncharacteriz 98.7 1.8E-06 3.8E-11 92.4 20.5 201 33-248 1-208 (281)
117 COG3107 LppC Putative lipoprot 98.5 6E-06 1.3E-10 88.8 19.3 320 30-411 256-603 (604)
118 cd06320 PBP1_allose_binding Pe 98.5 2.4E-05 5.3E-10 83.3 23.8 207 33-258 1-215 (275)
119 COG2984 ABC-type uncharacteriz 98.4 6.1E-05 1.3E-09 77.3 23.1 204 27-248 26-240 (322)
120 cd06282 PBP1_GntR_like_2 Ligan 98.4 3.1E-05 6.8E-10 81.9 20.2 200 33-254 1-206 (266)
121 PRK10653 D-ribose transporter 98.3 0.00023 5E-09 76.6 25.6 209 29-258 24-239 (295)
122 cd06323 PBP1_ribose_binding Pe 98.3 9.9E-05 2.1E-09 78.2 22.3 204 33-258 1-213 (268)
123 cd06273 PBP1_GntR_like_1 This 98.2 7.5E-05 1.6E-09 79.1 19.8 200 33-254 1-208 (268)
124 cd06317 PBP1_ABC_sugar_binding 98.2 0.00013 2.8E-09 77.6 21.5 209 33-258 1-220 (275)
125 cd06319 PBP1_ABC_sugar_binding 98.2 0.00022 4.9E-09 75.9 22.6 208 33-259 1-219 (277)
126 cd06312 PBP1_ABC_sugar_binding 98.1 0.00058 1.3E-08 72.5 23.6 206 33-257 1-215 (271)
127 cd06301 PBP1_rhizopine_binding 98.1 0.00043 9.4E-09 73.5 22.5 209 33-259 1-218 (272)
128 TIGR03431 PhnD phosphonate ABC 98.1 4.2E-05 9.1E-10 82.0 14.2 116 680-801 125-257 (288)
129 PF13407 Peripla_BP_4: Peripla 98.1 0.00046 1E-08 72.6 21.9 202 34-251 1-209 (257)
130 cd06305 PBP1_methylthioribose_ 98.1 0.0006 1.3E-08 72.4 22.2 208 33-259 1-217 (273)
131 cd06310 PBP1_ABC_sugar_binding 98.0 0.0011 2.5E-08 70.3 23.9 209 33-259 1-217 (273)
132 PRK10936 TMAO reductase system 98.0 0.0015 3.3E-08 71.8 25.5 200 29-248 44-254 (343)
133 cd01545 PBP1_SalR Ligand-bindi 98.0 0.00049 1.1E-08 73.0 20.2 208 33-259 1-215 (270)
134 cd06309 PBP1_YtfQ_like Peripla 97.9 0.0017 3.8E-08 68.9 22.3 210 33-259 1-221 (273)
135 cd06298 PBP1_CcpA_like Ligand- 97.9 0.00091 2E-08 70.8 19.9 207 33-259 1-213 (268)
136 cd06289 PBP1_MalI_like Ligand- 97.8 0.0013 2.9E-08 69.5 19.7 207 33-258 1-213 (268)
137 COG1879 RbsB ABC-type sugar tr 97.8 0.0044 9.5E-08 67.6 23.9 207 30-250 32-245 (322)
138 cd06311 PBP1_ABC_sugar_binding 97.8 0.0054 1.2E-07 65.1 23.8 211 34-259 2-219 (274)
139 cd06284 PBP1_LacI_like_6 Ligan 97.8 0.0027 5.8E-08 67.1 20.8 197 34-251 2-203 (267)
140 cd06303 PBP1_LuxPQ_Quorum_Sens 97.8 0.005 1.1E-07 65.7 23.0 212 33-258 1-223 (280)
141 cd01539 PBP1_GGBP Periplasmic 97.8 0.0055 1.2E-07 66.2 23.1 216 33-259 1-240 (303)
142 PRK15395 methyl-galactoside AB 97.7 0.0096 2.1E-07 65.1 25.1 209 28-248 21-249 (330)
143 cd01540 PBP1_arabinose_binding 97.7 0.0067 1.5E-07 65.0 22.9 215 33-259 1-229 (289)
144 TIGR01481 ccpA catabolite cont 97.7 0.0038 8.2E-08 68.4 21.2 206 30-257 58-270 (329)
145 PRK10355 xylF D-xylose transpo 97.7 0.012 2.7E-07 64.2 24.3 202 29-249 23-236 (330)
146 cd06322 PBP1_ABC_sugar_binding 97.7 0.01 2.2E-07 62.7 23.2 195 33-248 1-203 (267)
147 cd06321 PBP1_ABC_sugar_binding 97.7 0.009 1.9E-07 63.3 22.6 206 33-259 1-214 (271)
148 cd06308 PBP1_sensor_kinase_lik 97.6 0.011 2.4E-07 62.5 23.1 207 33-259 1-216 (270)
149 cd01542 PBP1_TreR_like Ligand- 97.6 0.0052 1.1E-07 64.6 20.3 199 34-257 2-206 (259)
150 cd06288 PBP1_sucrose_transcrip 97.6 0.0038 8.2E-08 66.1 19.4 202 33-257 1-210 (269)
151 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0053 1.1E-07 64.9 20.4 200 34-254 2-211 (268)
152 cd01575 PBP1_GntR Ligand-bindi 97.6 0.0058 1.3E-07 64.6 20.7 205 33-257 1-211 (268)
153 PRK09701 D-allose transporter 97.6 0.032 6.9E-07 60.5 26.7 212 33-258 26-249 (311)
154 cd06324 PBP1_ABC_sugar_binding 97.6 0.0092 2E-07 64.5 22.4 211 34-259 2-238 (305)
155 cd06275 PBP1_PurR Ligand-bindi 97.6 0.0065 1.4E-07 64.3 20.5 203 33-254 1-208 (269)
156 cd06283 PBP1_RegR_EndR_KdgR_li 97.6 0.0086 1.9E-07 63.2 21.4 203 33-255 1-209 (267)
157 cd06295 PBP1_CelR Ligand bindi 97.6 0.0063 1.4E-07 64.6 20.2 209 31-259 3-222 (275)
158 PF00532 Peripla_BP_1: Peripla 97.6 0.005 1.1E-07 65.4 18.8 205 33-256 3-213 (279)
159 cd06306 PBP1_TorT-like TorT-li 97.5 0.015 3.3E-07 61.5 22.3 202 33-257 1-215 (268)
160 cd06299 PBP1_LacI_like_13 Liga 97.5 0.0078 1.7E-07 63.5 19.9 202 33-254 1-205 (265)
161 cd06316 PBP1_ABC_sugar_binding 97.5 0.02 4.3E-07 61.5 23.2 212 33-259 1-219 (294)
162 PRK15408 autoinducer 2-binding 97.5 0.04 8.8E-07 60.1 25.4 199 32-248 24-233 (336)
163 cd01538 PBP1_ABC_xylose_bindin 97.5 0.019 4.1E-07 61.5 22.4 199 33-250 1-216 (288)
164 cd06278 PBP1_LacI_like_2 Ligan 97.5 0.011 2.3E-07 62.5 20.2 192 33-247 1-197 (266)
165 cd01574 PBP1_LacI Ligand-bindi 97.5 0.019 4.1E-07 60.5 22.1 197 33-252 1-202 (264)
166 cd06313 PBP1_ABC_sugar_binding 97.5 0.024 5.3E-07 60.1 22.8 179 68-258 29-215 (272)
167 PRK10703 DNA-binding transcrip 97.5 0.01 2.2E-07 65.3 20.6 206 31-255 59-270 (341)
168 cd06293 PBP1_LacI_like_11 Liga 97.4 0.018 3.8E-07 61.0 21.4 205 33-257 1-210 (269)
169 cd06281 PBP1_LacI_like_5 Ligan 97.4 0.0083 1.8E-07 63.5 18.8 205 33-258 1-211 (269)
170 cd06318 PBP1_ABC_sugar_binding 97.4 0.029 6.3E-07 59.8 23.2 207 33-257 1-222 (282)
171 cd06274 PBP1_FruR Ligand bindi 97.4 0.018 3.9E-07 60.7 21.4 205 33-256 1-210 (264)
172 cd06270 PBP1_GalS_like Ligand 97.4 0.02 4.3E-07 60.6 21.4 206 33-258 1-212 (268)
173 cd06285 PBP1_LacI_like_7 Ligan 97.4 0.013 2.9E-07 61.8 19.9 203 33-258 1-210 (265)
174 PRK11303 DNA-binding transcrip 97.4 0.031 6.7E-07 61.1 23.2 203 30-254 60-268 (328)
175 PRK10014 DNA-binding transcrip 97.4 0.022 4.9E-07 62.7 22.1 203 30-251 63-270 (342)
176 cd06314 PBP1_tmGBP Periplasmic 97.4 0.056 1.2E-06 57.2 24.1 206 33-259 1-213 (271)
177 cd06292 PBP1_LacI_like_10 Liga 97.4 0.023 5.1E-07 60.1 21.0 204 34-255 2-212 (273)
178 cd06294 PBP1_ycjW_transcriptio 97.3 0.022 4.8E-07 60.2 20.2 205 33-257 1-217 (270)
179 COG1609 PurR Transcriptional r 97.3 0.042 9E-07 60.0 22.2 201 30-252 57-265 (333)
180 PRK10423 transcriptional repre 97.3 0.04 8.8E-07 60.2 22.2 205 30-255 55-266 (327)
181 TIGR02955 TMAO_TorT TMAO reduc 97.3 0.061 1.3E-06 57.8 23.1 195 33-248 1-207 (295)
182 cd06296 PBP1_CatR_like Ligand- 97.3 0.023 4.9E-07 60.1 19.6 207 33-259 1-214 (270)
183 TIGR02417 fruct_sucro_rep D-fr 97.2 0.04 8.6E-07 60.2 21.8 206 30-258 59-272 (327)
184 cd06286 PBP1_CcpB_like Ligand- 97.2 0.024 5.2E-07 59.6 19.3 198 33-252 1-203 (260)
185 cd06307 PBP1_uncharacterized_s 97.2 0.072 1.6E-06 56.5 22.8 210 33-259 1-219 (275)
186 PF04392 ABC_sub_bind: ABC tra 97.2 0.019 4E-07 61.6 18.1 185 33-233 1-194 (294)
187 PRK11553 alkanesulfonate trans 97.2 0.0037 8.1E-08 67.9 12.9 112 680-797 119-237 (314)
188 cd06302 PBP1_LsrB_Quorum_Sensi 97.2 0.088 1.9E-06 56.7 23.4 208 33-257 1-217 (298)
189 cd06291 PBP1_Qymf_like Ligand 97.2 0.038 8.3E-07 58.2 20.1 194 33-252 1-201 (265)
190 cd01541 PBP1_AraR Ligand-bindi 97.1 0.035 7.6E-07 58.8 19.4 206 33-257 1-216 (273)
191 cd06290 PBP1_LacI_like_9 Ligan 97.1 0.046 1E-06 57.5 20.2 204 33-258 1-211 (265)
192 cd06304 PBP1_BmpA_like Peripla 97.1 0.048 1E-06 57.3 20.2 199 33-247 1-202 (260)
193 cd06354 PBP1_BmpA_PnrA_like Pe 97.1 0.056 1.2E-06 57.0 20.6 195 33-247 1-206 (265)
194 PF12974 Phosphonate-bd: ABC t 97.1 0.0033 7.1E-08 65.4 11.0 121 680-806 95-230 (243)
195 PRK10727 DNA-binding transcrip 97.1 0.053 1.2E-06 59.7 21.1 204 30-254 58-267 (343)
196 cd06272 PBP1_hexuronate_repres 97.1 0.034 7.5E-07 58.4 18.9 197 33-254 1-202 (261)
197 cd06277 PBP1_LacI_like_1 Ligan 97.1 0.058 1.3E-06 57.0 20.5 199 33-252 1-205 (268)
198 PRK09526 lacI lac repressor; R 97.0 0.096 2.1E-06 57.6 22.6 202 30-254 62-270 (342)
199 cd06297 PBP1_LacI_like_12 Liga 97.0 0.056 1.2E-06 57.2 19.9 201 33-257 1-213 (269)
200 cd06280 PBP1_LacI_like_4 Ligan 97.0 0.058 1.2E-06 56.8 19.8 199 33-256 1-204 (263)
201 cd01543 PBP1_XylR Ligand-bindi 97.0 0.042 9.1E-07 57.9 18.7 203 33-259 1-207 (265)
202 PRK14987 gluconate operon tran 97.0 0.085 1.8E-06 57.7 21.5 206 31-257 63-272 (331)
203 cd06279 PBP1_LacI_like_3 Ligan 97.0 0.062 1.3E-06 57.3 19.7 200 34-257 2-229 (283)
204 TIGR01729 taurine_ABC_bnd taur 96.9 0.0055 1.2E-07 66.1 11.2 70 680-756 90-164 (300)
205 PRK09492 treR trehalose repres 96.8 0.15 3.3E-06 55.3 21.5 192 30-248 61-256 (315)
206 TIGR02634 xylF D-xylose ABC tr 96.6 0.3 6.5E-06 52.6 21.8 171 68-249 28-209 (302)
207 PRK10401 DNA-binding transcrip 96.6 0.25 5.5E-06 54.4 21.5 204 30-254 58-267 (346)
208 PRK11041 DNA-binding transcrip 96.6 0.21 4.6E-06 53.9 20.6 207 30-257 34-246 (309)
209 TIGR02637 RhaS rhamnose ABC tr 96.6 0.63 1.4E-05 50.1 24.0 197 34-249 1-210 (302)
210 cd01544 PBP1_GalR Ligand-bindi 96.4 0.22 4.7E-06 52.6 18.9 199 33-258 1-214 (270)
211 TIGR02405 trehalos_R_Ecol treh 96.3 0.58 1.2E-05 50.6 21.7 191 30-248 58-253 (311)
212 COG3221 PhnD ABC-type phosphat 96.2 0.06 1.3E-06 56.8 12.4 110 680-795 134-260 (299)
213 cd06315 PBP1_ABC_sugar_binding 96.1 1.1 2.3E-05 47.7 21.8 203 33-251 2-216 (280)
214 cd06353 PBP1_BmpA_Med_like Per 96.0 0.41 8.8E-06 50.1 17.7 195 33-247 1-200 (258)
215 cd05466 PBP2_LTTR_substrate Th 95.8 0.38 8.2E-06 46.9 16.2 70 492-573 13-82 (197)
216 PF13379 NMT1_2: NMT1-like fam 95.7 0.032 7E-07 58.3 8.0 74 680-758 104-189 (252)
217 PF03466 LysR_substrate: LysR 95.6 0.62 1.3E-05 46.4 16.8 197 465-795 6-206 (209)
218 TIGR02122 TRAP_TAXI TRAP trans 95.3 0.064 1.4E-06 58.4 8.9 61 680-746 131-197 (320)
219 cd08459 PBP2_DntR_NahR_LinR_li 95.3 0.54 1.2E-05 46.5 15.0 70 492-573 13-82 (201)
220 PRK11151 DNA-binding transcrip 95.2 1.1 2.3E-05 48.3 18.0 83 465-573 91-173 (305)
221 cd08468 PBP2_Pa0477 The C-term 95.2 0.73 1.6E-05 45.8 15.7 73 492-573 13-85 (202)
222 COG4213 XylF ABC-type xylose t 95.2 2.6 5.6E-05 43.6 18.8 204 26-249 20-242 (341)
223 cd08442 PBP2_YofA_SoxR_like Th 95.1 1.1 2.4E-05 43.7 16.8 70 492-573 13-82 (193)
224 TIGR03427 ABC_peri_uca ABC tra 95.0 0.15 3.2E-06 55.2 10.6 68 682-756 98-170 (328)
225 TIGR01728 SsuA_fam ABC transpo 95.0 0.29 6.3E-06 52.1 12.9 71 680-756 91-165 (288)
226 cd08421 PBP2_LTTR_like_1 The C 95.0 1.4 3E-05 43.3 17.0 70 492-573 13-82 (198)
227 cd08418 PBP2_TdcA The C-termin 94.9 1.6 3.5E-05 42.9 17.2 72 492-573 13-84 (201)
228 CHL00180 rbcR LysR transcripti 94.8 1.5 3.2E-05 47.2 17.9 86 465-573 95-180 (305)
229 cd08440 PBP2_LTTR_like_4 TThe 94.7 2 4.3E-05 41.9 17.4 70 492-573 13-82 (197)
230 cd08420 PBP2_CysL_like C-termi 94.7 1.9 4.1E-05 42.2 17.3 71 491-573 12-82 (201)
231 cd08417 PBP2_Nitroaromatics_li 94.7 0.87 1.9E-05 44.9 14.6 70 492-573 13-82 (200)
232 cd08438 PBP2_CidR The C-termin 94.6 2.4 5.3E-05 41.4 17.6 70 492-573 13-82 (197)
233 cd08433 PBP2_Nac The C-teminal 94.5 2.6 5.5E-05 41.4 17.6 70 492-573 13-82 (198)
234 TIGR02990 ectoine_eutA ectoine 94.5 0.8 1.7E-05 46.9 13.6 93 150-245 106-203 (239)
235 cd06287 PBP1_LacI_like_8 Ligan 94.5 4 8.6E-05 43.0 19.7 155 92-256 52-210 (269)
236 PF09084 NMT1: NMT1/THI5 like; 94.3 0.24 5.1E-06 50.3 9.4 60 680-745 83-146 (216)
237 PRK12684 transcriptional regul 94.1 1.9 4.2E-05 46.6 16.8 207 464-807 92-304 (313)
238 cd08463 PBP2_DntR_like_4 The C 94.1 2.7 5.9E-05 41.7 16.9 72 491-573 12-83 (203)
239 cd08412 PBP2_PAO1_like The C-t 94.0 2.8 6.1E-05 41.0 16.7 71 491-573 12-82 (198)
240 PRK11242 DNA-binding transcrip 94.0 2.8 6.1E-05 44.8 17.7 83 465-573 91-173 (296)
241 cd08411 PBP2_OxyR The C-termin 93.9 2.4 5.3E-05 41.6 16.1 70 492-573 14-83 (200)
242 PRK12679 cbl transcriptional r 93.7 4.9 0.00011 43.5 19.1 208 464-808 92-306 (316)
243 cd08466 PBP2_LeuO The C-termin 93.7 1.7 3.6E-05 42.9 14.3 70 492-573 13-82 (200)
244 cd08434 PBP2_GltC_like The sub 93.6 4.3 9.4E-05 39.4 17.2 70 492-573 13-82 (195)
245 cd08461 PBP2_DntR_like_3 The C 93.6 2.4 5.1E-05 41.7 15.3 70 492-573 13-82 (198)
246 cd08444 PBP2_Cbl The C-termina 93.5 4.6 9.9E-05 39.8 17.2 72 491-573 12-83 (198)
247 cd08435 PBP2_GbpR The C-termin 93.5 5.1 0.00011 39.2 17.5 72 492-573 13-84 (201)
248 PRK12681 cysB transcriptional 93.3 2.9 6.3E-05 45.4 16.4 85 464-573 92-176 (324)
249 cd08415 PBP2_LysR_opines_like 93.2 5 0.00011 39.1 16.9 71 491-573 12-82 (196)
250 PF07885 Ion_trans_2: Ion chan 93.2 0.24 5.2E-06 40.9 6.0 55 620-674 22-78 (79)
251 PRK11233 nitrogen assimilation 93.2 2.7 5.8E-05 45.3 15.8 84 464-572 90-173 (305)
252 PRK12682 transcriptional regul 93.1 3.7 7.9E-05 44.3 16.8 84 465-573 93-176 (309)
253 cd08413 PBP2_CysB_like The C-t 93.0 4.4 9.6E-05 39.9 16.2 71 492-573 13-83 (198)
254 cd08426 PBP2_LTTR_like_5 The C 93.0 6.3 0.00014 38.5 17.3 70 492-573 13-82 (199)
255 PRK10837 putative DNA-binding 93.0 6.6 0.00014 41.7 18.5 83 465-573 89-171 (290)
256 PRK12683 transcriptional regul 93.0 5.7 0.00012 42.8 17.9 85 464-573 92-176 (309)
257 PRK09791 putative DNA-binding 93.0 3.9 8.5E-05 43.9 16.7 86 464-573 94-179 (302)
258 cd08427 PBP2_LTTR_like_2 The C 92.9 3.5 7.5E-05 40.2 15.2 72 492-573 13-84 (195)
259 TIGR02424 TF_pcaQ pca operon t 92.8 3.9 8.4E-05 43.8 16.5 86 464-573 92-177 (300)
260 cd08462 PBP2_NodD The C-termin 92.8 3.1 6.8E-05 41.0 14.8 69 492-573 13-81 (200)
261 cd08419 PBP2_CbbR_RubisCO_like 92.7 8.2 0.00018 37.5 17.6 70 492-573 12-81 (197)
262 cd08441 PBP2_MetR The C-termin 92.5 7.7 0.00017 37.9 17.1 69 493-573 14-82 (198)
263 cd06276 PBP1_FucR_like Ligand- 92.4 8.5 0.00019 39.8 17.8 145 89-254 45-192 (247)
264 cd08465 PBP2_ToxR The C-termin 92.3 3.8 8.3E-05 40.4 14.7 70 492-573 13-82 (200)
265 cd08460 PBP2_DntR_like_1 The C 92.3 2.8 6.1E-05 41.3 13.6 70 491-573 12-81 (200)
266 PRK10339 DNA-binding transcrip 92.2 9.5 0.00021 41.4 18.8 151 95-258 113-269 (327)
267 PF12683 DUF3798: Protein of u 92.2 10 0.00022 38.8 16.6 208 31-248 2-224 (275)
268 cd08436 PBP2_LTTR_like_3 The C 92.0 8.4 0.00018 37.3 16.6 71 492-573 13-83 (194)
269 PRK10341 DNA-binding transcrip 91.8 5.8 0.00013 42.8 16.2 85 465-573 97-181 (312)
270 cd08443 PBP2_CysB The C-termin 91.7 13 0.00028 36.5 17.7 72 491-573 12-83 (198)
271 cd08425 PBP2_CynR The C-termin 91.7 7.6 0.00017 37.9 16.0 70 492-573 14-83 (197)
272 cd08467 PBP2_SyrM The C-termin 91.6 9 0.0002 37.7 16.4 70 492-573 13-82 (200)
273 COG1744 Med Uncharacterized AB 91.6 12 0.00025 41.0 17.9 205 29-248 33-244 (345)
274 cd08456 PBP2_LysR The C-termin 91.5 8.8 0.00019 37.3 16.2 70 492-573 13-82 (196)
275 TIGR00787 dctP tripartite ATP- 91.4 0.79 1.7E-05 48.0 8.6 102 680-793 126-230 (257)
276 cd08464 PBP2_DntR_like_2 The C 91.2 6.1 0.00013 38.7 14.7 70 492-573 13-82 (200)
277 cd08449 PBP2_XapR The C-termin 91.1 13 0.00027 36.2 16.8 72 492-573 13-84 (197)
278 cd08429 PBP2_NhaR The C-termin 91.1 12 0.00026 37.1 16.7 72 492-572 13-84 (204)
279 cd08458 PBP2_NocR The C-termin 90.7 16 0.00035 35.7 17.2 70 492-573 13-82 (196)
280 cd08430 PBP2_IlvY The C-termin 90.5 18 0.00039 35.1 17.6 72 491-573 12-83 (199)
281 cd08457 PBP2_OccR The C-termin 90.4 18 0.0004 35.1 17.6 71 491-573 12-82 (196)
282 cd08486 PBP2_CbnR The C-termin 90.4 12 0.00026 36.7 16.0 70 492-573 14-83 (198)
283 PRK12680 transcriptional regul 90.3 16 0.00034 39.8 17.8 85 464-573 92-176 (327)
284 PRK11480 tauA taurine transpor 90.3 1.1 2.3E-05 48.8 8.6 68 680-753 112-183 (320)
285 cd08448 PBP2_LTTR_aromatics_li 90.0 18 0.00038 35.1 16.8 70 492-573 13-82 (197)
286 cd08423 PBP2_LTTR_like_6 The C 90.0 12 0.00027 36.3 15.7 73 492-573 13-87 (200)
287 PRK11482 putative DNA-binding 89.9 11 0.00023 40.9 16.0 82 464-573 116-197 (317)
288 TIGR00363 lipoprotein, YaeC fa 89.9 9.8 0.00021 39.6 14.8 121 680-806 106-250 (258)
289 cd08451 PBP2_BudR The C-termin 89.7 21 0.00045 34.7 18.5 70 493-573 15-84 (199)
290 cd08414 PBP2_LTTR_aromatics_li 89.7 20 0.00044 34.6 17.3 70 492-573 13-82 (197)
291 PRK15421 DNA-binding transcrip 89.7 15 0.00032 39.8 17.0 83 465-573 89-171 (317)
292 cd08416 PBP2_MdcR The C-termin 89.5 16 0.00034 35.6 16.0 73 491-573 12-84 (199)
293 cd06353 PBP1_BmpA_Med_like Per 89.5 1.6 3.5E-05 45.6 8.9 87 32-127 121-207 (258)
294 cd08469 PBP2_PnbR The C-termin 89.4 11 0.00023 37.8 15.0 70 492-573 13-82 (221)
295 cd08445 PBP2_BenM_CatM_CatR Th 89.3 20 0.00044 35.1 16.7 70 492-573 14-83 (203)
296 PRK11074 putative DNA-binding 89.2 13 0.00028 39.8 16.0 86 464-573 91-176 (300)
297 PF03480 SBP_bac_7: Bacterial 88.9 0.76 1.7E-05 49.0 6.1 101 680-792 126-229 (286)
298 PF13377 Peripla_BP_3: Peripla 88.9 1.7 3.7E-05 41.4 8.1 98 156-257 1-102 (160)
299 cd08446 PBP2_Chlorocatechol Th 88.7 24 0.00053 34.2 16.7 70 492-573 14-83 (198)
300 cd08437 PBP2_MleR The substrat 88.7 24 0.00052 34.3 16.6 72 492-573 13-84 (198)
301 PF13531 SBP_bac_11: Bacterial 88.6 5.9 0.00013 40.5 12.3 194 491-805 10-226 (230)
302 TIGR01256 modA molybdenum ABC 88.2 4.8 0.0001 40.7 11.2 81 719-805 133-214 (216)
303 PRK11013 DNA-binding transcrip 88.1 23 0.00049 38.1 17.1 83 465-573 94-176 (309)
304 PF03808 Glyco_tran_WecB: Glyc 88.1 8.6 0.00019 37.2 12.2 100 149-260 34-135 (172)
305 COG3473 Maleate cis-trans isom 87.8 16 0.00034 35.7 13.1 90 153-245 107-201 (238)
306 PRK11063 metQ DL-methionine tr 87.6 11 0.00023 39.7 13.5 120 680-806 119-263 (271)
307 PRK09508 leuO leucine transcri 87.1 8.8 0.00019 41.4 13.1 84 464-573 111-194 (314)
308 COG1638 DctP TRAP-type C4-dica 86.4 2.2 4.7E-05 46.2 7.7 104 680-797 157-265 (332)
309 cd08428 PBP2_IciA_ArgP The C-t 86.2 21 0.00044 34.7 14.4 66 494-572 15-80 (195)
310 PRK10094 DNA-binding transcrip 85.5 31 0.00068 37.0 16.3 70 494-573 108-177 (308)
311 PRK11062 nhaR transcriptional 85.4 19 0.00042 38.3 14.6 86 465-573 93-178 (296)
312 PF02608 Bmp: Basic membrane p 85.3 57 0.0012 35.0 18.4 202 32-248 2-212 (306)
313 PRK11716 DNA-binding transcrip 85.1 29 0.00062 36.2 15.6 83 465-572 67-149 (269)
314 PF14503 YhfZ_C: YhfZ C-termin 85.0 3.5 7.6E-05 41.5 7.7 88 692-787 114-208 (232)
315 TIGR03339 phn_lysR aminoethylp 84.3 56 0.0012 34.2 17.5 69 493-573 98-166 (279)
316 PRK09906 DNA-binding transcrip 84.2 47 0.001 35.3 17.0 81 467-573 92-172 (296)
317 cd08485 PBP2_ClcR The C-termin 83.9 44 0.00096 32.5 16.4 70 492-573 14-83 (198)
318 PF12727 PBP_like: PBP superfa 83.9 12 0.00026 37.0 11.0 103 680-792 81-191 (193)
319 cd06533 Glyco_transf_WecG_TagA 82.9 14 0.00031 35.7 10.9 99 149-259 32-132 (171)
320 COG1910 Periplasmic molybdate- 82.6 7.1 0.00015 38.4 8.4 106 680-797 87-201 (223)
321 PRK09860 putative alcohol dehy 82.5 6.2 0.00013 43.9 9.4 89 152-242 19-109 (383)
322 cd08453 PBP2_IlvR The C-termin 82.5 50 0.0011 32.1 17.2 73 492-573 13-85 (200)
323 COG1454 EutG Alcohol dehydroge 82.0 7.8 0.00017 42.4 9.5 92 152-245 17-110 (377)
324 cd08450 PBP2_HcaR The C-termin 81.3 53 0.0012 31.6 16.7 70 492-573 13-82 (196)
325 COG0078 ArgF Ornithine carbamo 80.9 78 0.0017 33.3 16.4 161 31-228 44-211 (310)
326 PRK15454 ethanol dehydrogenase 80.1 8.4 0.00018 43.0 9.3 89 152-242 37-127 (395)
327 PRK03635 chromosome replicatio 79.7 36 0.00079 36.2 14.0 82 465-573 90-171 (294)
328 cd08431 PBP2_HupR The C-termin 79.2 50 0.0011 31.9 14.0 71 492-573 13-83 (195)
329 KOG3857 Alcohol dehydrogenase, 78.7 15 0.00032 38.6 9.6 96 136-233 38-137 (465)
330 cd08190 HOT Hydroxyacid-oxoaci 78.5 10 0.00022 42.7 9.5 88 152-241 11-100 (414)
331 COG0715 TauA ABC-type nitrate/ 78.2 15 0.00032 40.1 10.6 73 680-758 126-203 (335)
332 TIGR03298 argP transcriptional 78.0 84 0.0018 33.3 16.2 64 496-572 107-170 (292)
333 PRK10200 putative racemase; Pr 78.0 23 0.0005 36.1 11.0 86 81-195 59-146 (230)
334 TIGR00035 asp_race aspartate r 77.8 8.2 0.00018 39.4 7.8 86 82-196 60-146 (229)
335 PRK10624 L-1,2-propanediol oxi 77.7 11 0.00024 41.9 9.4 88 152-241 18-107 (382)
336 cd08192 Fe-ADH7 Iron-containin 77.4 11 0.00025 41.7 9.4 90 152-243 12-103 (370)
337 cd08452 PBP2_AlsR The C-termin 76.7 76 0.0016 30.7 16.7 70 492-573 13-82 (197)
338 cd08193 HVD 5-hydroxyvalerate 76.6 12 0.00026 41.6 9.3 88 153-242 15-104 (376)
339 cd08189 Fe-ADH5 Iron-containin 76.5 13 0.00029 41.2 9.6 90 152-243 14-105 (374)
340 PLN02245 ATP phosphoribosyl tr 75.9 26 0.00057 38.4 11.1 106 680-794 177-295 (403)
341 PRK09986 DNA-binding transcrip 75.9 1.1E+02 0.0024 32.3 17.4 86 464-573 96-181 (294)
342 PRK10537 voltage-gated potassi 75.9 7.2 0.00016 43.3 7.1 56 618-673 164-221 (393)
343 cd08551 Fe-ADH iron-containing 75.7 15 0.00032 40.8 9.7 90 152-243 11-102 (370)
344 PF13407 Peripla_BP_4: Peripla 75.7 8.9 0.00019 39.8 7.7 78 167-248 1-81 (257)
345 KOG1419 Voltage-gated K+ chann 75.4 4.2 9E-05 45.3 4.9 88 588-675 235-324 (654)
346 PRK09861 cytoplasmic membrane 75.2 52 0.0011 34.6 13.0 121 680-806 120-264 (272)
347 PF02608 Bmp: Basic membrane p 75.2 12 0.00027 40.1 8.7 89 33-128 128-221 (306)
348 TIGR02638 lactal_redase lactal 74.8 14 0.00031 41.1 9.2 88 152-241 17-106 (379)
349 PF00465 Fe-ADH: Iron-containi 74.7 11 0.00024 41.8 8.4 89 153-245 12-102 (366)
350 cd08447 PBP2_LTTR_aromatics_li 74.7 83 0.0018 30.3 15.9 70 492-573 13-82 (198)
351 cd08194 Fe-ADH6 Iron-containin 74.5 15 0.00034 40.7 9.5 87 153-241 12-100 (375)
352 PRK03601 transcriptional regul 73.6 67 0.0015 33.7 13.8 84 464-573 88-171 (275)
353 PRK11119 proX glycine betaine 73.0 13 0.00029 40.3 8.2 63 461-546 25-88 (331)
354 cd08432 PBP2_GcdR_TrpI_HvrB_Am 73.0 32 0.0007 33.1 10.7 66 492-572 13-78 (194)
355 COG1744 Med Uncharacterized AB 72.9 62 0.0013 35.3 13.3 75 31-111 161-235 (345)
356 COG0725 ModA ABC-type molybdat 72.5 76 0.0016 33.0 13.3 69 496-573 46-120 (258)
357 PRK00945 acetyl-CoA decarbonyl 72.5 31 0.00067 33.1 9.5 122 89-220 27-168 (171)
358 PLN03192 Voltage-dependent pot 72.3 4.9 0.00011 49.9 5.3 54 622-675 250-305 (823)
359 COG1794 RacX Aspartate racemas 72.1 62 0.0013 32.3 11.5 86 81-196 59-146 (230)
360 PRK13583 hisG ATP phosphoribos 71.6 49 0.0011 33.4 11.1 93 680-781 109-212 (228)
361 PRK03692 putative UDP-N-acetyl 71.5 48 0.001 34.0 11.4 87 150-245 92-179 (243)
362 TIGR00696 wecB_tagA_cpsF bacte 71.3 55 0.0012 31.8 11.1 87 149-245 34-122 (177)
363 TIGR00315 cdhB CO dehydrogenas 70.7 38 0.00082 32.3 9.6 123 89-220 20-160 (162)
364 cd08188 Fe-ADH4 Iron-containin 70.4 23 0.00051 39.3 9.7 88 152-241 16-105 (377)
365 cd08185 Fe-ADH1 Iron-containin 69.7 24 0.00053 39.2 9.6 87 153-242 15-104 (380)
366 cd08176 LPO Lactadehyde:propan 68.5 23 0.00049 39.4 9.1 88 152-241 16-105 (377)
367 PRK13348 chromosome replicatio 67.7 1.7E+02 0.0037 30.9 15.5 65 496-573 107-171 (294)
368 cd08181 PPD-like 1,3-propanedi 67.5 30 0.00064 38.1 9.6 86 153-241 15-103 (357)
369 cd08422 PBP2_CrgA_like The C-t 67.2 30 0.00065 33.3 9.0 66 492-572 14-79 (197)
370 PRK05452 anaerobic nitric oxid 67.0 1.6E+02 0.0036 33.8 15.8 141 100-261 198-348 (479)
371 cd08170 GlyDH Glycerol dehydro 66.7 23 0.00051 38.9 8.7 85 153-242 12-98 (351)
372 COG1880 CdhB CO dehydrogenase/ 66.0 99 0.0021 28.9 10.6 123 88-219 27-167 (170)
373 cd08191 HHD 6-hydroxyhexanoate 65.2 36 0.00078 38.0 9.8 87 153-242 12-100 (386)
374 PRK11139 DNA-binding transcrip 64.4 1.1E+02 0.0024 32.4 13.3 103 682-792 180-287 (297)
375 cd06305 PBP1_methylthioribose_ 63.7 33 0.00071 35.8 8.9 77 167-248 2-81 (273)
376 PF01177 Asp_Glu_race: Asp/Glu 63.1 1.4E+02 0.003 29.9 13.0 123 92-245 61-198 (216)
377 PF13685 Fe-ADH_2: Iron-contai 63.0 50 0.0011 34.1 9.5 99 154-259 9-108 (250)
378 cd08182 HEPD Hydroxyethylphosp 62.9 37 0.0008 37.6 9.4 86 153-243 12-99 (367)
379 PF06506 PrpR_N: Propionate ca 62.2 1.6E+02 0.0034 28.6 13.8 128 80-249 17-145 (176)
380 cd08186 Fe-ADH8 Iron-containin 61.8 40 0.00086 37.6 9.4 88 153-242 12-105 (383)
381 cd08171 GlyDH-like2 Glycerol d 61.2 39 0.00084 37.0 9.0 87 153-243 12-100 (345)
382 PRK07475 hypothetical protein; 60.8 29 0.00063 35.8 7.5 122 81-234 62-207 (245)
383 cd08187 BDH Butanol dehydrogen 60.7 41 0.00088 37.5 9.2 86 153-241 18-106 (382)
384 PRK15408 autoinducer 2-binding 60.0 44 0.00095 36.4 9.2 82 163-248 22-106 (336)
385 cd08471 PBP2_CrgA_like_2 The C 59.9 75 0.0016 30.7 10.3 65 492-571 14-78 (201)
386 cd07766 DHQ_Fe-ADH Dehydroquin 59.6 44 0.00095 36.4 9.1 100 153-259 12-113 (332)
387 PRK10677 modA molybdate transp 59.2 91 0.002 32.5 11.0 71 494-573 41-117 (257)
388 cd08470 PBP2_CrgA_like_1 The C 58.4 42 0.0009 32.5 8.1 69 719-793 123-193 (197)
389 cd00755 YgdL_like Family of ac 58.1 88 0.0019 31.9 10.3 117 42-174 60-182 (231)
390 PRK01686 hisG ATP phosphoribos 57.9 1.8E+02 0.0039 29.2 12.1 92 692-794 115-208 (215)
391 cd06301 PBP1_rhizopine_binding 57.9 41 0.00089 35.1 8.4 78 166-248 1-82 (272)
392 cd06306 PBP1_TorT-like TorT-li 57.4 42 0.00091 35.0 8.3 80 166-248 1-82 (268)
393 PRK15116 sulfur acceptor prote 57.4 94 0.002 32.5 10.4 116 43-174 80-208 (268)
394 PRK09423 gldA glycerol dehydro 57.3 48 0.001 36.6 9.0 85 152-241 18-104 (366)
395 cd01537 PBP1_Repressors_Sugar_ 57.1 36 0.00078 35.0 7.8 78 166-248 1-80 (264)
396 TIGR00070 hisG ATP phosphoribo 56.1 73 0.0016 31.0 8.8 75 681-767 100-174 (182)
397 TIGR02122 TRAP_TAXI TRAP trans 55.7 2E+02 0.0044 30.8 13.6 41 1-41 1-41 (320)
398 cd06267 PBP1_LacI_sugar_bindin 55.6 43 0.00093 34.5 8.0 76 167-248 2-79 (264)
399 cd06312 PBP1_ABC_sugar_binding 54.9 50 0.0011 34.5 8.4 79 166-248 1-83 (271)
400 PRK14498 putative molybdopteri 54.8 83 0.0018 37.8 11.1 67 162-233 184-262 (633)
401 cd02071 MM_CoA_mut_B12_BD meth 53.7 1.1E+02 0.0023 27.6 9.1 66 175-248 10-79 (122)
402 cd08183 Fe-ADH2 Iron-containin 53.3 69 0.0015 35.5 9.4 83 153-242 12-96 (374)
403 TIGR03414 ABC_choline_bnd chol 52.6 1E+02 0.0022 32.8 10.1 41 494-543 23-63 (290)
404 PF00625 Guanylate_kin: Guanyl 52.4 1.7E+02 0.0036 28.5 11.1 130 96-247 3-136 (183)
405 cd08475 PBP2_CrgA_like_6 The C 52.0 1.5E+02 0.0032 28.4 11.0 67 718-790 128-196 (199)
406 PRK00865 glutamate racemase; P 51.9 1.5E+02 0.0031 31.0 11.0 39 87-125 58-96 (261)
407 COG1464 NlpA ABC-type metal io 51.2 51 0.0011 33.9 7.0 47 30-87 29-75 (268)
408 cd08479 PBP2_CrgA_like_9 The C 51.1 92 0.002 30.0 9.3 65 492-571 14-78 (198)
409 cd08550 GlyDH-like Glycerol_de 50.9 70 0.0015 35.1 8.9 84 153-241 12-97 (349)
410 cd06310 PBP1_ABC_sugar_binding 50.2 67 0.0014 33.5 8.5 80 166-248 1-83 (273)
411 PF07287 DUF1446: Protein of u 49.8 2.2E+02 0.0048 31.2 12.1 172 42-249 6-186 (362)
412 PRK11063 metQ DL-methionine tr 49.6 33 0.00072 36.0 5.8 57 28-101 29-85 (271)
413 cd08483 PBP2_HvrB The C-termin 48.9 2.2E+02 0.0048 27.0 11.6 64 493-571 14-77 (190)
414 PF03401 TctC: Tripartite tric 48.8 3.4E+02 0.0074 28.5 13.4 121 680-805 88-241 (274)
415 cd01536 PBP1_ABC_sugar_binding 48.6 76 0.0016 32.7 8.6 77 166-247 1-80 (267)
416 COG2358 Imp TRAP-type uncharac 48.5 81 0.0018 33.7 8.4 79 680-764 127-214 (321)
417 COG0426 FpaA Uncharacterized f 48.1 3.2E+02 0.007 30.1 12.9 142 100-263 195-343 (388)
418 cd06282 PBP1_GntR_like_2 Ligan 48.0 81 0.0018 32.5 8.7 77 167-248 2-80 (266)
419 COG4521 TauA ABC-type taurine 47.6 71 0.0015 32.1 7.1 94 680-780 120-221 (334)
420 cd08473 PBP2_CrgA_like_4 The C 47.4 1E+02 0.0022 29.7 8.9 68 492-572 16-83 (202)
421 PF13380 CoA_binding_2: CoA bi 47.3 27 0.00059 31.2 4.1 86 165-259 1-88 (116)
422 cd06289 PBP1_MalI_like Ligand- 47.2 81 0.0018 32.6 8.6 77 167-248 2-80 (268)
423 cd08481 PBP2_GcdR_like The C-t 47.2 1.6E+02 0.0035 28.0 10.3 65 719-789 124-190 (194)
424 cd06300 PBP1_ABC_sugar_binding 46.6 90 0.0019 32.5 8.8 80 166-248 1-86 (272)
425 cd01545 PBP1_SalR Ligand-bindi 46.3 90 0.002 32.3 8.7 78 167-248 2-81 (270)
426 cd06167 LabA_like LabA_like pr 45.9 2.5E+02 0.0054 26.0 11.6 68 179-248 52-124 (149)
427 cd08478 PBP2_CrgA The C-termin 45.8 60 0.0013 31.4 7.0 66 492-572 16-81 (199)
428 cd06302 PBP1_LsrB_Quorum_Sensi 45.8 88 0.0019 33.3 8.6 78 167-248 2-82 (298)
429 cd01391 Periplasmic_Binding_Pr 45.7 84 0.0018 32.0 8.4 78 166-248 1-83 (269)
430 cd08175 G1PDH Glycerol-1-phosp 45.7 93 0.002 34.1 8.9 87 153-241 12-100 (348)
431 PF01634 HisG: ATP phosphoribo 45.6 44 0.00095 31.9 5.4 102 681-794 57-160 (163)
432 PRK09801 transcriptional activ 45.5 92 0.002 33.4 8.8 70 719-794 223-293 (310)
433 cd08178 AAD_C C-terminal alcoh 45.3 1.1E+02 0.0024 34.2 9.6 79 162-242 19-99 (398)
434 cd08472 PBP2_CrgA_like_3 The C 45.0 1.5E+02 0.0033 28.5 9.7 66 492-572 14-79 (202)
435 cd06277 PBP1_LacI_like_1 Ligan 45.0 1.2E+02 0.0027 31.3 9.5 75 167-248 2-81 (268)
436 cd06299 PBP1_LacI_like_13 Liga 44.6 99 0.0021 31.9 8.7 76 167-248 2-79 (265)
437 cd01324 cbb3_Oxidase_CcoQ Cyto 44.6 23 0.00049 25.9 2.5 29 587-615 11-39 (48)
438 PF00205 TPP_enzyme_M: Thiamin 44.4 22 0.00048 32.8 3.2 56 87-143 2-61 (137)
439 cd06318 PBP1_ABC_sugar_binding 44.3 88 0.0019 32.7 8.3 77 167-248 2-81 (282)
440 cd06316 PBP1_ABC_sugar_binding 44.1 83 0.0018 33.3 8.2 79 166-248 1-82 (294)
441 cd06322 PBP1_ABC_sugar_binding 44.1 1E+02 0.0022 31.8 8.8 77 167-248 2-81 (267)
442 cd01540 PBP1_arabinose_binding 44.1 76 0.0016 33.4 7.8 76 167-248 2-80 (289)
443 PF12683 DUF3798: Protein of u 43.9 3.3E+02 0.0071 28.2 11.4 98 150-257 17-138 (275)
444 cd06304 PBP1_BmpA_like Peripla 43.8 2.8E+02 0.0061 28.6 12.0 127 31-166 120-246 (260)
445 PRK10216 DNA-binding transcrip 43.5 4.4E+02 0.0095 28.2 17.2 84 466-573 98-188 (319)
446 PRK07377 hypothetical protein; 43.3 59 0.0013 31.2 5.7 61 465-542 75-135 (184)
447 cd08177 MAR Maleylacetate redu 43.2 67 0.0015 35.0 7.2 98 152-259 11-110 (337)
448 PRK09756 PTS system N-acetylga 43.2 1.6E+02 0.0035 28.0 8.7 80 151-241 17-97 (158)
449 cd01538 PBP1_ABC_xylose_bindin 43.0 1.2E+02 0.0027 31.9 9.2 77 167-248 2-81 (288)
450 cd06303 PBP1_LuxPQ_Quorum_Sens 43.0 84 0.0018 33.0 7.9 80 167-247 2-84 (280)
451 PRK08811 uroporphyrinogen-III 42.9 2.5E+02 0.0053 29.4 11.1 115 119-244 94-210 (266)
452 PRK14174 bifunctional 5,10-met 42.5 4.5E+02 0.0096 28.0 15.4 174 33-232 33-215 (295)
453 KOG3713 Voltage-gated K+ chann 42.3 23 0.0005 39.4 3.3 62 599-664 358-421 (477)
454 PF04273 DUF442: Putative phos 41.8 2.5E+02 0.0054 24.8 11.0 85 158-244 22-107 (110)
455 PRK11921 metallo-beta-lactamas 41.2 3.6E+02 0.0077 30.1 12.8 141 100-261 194-344 (394)
456 COG1179 Dinucleotide-utilizing 41.0 1.4E+02 0.003 30.4 8.1 89 42-146 79-168 (263)
457 PF14981 FAM165: FAM165 family 40.9 65 0.0014 22.8 4.1 33 826-858 3-35 (51)
458 cd06320 PBP1_allose_binding Pe 40.7 1.2E+02 0.0025 31.6 8.6 79 167-248 2-83 (275)
459 TIGR00249 sixA phosphohistidin 40.3 1.5E+02 0.0033 27.8 8.3 99 144-245 23-121 (152)
460 COG1922 WecG Teichoic acid bio 40.0 1.7E+02 0.0036 30.2 8.8 98 149-260 94-195 (253)
461 PRK10936 TMAO reductase system 40.0 1.3E+02 0.0029 32.7 9.1 81 164-248 46-129 (343)
462 TIGR00854 pts-sorbose PTS syst 40.0 1.6E+02 0.0035 27.7 8.1 81 151-241 13-93 (151)
463 KOG0498 K+-channel ERG and rel 39.4 26 0.00056 41.8 3.4 67 623-689 295-368 (727)
464 PRK10014 DNA-binding transcrip 39.2 1.8E+02 0.0039 31.5 10.0 79 165-248 65-145 (342)
465 PRK00002 aroB 3-dehydroquinate 39.1 2.5E+02 0.0053 31.0 10.9 112 139-259 9-127 (358)
466 PRK11303 DNA-binding transcrip 39.0 1.8E+02 0.004 31.2 10.0 80 164-248 61-142 (328)
467 PRK09701 D-allose transporter 38.6 1.7E+02 0.0037 31.3 9.6 85 161-248 21-108 (311)
468 cd00423 Pterin_binding Pterin 38.6 2.8E+02 0.006 28.9 10.7 18 153-171 110-127 (258)
469 PRK11425 PTS system N-acetylga 38.1 2E+02 0.0043 27.3 8.5 80 151-241 15-94 (157)
470 TIGR02637 RhaS rhamnose ABC tr 37.8 1.3E+02 0.0029 31.9 8.5 72 173-248 9-82 (302)
471 TIGR02717 AcCoA-syn-alpha acet 37.8 5.3E+02 0.011 29.4 13.6 145 82-248 74-229 (447)
472 PRK10086 DNA-binding transcrip 37.7 4.2E+02 0.0091 28.2 12.4 79 465-572 102-180 (311)
473 cd08180 PDD 1,3-propanediol de 37.5 87 0.0019 34.0 7.0 78 160-240 18-97 (332)
474 cd08179 NADPH_BDH NADPH-depend 37.4 87 0.0019 34.8 7.1 78 162-241 21-101 (375)
475 COG0563 Adk Adenylate kinase a 37.3 74 0.0016 31.0 5.7 28 98-125 3-30 (178)
476 PF03830 PTSIIB_sorb: PTS syst 37.2 77 0.0017 29.9 5.6 82 152-243 14-95 (151)
477 TIGR02370 pyl_corrinoid methyl 37.1 2.5E+02 0.0053 27.8 9.5 86 166-259 86-175 (197)
478 TIGR02667 moaB_proteo molybden 37.1 2.1E+02 0.0045 27.4 8.6 65 164-232 4-72 (163)
479 PRK03515 ornithine carbamoyltr 36.9 5.8E+02 0.013 27.7 15.7 132 32-198 46-187 (336)
480 PF00448 SRP54: SRP54-type pro 36.7 1.8E+02 0.004 28.7 8.5 65 164-233 29-93 (196)
481 cd06281 PBP1_LacI_like_5 Ligan 36.7 1.7E+02 0.0036 30.3 9.0 77 167-248 2-80 (269)
482 cd00001 PTS_IIB_man PTS_IIB, P 36.7 2E+02 0.0044 27.0 8.3 82 151-242 12-93 (151)
483 COG3340 PepE Peptidase E [Amin 36.6 3.5E+02 0.0075 27.0 9.9 87 151-249 20-108 (224)
484 cd06270 PBP1_GalS_like Ligand 36.6 1.8E+02 0.0039 30.0 9.2 76 167-248 2-79 (268)
485 PF13671 AAA_33: AAA domain; P 36.3 36 0.00077 31.4 3.3 32 97-128 1-32 (143)
486 PF00218 IGPS: Indole-3-glycer 36.2 2.6E+02 0.0056 29.0 9.6 88 152-249 70-160 (254)
487 CHL00073 chlN photochlorophyll 36.0 7.1E+02 0.015 28.4 14.9 56 166-236 195-250 (457)
488 cd06317 PBP1_ABC_sugar_binding 35.9 1.6E+02 0.0034 30.6 8.6 77 167-248 2-82 (275)
489 PRK14737 gmk guanylate kinase; 35.9 3.4E+02 0.0073 26.6 10.2 89 96-196 5-99 (186)
490 COG0134 TrpC Indole-3-glycerol 35.8 95 0.0021 31.9 6.3 86 154-249 70-158 (254)
491 cd08549 G1PDH_related Glycerol 35.5 1.6E+02 0.0035 31.9 8.7 85 153-241 12-100 (332)
492 cd01539 PBP1_GGBP Periplasmic 35.4 1.7E+02 0.0037 31.1 8.9 78 166-248 1-83 (303)
493 COG0541 Ffh Signal recognition 35.3 3E+02 0.0064 30.8 10.2 108 149-262 114-224 (451)
494 TIGR00067 glut_race glutamate 35.3 1.6E+02 0.0034 30.6 8.0 129 87-233 51-182 (251)
495 PRK09189 uroporphyrinogen-III 35.1 1.6E+02 0.0035 30.2 8.2 88 150-245 102-191 (240)
496 cd01574 PBP1_LacI Ligand-bindi 34.7 2E+02 0.0043 29.5 9.1 76 167-247 2-79 (264)
497 COG2984 ABC-type uncharacteriz 34.6 2.1E+02 0.0046 30.4 8.7 54 68-125 188-244 (322)
498 PRK10082 cell density-dependen 34.5 5.8E+02 0.013 27.0 14.5 48 523-572 134-181 (303)
499 cd06315 PBP1_ABC_sugar_binding 34.4 2.2E+02 0.0048 29.8 9.4 79 165-248 1-82 (280)
500 cd08197 DOIS 2-deoxy-scyllo-in 34.3 3.6E+02 0.0078 29.6 11.1 101 155-258 14-118 (355)
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=3e-88 Score=701.21 Aligned_cols=777 Identities=20% Similarity=0.341 Sum_probs=630.7
Q ss_pred CCCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCC--CEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcC
Q 002364 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHG--TKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGP 103 (930)
Q Consensus 27 ~~~~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g--~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp 103 (930)
+-+.+|.||.+||-.. .+...|+++|+...|....- .. .+|.+++.... .+......+.|...+++|.||+|.
T Consensus 22 ~f~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~-~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~Gv~Aifg~ 97 (897)
T KOG1054|consen 22 AFPNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNT-TEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGF 97 (897)
T ss_pred cCCCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCC-CCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheec
Confidence 3567899999999876 45678899998888764332 12 34444443322 466777788899999999999999
Q ss_pred CChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHH
Q 002364 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 183 (930)
...-....+..+|...++|+|+++. | ++...++.+++.|+- -.++++++.|++|.+|..+| |.+-|...++.
T Consensus 98 yd~ks~~~ltsfc~aLh~~~vtpsf--p--~~~~~~Fviq~RP~l---~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqa 169 (897)
T KOG1054|consen 98 YDKKSVNTLTSFCGALHVSFVTPSF--P--TDGDNQFVIQMRPAL---KGALLSLIDHYKWEKFVYLY-DTDRGLSILQA 169 (897)
T ss_pred ccccchhhhhhhccceeeeeecccC--C--cCCCceEEEEeCchH---HHHHHHHHHhcccceEEEEE-cccchHHHHHH
Confidence 9999999999999999999998654 2 234457889999874 48999999999999999999 55678888999
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchh
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 263 (930)
+.+.+.++++.|.....-.++ +...+..+++.+...+.+.|++.|..+...+++.++-+.|-...+|+++..+.--.
T Consensus 170 i~~~a~~~nw~VtA~~v~~~~---d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~ 246 (897)
T KOG1054|consen 170 IMEAAAQNNWQVTAINVGNIN---DVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFT 246 (897)
T ss_pred HHHHHHhcCceEEEEEcCCcc---cHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCc
Confidence 999999999999876544443 36669999999998899999999999999999999998888889999999764322
Q ss_pred cccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC------CCCCCCchhHHHhHHHHHHHHHHHHHHhcCC
Q 002364 264 MLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGG 337 (930)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 337 (930)
..|. ........++.+++...-++|..++|.++|++... ....+...++.+|||+.+.++|+..+..+..
T Consensus 247 d~dl----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~ 322 (897)
T KOG1054|consen 247 DIDL----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRI 322 (897)
T ss_pred hhhH----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhh
Confidence 2222 34556778899999999999999999999987542 2345667789999999999999999987754
Q ss_pred cceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCC
Q 002364 338 KISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNY 417 (930)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~ 417 (930)
++.. .+..|++ ...+..+|.+|..+-++|+++.++|++|+++||..|.|.+...+|+.+..++-+++|+|+..
T Consensus 323 ~~~r------RG~~GD~-~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~ 395 (897)
T KOG1054|consen 323 DISR------RGNAGDC-LANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEG 395 (897)
T ss_pred chhc------cCCCccc-cCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeeccc
Confidence 4321 1223322 22468899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcCCCcccccCCCCCCccccccceeEeCCCCccCCCcccccCCCceeEEEecCCccccceeee---ccCCcceEeee
Q 002364 418 SGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSK---VRGSDMFQGFC 494 (930)
Q Consensus 418 ~gl~~~~~~~~~~~~~~~~~~~~~l~~i~wp~~~~~~p~~~~~~~~g~~lrv~~~~~~~~~p~~~~---~~~~~~~~G~~ 494 (930)
.|+....... ..+ ...+.. +.++..|.+.-..||.-+... -.++.++.|||
T Consensus 396 ~~fv~~~t~a-~~~---~d~~~~----------------------~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyC 449 (897)
T KOG1054|consen 396 EGFVPGSTVA-QSR---NDQASK----------------------ENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYC 449 (897)
T ss_pred Cceeeccccc-ccc---cccccc----------------------ccceEEEEEecCCchhHHHhhHHHhcCCcccceeH
Confidence 9875321110 000 000000 112223333211122221111 13688999999
Q ss_pred HHHHHHHHHhCCCcccEEEEecC---CCCCCCC-HHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 495 IDVFTAAVNLLPYAVPYQFVAFG---DGHKNPS-YTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 495 ~dl~~~l~~~l~f~~~~~~~~~~---~~~~~~~-~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
+||+.+|+++.++++++..+.+| ..+..++ |+||++.|..|++|+++++++||.+|++.+|||.|++..++++|++
T Consensus 450 vdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIK 529 (897)
T KOG1054|consen 450 VDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIK 529 (897)
T ss_pred HHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEe
Confidence 99999999999987666666533 2235566 9999999999999999999999999999999999999999999999
Q ss_pred ccC-CCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCC-------------CccccchhhhHHHHHHhhh
Q 002364 571 FRK-LNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRG-------------PPKRQVITILWFSLSTLFF 636 (930)
Q Consensus 571 ~~~-~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~l~~ 636 (930)
+|+ ..+..++|+.|...++|+|++..++.+++++++..|+++.+|+- ++..++.|++||+++++|+
T Consensus 530 KPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQ 609 (897)
T KOG1054|consen 530 KPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQ 609 (897)
T ss_pred CcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHh
Confidence 998 78899999999999999999999999999999999998876642 1235689999999999999
Q ss_pred cCcC-cccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCC-eEEEeCchHHHHHHHhhccc
Q 002364 637 AHKE-NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP-IGYQEGSFAEYYLSQELNIS 714 (930)
Q Consensus 637 ~~~~-~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~-v~~~~~s~~~~~l~~~~~~~ 714 (930)
||.+ .|||.|+|++..+||||+|||+++|||||+||||+.++.+||.|.|||+++.+. .|+.++..+.++|+.. .+.
T Consensus 610 QG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~S-kia 688 (897)
T KOG1054|consen 610 QGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRS-KIA 688 (897)
T ss_pred cCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhh-hHH
Confidence 9998 999999999999999999999999999999999999999999999999988764 6777777788888542 111
Q ss_pred -cccc----------eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhc-CccEEEeCccccccceeeeeCCCCcc
Q 002364 715 -KSRL----------VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS-QCSFRIVGQEFTKSGWGFAFPRDSPL 782 (930)
Q Consensus 715 -~~~~----------~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~spl 782 (930)
..++ +-..+..|.+..+++. ++.+||+.|....+|..++ .|+-+.++..+.+.+|+++.||||.|
T Consensus 689 vy~kMW~yM~SaepsVFv~t~aeGv~rVRks---KGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gssl 765 (897)
T KOG1054|consen 689 VYEKMWTYMKSAEPSVFVRTTAEGVARVRKS---KGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSL 765 (897)
T ss_pred HHHHHHHHHhcCCcceeeehhhhHHHHHHhc---CCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCccc
Confidence 1122 2246788899998874 6789999999999998654 69999999999999999999999999
Q ss_pred hHHHHHHHHhhhhccchHHHHHHhcc-cCCCCCccccc--ccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 002364 783 AVDLSSAILELAENGDLQRIHDKWLM-KSSCSLENAEL--ESDRLHLSSFWGLFLICGVACFIALVIYFLQIMQQLCKSA 859 (930)
Q Consensus 783 ~~~i~~~i~~l~e~G~~~~~~~~w~~-~~~c~~~~~~~--~~~~l~l~~l~g~f~il~~g~~ls~~vf~~E~~~~~~~~~ 859 (930)
+..+|.++++|.|.|+++++.+|||. +++|....... +...|+|.+.+|+||||..|++||.++-++|++|+.+...
T Consensus 766 r~~vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Ea 845 (897)
T KOG1054|consen 766 RNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEA 845 (897)
T ss_pred ccchhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHH
Confidence 99999999999999999999999998 89998876543 3478999999999999999999999999999999876554
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=7.3e-82 Score=656.47 Aligned_cols=748 Identities=24% Similarity=0.408 Sum_probs=614.7
Q ss_pred CCCCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC--ChHHHHHHH-HHHHhcCcEEEEc
Q 002364 26 SARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC--SGFIGMVEA-LRFMETDIVAIIG 102 (930)
Q Consensus 26 ~~~~~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~--~~~~a~~~a-~~li~~~v~aiiG 102 (930)
+..+.+++||.++.-. .....+.-++.++|++.+ ..++.+--....+ ++.+.+..+ .+|++..|.+|+-
T Consensus 30 ~~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~v 101 (993)
T KOG4440|consen 30 ACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLV 101 (993)
T ss_pred CCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEe
Confidence 3456789999998754 357888999999997754 3666653222222 344444444 4677888888763
Q ss_pred --CCChhH---HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCcc
Q 002364 103 --PQCSTV---AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY 176 (930)
Q Consensus 103 --p~~s~~---~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~ 176 (930)
|.+|.. -.++...+.-+.||++.....+..+++ .-++.|.|+.|+..+|+.+..+.+..|.|++|.++.+||.-
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 333322 234455677889999998888889998 56899999999999999999999999999999999999999
Q ss_pred ccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 177 GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 177 g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
|+....+++..+++...++.....+.|+ .+++...|-++|..++||+++..+.++|..++++|-+++|++.||+||
T Consensus 182 gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWi 257 (993)
T KOG4440|consen 182 GRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWI 257 (993)
T ss_pred chhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEE
Confidence 9988888888888777777777788887 788999999999999999999999999999999999999999999999
Q ss_pred EeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcC
Q 002364 257 ATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (930)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 336 (930)
.++..... .....|++|.+.....+. ....-|++.++|.|+++++...
T Consensus 258 V~E~a~~~----------nn~PdG~LGlqL~~~~~~----------------------~~hirDsv~vlasAv~e~~~~e 305 (993)
T KOG4440|consen 258 VGERAISG----------NNLPDGILGLQLINGKNE----------------------SAHIRDSVGVLASAVHELLEKE 305 (993)
T ss_pred Eecccccc----------CCCCCceeeeEeecCccc----------------------cceehhhHHHHHHHHHHHHhhc
Confidence 98642221 234678898887543221 2345699999999999998764
Q ss_pred CcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCc-ccccccceEEccCCCcccceEEEEEee-ccceEEEEEE
Q 002364 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYW 414 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~G~~G~v~fd~~g~~~~~~~~I~~~~-~~~~~~vg~w 414 (930)
.-.. -+.-||++...|..|..|.+.+.... ..|.+|.+.||+||+|....|+|+|+. +...+.+|.|
T Consensus 306 ~I~~-----------~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~y 374 (993)
T KOG4440|consen 306 NITD-----------PPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIY 374 (993)
T ss_pred cCCC-----------CCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhccc
Confidence 3221 12347889999999999999888755 589999999999999999999999995 4445555544
Q ss_pred cCCCCCCcCCCcccccCCCCCCccccccceeEeCCCCccCCCcccccCCCceeEEEecCCccccceeeecc---------
Q 002364 415 SNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSKVR--------- 485 (930)
Q Consensus 415 ~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~wp~~~~~~p~~~~~~~~g~~lrv~~~~~~~~~p~~~~~~--------- 485 (930)
+. +.+.+ +...|+|||+.+..|++..+|+ +|||.+.+. +||++...
T Consensus 375 d~---~r~~~----------------nd~~IiWpGg~~~KP~gi~~pt---hLrivTi~~---~PFVYv~p~~sd~~c~e 429 (993)
T KOG4440|consen 375 DG---TRVIP----------------NDRKIIWPGGETEKPRGIQMPT---HLRIVTIHQ---EPFVYVKPTLSDGTCKE 429 (993)
T ss_pred cc---eeecc----------------CCceeecCCCCcCCCccccccc---eeEEEEecc---CCeEEEecCCCCcchhh
Confidence 33 33222 2347999999999999999884 599988865 45555321
Q ss_pred -----C-----------------------CcceEeeeHHHHHHHHHhCCCcccEEEEecCC-CC----------CCCCHH
Q 002364 486 -----G-----------------------SDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGD-GH----------KNPSYT 526 (930)
Q Consensus 486 -----~-----------------------~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~-~~----------~~~~~~ 526 (930)
+ .-|+.|+||||+-.+++.+||+++..+++.+. |+ ...+|+
T Consensus 430 ef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~ 509 (993)
T KOG4440|consen 430 EFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWN 509 (993)
T ss_pred hccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceeh
Confidence 0 12678999999999999999999998888653 22 123699
Q ss_pred HHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhh
Q 002364 527 QLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWI 606 (930)
Q Consensus 527 ~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~ 606 (930)
|++++|.++++||++++++|++||.++++||.||...++.++.++..+.+.+.+|++||+..+|+++.++..++++++++
T Consensus 510 G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYl 589 (993)
T KOG4440|consen 510 GMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYL 589 (993)
T ss_pred hhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccCCC-CCCC-------ccccchhhhHHHHHHhhhcCcC--cccccchhhhHHHHHHHHHhhhhhhhhhhheeeecc
Q 002364 607 LEHRINDE-FRGP-------PKRQVITILWFSLSTLFFAHKE--NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQ 676 (930)
Q Consensus 607 ~~~~~~~~-~~~~-------~~~~~~~~~~~~~~~l~~~~~~--~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~ 676 (930)
++|+++.+ |... ....++..+||+||.|+..|.. .|||.|.|++-++|+-|++|++++|||||+|||...
T Consensus 590 LDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLd 669 (993)
T KOG4440|consen 590 LDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLD 669 (993)
T ss_pred HHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeec
Confidence 99998753 3222 2346899999999999988754 999999999999999999999999999999999999
Q ss_pred cccCCCCChHHhhhCC----CCeEEEeCchHHHHHHHhhcccc--ccc--eecCCHHHHHHHHhcCCCCCceEEEEecch
Q 002364 677 QLYSPINGIESLRKSD----DPIGYQEGSFAEYYLSQELNISK--SRL--VALRTPEDYAKALKDGPGKGGVAAVVDERP 748 (930)
Q Consensus 677 ~~~~~i~s~~dL~~~~----~~v~~~~~s~~~~~l~~~~~~~~--~~~--~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~ 748 (930)
+.+..++.+.|-.-.+ ...+.+.+|..+.||+++..++. .++ ..|.+.+|.++++.+ |..+|||.|+.
T Consensus 670 rPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~----gkL~AFIWDS~ 745 (993)
T KOG4440|consen 670 RPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRD----GKLHAFIWDSA 745 (993)
T ss_pred CccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHc----CceeEEEeecc
Confidence 9999999998854323 24778899999999977654442 122 236788899999999 99999999999
Q ss_pred hHHHHHhcCccEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhccchHHHHHHhccc---CCCCCccccccccccc
Q 002364 749 YVELFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLMK---SSCSLENAELESDRLH 825 (930)
Q Consensus 749 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~~~~~w~~~---~~c~~~~~~~~~~~l~ 825 (930)
.++|..+++|.|...++.|...+|+++++|+||+.+.+..+|+++.|+|.|+++.++|... ..|.... ..+..|+
T Consensus 746 rLEfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~--k~PatLg 823 (993)
T KOG4440|consen 746 RLEFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRS--KAPATLG 823 (993)
T ss_pred eeeehhhcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhc--cCccccc
Confidence 9999999999999999999999999999999999999999999999999999999999983 4444433 3578999
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 002364 826 LSSFWGLFLICGVACFIALVIYFLQIMQQLCKSA 859 (930)
Q Consensus 826 l~~l~g~f~il~~g~~ls~~vf~~E~~~~~~~~~ 859 (930)
+.++.|+|++++.|+.+++...++|+.|++++.+
T Consensus 824 l~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~ 857 (993)
T KOG4440|consen 824 LENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDA 857 (993)
T ss_pred ccccccEEEEEecchhheeeEEEEeehhhhhhhh
Confidence 9999999999999999998888999998876655
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=7.3e-76 Score=634.36 Aligned_cols=768 Identities=21% Similarity=0.357 Sum_probs=580.6
Q ss_pred ceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh-
Q 002364 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST- 107 (930)
Q Consensus 30 ~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~- 107 (930)
..+.|++++.-+.+ |.....+...-.++.=-+-. | .....+...++ .||..-+...|+++.. +|.++|--..|+
T Consensus 37 r~l~vav~~~~~~p-~~~~~~~~l~p~~~~~~~~~-l-~~~~~~l~~N~-tdPkSll~~vC~lvs~~~V~glvf~d~s~~ 112 (1258)
T KOG1053|consen 37 RWLGVAVVFSGSGP-GEAAEAARLWPRDALAFRLP-L-DVVPVLLPMNT-TDPKSLLTQVCDLVSGARVHGLVFEDDSDT 112 (1258)
T ss_pred cceeEEEEecCCCC-hhhhhHHhhCchhhhhhcCC-C-cceeeEeecCC-CCHHHHHHHHHhhhhhcceeEEEeecCccc
Confidence 35999999986633 11121111111111100000 1 23333333444 6899999999999987 888887544444
Q ss_pred --HHHHHHHhhccCCCcEEecccCCC-CCCCC-CCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHH
Q 002364 108 --VAHIVSYVSNELQVPLLSFGVTDP-TLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 108 --~~~~v~~~~~~~~iP~is~~a~~~-~l~~~-~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 183 (930)
.+..+--+..+.+||+|+..+.+. .++++ ....|+++.|+-.+|++++.++|+.|+|..+++|.+.-+.-+..+..
T Consensus 113 ~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ 192 (1258)
T KOG1053|consen 113 EAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQVMLKILEEYDWYNFSLVTTQFPGNRTFVSL 192 (1258)
T ss_pred hHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHHHHHHHHHHcCcceeEEEEeecCchHHHHHH
Confidence 333334456788999999866554 34443 33579999999999999999999999999999999888887888888
Q ss_pred HHHHHhhc--ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcc
Q 002364 184 LNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (930)
Q Consensus 184 l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 261 (930)
+++..+.- |+++.......+. +++.......++++-++.||++.|+-+++..||+.|.++|+++++|+||.+...
T Consensus 193 ir~~~d~s~vgwe~i~v~~l~~s---~~d~~a~~q~qLkki~a~VillyC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv 269 (1258)
T KOG1053|consen 193 IRQTNDNSHVGWEMINVLTLDPS---TDDLLAKLQAQLKKIQAPVILLYCSREEAERIFEEAEQAGLTGPGYVWIVPQLV 269 (1258)
T ss_pred HHHhhhhccccceeeeeeecCCC---CCchHHHHHHHHHhcCCcEEEEEecHHHHHHHHHHHHhcCCcCCceEEEeehhc
Confidence 88877763 6666655566655 233333444456666799999999999999999999999999999999996543
Q ss_pred hhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCccee
Q 002364 262 AYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (930)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 341 (930)
... + +...+...|.+.+... .|+ ..+...+-|+|.++|.|...++...+.++.
T Consensus 270 ~g~---~---~~pa~~P~GLisv~~~------------~w~---------~~l~~rVrdgvaiva~aa~s~~~~~~~lp~ 322 (1258)
T KOG1053|consen 270 EGL---E---PRPAEFPLGLISVSYD------------TWR---------YSLEARVRDGVAIVARAASSMLRIHGFLPE 322 (1258)
T ss_pred cCC---C---CCCccCccceeeeecc------------chh---------hhHHHHHhhhHHHHHHHHHHHHhhcccCCC
Confidence 321 1 1112344566555431 122 234566789999999999999877655321
Q ss_pred cCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee-ccceEEEEEEcCCCCC
Q 002364 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSNYSGL 420 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~~~gl 420 (930)
...+|.. ........++.+.++|.|++|+| ++++|+++|-..++...++.++ +..|+.||.|.+++ |
T Consensus 323 --------~~~~C~~-~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L 390 (1258)
T KOG1053|consen 323 --------PKMDCRE-QEETRLTSGETLHRFLANVTWDG--RDLSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-L 390 (1258)
T ss_pred --------ccccccc-ccCccccchhhhhhhhheeeecc--cceeecCCceeeccceEEEecCCCcchheeceecCCe-E
Confidence 1122111 11223335899999999999999 7799999998888888888776 46799999998755 5
Q ss_pred CcC-CCcccccCCCCCCccccccceeEeCCCCccCCCcccc-----cCCCceeEEEecCCccc-cceeeeccC----Ccc
Q 002364 421 SKE-PPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVF-----PNNGKLLKIGVPNRASY-REFVSKVRG----SDM 489 (930)
Q Consensus 421 ~~~-~~~~~~~~~~~~~~~~~~l~~i~wp~~~~~~p~~~~~-----~~~g~~lrv~~~~~~~~-~p~~~~~~~----~~~ 489 (930)
.|. +-|.+|.+++....++.||..|+. ..++|++ |..+.+++-.++..... .-+...+.. ..|
T Consensus 391 ~M~y~vWPr~~~~~q~~~d~~HL~VvTL------eE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkC 464 (1258)
T KOG1053|consen 391 VMKYPVWPRYHKFLQPVPDKLHLTVVTL------EERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKC 464 (1258)
T ss_pred EEeccccccccCccCCCCCcceeEEEEe------ccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhh
Confidence 553 223455555555666667766553 2233333 34455555444432100 000000111 348
Q ss_pred eEeeeHHHHHHHHHhCCCcccEEEEecCC-CC-CCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEE
Q 002364 490 FQGFCIDVFTAAVNLLPYAVPYQFVAFGD-GH-KNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVV 567 (930)
Q Consensus 490 ~~G~~~dl~~~l~~~l~f~~~~~~~~~~~-~~-~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~ 567 (930)
++||||||++.|++.+||+++.+.+..|. |+ .||.|+||+++|..+++||++++++|+++|++.+|||.||.++++.+
T Consensus 465 CkGfCIDiLkKlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsV 544 (1258)
T KOG1053|consen 465 CKGFCIDILKKLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISV 544 (1258)
T ss_pred hhhhhHHHHHHHHhhcCcceEEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEE
Confidence 89999999999999999998888877664 43 79999999999999999999999999999999999999999999999
Q ss_pred EEeccCCCCCcceeeccCchhHHHHHHHHHHHH-HHHhhhhhcccCCCCC---------CCccccchhhhHHHHHHhhhc
Q 002364 568 VVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVV-GIVVWILEHRINDEFR---------GPPKRQVITILWFSLSTLFFA 637 (930)
Q Consensus 568 lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~-~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~ 637 (930)
||.+.+...+.-+||.||++.+|++++++++++ ++.++++|++++-.+. +.+.++++.++|..|+.+|..
T Consensus 545 mV~rsngtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnn 624 (1258)
T KOG1053|consen 545 MVARSNGTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNN 624 (1258)
T ss_pred EEEecCCccCchhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCC
Confidence 999999889999999999999999999988876 4556688888765432 234678999999999999987
Q ss_pred --CcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhC-------CCCeEEEeCchHHHHHH
Q 002364 638 --HKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKS-------DDPIGYQEGSFAEYYLS 708 (930)
Q Consensus 638 --~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~-------~~~v~~~~~s~~~~~l~ 708 (930)
+.++|++..+|+++.+|.||++|+.++|||||+|||....+..++..+.|=.-+ ..++|.+.++..+++++
T Consensus 625 sVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR 704 (1258)
T KOG1053|consen 625 SVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIR 704 (1258)
T ss_pred CcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHH
Confidence 466999999999999999999999999999999999999999999999885422 23578887777888886
Q ss_pred Hhhccccccceec--CCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhc--CccEEEeC--ccccccceeeeeCCCCcc
Q 002364 709 QELNISKSRLVAL--RTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS--QCSFRIVG--QEFTKSGWGFAFPRDSPL 782 (930)
Q Consensus 709 ~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~spl 782 (930)
+++..-...++.| ...++.++.|++ |+.||||+|...++|+..+ .|+|..++ +.|...+|++++|||||+
T Consensus 705 ~Nyp~MHeYM~kyNq~~v~dal~sLK~----gKLDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spw 780 (1258)
T KOG1053|consen 705 SNYPEMHEYMVKYNQPGVEDALESLKN----GKLDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPW 780 (1258)
T ss_pred hccHHHHHHHHHhccCchHHHHHHHhc----ccchhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcc
Confidence 6553223344445 477899999998 9999999999999999987 59999998 899999999999999999
Q ss_pred hHHHHHHHHhhhhccchHHHHHHhcccCCCCCcccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 002364 783 AVDLSSAILELAENGDLQRIHDKWLMKSSCSLENAELESDRLHLSSFWGLFLICGVACFIALVIYFLQIMQQ 854 (930)
Q Consensus 783 ~~~i~~~i~~l~e~G~~~~~~~~w~~~~~c~~~~~~~~~~~l~l~~l~g~f~il~~g~~ls~~vf~~E~~~~ 854 (930)
+..||.+|+++...|.|+.+++.|+. ..|.+...+..+.+|++++|.|+||+|++|++||+++|++|.+++
T Consensus 781 kr~IdlallQy~gdGeme~Le~~Wlt-gic~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvY 851 (1258)
T KOG1053|consen 781 KRQIDLALLQYLGDGEMEMLETLWLT-GICHNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVY 851 (1258)
T ss_pred hhhHHHHHHHHhccchHHHHHHHHhh-cccccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999998 677777777789999999999999999999999999999996643
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=5.9e-65 Score=605.23 Aligned_cols=595 Identities=37% Similarity=0.672 Sum_probs=506.8
Q ss_pred HHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhh
Q 002364 215 LLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRK 294 (930)
Q Consensus 215 ~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 294 (930)
.+.+++....+++++++.+..+..++.+|.++||+..+|+|+.+++.....+.... ....+...|.++...+.|.+...
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL-YSLIDVMNGVLGLRGHIPRSELL 83 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc-ccchhheeeEEeeccCCCccHHH
Confidence 34555667899999999988999999999999999999999999987766655221 45567788999999999999999
Q ss_pred HHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHH
Q 002364 295 KNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL 374 (930)
Q Consensus 295 ~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~ 374 (930)
+.|..+|+.. ....+.++.++||+++++|.|++.... .. .....|+..+.|.++..+.+.+.
T Consensus 84 ~~~~~~~~~~---~~~~~~~~~~~~D~~~~~a~~~~~~~~-~~--------------~~~~~~~~~~~~~~~~~~~~~~~ 145 (656)
T KOG1052|consen 84 QNFVTRWQTS---NVELLVYALWAYDAIQALARAVESLLN-IG--------------NLSLSCGRNNSWLDALGVFNFGK 145 (656)
T ss_pred HHHHHHHhhc---cccccchhhHHHHHHHHHHHHHHHhhc-CC--------------CCceecCCCCcccchhHHHHHHH
Confidence 9999999864 245678899999999999999999764 11 22344555667777888999988
Q ss_pred hCcccc---cccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCCCcCCCcccccCCCCCCccccccceeEeCCCC
Q 002364 375 QSNLVG---LTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGET 451 (930)
Q Consensus 375 ~~~f~G---~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~wp~~~ 451 (930)
.....+ .+|.++++.++.+....|+|+|..+.+...||.|++..| .++.||+..
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~ 202 (656)
T KOG1052|consen 146 KLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKD 202 (656)
T ss_pred hhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCc
Confidence 876544 456788887888899999999999999888999999775 268999999
Q ss_pred ccCCCcccccCCCceeEEEecCCccccceeeec---cCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCC--CCCCHH
Q 002364 452 LSKPRGWVFPNNGKLLKIGVPNRASYREFVSKV---RGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGH--KNPSYT 526 (930)
Q Consensus 452 ~~~p~~~~~~~~g~~lrv~~~~~~~~~p~~~~~---~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~--~~~~~~ 526 (930)
...|++|.++.+|+++||+++..+||.-+.... .++..+.|+|+||++++++++||++++..++++.|+ ++|+|+
T Consensus 203 ~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~ 282 (656)
T KOG1052|consen 203 YFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWD 282 (656)
T ss_pred ccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChh
Confidence 999999999999999999999876665555431 145689999999999999999999999998877654 457999
Q ss_pred HHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhh
Q 002364 527 QLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWI 606 (930)
Q Consensus 527 ~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~ 606 (930)
|++++|.+|++|++ ++++++++|.+++|||.||++.++++++++++..+..|.|+.||++++|++++++++++++++|+
T Consensus 283 g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~ 361 (656)
T KOG1052|consen 283 GLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWI 361 (656)
T ss_pred HHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999 89999999999999999999999999999998655599999999999999999999999999999
Q ss_pred hhcccCCCCCCCc-----cccchhhhHHHHHHhhhcCcC-cccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccC
Q 002364 607 LEHRINDEFRGPP-----KRQVITILWFSLSTLFFAHKE-NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYS 680 (930)
Q Consensus 607 ~~~~~~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~-~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 680 (930)
++|+.+.++ .+. .....+++|+++++++.|+.. .|++.++|+++++||++++|++++|||+|+|+||++++.+
T Consensus 362 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~ 440 (656)
T KOG1052|consen 362 LERLSPYEL-PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRS 440 (656)
T ss_pred HhccccccC-CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence 999999888 222 122456889999999988755 9999999999999999999999999999999999999999
Q ss_pred CCCChHHhhh-CCCCeEEEeCchHHHHHHHh---hccccc-cceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002364 681 PINGIESLRK-SDDPIGYQEGSFAEYYLSQE---LNISKS-RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (930)
Q Consensus 681 ~i~s~~dL~~-~~~~v~~~~~s~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 755 (930)
+|++++||++ ++..+|...+++...++.+. ...... +...+.+.+++.+++.++.. |+ ++++.+...+.|...
T Consensus 441 ~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~-~~-~~~~~~~~~~~~~~~ 518 (656)
T KOG1052|consen 441 PIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS-GG-YAFASDELYLAYLFL 518 (656)
T ss_pred cccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC-Cc-eEEEeccHHHHHHHh
Confidence 9999999995 77789999999999999766 333334 67778999999999999543 24 455555555555544
Q ss_pred cC--ccEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhccchHHHHHHhcccC----CCCCcccccccccccccch
Q 002364 756 SQ--CSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLMKS----SCSLENAELESDRLHLSSF 829 (930)
Q Consensus 756 ~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~~~~~w~~~~----~c~~~~~~~~~~~l~l~~l 829 (930)
++ |+++.+++.+...+++ ++||||||+..+|.+|+++.|.|.++++.++|+... .|.... ....|+++++
T Consensus 519 ~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~l~~~~~ 594 (656)
T KOG1052|consen 519 RDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKALDLESF 594 (656)
T ss_pred hcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---cccccchhhH
Confidence 43 8999999999999999 999999999999999999999999999999999943 444433 4678999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 002364 830 WGLFLICGVACFIALVIYFLQIMQQLCKSA 859 (930)
Q Consensus 830 ~g~f~il~~g~~ls~~vf~~E~~~~~~~~~ 859 (930)
+|+|+++++|+++|+++|++|++|++++..
T Consensus 595 ~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 595 WGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 999999999999999999999999988775
No 5
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=7.6e-47 Score=412.17 Aligned_cols=362 Identities=20% Similarity=0.328 Sum_probs=292.3
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~-~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||+||+..+ ...+.|+++||+++|.+..++++.+|.+.+ +++.||++.+..++|+|++++|.|||||.++.++..
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 4899999765 346899999999999999899999999999 999999999999999999999999999999999999
Q ss_pred HHHhhccCCCcEEeccc-----------CCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccch
Q 002364 112 VSYVSNELQVPLLSFGV-----------TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG 180 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a-----------~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~ 180 (930)
++++|+.++||+|++++ ++|.++..+||++.| |+ ..+..|+++++++|+|++|++|| |++||...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lr--p~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAAR--PP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEec--Cc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999866 345444455655555 54 46788999999999999999999 88899999
Q ss_pred HHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHH--------HHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCC
Q 002364 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV--------KVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~--------~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~ 252 (930)
++.+.+.+.+.+.+|.... +..+ ...++.+.++ +++..+ ++||++|+++.+..++++|+++||+..+
T Consensus 154 lq~L~~~~~~~~~~I~~~~-v~~~---~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~ 228 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQK-VDRN---ISRVFTNLFTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKD 228 (400)
T ss_pred HHHHHHHHhhcCceEEEEE-cccC---cchhhhhHHHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCC
Confidence 9999999999999988655 2211 0113333333 444334 8999999999999999999999999999
Q ss_pred eEEEEeCcchhcccCCCCChhhhhccc-cEEEEEEecCCChhhHHHH----HHHhhhcCC---C--CCCCchhHHHhHHH
Q 002364 253 YVWIATDWLAYMLDSASLPSETLESMQ-GVLVLRQHIPESDRKKNFL----SRWKNLTGG---S--LGMNSYGLYAYDSV 322 (930)
Q Consensus 253 ~~~i~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~--~~~~~~~~~~YDav 322 (930)
|+||++++.....+. .+...... ++.+++.+.|.+....+|. .+|++.... . ..++.+++++||||
T Consensus 229 y~wI~t~~~~~~~dl----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV 304 (400)
T cd06392 229 SHWVFVNEEISDTEI----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSV 304 (400)
T ss_pred eEEEEecCCcccccH----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHH
Confidence 999999986654433 33334443 5666999888777555553 677644311 1 14678999999999
Q ss_pred HHHHHHHHHHHhcCCcceecCCccccccCCCcccC--CCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEE
Q 002364 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (930)
Q Consensus 323 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I 400 (930)
|++|+|+++++.+... .+..+ ..| .+.++|+.|..|+++|++++|+|+||+++||++|+|.++.|+|
T Consensus 305 ~~~A~Al~~ll~~~~~---------~~~~~--l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldI 373 (400)
T cd06392 305 LMLANAFHRKLEDRKW---------HSMAS--LNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEI 373 (400)
T ss_pred HHHHHHHHHHhhcccc---------CCCCC--CccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEE
Confidence 9999999987643221 11222 345 5688999999999999999999999999999999999999999
Q ss_pred EEee-----ccceEEEEEEcCCCCCC
Q 002364 401 INVI-----GTGFRMIGYWSNYSGLS 421 (930)
Q Consensus 401 ~~~~-----~~~~~~vg~w~~~~gl~ 421 (930)
+|++ +.++++||+|++.+||.
T Consensus 374 i~l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 374 LGTSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred EeccccccCCCCceEeEEecCCCCCC
Confidence 9955 66799999999999874
No 6
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=4.8e-46 Score=415.29 Aligned_cols=366 Identities=21% Similarity=0.305 Sum_probs=307.7
Q ss_pred eEEEEEEee-CC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCC
Q 002364 31 VVNVGALFT-LD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQC 105 (930)
Q Consensus 31 ~i~IG~i~~-~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~ 105 (930)
.|+||+++| ++ +..|...+.|+++||++||+++++||+.+|.+.+.+.++ ++..+...+|+++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 55 455788899999999999999999999999999999765 6667888889888789999999999
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHH
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (930)
|..+.++++++++++||+|++++++|.+++. .+|++|+.|++..++.++++++++++|++|++||+++. |...++.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHH
Confidence 9999999999999999999999999888864 35788888998899999999999999999999997654 666666788
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 265 (930)
+.+++.|++|.. +.++.+ ..|+.++|++|+..++++||++++..++..+++||+++||+.+.|+|+.++......
T Consensus 160 ~~~~~~g~~v~~-~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKI-RQLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEE-EECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 888889999886 446655 789999999999999999999999999999999999999999999999876533222
Q ss_pred cCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhh-cCCCC---------CCCchhHHHhHHHHHHHHHHHHHHhc
Q 002364 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGSL---------GMNSYGLYAYDSVWLLAHAIESFFNQ 335 (930)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~YDav~~la~Al~~~~~~ 335 (930)
+. .........+.+++...++++..++|.++|+++ ++... .+..+++++||||+++|+|++++...
T Consensus 235 ~~----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~ 310 (384)
T cd06393 235 DL----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQM 310 (384)
T ss_pred cc----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhc
Confidence 22 111112233577777788899999999999854 42111 12568999999999999999975322
Q ss_pred CCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEcc-CCCcccceEEEEEeeccceEEEEEE
Q 002364 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVIGTGFRMIGYW 414 (930)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~-~g~~~~~~~~I~~~~~~~~~~vg~w 414 (930)
....+.|++.++|+.|..|+++|++++|+|+||+++||+ +|.|.+..|+|+|+.+.++++||+|
T Consensus 311 ---------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W 375 (384)
T cd06393 311 ---------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVW 375 (384)
T ss_pred ---------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEE
Confidence 112345777889999999999999999999999999996 6789999999999999999999999
Q ss_pred cCCCCCCc
Q 002364 415 SNYSGLSK 422 (930)
Q Consensus 415 ~~~~gl~~ 422 (930)
++..||++
T Consensus 376 ~~~~g~~~ 383 (384)
T cd06393 376 NPNTGLNI 383 (384)
T ss_pred cCCCCcCC
Confidence 99999863
No 7
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=6.6e-46 Score=424.71 Aligned_cols=375 Identities=21% Similarity=0.330 Sum_probs=309.8
Q ss_pred CCCCceEEEEEEeeCCC-----------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHH
Q 002364 26 SARPAVVNVGALFTLDS-----------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVE 88 (930)
Q Consensus 26 ~~~~~~i~IG~i~~~s~-----------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~ 88 (930)
...+++|.||++||.+. ..|.....|+.+|+|+||+++++|||++|+++++|+|+++..|++.
T Consensus 4 ~~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~ 83 (472)
T cd06374 4 ARMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQ 83 (472)
T ss_pred EEecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHH
Confidence 35678999999999983 1366778999999999999999999999999999999999999999
Q ss_pred HHHHHhc--------------------------CcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCce
Q 002364 89 ALRFMET--------------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFF 141 (930)
Q Consensus 89 a~~li~~--------------------------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~ 141 (930)
+.+++.+ +|.|||||.+|..+.++++++..+++|+|+++++++.+++ ..|||+
T Consensus 84 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~ 163 (472)
T cd06374 84 SIEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYF 163 (472)
T ss_pred HHHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCce
Confidence 9999852 7999999999999999999999999999999999999998 579999
Q ss_pred EeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh
Q 002364 142 VRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (930)
Q Consensus 142 ~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 221 (930)
||+.|++..++.++++++++++|++|++||+|++||+...+.+.+.+++.|+||+..+.++.. .+..++..++.+|++
T Consensus 164 fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~ 241 (472)
T cd06374 164 LRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRS 241 (472)
T ss_pred EEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999988887644 347899999999997
Q ss_pred CC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHH-
Q 002364 222 ME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL- 298 (930)
Q Consensus 222 ~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~- 298 (930)
++ ++||++++....+..++++|+++|+. ..++||++++|...... .....+..+|++++.++.+..+.+++|+
T Consensus 242 ~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~---~~~~~~~~~G~l~~~~~~~~~~~F~~~l~ 317 (472)
T cd06374 242 RLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDV---VEGYEEEAEGGITIKLQSPEVPSFDDYYL 317 (472)
T ss_pred cCCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHh---hhcchhhhheeEEEEecCCCCccHHHHHH
Confidence 54 55666667778899999999999985 56899999987653211 1234567899999999887777766653
Q ss_pred --------------HHHhhhcCC-------CC-----------------CCCchhHHHhHHHHHHHHHHHHHHhcCCcce
Q 002364 299 --------------SRWKNLTGG-------SL-----------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (930)
Q Consensus 299 --------------~~~~~~~~~-------~~-----------------~~~~~~~~~YDav~~la~Al~~~~~~~~~~~ 340 (930)
+.|+..|.- .. ....++.++|||||++|+||++++.+.+...
T Consensus 318 ~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~~ 397 (472)
T cd06374 318 KLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPGH 397 (472)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCCC
Confidence 456555420 00 0114556899999999999999986543111
Q ss_pred ecCCccccccCCCcccCCCccccCchHHHHHHHHhCccccccc-ceEEccCCCcccceEEEEEeec-----cceEEEEEE
Q 002364 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYW 414 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G-~v~fd~~g~~~~~~~~I~~~~~-----~~~~~vg~w 414 (930)
...|+..... ++.+|+++|++++|+|++| +|.||++|++ ...|+|+|++. .++++||+|
T Consensus 398 -------------~~~c~~~~~~-~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~-~~~ydI~n~~~~~~~~~~~~~VG~w 462 (472)
T cd06374 398 -------------VGLCDAMKPI-DGRKLLEYLLKTSFSGVSGEEVYFDENGDS-PGRYDIMNLQYTEDLRFDYINVGSW 462 (472)
T ss_pred -------------CCCCcCCCCC-CHHHHHHHHHhCcccCCCCCeEEEcCCCCC-CCceEEEEEEECCCCCEEEEEEEEE
Confidence 1123333333 5999999999999999999 6999999996 45899999994 357999999
Q ss_pred cCCCCCCc
Q 002364 415 SNYSGLSK 422 (930)
Q Consensus 415 ~~~~gl~~ 422 (930)
++ .+|.+
T Consensus 463 ~~-~~l~~ 469 (472)
T cd06374 463 HE-GDLGI 469 (472)
T ss_pred eC-Ccccc
Confidence 75 46654
No 8
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=1.6e-45 Score=410.23 Aligned_cols=336 Identities=23% Similarity=0.325 Sum_probs=285.4
Q ss_pred hhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-------------------CcEEEEcCCC
Q 002364 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-------------------DIVAIIGPQC 105 (930)
Q Consensus 45 g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-------------------~v~aiiGp~~ 105 (930)
|.+...|+++|+|+||+++ +|||++|+++++|+|+++..|+.++.+|+++ +|.|||||.+
T Consensus 34 g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 34 GFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred HHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 6778899999999999999 5589999999999999999999999999974 7999999999
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHH
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (930)
|..+.+++++++.++||+||++++++.|++ .+||||||+.|+|..|+.++++++++++|++|++|++|++||+.+.+.|
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f 192 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETF 192 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHH
Confidence 999999999999999999999999999997 6899999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcceEEEEEEecCCCCCCC---hhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcc
Q 002364 185 NDKLAERRCRISYKSGIPPESGVN---TGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~---~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 261 (930)
++++++.|+||+..+.++.+.... ..++..+++.++++++|+||+.+...++..++++|+++|+ +++||++++|
T Consensus 193 ~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w 269 (403)
T cd06361 193 IIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNW 269 (403)
T ss_pred HHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcc
Confidence 999999999999999887751111 1566666677888999999999999999999999999998 6899999988
Q ss_pred hhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCccee
Q 002364 262 AYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (930)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 341 (930)
...... ......+...|++++.+..+..+.++ +.|++.+ ..++||||+++|+||++++.+.
T Consensus 270 ~~~~~~--~~~~~~~~~~g~ig~~~~~~~~~~F~---~~~~~~~---------~~~v~~AVyaiA~Al~~~~~~~----- 330 (403)
T cd06361 270 STAKKI--LTDPNVKKIGKVVGFTFKSGNISSFH---QFLKNLL---------IHSIQLAVFALAHAIRDLCQER----- 330 (403)
T ss_pred cCcccc--ccCCcccccceEEEEEecCCccchHH---HHHHHhh---------HHHHHHHHHHHHHHHHHhccCC-----
Confidence 754322 11223356789999988775555544 4444433 3468999999999999964321
Q ss_pred cCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccc----eEEEEEEcCC
Q 002364 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTG----FRMIGYWSNY 417 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~----~~~vg~w~~~ 417 (930)
.|...... ++++|+++|++++|+|++|++.||+||+ ....|+|+++++++ +++||.|++.
T Consensus 331 --------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~~gd-~~~~y~I~~~~~~~~~~~~~~vg~~~~~ 394 (403)
T cd06361 331 --------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDANGD-LNLGYDVVLWKEDNGHMTVTIMAEYDPQ 394 (403)
T ss_pred --------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECCCCC-CCcceEEEEeEecCCcEEEEEEEEEeCC
Confidence 13332233 3899999999999999988999999999 47789999999642 6999999987
Q ss_pred CC
Q 002364 418 SG 419 (930)
Q Consensus 418 ~g 419 (930)
+.
T Consensus 395 ~~ 396 (403)
T cd06361 395 ND 396 (403)
T ss_pred CC
Confidence 63
No 9
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=2.7e-45 Score=415.50 Aligned_cols=364 Identities=22% Similarity=0.370 Sum_probs=307.4
Q ss_pred ceEEEEEEeeCCC-------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHh--
Q 002364 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (930)
Q Consensus 30 ~~i~IG~i~~~s~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 94 (930)
++|.||++||.+. ..|.+...|+.+|||+||+++++|||++|++.++|+|+++..|++.+.+++.
T Consensus 1 Gd~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~ 80 (458)
T cd06375 1 GDLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRAS 80 (458)
T ss_pred CCEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhh
Confidence 4799999999982 3578889999999999999999999999999999999999999999988883
Q ss_pred -----------------------cCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchH
Q 002364 95 -----------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSY 150 (930)
Q Consensus 95 -----------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~ 150 (930)
.+|.|||||.+|..+.+++++++.++||+|+++++++.|++ .+||||||+.|+|..
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 26999999999999999999999999999999999999998 679999999999999
Q ss_pred HHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh-CCceEEEE
Q 002364 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVL 229 (930)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil 229 (930)
|+.++++++++++|++|++||+|++||+...+.+.+++++.|+||+..+.++.. .+..++.++++++++ .++|+||+
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~l~~~~~a~vVvl 238 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRS--ADRKSYDSVIRKLLQKPNARVVVL 238 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CCHHHHHHHHHHHhccCCCEEEEE
Confidence 999999999999999999999999999999999999999999999998888765 457899999999875 68999999
Q ss_pred EcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHH----------
Q 002364 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLS---------- 299 (930)
Q Consensus 230 ~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---------- 299 (930)
++...++..++++|+++|+. ++||++++|...... .....+..+|++++.+.....+.+++|++
T Consensus 239 ~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~---~~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n 312 (458)
T cd06375 239 FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESI---VKGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRN 312 (458)
T ss_pred ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchh---hhccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCC
Confidence 99999999999999999984 899999988643211 11234578999999998877777766653
Q ss_pred -----HHhhhcC---C--C-----------------CCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCC
Q 002364 300 -----RWKNLTG---G--S-----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (930)
Q Consensus 300 -----~~~~~~~---~--~-----------------~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (930)
.|+..|+ . . ......+.++||||+++|+||++++.+.++.. .
T Consensus 313 ~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~----------~- 381 (458)
T cd06375 313 PWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNT----------T- 381 (458)
T ss_pred cHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCC----------C-
Confidence 4555553 0 0 01234678899999999999999996543311 1
Q ss_pred CcccCCCccccCchHHHH-HHHHhCccc-----cccc-ceEEccCCCcccceEEEEEeec--c--c--eEEEEEEcC
Q 002364 353 GNLHLGAMSIFDDGMLLL-GNILQSNLV-----GLTG-PLKFNSDRSLIHAAYDIINVIG--T--G--FRMIGYWSN 416 (930)
Q Consensus 353 ~~~~~~~~~~~~~g~~l~-~~l~~~~f~-----G~~G-~v~fd~~g~~~~~~~~I~~~~~--~--~--~~~vg~w~~ 416 (930)
-.|.....++ +.+|+ ++|++++|. |.+| +|.||+||+ ....|+|+|++. + . ++.||.|+.
T Consensus 382 --~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 382 --KLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGD-GLGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred --CCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCC-CCcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 1355544554 88999 599999999 9988 599999999 578999999993 3 2 689999964
No 10
>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-45 Score=420.70 Aligned_cols=370 Identities=24% Similarity=0.373 Sum_probs=309.5
Q ss_pred ceEEEEEEeeCCC-------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHh--
Q 002364 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (930)
Q Consensus 30 ~~i~IG~i~~~s~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 94 (930)
+++.||++||++. ..|.....|+++|+|+||+++++|||++|+++++|+++++..|+..+.+++.
T Consensus 1 Gd~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~ 80 (452)
T cd06362 1 GDIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRAS 80 (452)
T ss_pred CCeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhh
Confidence 4799999999983 3567779999999999999999999999999999999999999999998885
Q ss_pred ---------------------cCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHH
Q 002364 95 ---------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (930)
Q Consensus 95 ---------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~ 152 (930)
.+|.|||||.+|..+.+++++++.+++|+|+++++++.+++ .+|||+||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 68999999999999999
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh-CCceEEEEEc
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~ 231 (930)
.++++++++++|++|++|++|++||+...+.+.+.+++.|++|+..+.++.. ....|+.+++++|++ .++|+||+.+
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 9999999999999999999999999999999999999999999998888754 457899999999987 5799999999
Q ss_pred ChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHH--------------
Q 002364 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNF-------------- 297 (930)
Q Consensus 232 ~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f-------------- 297 (930)
.+.++..++++|+++|+. ..++||+++.|...... .....+..+|++++.++....+.++.|
T Consensus 239 ~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~---~~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~ 314 (452)
T cd06362 239 REDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSV---VEGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPW 314 (452)
T ss_pred ChHHHHHHHHHHHHcCCc-CceEEEEeccccccchh---hcccccccceEEEEEecccccccHHHHhhhCCcCcCCCChH
Confidence 999999999999999996 56899999887653221 123446788999888876655444443
Q ss_pred -HHHHhhhcC------CC----------------CCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCc
Q 002364 298 -LSRWKNLTG------GS----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGN 354 (930)
Q Consensus 298 -~~~~~~~~~------~~----------------~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (930)
.+.|+..+. .. .....++.++||||+++|+||++++.++.... .
T Consensus 315 ~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------------~ 381 (452)
T cd06362 315 FREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------------T 381 (452)
T ss_pred HHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------C
Confidence 333444332 00 11244788999999999999999986543211 0
Q ss_pred ccCCCccccCchHHHHHHHHhCccccccc-ceEEccCCCcccceEEEEEeec----cceEEEEEEcCCCCC
Q 002364 355 LHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG----TGFRMIGYWSNYSGL 420 (930)
Q Consensus 355 ~~~~~~~~~~~g~~l~~~l~~~~f~G~~G-~v~fd~~g~~~~~~~~I~~~~~----~~~~~vg~w~~~~gl 420 (930)
..|+... +.++.+|+++|++++|.|++| +|+||++|++ ...|+|++++. .++++||+|++..||
T Consensus 382 ~~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 382 GLCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 1244333 445999999999999999998 7999999996 56899999983 358999999887765
No 11
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.1e-45 Score=401.92 Aligned_cols=357 Identities=18% Similarity=0.242 Sum_probs=297.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||+||+.++ ...+.|+++|++++|.+..+++. + .+-+..|.+.+.+.+|++++++|.|||||.++.++..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~--~---~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQ--I---DIVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccc--e---EEeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998764 45789999999999997655431 1 12233588999999999999999999999999999999
Q ss_pred HHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcc
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR 192 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g 192 (930)
+.+|+..+||+|+++. |... ...|++++.|+ ++.|+++++++|+|++|++||+++ ||...++.+.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999998744 3332 33568999997 899999999999999999999655 99999999999999999
Q ss_pred eEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCCh
Q 002364 193 CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPS 272 (930)
Q Consensus 193 ~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 272 (930)
++|.....++.. ..++.+.|++++.+++++||++|+++.+..+++++.+.+|+..+|+||+++......+. .
T Consensus 145 ~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~----~ 216 (364)
T cd06390 145 WQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL----T 216 (364)
T ss_pred ceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH----H
Confidence 999987766644 67999999999999999999999999999999999989888999999999832212111 4
Q ss_pred hhhhccccEEEEEEecCCChhhHHHHHHHhhhcC------CCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 273 ETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 273 ~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
.....+.|++|++.+.|+++..++|.++|++... +...++.+++++||||+++|+|++++...+.++.+..
T Consensus 217 ~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~--- 293 (364)
T cd06390 217 KFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRG--- 293 (364)
T ss_pred HHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCC---
Confidence 4566899999999999999999999999987653 1125678999999999999999999866543332111
Q ss_pred ccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCC
Q 002364 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (930)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (930)
++..|......+|+.|..|+++|++++|+|+||+++||++|+|.+..|+|+|+.+.++++||+|++..||
T Consensus 294 ----~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 294 ----NAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred ----CCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 1112222235579999999999999999999999999999999999999999999999999999998886
No 12
>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=4.3e-45 Score=415.69 Aligned_cols=367 Identities=20% Similarity=0.286 Sum_probs=302.8
Q ss_pred ceEEEEEEeeCCC----------------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHH
Q 002364 30 AVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (930)
Q Consensus 30 ~~i~IG~i~~~s~----------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~ 87 (930)
++|.||++||.|. ..|.+...|+.+|+|+||++..+|||.+|++.++|+||++..|+.
T Consensus 1 Gdi~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~ 80 (469)
T cd06365 1 GDLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALE 80 (469)
T ss_pred CCeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHH
Confidence 4689999999872 125677899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHH
Q 002364 88 EALRFME--------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (930)
Q Consensus 88 ~a~~li~--------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~ 152 (930)
.+.+++. .+|+|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|+|..|+
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHH
Confidence 9999985 36999999999999999999999999999999999999997 67899999999999999
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
.++++++++|+|++|++|+.|++||+...+.+.+++++.|+||+..+.++........++..++++++++++|+||+++.
T Consensus 161 ~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~ 240 (469)
T cd06365 161 LGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGD 240 (469)
T ss_pred HHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcC
Confidence 99999999999999999999999999999999999999999999999888661111348899999999999999999999
Q ss_pred hhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHH------------
Q 002364 233 PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------ 300 (930)
Q Consensus 233 ~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------ 300 (930)
.+.+..++.++.+.+ ..+++||++++|...... .....+.++|++++.++.+..+++++|.++
T Consensus 241 ~~~~~~l~~~~~~~~--~~~~~wi~s~~w~~~~~~---~~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~ 315 (469)
T cd06365 241 TDSLLEVSFRLWQYL--LIGKVWITTSQWDVTTSP---KDFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFL 315 (469)
T ss_pred cHHHHHHHHHHHHhc--cCceEEEeeccccccccc---cccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHH
Confidence 888877655555444 257999999988654322 133557899999999998888888777644
Q ss_pred ---HhhhcC------C-----------C----------CCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcccccc
Q 002364 301 ---WKNLTG------G-----------S----------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTM 350 (930)
Q Consensus 301 ---~~~~~~------~-----------~----------~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~ 350 (930)
|+..|+ . . ......+.++||||+++|+||++++.+++...
T Consensus 316 ~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~---------- 385 (469)
T cd06365 316 EKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQ---------- 385 (469)
T ss_pred HhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCC----------
Confidence 444332 0 0 00123567899999999999999998754211
Q ss_pred CCCcccCCCccccCchHHHHHHHHhCcccccccc-eEEccCCCcccceEEEEEeec--c---ceEEEEEEcC
Q 002364 351 EGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGP-LKFNSDRSLIHAAYDIINVIG--T---GFRMIGYWSN 416 (930)
Q Consensus 351 ~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~-v~fd~~g~~~~~~~~I~~~~~--~---~~~~vg~w~~ 416 (930)
...+|.. .+. ++.+|+++|++++|.|.+|. |.||+||+ ....|+|+|++. + .+++||.|++
T Consensus 386 --~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~VG~~~~ 452 (469)
T cd06365 386 --SENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRK-LDTEYDILNYWNFPQGLGLKVKVGEFSP 452 (469)
T ss_pred --CcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCC-cCceeeEEEEEECCCCCEEEEEEEEEeC
Confidence 1122322 333 38899999999999999995 99999999 577999999972 2 3699999976
No 13
>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=1.3e-44 Score=414.01 Aligned_cols=372 Identities=20% Similarity=0.317 Sum_probs=309.2
Q ss_pred CCCceEEEEEEeeCCC----------------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHH
Q 002364 27 ARPAVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFI 84 (930)
Q Consensus 27 ~~~~~i~IG~i~~~s~----------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~ 84 (930)
..+++|.||++||.+. ..|.+...|+++|+|+||+++++||+++|+++++|+|+++..
T Consensus 8 ~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~ 87 (510)
T cd06364 8 QKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSK 87 (510)
T ss_pred eecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHH
Confidence 4678999999999984 336788999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-------------------CcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEee
Q 002364 85 GMVEALRFMET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRT 144 (930)
Q Consensus 85 a~~~a~~li~~-------------------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~ 144 (930)
|+..+.+++.+ +|.|||||.+|..+.++++++..++||+|+++++++.+++ ..||||||+
T Consensus 88 a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt 167 (510)
T cd06364 88 ALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEc
Confidence 99999999864 2469999999999999999999999999999999999988 689999999
Q ss_pred cCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCc
Q 002364 145 TQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMES 224 (930)
Q Consensus 145 ~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~ 224 (930)
.|+|..++.++++++++++|++|++|+.|++||+...+.+++.+++.|+||+..+.++.. ....++.+++.+++++++
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~a 245 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNSTA 245 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999988877753 357899999999999999
Q ss_pred eEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHH------
Q 002364 225 RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL------ 298 (930)
Q Consensus 225 ~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------ 298 (930)
|+||+.+...++..++++|+++|+. +++||++++|...... ......+.+.|++++.+.....+.+++|+
T Consensus 246 ~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~--~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~ 321 (510)
T cd06364 246 KVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLI--AMPEYFDVMGGTIGFALKAGQIPGFREFLQKVHPK 321 (510)
T ss_pred eEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccc--ccCCccceeeEEEEEEECCCcCccHHHHHHhCCcc
Confidence 9999999999999999999999985 5799999887644322 22345578899999988776655555444
Q ss_pred ---------HHHhhhcC---CC---C------------------------C--------------------CCchhHHHh
Q 002364 299 ---------SRWKNLTG---GS---L------------------------G--------------------MNSYGLYAY 319 (930)
Q Consensus 299 ---------~~~~~~~~---~~---~------------------------~--------------------~~~~~~~~Y 319 (930)
+.|+..|+ .. . . ...++.++|
T Consensus 322 ~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~ 401 (510)
T cd06364 322 KSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVY 401 (510)
T ss_pred cCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHH
Confidence 33444442 00 0 0 112356799
Q ss_pred HHHHHHHHHHHHHHhcCCcc-eecCCccccccCCCcccCCCccccCchHHHHHHHHhCccccccc-ceEEccCCCcccce
Q 002364 320 DSVWLLAHAIESFFNQGGKI-SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAA 397 (930)
Q Consensus 320 Dav~~la~Al~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G-~v~fd~~g~~~~~~ 397 (930)
|||+++|+||++++.|.... .++ + -.|......+ +.+|+++|++++|.|.+| .+.||+||+ ....
T Consensus 402 ~AVyAvAhaLh~~~~c~~~~~~~~--------~---~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd-~~~~ 468 (510)
T cd06364 402 LAVYSIAHALQDIYTCTPGKGLFT--------N---GSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGD-LVGN 468 (510)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCcc--------C---CCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCC-Cccc
Confidence 99999999999998764221 000 1 1254444454 889999999999999988 599999999 5789
Q ss_pred EEEEEeec---c---ceEEEEEEcCC
Q 002364 398 YDIINVIG---T---GFRMIGYWSNY 417 (930)
Q Consensus 398 ~~I~~~~~---~---~~~~vg~w~~~ 417 (930)
|+|+|++. + .+++||.|++.
T Consensus 469 YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 469 YSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 99999993 2 26899999764
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=3.1e-44 Score=410.26 Aligned_cols=366 Identities=23% Similarity=0.393 Sum_probs=298.4
Q ss_pred ceEEEEEEeeCC--C-----------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHH----H
Q 002364 30 AVVNVGALFTLD--S-----------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALR----F 92 (930)
Q Consensus 30 ~~i~IG~i~~~s--~-----------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~----l 92 (930)
++|+||++||.+ . ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..+.+.+.. +
T Consensus 1 Gdi~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l 80 (463)
T cd06376 1 GDITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQAL 80 (463)
T ss_pred CCeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhh
Confidence 479999999998 1 2566788999999999999999999999999999999987655555544 3
Q ss_pred Hh-------------------cCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHH
Q 002364 93 ME-------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (930)
Q Consensus 93 i~-------------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~ 152 (930)
++ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|+|..++
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 32 27999999999999999999999999999999999999987 67999999999999999
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHh-CCceEEEEE
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLH 230 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~ 230 (930)
.++++++++++|++|++||.+++||....+.+.+.+++. +++|...+.++.. .+..|+.++|++|++ .++|+||+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~ 238 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIF 238 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEe
Confidence 999999999999999999999999999999999999987 4688766655544 457899999999986 699999999
Q ss_pred cChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHH------------
Q 002364 231 VSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL------------ 298 (930)
Q Consensus 231 ~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------ 298 (930)
+...++..++++|+++|+.+ .|+||++++|....... ....+.+.|.+++.+.....+.+++|.
T Consensus 239 ~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~---~~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~ 314 (463)
T cd06376 239 ANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPI---LQQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNV 314 (463)
T ss_pred cChHHHHHHHHHHHhcCCcC-ceEEEEecccccccccc---ccCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCc
Confidence 99999999999999999864 59999999886543221 112356889999988877666666554
Q ss_pred ---HHHhhhcC---C--CC---------------------CCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccc
Q 002364 299 ---SRWKNLTG---G--SL---------------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKT 349 (930)
Q Consensus 299 ---~~~~~~~~---~--~~---------------------~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~ 349 (930)
+.|+..|. . .. .....+.++||||+++|+||++++.+.+..
T Consensus 315 ~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~---------- 384 (463)
T cd06376 315 WFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG---------- 384 (463)
T ss_pred HHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC----------
Confidence 45665442 0 00 011267899999999999999998654321
Q ss_pred cCCCcccCCCccccCchHHHHHHHHhCccccccc-ceEEccCCCcccceEEEEEeec-----cceEEEEEEcC
Q 002364 350 MEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYWSN 416 (930)
Q Consensus 350 ~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G-~v~fd~~g~~~~~~~~I~~~~~-----~~~~~vg~w~~ 416 (930)
....|.... +.++.+|+++|++++|+|++| +|.||++|++ ...|+|++++. .++++||.|++
T Consensus 385 ---~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ---YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ---CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 111344433 445999999999999999999 6999999995 45799999983 35799999976
No 15
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1e-43 Score=386.98 Aligned_cols=363 Identities=14% Similarity=0.224 Sum_probs=300.1
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCC-CEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHG-TKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g-~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
.||+||+.++ .+...|+++|++++|.+..+++. .+|...+... ..|.+.+.+++|+++++||.||+||.++.++.
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMN 77 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHH
Confidence 3899999655 35789999999999998877654 4777755433 45899999999999999999999999999999
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhh
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 190 (930)
.+..+|+..+||+|.+.-. .+...++.+++.|+ +..|+++++++|+|++|+++| |+++|...++.+.+.++.
T Consensus 78 ~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~ 149 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 9999999999999986321 12344778999998 789999999999999999999 778899999999999999
Q ss_pred cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCC
Q 002364 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (930)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 270 (930)
.+..|......+.. ...++...++++++++.++||++|+++.+..++++|.++||+..+|+||+++......+.
T Consensus 150 ~~~~V~~~~v~~~~---~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl--- 223 (372)
T cd06387 150 NNWQVTARSVGNIK---DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL--- 223 (372)
T ss_pred CCceEEEEEeccCC---chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH---
Confidence 99988776544433 356899999999999999999999999999999999999999999999999743322222
Q ss_pred ChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC------CCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCC
Q 002364 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (930)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 344 (930)
.+......+++|++.+.++++..++|.++|++.+. +...++.+++++||||+++|+|++++...+..+...
T Consensus 224 -~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~-- 300 (372)
T cd06387 224 -ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRR-- 300 (372)
T ss_pred -HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccC--
Confidence 23334455599999999999999999999987653 122456889999999999999999986543322110
Q ss_pred ccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCC
Q 002364 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (930)
+++..|......+|..|..|+++|++++|+|+||+++||++|+|.+..|+|+++.+.++++||+|++..|+
T Consensus 301 -----~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 301 -----GSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred -----CCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 01112222345689999999999999999999999999999999999999999999999999999999886
No 16
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=1.2e-43 Score=392.14 Aligned_cols=366 Identities=22% Similarity=0.356 Sum_probs=295.2
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEE--EEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNI--TMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l--~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
+||+||+.++..+ +.|+++|++++|++..+|||.+|.+ ...|++ |+..|..++|++++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 4899999987544 5699999999999999999995554 888995 999999999999999999999999899999
Q ss_pred HHHHhhccCCCcEEec----ccCC-----CCCCC--CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccc
Q 002364 111 IVSYVSNELQVPLLSF----GVTD-----PTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRN 179 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~----~a~~-----~~l~~--~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~ 179 (930)
.++.+|+.++||+|++ ++++ +.+++ .+||+++| |+ ..++.++++++++|+|++|+++| |++||..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~-d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFY-DTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEE-eCCccHH
Confidence 9999999999999974 4433 33443 46777777 54 67899999999999999999765 6778999
Q ss_pred hHHHHHHHHhhcceEEEEEEecCCCCCCC---hhHHHH-HHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCe
Q 002364 180 GVSALNDKLAERRCRISYKSGIPPESGVN---TGYVMD-LLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (930)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~---~~~~~~-~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~ 253 (930)
.++.+.+.+++.|+||.... +... .+ ...+.. .+++|++ .+.++||++++++.+..+|++|+++||++.+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~-~~~~--~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y 229 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQK-VENN--INKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDC 229 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEe-cCcc--hhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCe
Confidence 99999999999999998743 2211 11 012322 4556665 56799999999999999999999999999999
Q ss_pred EEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCC---------CCCCCchhHHHhHHHHH
Q 002364 254 VWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG---------SLGMNSYGLYAYDSVWL 324 (930)
Q Consensus 254 ~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~~~YDav~~ 324 (930)
+||++++....++.. +...+.+.|+.+++++.|.+...++|..+|+.++.. ...++.+++++|||||+
T Consensus 230 ~wi~t~~~~~~~dl~---~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~ 306 (400)
T cd06391 230 HWIIINEEISDMDVQ---ELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLL 306 (400)
T ss_pred EEEEeCccccccccc---hHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHH
Confidence 999999877776651 223455678888999998888888888888876521 11356899999999999
Q ss_pred HHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee
Q 002364 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (930)
Q Consensus 325 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~ 404 (930)
+|+|++++........ .....|...+..+|+.|..|+++|++++|+|+||+++||++|+|.++.|+|+|++
T Consensus 307 ~A~A~~~l~~~~~~~~---------~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~ 377 (400)
T cd06391 307 LANAFHKKLEDRKWHS---------MASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTN 377 (400)
T ss_pred HHHHHHHHHhhccccC---------CCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEee
Confidence 9999999753322111 1112222235679999999999999999999999999999999999999999996
Q ss_pred -----ccceEEEEEEcCCCCCC
Q 002364 405 -----GTGFRMIGYWSNYSGLS 421 (930)
Q Consensus 405 -----~~~~~~vg~w~~~~gl~ 421 (930)
+.++++||+|++..||.
T Consensus 378 ~~~~~~~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 378 YGEDLGRGVRKLGCWNPITGLN 399 (400)
T ss_pred ccccCCCcceEEEEEcCCcCCC
Confidence 88999999999999863
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=1.5e-43 Score=396.46 Aligned_cols=372 Identities=20% Similarity=0.292 Sum_probs=300.1
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||++|+.+ +...+.|+++|++++|++..++++.++.+++.++. +|+..+..++|++++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 489999988 36789999999999999876667888888887776 79999999999999999999999999999999
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (930)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999999888874 4679999998863 458889999999999999997664 667778888889888
Q ss_pred c--eEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCC
Q 002364 192 R--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (930)
Q Consensus 192 g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 269 (930)
| +.+... .+... ....|+.++|++|++.++|+||+.++++++..+++||+++||..++|+||.+++.....+.
T Consensus 153 g~~i~v~~~-~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~-- 227 (382)
T cd06380 153 DNKWQVTAR-RVDNV--TDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL-- 227 (382)
T ss_pred CCceEEEEE-EecCC--CcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH--
Confidence 8 666543 23322 1357999999999999999999999999999999999999999999999998753332221
Q ss_pred CChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCC------CCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
........++.+++...+..+..++|.++|++.++. ...++.+++++||||+++|.|++++...+++..+..
T Consensus 228 --~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~ 305 (382)
T cd06380 228 --SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRI 305 (382)
T ss_pred --HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 112223345667776666788899999999988731 124677899999999999999999876543221100
Q ss_pred CccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCC
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (930)
. ......+..|.-+...+|.+|+.|.++|++++|+|++|+++||++|++.+..++|++++++++++||+|++..||
T Consensus 306 ~-~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 306 D-ISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred c-cccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 0 000112222222345678899999999999999999999999999999889999999999999999999998875
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=1.5e-43 Score=392.34 Aligned_cols=338 Identities=47% Similarity=0.805 Sum_probs=304.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~ 110 (930)
+||+++|++ +..|.....|+++|+++||++||+++|++|+++++|++|++..+++.+++|+.+ +|.+||||.+|..+.
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 599999999 888999999999999999999976689999999999999999999999999987 899999999999999
Q ss_pred HHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHh
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (930)
+++++++++++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++||.|++||+...+.+++.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~ 160 (350)
T cd06366 81 FVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQ 160 (350)
T ss_pred HHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHH
Confidence 9999999999999999999998865 678999999999999999999999999999999999999999999999999999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC--
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS-- 267 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~-- 267 (930)
+.|++|+....++++ .+..|+.+++.+++++++|+|++++.+.++..++++++++|+..++|+|+.++++....+.
T Consensus 161 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 238 (350)
T cd06366 161 EAGIEISYRAAFPPS--ANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSS 238 (350)
T ss_pred HcCCEEEEEeccCCC--CChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCC
Confidence 999999998888865 3468999999999999999999999999999999999999998888999999876543311
Q ss_pred CCCChhhhhccccEEEEEEecCC-ChhhHHHHHHHhhhcCCC----CCCCchhHHHhHHHHHHHHHHHHHHhcCCcceec
Q 002364 268 ASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~----~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 342 (930)
.+..+...+..+|++++.++.++ ++..++|.++|+++++.. ..++.+++++|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee------------------
Confidence 12334556788999999998887 888999999999998311 1578899999999977
Q ss_pred CCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCCCc
Q 002364 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSK 422 (930)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl~~ 422 (930)
+.+|+|++|+++||++|++.+..|.++++.++++++||+|++..|++.
T Consensus 301 --------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 301 --------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred --------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 246889999999999999888999999999999999999999888763
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=4.4e-43 Score=391.38 Aligned_cols=336 Identities=25% Similarity=0.353 Sum_probs=274.5
Q ss_pred CceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHH-HHHHHHHHHhcCcEEEEc-CC-C
Q 002364 29 PAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFI-GMVEALRFMETDIVAIIG-PQ-C 105 (930)
Q Consensus 29 ~~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~-a~~~a~~li~~~v~aiiG-p~-~ 105 (930)
+.+|+||+++|. .....|+++|++++|++.+.+++.++.-...+..+++.. +...+.+|++++|.|||| +. +
T Consensus 17 ~~~i~IG~i~~~-----~~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~s 91 (377)
T cd06379 17 PKTVNIGAVLSN-----KKHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPPT 91 (377)
T ss_pred CcEEEEeEEecc-----hhHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCCC
Confidence 468999999984 357899999999999965432332332221111345555 444555678889999974 33 3
Q ss_pred hh---HHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchH
Q 002364 106 ST---VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV 181 (930)
Q Consensus 106 s~---~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 181 (930)
+. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|++..|+.++++++++++|++|++||++++||++..
T Consensus 92 s~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~ 171 (377)
T cd06379 92 SNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAAQ 171 (377)
T ss_pred CcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHHH
Confidence 33 4777888999999999999999998887 4699999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcce----EEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 182 SALNDKLAERRC----RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 182 ~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+.+++.+++.|+ +|+..+.++++ ..|+.++++++++.++|+||++++..++..++++|+++||++.+|+||.
T Consensus 172 ~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi~ 247 (377)
T cd06379 172 KRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWIV 247 (377)
T ss_pred HHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 999999999999 88888778765 7899999999999999999999999999999999999999999999999
Q ss_pred eCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCC
Q 002364 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGG 337 (930)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 337 (930)
++.+... .+...|++++++..+ ..++.++||||+++|+|++++.+...
T Consensus 248 t~~~~~~----------~~~~~g~~g~~~~~~----------------------~~~~~~~yDAV~~~A~Al~~~~~~~~ 295 (377)
T cd06379 248 SEQAGAA----------RNAPDGVLGLQLING----------------------KNESSHIRDAVAVLASAIQELFEKEN 295 (377)
T ss_pred ecccccc----------ccCCCceEEEEECCC----------------------CCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 9876321 234578999887542 12467899999999999999875321
Q ss_pred cceecCCccccccCCCcccCCCc-cccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcC
Q 002364 338 KISFSNDSRLKTMEGGNLHLGAM-SIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSN 416 (930)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~ 416 (930)
.+ .....|... .+|.+|..++++|++++|+|++|+++||+||++....|+|+++++.++++||+|++
T Consensus 296 -~~-----------~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~~ 363 (377)
T cd06379 296 -IT-----------EPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYNG 363 (377)
T ss_pred -CC-----------CCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEcC
Confidence 11 011123332 36888999999999999999999999999999888899999999999999999987
Q ss_pred C
Q 002364 417 Y 417 (930)
Q Consensus 417 ~ 417 (930)
.
T Consensus 364 ~ 364 (377)
T cd06379 364 D 364 (377)
T ss_pred c
Confidence 4
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=6.7e-43 Score=389.62 Aligned_cols=350 Identities=16% Similarity=0.256 Sum_probs=290.7
Q ss_pred EEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 36 ALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 36 ~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+++|.+ ...+.....|+++|+|+||+++++++|++|+++++|++|++..+...+..+.+++|.|||||.||..+.++
T Consensus 4 ~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~~v 83 (387)
T cd06386 4 VLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAAPV 83 (387)
T ss_pred EECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHHHH
Confidence 566654 22346778999999999999999989999999999999998777777777777799999999999999999
Q ss_pred HHhhccCCCcEEecccCCCCCCC--CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccch---HHHHHHH
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---VSALNDK 187 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~--~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~---~~~l~~~ 187 (930)
+++++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++|+|++|++||++++||++. .+.+.+.
T Consensus 84 a~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~ 163 (387)
T cd06386 84 ARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHV 163 (387)
T ss_pred HHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHH
Confidence 99999999999999999999876 368999999999999999999999999999999999999999886 8999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch-hccc
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA-YMLD 266 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~-~~~~ 266 (930)
+++.|++|+.....+.. +.++..+|+++++.+ |+||++++++.+..++++|+++||+..+|+||..+... ....
T Consensus 164 ~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~ 238 (387)
T cd06386 164 FQEEGYHMSIYPFDETK----DLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYG 238 (387)
T ss_pred HHhcCceEEEEecCCCC----cccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccC
Confidence 99999999876555433 679999999999887 99999999999999999999999999999999998653 1110
Q ss_pred C------CCCC---hhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC--C----CCCCCchhHHHhHHHHHHHHHHHH
Q 002364 267 S------ASLP---SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--G----SLGMNSYGLYAYDSVWLLAHAIES 331 (930)
Q Consensus 267 ~------~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~----~~~~~~~~~~~YDav~~la~Al~~ 331 (930)
. ...+ ....+++.|+.++.++ ++.+++|.+++++++. + ...++.+++++||||+++|+|+++
T Consensus 239 ~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~ 315 (387)
T cd06386 239 DGSWKRGDKHDFEAKQAYSSLNTVTLLRTV---KPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHE 315 (387)
T ss_pred CCCCccCCCcCHHHHHHHHhheEEeccCCC---ChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHH
Confidence 0 0122 2233456666555544 4678888888874432 1 123458899999999999999999
Q ss_pred HHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee---ccce
Q 002364 332 FFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI---GTGF 408 (930)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~---~~~~ 408 (930)
++..+++ +.+|..|.++|++++|+|++|.+.||++|+| ...|.|+.++ .+++
T Consensus 316 ~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r-~~~~~v~~~~~~~~~~~ 370 (387)
T cd06386 316 VLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDR-YGDFSVIAMTDVEAGTY 370 (387)
T ss_pred HhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCc-cccEEEEEccCCCCccE
Confidence 8765432 2359999999999999999999999999997 5599999996 3678
Q ss_pred EEEEEEcCCC
Q 002364 409 RMIGYWSNYS 418 (930)
Q Consensus 409 ~~vg~w~~~~ 418 (930)
+.||.|...+
T Consensus 371 ~~~~~~~~~~ 380 (387)
T cd06386 371 EVVGNYFGKN 380 (387)
T ss_pred EEEeEEcccc
Confidence 9999997533
No 21
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.4e-42 Score=390.87 Aligned_cols=352 Identities=24% Similarity=0.369 Sum_probs=296.4
Q ss_pred CCceEEEEEEeeCCC---------------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHH
Q 002364 28 RPAVVNVGALFTLDS---------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGM 86 (930)
Q Consensus 28 ~~~~i~IG~i~~~s~---------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~ 86 (930)
.++++.||++||.|. ..|.....|+++|+++||++||+|+|++|+++++|+|+ +..|+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~ 81 (410)
T cd06363 3 LPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANF 81 (410)
T ss_pred CCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHH
Confidence 578999999999873 22567789999999999999999999999999999976 77799
Q ss_pred HHHHHHHh----------------cCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCch
Q 002364 87 VEALRFME----------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDS 149 (930)
Q Consensus 87 ~~a~~li~----------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~ 149 (930)
+.+.+|++ ++|.+||||.+|..+.+++++++++++|+|+++++++.+++ ..+||+||+.|++.
T Consensus 82 ~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~ 161 (410)
T cd06363 82 PPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDK 161 (410)
T ss_pred HHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcH
Confidence 99999884 48999999999999999999999999999999999999987 57899999999999
Q ss_pred HHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEE
Q 002364 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (930)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 229 (930)
.++.++++++++++|++|++++.|++||+...+.+++.+++.|++++..+.++... ....|+.+++.+|+++++|+||+
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~-~~~~d~~~~l~~i~~~~~dvIil 240 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDT-DPETDYQQILKQINQTKVNVIVV 240 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCC-chHHHHHHHHHHHhcCCCeEEEE
Confidence 99999999999999999999999999999999999999999999999888776531 23789999999999999999999
Q ss_pred EcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCC
Q 002364 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (930)
Q Consensus 230 ~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (930)
++.++++..++++|+++|+. +..|++++.+...... ......+...+++++....+..+..++|.++
T Consensus 241 ~~~~~~~~~il~qa~~~g~~--~~~~i~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~--------- 307 (410)
T cd06363 241 FASRQPAEAFFNSVIQQNLT--GKVWIASEAWSLNDEL--PSLPGIRNIGTVLGVAQQTVTIPGFSDFIYS--------- 307 (410)
T ss_pred EcChHHHHHHHHHHHhcCCC--CCEEEEeCcccccccc--cCCccceeeccEEEEEeCCCCCccHHHHHHH---------
Confidence 99999999999999999985 3488888765432111 1111223455677777777777888888775
Q ss_pred CCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEcc
Q 002364 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (930)
Q Consensus 310 ~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~ 389 (930)
+++.+||||+++|+|+++++.++.. .|.... ..+++.|.++|++++|+|++|++.||+
T Consensus 308 ----~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~-~~~~~~l~~~L~~~~~~g~~g~i~fd~ 365 (410)
T cd06363 308 ----FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRV-PVYPWQLLEELKKVNFTLLGQTVRFDE 365 (410)
T ss_pred ----HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCC-CCCHHHHHHHHhccEEecCCcEEEeCC
Confidence 4567999999999999999765322 122111 224888999999999999999999999
Q ss_pred CCCcccceEEEEEeecc----ceEEEEEEcCC
Q 002364 390 DRSLIHAAYDIINVIGT----GFRMIGYWSNY 417 (930)
Q Consensus 390 ~g~~~~~~~~I~~~~~~----~~~~vg~w~~~ 417 (930)
+|+ ....|.|++++.. ++++||+|+++
T Consensus 366 ~G~-~~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 366 NGD-PNFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCC-CccceEEEEEEEcCCceeEEEEEEEECC
Confidence 998 4567999999533 58999999884
No 22
>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=6.8e-43 Score=388.18 Aligned_cols=339 Identities=21% Similarity=0.271 Sum_probs=291.1
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH-
Q 002364 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV- 108 (930)
Q Consensus 31 ~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~- 108 (930)
.|+||+++|.++ ...+++.|+..+|.+..+..+++++++..|+.+||..++.++|+++.+ +|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 589999999873 348888888888877644468999999999999999999999998865 7999999999998
Q ss_pred --HHHHHHhhccCCCcEEecccCCCCC-CC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHH
Q 002364 109 --AHIVSYVSNELQVPLLSFGVTDPTL-SS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (930)
Q Consensus 109 --~~~v~~~~~~~~iP~is~~a~~~~l-~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (930)
+.+++++++.++||+|+++++++.+ ++ ..|||+||+.|++..++.++++++++++|++|++||++++||++..+.+
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l 156 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRV 156 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHH
Confidence 9999999999999999999999988 76 6799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcceE--EEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 185 NDKLAERRCR--ISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 185 ~~~l~~~g~~--v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
++.+++.|++ ++....++.. ...++...+.++++.++|+||++++..++..++++|+++||++++|+||+++.+.
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~---~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~ 233 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS---DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELAL 233 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC---CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccc
Confidence 9999999998 7776666655 1238889999999999999999999999999999999999999999999999876
Q ss_pred hcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceec
Q 002364 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (930)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 342 (930)
... ....+...|++++++..+ ..++.++||||+++|+|+++++.+++....
T Consensus 234 ~~~------~~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~~- 284 (362)
T cd06367 234 GSG------LAPEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGALPE- 284 (362)
T ss_pred ccc------CCccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCCC-
Confidence 421 122355679999987542 235778999999999999999875332211
Q ss_pred CCccccccCCCcccCCCcc--ccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee-ccceEEEEEEcC
Q 002364 343 NDSRLKTMEGGNLHLGAMS--IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (930)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~--~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~ 416 (930)
....|.... +|.+|..|.++|++++|+|++|+++||+||++.++.|+|+|++ +.+|++||.|++
T Consensus 285 ----------~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 285 ----------PPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred ----------CCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 112354443 2788999999999999999999999999999888999999999 889999999975
No 23
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.3e-42 Score=390.31 Aligned_cols=352 Identities=20% Similarity=0.311 Sum_probs=295.1
Q ss_pred EEEEEEeeCCC----cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChh
Q 002364 32 VNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (930)
Q Consensus 32 i~IG~i~~~s~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 107 (930)
|+||+++|++. ..|.....|+++|+++||+++|+++|++|+++++|++|++..|+..+++|++++|.+||||.+|.
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~~v~aiiGp~~S~ 80 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKRGVVAFIGPECTC 80 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhcCceEEECCCchh
Confidence 68999999985 44889999999999999999999889999999999999999999999999998999999999985
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|+++++||+...+.+++
T Consensus 81 ~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 T--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred H--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 4 4567999999999999999999987 578999999999999999999999999999999999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCCC---CChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcc-cCCeEEEEeCcch
Q 002364 187 KLAERRCRISYKSGIPPESG---VNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMM-GNGYVWIATDWLA 262 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~---~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~-~~~~~~i~~~~~~ 262 (930)
.+++.|++|+..+.++.+.. ....++..++++++.. ++++|+++...++..+++||+++||+ ..+|+||+++...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 99999999999888876410 0147888989888764 78888888888899999999999998 5789999866310
Q ss_pred hc---------------cc-CCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC------------CCCCCCch
Q 002364 263 YM---------------LD-SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------------GSLGMNSY 314 (930)
Q Consensus 263 ~~---------------~~-~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------------~~~~~~~~ 314 (930)
.. .. .........++++|++.+.+..+ ++..++|.++|++++. ....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 00 00 01112345568899988876655 7777899999988642 12246678
Q ss_pred hHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCccccccc-ceEEccCCCc
Q 002364 315 GLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSL 393 (930)
Q Consensus 315 ~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G-~v~fd~~g~~ 393 (930)
++++||||+++|+|+++++++++.. .++++|.++|++++|+|++| ++.||++|++
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~~------------------------~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGDI------------------------YNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCCC------------------------CCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 9999999999999999987654321 24899999999999999999 8999999996
Q ss_pred ccceEEEEEeeccceEEEE
Q 002364 394 IHAAYDIINVIGTGFRMIG 412 (930)
Q Consensus 394 ~~~~~~I~~~~~~~~~~vg 412 (930)
...|.|++++++.|-.-|
T Consensus 373 -~~~y~v~~~~~~~~~~~~ 390 (404)
T cd06370 373 -EGNYSVLALQPIPPGDNG 390 (404)
T ss_pred -ccceEEEEeccccccCCC
Confidence 689999999877554433
No 24
>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=8.4e-42 Score=375.52 Aligned_cols=361 Identities=17% Similarity=0.227 Sum_probs=289.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCC-CCEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~-g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
+||+||+.++ .+...|+++|++.+|.+..+++ +.+|...+.... .|.+.+.+.+|++++++|.|||||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899999654 3568999999999998764432 256676655443 4889999999999999999999999999999
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhh
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~ 190 (930)
+++++|+..+||+|+++.+ +...+.|.+++.|+ +..++++++++++|++|+++|+ +++|...++.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhHh
Confidence 9999999999999997543 22334555566665 4678888999999999999995 33555678999999999
Q ss_pred cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCC
Q 002364 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (930)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 270 (930)
.|++|+.......+ +.|+.++|++|+.+++++||+.|+++.+..+++||+++||+.++|+||+++.-....+.
T Consensus 150 ~g~~v~~~~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l--- 222 (371)
T cd06388 150 NGWQVSAICVENFN----DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL--- 222 (371)
T ss_pred cCCeeeeEEeccCC----cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH---
Confidence 99998876544433 56999999999999999999999999999999999999999999999998742111111
Q ss_pred ChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC-----CCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG-----GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~-----~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
.+......++.+++...+.++..++|.++|++.+. .+..+..+++++||||+++|.|++++........
T Consensus 223 -~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~----- 296 (371)
T cd06388 223 -ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDIS----- 296 (371)
T ss_pred -HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcc-----
Confidence 12223344588899988888999999999987642 1135778999999999999999999754322111
Q ss_pred cccccCCCcccC--CCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCCC
Q 002364 346 RLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (930)
Q Consensus 346 ~~~~~~~~~~~~--~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl~ 421 (930)
+ .+.+..| ++..+|..|..|.++|++++|+|+||+++||++|+|.+..++|+++++.++++||+|++..||.
T Consensus 297 ~----~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 297 R----RGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred c----CCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 0 1112234 4567899999999999999999999999999999999999999999999999999999999874
No 25
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=4.7e-42 Score=387.02 Aligned_cols=356 Identities=21% Similarity=0.289 Sum_probs=291.7
Q ss_pred EEEEEeeCCCc---ch-hhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHH-----HHHHHHHH-HhcCcEEEEc
Q 002364 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFI-----GMVEALRF-METDIVAIIG 102 (930)
Q Consensus 33 ~IG~i~~~s~~---~g-~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~-----a~~~a~~l-i~~~v~aiiG 102 (930)
+||+++|++.. +| .....|+++|+|+||+++|+|+|++|++++.|+++++.. +...+.++ ..++|.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 58999999844 44 677899999999999999999999999999999665543 33334433 3458999999
Q ss_pred CCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEE-EEEcCc-cccc
Q 002364 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSV-IFVDNE-YGRN 179 (930)
Q Consensus 103 p~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~i-i~~d~~-~g~~ 179 (930)
|.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|+++++ +|.++. +++.
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~ 160 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRP 160 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccc
Confidence 999999999999999999999999999999987 6799999999999999999999999999999985 565443 3343
Q ss_pred ---hHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 180 ---GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 180 ---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
..+.+.+.+++.|++|+..+..+. +..++.++|+++++. .|+||++++...+..++++|.++||+.+.|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEED----DLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCC----chhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 468899999999999988753322 277999999999875 499999999999999999999999999999999
Q ss_pred EeCcchhcccC----------CCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhh----cCCC---CCCCchhHHHh
Q 002364 257 ATDWLAYMLDS----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGS---LGMNSYGLYAY 319 (930)
Q Consensus 257 ~~~~~~~~~~~----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~---~~~~~~~~~~Y 319 (930)
+++++...... ...+....+++++++....+.+.++..++|.++|+++ |+.+ ..++.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 99775433221 1111334567889988877777788899999999985 4211 11568899999
Q ss_pred HHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEE
Q 002364 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYD 399 (930)
Q Consensus 320 Dav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~ 399 (930)
|||+++|.|++++.+..+. +.+|+.|.++|++++|+|++|++.||++|+| ...|.
T Consensus 316 Dav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~ 370 (405)
T cd06385 316 DGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFA 370 (405)
T ss_pred HHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeE
Confidence 9999999999998665332 3359999999999999999999999999997 47787
Q ss_pred EEEe---eccceEEEEEEcCCC
Q 002364 400 IINV---IGTGFRMIGYWSNYS 418 (930)
Q Consensus 400 I~~~---~~~~~~~vg~w~~~~ 418 (930)
|+++ +++++++||+|+..+
T Consensus 371 ~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcEEEEEEEcccC
Confidence 7755 678899999998644
No 26
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=8.9e-42 Score=376.57 Aligned_cols=362 Identities=17% Similarity=0.245 Sum_probs=292.6
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEec-CCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D-~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||+||+..+ .+.+.|+++|++.+|.. +.+|...+.. ...|.+.+.+.+|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899998765 35789999999999985 3566664433 4458899999999999999999999999999999
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (930)
++++|+..+||+|+++++. +..++|.+++.|+ ...++++++++++|++|+++|+ ++||...++.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 9999999999999875542 3457888899888 5799999999999999999997 569999999999999999
Q ss_pred ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCC
Q 002364 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (930)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 271 (930)
|++|+..............|+.++|++|++.++++||+.|+++.+..+++||+++||+.++|+||+++.-....+.
T Consensus 145 g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l---- 220 (370)
T cd06389 145 KWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDL---- 220 (370)
T ss_pred CceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccch----
Confidence 9887754321111002367999999999999999999999999999999999999999999999997642111111
Q ss_pred hhhhhccccEEEEEEecCCChhhHHHHHHHhh----hcCC--CCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKN----LTGG--SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~~--~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
........++.+++...+.++..++|.++|++ .+++ ...++.+++++||||+++|.|++++..........
T Consensus 221 ~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~--- 297 (370)
T cd06389 221 SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRR--- 297 (370)
T ss_pred hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC---
Confidence 11222345688888888889999999999986 4421 24577899999999999999999985543222100
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCCC
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl~ 421 (930)
+++..|...+..+|.+|..|.++|++++|+|+||+++||++|+|.+..++|++++++++++||+|++..||.
T Consensus 298 ----~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 298 ----GNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred ----CCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 111122223467899999999999999999999999999999999989999999999999999999998864
No 27
>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=7.3e-42 Score=383.85 Aligned_cols=355 Identities=17% Similarity=0.263 Sum_probs=288.9
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|.+ ...+.....|+++|+++||+++++++|++|+++++|++|++..|+..+++++.+ +|.+||||.||..
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999976 234667779999999999999999989999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC---ccc--cchHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYG--RNGVS 182 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g--~~~~~ 182 (930)
+.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..++.++++++++++|++|++||+++ .|+ ....+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999987 678999999999999999999999999999999998542 344 22344
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCc--
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW-- 260 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~-- 260 (930)
.+.+.++ .++++...+.++.+ ..++...+.+.++.++|+||+++++.++..++++|+++||+.++|+||.+++
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~ 235 (391)
T cd06372 161 AVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFE 235 (391)
T ss_pred HHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhc
Confidence 5555554 67888888877765 5677666666667889999999999999999999999999887899999643
Q ss_pred ---chhcccCCCCChhhhhccccEEEEEEecCC-ChhhHHHHHHHhhhcCCC---------CCCCchhHHHhHHHHHHHH
Q 002364 261 ---LAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS---------LGMNSYGLYAYDSVWLLAH 327 (930)
Q Consensus 261 ---~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~YDav~~la~ 327 (930)
|..... ........+.+.|++++.+..+. .+..++|.++|++++... ...+.+++++||||+++|+
T Consensus 236 ~~~w~~~~~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~ 314 (391)
T cd06372 236 DNFWKEVLT-DDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYAL 314 (391)
T ss_pred CccccccCC-CcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHH
Confidence 221111 00112244567889888876543 355678888887776211 1235789999999999999
Q ss_pred HHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHH---hCcccccccceEEccCCCcccceEEEEEee
Q 002364 328 AIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL---QSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (930)
Q Consensus 328 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~---~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~ 404 (930)
|++++++++.. |.+|..|.++|+ +++|+|++|++.||++|+| .+.|.|++++
T Consensus 315 Al~~~~~~g~~------------------------~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~ 369 (391)
T cd06372 315 AVKEMLKAGKD------------------------FRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQ 369 (391)
T ss_pred HHHHHHhcCCC------------------------CCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEecc
Confidence 99998765321 335899999999 6899999999999999996 7899999997
Q ss_pred c----cceEEEEEEcCCC
Q 002364 405 G----TGFRMIGYWSNYS 418 (930)
Q Consensus 405 ~----~~~~~vg~w~~~~ 418 (930)
+ ..++.||+|+..+
T Consensus 370 ~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 370 KSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred ccCCccceeeEEEecchh
Confidence 5 3489999998754
No 28
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=8.3e-42 Score=379.74 Aligned_cols=348 Identities=20% Similarity=0.290 Sum_probs=286.9
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+||++.|++ +..|...+.|+++|+|+||+++++++|++|+++++|++|++..++..+.++ .++|.+||||.||..+
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~-~~~V~aviGp~~S~~~ 79 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY-EGYASAFVGPVNPGYC 79 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc-cCCceEEECCCCchHH
Confidence 589999997 445778899999999999999999889999999999999988777554433 4589999999999999
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
.++++++++++||+|+++++++.+++ ..||+|+|+.|++ +.++++++++++|++|++||++++||....+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999987 6799999999986 4668889999999999999999999999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC-ceEEEEEcCh-----hhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSP-----SLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~-----~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
++.|++|+..+.++.+ ..|+.++|++|++.+ +|+||++++. .++..+++||+++||+..+|+||.+++..
T Consensus 157 ~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~ 232 (382)
T cd06371 157 RAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLL 232 (382)
T ss_pred HHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccc
Confidence 9999999988888765 789999999999987 6999998876 67789999999999998999999998543
Q ss_pred hcc-------cCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhh-cCCC---CCCCchhHHHhHHHHHHHHHHHH
Q 002364 263 YML-------DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGS---LGMNSYGLYAYDSVWLLAHAIES 331 (930)
Q Consensus 263 ~~~-------~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~---~~~~~~~~~~YDav~~la~Al~~ 331 (930)
... .....+....+++++++.+.+..+..+..+.|.+.|+.. ++.+ ...+.++.++|||++++|+|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 111 111123444467888888877655445555666655321 1111 12345667899999999999999
Q ss_pred HHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEE
Q 002364 332 FFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMI 411 (930)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~v 411 (930)
+++.++.. ++.+|+++|++++|+|++|+++||++|++ .+.|.|+++++.+++-+
T Consensus 313 a~~~g~~~-------------------------d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~ 366 (382)
T cd06371 313 ARAAGGGV-------------------------SGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLY 366 (382)
T ss_pred HHHhCCCc-------------------------cHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeee
Confidence 87653321 48999999999999999999999999995 79999999999887765
Q ss_pred EEE
Q 002364 412 GYW 414 (930)
Q Consensus 412 g~w 414 (930)
-.+
T Consensus 367 ~~~ 369 (382)
T cd06371 367 PTY 369 (382)
T ss_pred eeE
Confidence 444
No 29
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=6.5e-42 Score=384.96 Aligned_cols=357 Identities=19% Similarity=0.299 Sum_probs=299.4
Q ss_pred EEEEEeeCCC----cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC----ChHHHHHHHHHHH-hcCcEEEEcC
Q 002364 33 NVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC----SGFIGMVEALRFM-ETDIVAIIGP 103 (930)
Q Consensus 33 ~IG~i~~~s~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~----~~~~a~~~a~~li-~~~v~aiiGp 103 (930)
+||+++|.+. ..|.....|+++|+|+||+++|+++|++|+++++|++| ++..++..+.+++ +++|.+||||
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp 80 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLGP 80 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEECC
Confidence 5899999984 23678889999999999999998899999999999999 8999999999887 4589999999
Q ss_pred CChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccc----c
Q 002364 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYG----R 178 (930)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g----~ 178 (930)
.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|+++|++++++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~ 160 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCY 160 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHH
Confidence 99999999999999999999999999999987 679999999999999999999999999999999999887764 5
Q ss_pred chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
...+.+.+.+++.|++|+.. .+..+ ....|+.++|+++++.. |+||+++.+.++..++++|+++|+...+|+||..
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~-~~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~ 236 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDF-PFDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNI 236 (396)
T ss_pred HHHHHHHHHHhhcCceeeEE-eecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 56788999999999998754 34433 11479999999999865 9999999999999999999999999899999997
Q ss_pred CcchhcccC---------CCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhh----cC---CCCCCCchhHHHhHHH
Q 002364 259 DWLAYMLDS---------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TG---GSLGMNSYGLYAYDSV 322 (930)
Q Consensus 259 ~~~~~~~~~---------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~---~~~~~~~~~~~~YDav 322 (930)
+........ ........++.+|++++..+.++++..++|.++|+++ ++ ....++.+++++||||
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 755322111 1112334456788998888888888889999999875 31 0113567899999999
Q ss_pred HHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEE
Q 002364 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (930)
Q Consensus 323 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~ 402 (930)
+++++|++++..+++. +.++++|.++|++++|+|++|+++||++|++ ...|.|+.
T Consensus 317 ~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~ 371 (396)
T cd06373 317 LLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWD 371 (396)
T ss_pred HHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeee
Confidence 9999999998654322 1248999999999999999999999999995 57788866
Q ss_pred e---eccceEEEEEEcCCC
Q 002364 403 V---IGTGFRMIGYWSNYS 418 (930)
Q Consensus 403 ~---~~~~~~~vg~w~~~~ 418 (930)
+ +++.++.+|+|++.+
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 5 578899999998855
No 30
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=3.4e-41 Score=379.17 Aligned_cols=359 Identities=21% Similarity=0.393 Sum_probs=312.8
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++ +..|.....|+++|+|+||++|++++|++|+++++|++|++..+++.+.+|+.+ +|.+||||.+|+.
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 599999998 456889999999999999999976679999999999999999999999999876 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc-cccchHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALND 186 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~ 186 (930)
+.+++++++++++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~ 160 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEA 160 (389)
T ss_pred HHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHH
Confidence 999999999999999999999998886 5789999999999999999999999999999999998887 99999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
++++.|++|.....++.+ ...+|+..+++++++.+ |+||+++.+.++..+++|++++|+...+++|++++.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999998888764 12588999999999877 999999999999999999999999878899999876655421
Q ss_pred C---------CCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCC--------CCCCCchhHHHhHHHHHHHHHH
Q 002364 267 S---------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG--------SLGMNSYGLYAYDSVWLLAHAI 329 (930)
Q Consensus 267 ~---------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~~~YDav~~la~Al 329 (930)
. ........+.+.|++++.++.+.++..++|.++|+++++. ...++.++.++||||+++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 1 1123445677899999988888888999999999998731 1245778999999999999999
Q ss_pred HHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeec--cc
Q 002364 330 ESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG--TG 407 (930)
Q Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~--~~ 407 (930)
+++..+++. +.++..+.++|+++.|.|++|++.||++|++ ...|.|+++++ +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCce
Confidence 998765332 2248889999999999999999999999996 57899999996 56
Q ss_pred eEEEEEEcCCCC
Q 002364 408 FRMIGYWSNYSG 419 (930)
Q Consensus 408 ~~~vg~w~~~~g 419 (930)
+..++.+...+|
T Consensus 373 ~~~~~~~~~~~~ 384 (389)
T cd06352 373 LEVVYLYDTSSG 384 (389)
T ss_pred EEEEEeccccce
Confidence 788988877654
No 31
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=3.4e-41 Score=369.44 Aligned_cols=316 Identities=22% Similarity=0.333 Sum_probs=272.7
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||++|++ ..|.....|+++|+|+||+++|+|+|++|+++++|++ +++..+...+|+|++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999997 5578899999999999999999999999999999999 89999999999999889999999999999999
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (930)
++++++++++|+|+++++++.++ .++++||+.|++..++.++++++++++|++|+++|++++++.. +.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~~~----l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGLLR----LQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHHHH----HHHHHHhh
Confidence 99999999999999988887776 4688999999999999999999999999999999998876544 44555554
Q ss_pred ce---EEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 192 RC---RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 192 g~---~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
+. .+.. ..++++ . |+.++|.+|+++++|+||+++.+.++..+++||+++||..+.|+|+.+++.....+.
T Consensus 153 ~~~g~~v~~-~~~~~~----~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l- 225 (327)
T cd06382 153 GISGITITV-RQLDDD----L-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDL- 225 (327)
T ss_pred ccCCCeEEE-EEccCC----c-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccch-
Confidence 43 4443 456655 4 999999999999999999999999999999999999999999999998764443322
Q ss_pred CCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCC------CCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceec
Q 002364 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 342 (930)
........++.+++++.++++..++|.++|+++++. ...|+.+++.+|||++++
T Consensus 226 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~----------------- 285 (327)
T cd06382 226 ---EDYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF----------------- 285 (327)
T ss_pred ---hhhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe-----------------
Confidence 122234457888888888889999999999999831 112778899999998655
Q ss_pred CCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCC
Q 002364 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (930)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (930)
|+||+++||++|+|.+..|+|+|++++++++||+|++..||
T Consensus 286 -------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 -------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred -------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 89999999999999999999999999999999999998775
No 32
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=2.3e-40 Score=371.91 Aligned_cols=356 Identities=17% Similarity=0.259 Sum_probs=286.1
Q ss_pred EEEEEeeCCCc---ch-hhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCCh----HHHHHHHHHH-HhcCcEEEEcC
Q 002364 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSG----FIGMVEALRF-METDIVAIIGP 103 (930)
Q Consensus 33 ~IG~i~~~s~~---~g-~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~----~~a~~~a~~l-i~~~v~aiiGp 103 (930)
+||+++|.+.. ++ .....|+++|+|+||++|++++|++|+++++|+++++ ..+...+..+ +.++|.+||||
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 47888886522 12 3556899999999999999888999999999986654 3333222222 23578999999
Q ss_pred CChhHHHHHHHhhccCCCcEEecccCCCCCCC--CCCCceEeecCCchHHHHHHHHHHHhcCcc-EEEEEEEcCcccc--
Q 002364 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDNEYGR-- 178 (930)
Q Consensus 104 ~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~--~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~-~v~ii~~d~~~g~-- 178 (930)
.||..+.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++..++++++|+ ++++||.++.++.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999998886 478999999999999999988889999999 6889997543322
Q ss_pred --chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 179 --NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 179 --~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
...+.+.+.+++.|++|+....+..+ ..|+.++|++++. ++|+||++++..++..+++||+++||+.++|+||
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i 235 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHIEK----NSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFF 235 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEeccc----hhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEE
Confidence 13566778889999999876655544 7899999999997 8999999999999999999999999999999999
Q ss_pred EeCcchhcccC-----------CCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhh----cCCCCCC---CchhHHH
Q 002364 257 ATDWLAYMLDS-----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGSLGM---NSYGLYA 318 (930)
Q Consensus 257 ~~~~~~~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 318 (930)
..++....+.. .+......+++++++++.++.+.++..++|.++|+++ ++.+..+ +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 98865432210 0112455568899999998888888889999999875 4211123 6679999
Q ss_pred hHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceE
Q 002364 319 YDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (930)
Q Consensus 319 YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~ 398 (930)
||||+++|.|+++++..++ .|.+|..|.++|++++|+|++|++.||++|+| ...|
T Consensus 316 YDav~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~ 370 (399)
T cd06384 316 YDGVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDF 370 (399)
T ss_pred HHHHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccce
Confidence 9999999999999865432 24458999999999999999999999999996 4456
Q ss_pred EE---EEeeccceEEEEEEcCCC
Q 002364 399 DI---INVIGTGFRMIGYWSNYS 418 (930)
Q Consensus 399 ~I---~~~~~~~~~~vg~w~~~~ 418 (930)
.+ .++++++++.||+|+..+
T Consensus 371 ~~~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCeEEEEEEEcCCC
Confidence 66 466889999999998754
No 33
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=5.5e-41 Score=359.86 Aligned_cols=323 Identities=20% Similarity=0.286 Sum_probs=262.5
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChH-HHHHHHHHHHhcCcEEEEcCCChhH-HH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGF-IGMVEALRFMETDIVAIIGPQCSTV-AH 110 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~-~a~~~a~~li~~~v~aiiGp~~s~~-~~ 110 (930)
+||+||+..+..|+..+.|+++|++++|++++++++.+|++++.|++.++. .+..++|++++++|.|||||.+|.. +.
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~gV~AIiGp~ss~~~~~ 80 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPKGVVSVLGPSSSPASSS 80 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhcCeEEEECCCCchHHHH
Confidence 489999999999999999999999999999999866799999999998764 7788889999889999999999965 67
Q ss_pred HHHHhhccCCCcEEecccCC-CCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHh
Q 002364 111 IVSYVSNELQVPLLSFGVTD-PTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~-~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (930)
+++++|++.+||+|+++... |.+...++++ .++.|++..++.|+++++++|+|++|++||+++++ +..|++.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999986442 3333334444 89999999999999999999999999999999986 566666666
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCC
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 269 (930)
..+. ....+++....+..|+.++|++|+++++|+||++|+++.+..++++|+++||+.++|+|++|+......+.
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5432 12222222112367899999999999999999999999999999999999999999999998865443233
Q ss_pred CChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC----CC--CCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG----GS--LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~----~~--~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
.+.......+.+++...++.+..++|.+.|++++. .. ......++.+||||+++
T Consensus 231 --~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~------------------ 290 (333)
T cd06394 231 --DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV------------------ 290 (333)
T ss_pred --HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE------------------
Confidence 23333366688899999999999999998887551 00 11122455566665332
Q ss_pred CccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCCC
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl~ 421 (930)
|+||+++||++|.|.+..++|+++..++.++||+|++..||+
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 999999999999999999999999999999999999999875
No 34
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2.7e-39 Score=365.39 Aligned_cols=392 Identities=24% Similarity=0.423 Sum_probs=331.3
Q ss_pred CCCCceEEEEEEeeCCC-------------cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHH
Q 002364 26 SARPAVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (930)
Q Consensus 26 ~~~~~~i~IG~i~~~s~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~l 92 (930)
+.-+++|.||.+||.+. ..|.+-..|+.+|+|+||+ +.+|||.|+++.++|+|..+..|+++..++
T Consensus 26 ~~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~F 104 (878)
T KOG1056|consen 26 ARIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSF 104 (878)
T ss_pred ccCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHH
Confidence 45578999999999871 2256778999999999999 999999999999999999999999999998
Q ss_pred Hhc-----------------CcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHH
Q 002364 93 MET-----------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTA 154 (930)
Q Consensus 93 i~~-----------------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~a 154 (930)
+.+ .|.++|||..|+.+.+++.+..-++||+|+++++++.|++ .+|+||.|+.|+|..|++|
T Consensus 105 v~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~A 184 (878)
T KOG1056|consen 105 VRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQA 184 (878)
T ss_pred HHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHH
Confidence 853 5899999999999999999999999999999999999999 7999999999999999999
Q ss_pred HHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh-CCceEEEEEcCh
Q 002364 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVSP 233 (930)
Q Consensus 155 i~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~ 233 (930)
+++++++|+|++|..++++++||+.+++.|.+..+++|+||...+.++.. ..+..+...++++.. .++++||+++.+
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~ 262 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRG 262 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCc
Confidence 99999999999999999999999999999999999999999998777766 668899999999987 889999999999
Q ss_pred hhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHH-------------
Q 002364 234 SLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------- 300 (930)
Q Consensus 234 ~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 300 (930)
+++..++++|+.+++.+ .++|+++|+|....+. -.......+|++++....+..+.+++|.+.
T Consensus 263 ~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~---~~~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~ 338 (878)
T KOG1056|consen 263 EDARRLLKAARRANLTG-EFLWIASDGWASQNSP---TEAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred chHHHHHHHHHHhCCCc-ceEEEecchhhccCCh---hhhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 99999999999999854 5999999999876443 122234788999999988877777776544
Q ss_pred --HhhhcC------------------CC---CCC-----CchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCC
Q 002364 301 --WKNLTG------------------GS---LGM-----NSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (930)
Q Consensus 301 --~~~~~~------------------~~---~~~-----~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (930)
|+..|. +. ... ..-...++|||+++|+||+.+.++-.. +
T Consensus 339 e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~ 405 (878)
T KOG1056|consen 339 EFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------G 405 (878)
T ss_pred hhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------C
Confidence 443332 00 011 112456999999999999999876332 1
Q ss_pred CcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeecc----ceEEEEEEcCCCCCCcCCCccc
Q 002364 353 GNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT----GFRMIGYWSNYSGLSKEPPETL 428 (930)
Q Consensus 353 ~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~----~~~~vg~w~~~~gl~~~~~~~~ 428 (930)
..-.|++.+..+ |.+|.+++++++|.|..|.+.||++|| ....|+|++++.. .+..||+|+....|.
T Consensus 406 ~~~~C~~m~~~d-g~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~------- 476 (878)
T KOG1056|consen 406 TSGLCSAMKAID-GSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLSLN------- 476 (878)
T ss_pred ccccCcCccccC-HHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccccc-------
Confidence 223466777654 999999999999999999999999999 7899999999842 579999998865432
Q ss_pred ccCCCCCCccccccceeEeCCCCccCCCccc
Q 002364 429 YAQPFNRSSTIQHLHSVIWPGETLSKPRGWV 459 (930)
Q Consensus 429 ~~~~~~~~~~~~~l~~i~wp~~~~~~p~~~~ 459 (930)
...+.|.++....|++.|
T Consensus 477 -------------i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 477 -------------IEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred -------------ceeeeeccCCCCCccccc
Confidence 235788888888888887
No 35
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=8.6e-39 Score=353.83 Aligned_cols=338 Identities=16% Similarity=0.209 Sum_probs=293.2
Q ss_pred CCceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCC
Q 002364 28 RPAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQ 104 (930)
Q Consensus 28 ~~~~i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~ 104 (930)
.+++|+||++.|++ +..|.....++++|+++||+.||+ .|++|+++++|++++|..+.+.+.+|++++|.+||||.
T Consensus 22 ~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi-~G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~~ 100 (369)
T PRK15404 22 LADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGI-KGDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGHL 100 (369)
T ss_pred cCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCC-CCeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcCC
Confidence 45689999999999 446888999999999999999999 49999999999999999999999999988999999999
Q ss_pred ChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHHH
Q 002364 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~ 183 (930)
+|..+.++++++++.++|+|++.++++.+++..++|+||+.+.+..++.++++++ ++++|++++++++|+.||++..+.
T Consensus 101 ~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~ 180 (369)
T PRK15404 101 CSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARS 180 (369)
T ss_pred CchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHH
Confidence 9999999999999999999999999999887778999999999999999999975 567999999999999999999999
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchh
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 263 (930)
+++.+++.|++++....++++ ..|+.+++.++++.++|+|++.....+...++++++++|+.. .|++++++..
T Consensus 181 ~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~~ 253 (369)
T PRK15404 181 VKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVGN 253 (369)
T ss_pred HHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCCC
Confidence 999999999999988888876 789999999999999999998888888999999999999853 3676654332
Q ss_pred cccCCCCChhhhhccccEEEEEEec-CCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceec
Q 002364 264 MLDSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (930)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 342 (930)
.... ....+..+|+++..++. ..+|..++|.+.|++++ ...++.++..+||++++++.|++++...
T Consensus 254 ~~~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~Y~~~~~l~~Al~~aG~~------- 320 (369)
T PRK15404 254 KSLS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--QDPSGPFVWTTYAAVQSLAAGINRAGSD------- 320 (369)
T ss_pred HHHH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--CCCCccchHHHHHHHHHHHHHHHhhCCC-------
Confidence 1101 12345678888766543 34678899999999887 4556678889999999999999985221
Q ss_pred CCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccce
Q 002364 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGF 408 (930)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~ 408 (930)
+++.|.++|++.+|+|+.|++.|+++|++....|.|++|++++-
T Consensus 321 ----------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 321 ----------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred ----------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 37899999999999999999999999987788999999886553
No 36
>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=9.6e-38 Score=342.17 Aligned_cols=316 Identities=22% Similarity=0.344 Sum_probs=269.0
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||+++|.++ .....|+++|+|+||+++|++++.++++++.|+ ++++..++..+|+|++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~~~V~aiiG~~~S~~~~a 77 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLSQGVAAIFGPSSSSSANT 77 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHhcCcEEEECCCCHHHHHH
Confidence 5999999987 678999999999999999998767999999998 589999999999999889999999999999999
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 191 (930)
+++++++++||+|+++++++.++ . ++.+++.|++..++.++++++++++|++|+++|+++++ ...++.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~--~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~-~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-R--QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEG-LLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-C--cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHh-HHHHHHHHHhhccC
Confidence 99999999999999999888776 2 34455567777999999999999999999999977654 45557777778888
Q ss_pred ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCC
Q 002364 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (930)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 271 (930)
|++|......+ . .+|+.++|.++++.++|+||+.+.+.++..++++|+++||..+.|+|++++......+.
T Consensus 154 g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~---- 224 (324)
T cd06368 154 GIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL---- 224 (324)
T ss_pred CceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch----
Confidence 99988765433 3 33899999999999999999999999999999999999999889999998753322111
Q ss_pred hhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCC------CCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
........++.++....+.++..++|.++|+++++. ...|+.+++.+||||+++
T Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~-------------------- 284 (324)
T cd06368 225 ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF-------------------- 284 (324)
T ss_pred hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe--------------------
Confidence 222334456777777778889999999999999831 126788999999998654
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccceEEEEEEcCCCCC
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~~~~vg~w~~~~gl 420 (930)
+|+++||++|+|.+..++|+++..++++.||+|++..|+
T Consensus 285 ------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ------------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 889999999999999999999999999999999998775
No 37
>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=2.7e-37 Score=340.61 Aligned_cols=328 Identities=19% Similarity=0.245 Sum_probs=288.0
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+||++.|+| +..|.....|+++|++++|+++|+ +|++|+++++|++|++..+...+.+|++++|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 599999998 456888999999999999999888 6999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHHHHHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
.+++++++..+||+|+++++++.+.+..+|++||+.|++..++.++++++ ++++|++|++++.|++||+...+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999887777766678999999999999999999986 57899999999999999999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
++.|++|+....++++ ..|+.+.+.++++.++++|++.+.+.++..+++++++.|+. ..|+..+++....
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~--- 229 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCDPE--- 229 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCCHH---
Confidence 9999999998888866 78999999999999999999999999999999999999984 3467665432111
Q ss_pred CCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
......+..+|++...++.+ .++..++|.++|++++ +..++.++..+||+++++++|++++. .
T Consensus 230 -~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~al~~~~----~-------- 294 (334)
T cd06342 230 -FIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF--GDPPGAYAPYAYDAANVLAEAIKKAG----S-------- 294 (334)
T ss_pred -HHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHHHHHHHHhC----C--------
Confidence 01123356788888877765 4688899999999988 45568899999999999999999951 1
Q ss_pred ccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEe
Q 002364 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV 403 (930)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~ 403 (930)
.++..+.++|++++|+|++|+++|+++|++.+..|+|+||
T Consensus 295 -----------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 -----------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred -----------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1388999999999999999999999999999999999875
No 38
>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=2.1e-37 Score=343.86 Aligned_cols=334 Identities=31% Similarity=0.530 Sum_probs=281.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHH-HHHHhcCcEEEEcCCChhHHHHHHHhhccCCCcEEec
Q 002364 48 AKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEA-LRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSF 126 (930)
Q Consensus 48 ~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a-~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 126 (930)
...|+++|+++||++++++++.+|++.+.|+++++..+...+ +.+..++|.+||||.|+..+.+++.+++.++||+|++
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 568999999999999998899999999999995555555444 4555569999999999999999999999999999999
Q ss_pred ccCCCCCCC--CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcc-eEEEEEEecCC
Q 002364 127 GVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR-CRISYKSGIPP 203 (930)
Q Consensus 127 ~a~~~~l~~--~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~ 203 (930)
+++++.+++ .+||+++|+.|++..++.++++++++++|++|++||+++++|.+....+.+.+++.+ .++......+.
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 999999988 479999999999999999999999999999999999999999999999999999965 45544133333
Q ss_pred CCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccE
Q 002364 204 ESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGV 281 (930)
Q Consensus 204 ~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~ 281 (930)
. ..++...+.++++ .++++||+++.+..+..++++|.++||...+|+||.++++...... ..........|+
T Consensus 162 ~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~~~ 235 (348)
T PF01094_consen 162 S----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ--NNEDFREAFQGV 235 (348)
T ss_dssp T----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS--THCHHHCCHTTE
T ss_pred c----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc--ccccccccccce
Confidence 2 4455555555555 8999999999999999999999999999999999999987655321 225667889999
Q ss_pred EEEEEecCCChhhHHHHHHHhhhc------CCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcc
Q 002364 282 LVLRQHIPESDRKKNFLSRWKNLT------GGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNL 355 (930)
Q Consensus 282 ~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (930)
+++++..+..+.+++|.++|+... ..+..+..++.++|||++++++|++++.++++...
T Consensus 236 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~--------------- 300 (348)
T PF01094_consen 236 LGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVT--------------- 300 (348)
T ss_dssp EEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTT---------------
T ss_pred eeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCC---------------
Confidence 999999998999999999999752 13567788999999999999999999987644321
Q ss_pred cCCCccccCchHHHHHHHHhCcccccccceEEcc-CCCcccceEEEEEee
Q 002364 356 HLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVI 404 (930)
Q Consensus 356 ~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~-~g~~~~~~~~I~~~~ 404 (930)
.....|.+|..+.++|++++|+|++|++.||+ +|++.+..|.|+|++
T Consensus 301 --~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 301 --NGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp --SSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred --CCccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 01156778999999999999999999999999 899989999999875
No 39
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.6e-37 Score=333.24 Aligned_cols=304 Identities=21% Similarity=0.292 Sum_probs=266.0
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|++ +..|.....|+++|+++||++||+ .|++|+++++|++++|..+++.+++|+++ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 599999999 445788999999999999999999 69999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH
Q 002364 109 AHIV-SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 109 ~~~v-~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++++.|++||++..+.+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999999999987 567999999999999999999999999999999999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
.+++.|++|+....++++ .+|+.+++.++++.++|+|++.+.+.++..++++++++|+.. .|++++++.....
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~~ 232 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD---KFLLTDGMKSDSF 232 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC---ceEeeccccChHH
Confidence 999999999998888877 889999999999999999999999999999999999999843 3666654332110
Q ss_pred CCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
+.....+.++|+++..++.+. +..++|.++|+++| +..|+.+++.+||+++++++|
T Consensus 233 ---~~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~--g~~p~~~~~~~Yd~~~~l~~A------------------ 288 (312)
T cd06346 233 ---LPADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAY--GESPSAFADQSYDAAALLALA------------------ 288 (312)
T ss_pred ---HHhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHh--CCCCCccchhhHHHHHHHHHH------------------
Confidence 111223467888877665543 78899999999999 566889999999999999765
Q ss_pred ccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEE
Q 002364 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (930)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I 400 (930)
|.|++|++.||++|++.. .|+-
T Consensus 289 -------------------------------~~g~~g~~~f~~~g~~~~-~~~~ 310 (312)
T cd06346 289 -------------------------------YQGASGVVDFDENGDVAG-SYDE 310 (312)
T ss_pred -------------------------------hCCCccceeeCCCCCccc-ceee
Confidence 678999999999998543 5554
No 40
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.5e-36 Score=335.79 Aligned_cols=328 Identities=16% Similarity=0.211 Sum_probs=280.5
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCC---CCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL---HGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il---~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 105 (930)
+||+++|++ +..|.....|+++|++++|++||+. .|++|+++++|+++++..++..+++|+++ +|.+||||.+
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 599999999 5568889999999999999988763 47999999999999999999999999987 8999999999
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcC--ccEEEEEEEcCccccchHHH
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG--WNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~--w~~v~ii~~d~~~g~~~~~~ 183 (930)
|..+.++++++++++||+|+++++++.++...+||+||+.|++..++.++++++.+++ |+++++++.|++||+...+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888877766789999999999999999999999887 99999999999999999999
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchh
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 263 (930)
+.+.+++.|++|+....++++ .+|+.+++++|++.++|+|++++.+.++..+++++++.|+..+ ..+. +.+...
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~ 234 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYM-TVGPAF 234 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEE-ecCCCc
Confidence 999999999999988888766 6899999999999999999999999999999999999998643 2222 222111
Q ss_pred cccCCCCChhhhhccccEEEEEEecCC-------ChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcC
Q 002364 264 MLDSASLPSETLESMQGVLVLRQHIPE-------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (930)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 336 (930)
... .....+..+|+++..++.+. .+..+.|.++|+++| +..|+.++..+||+++++++|++++...
T Consensus 235 ~~~----~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~a~~~~~~a~~~ag~~- 307 (345)
T cd06338 235 PAF----VKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKY--GKAPDYHAAGAYAAGQVLQEAVERAGSL- 307 (345)
T ss_pred HHH----HHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHh--CCCCCcccHHHHHHHHHHHHHHHHhCCC-
Confidence 100 02233456888888777654 367899999999999 4557788999999999999999985321
Q ss_pred CcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEE
Q 002364 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~ 402 (930)
+++.|.++|++++|+|++|++.|+++|++.. .+.+++
T Consensus 308 ----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 308 ----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 3788999999999999999999999998643 555554
No 41
>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=4.5e-36 Score=328.24 Aligned_cols=332 Identities=16% Similarity=0.185 Sum_probs=257.3
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||+||+.++. +....-++.+|++++|+++|+ .|+.++++.+|+.+|+.+|+.++|+|++++|.|||||.+|..+.++
T Consensus 1 ~IG~if~~~~~-~~~~af~~ala~~~iN~~gg~-~~~~i~~v~~dd~~d~~~a~~~~c~Li~~gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESAL-EDDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcc-hHHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 59999998753 233445555666778888886 5778899999999999999999999999999999999999999999
Q ss_pred HHhhccCCCcEEecccCC---C-----CCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHH
Q 002364 113 SYVSNELQVPLLSFGVTD---P-----TLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~---~-----~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 183 (930)
+++++..+||+|++.+.. | .+.+ ...+|.|++.|++ .+..++++++++++|++|+++|++++ |....+.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHH
Confidence 999999999999865321 1 1111 1235666666774 68999999999999999999998776 5566688
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHH-------hCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-------LMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~-------~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
+.+++++.|+.+... ....+ ....+...++.++ ..+.++||++|+++.+..++++|.++||+..+|+|+
T Consensus 157 ~~~~~~~~g~~v~~~-~~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi 232 (363)
T cd06381 157 FLDQLSRQGIDVLLQ-KVDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWF 232 (363)
T ss_pred HHHHHHhcCceEEEE-ecccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEE
Confidence 888899899866643 22222 1223334333332 345568899999999999999999999999999999
Q ss_pred EeCcchhc-ccCCCCChhhhhccccEEEEEEecCCChhhH----HHHHHHhhhcC----CCCCCCchhHHHhHHHHHHHH
Q 002364 257 ATDWLAYM-LDSASLPSETLESMQGVLVLRQHIPESDRKK----NFLSRWKNLTG----GSLGMNSYGLYAYDSVWLLAH 327 (930)
Q Consensus 257 ~~~~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~----~~~~~~~~~~~~YDav~~la~ 327 (930)
+++.+... .+. ........|+++++...|..+..+ +|.+.|+.... ....+...++++||||+++
T Consensus 233 ~~~~l~~~~~~l----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~-- 306 (363)
T cd06381 233 LINEEISDTEID----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL-- 306 (363)
T ss_pred Eeccccccchhh----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH--
Confidence 87766553 222 455678899999999988776666 45556654331 1123456799999999998
Q ss_pred HHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeeccc
Q 002364 328 AIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTG 407 (930)
Q Consensus 328 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~ 407 (930)
+++|++++|+|+||+++||++|.|.+..++|+.+...+
T Consensus 307 ------------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~ 344 (363)
T cd06381 307 ------------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSE 344 (363)
T ss_pred ------------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCC
Confidence 35688899999999999999999999999999999555
Q ss_pred -----eEEEEEEcCCCCC
Q 002364 408 -----FRMIGYWSNYSGL 420 (930)
Q Consensus 408 -----~~~vg~w~~~~gl 420 (930)
.+.||+|++..||
T Consensus 345 ~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 345 TLGKDGRWLATWNPSKGL 362 (363)
T ss_pred ccccceEEeeeccCCCCC
Confidence 7899999998876
No 42
>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=2.9e-36 Score=332.87 Aligned_cols=321 Identities=21% Similarity=0.269 Sum_probs=275.5
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|+| +..|.....|+++|++++|++||+ +|++|+++++|+++++..+++.+++|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 589999998 566899999999999999999998 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC----CCCCceEeecCCchHHHHHHHHHHHh-----cCccEEEEEEEcCccccc
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSY-----YGWNAVSVIFVDNEYGRN 179 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~----~~~p~~~r~~p~~~~~~~ai~~~l~~-----~~w~~v~ii~~d~~~g~~ 179 (930)
+.+++++++++++|+|+++++++.+++ ..+||+||+.|++..++.++++++.+ ++|++|++++.+++||+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888888873 46899999999999999999998875 899999999999999999
Q ss_pred hHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
....+++.+++.|++|+....++.+ ..|+.+++.+|++.++|+|++.+.+.++..+++++.+.|+..+ ++...
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 232 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGIS 232 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEec
Confidence 9999999999999999988888765 7799999999999999999999999999999999999997432 23322
Q ss_pred cchhcccCCCCChhhhhccccEEEEEEecC----CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhc
Q 002364 260 WLAYMLDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (930)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 335 (930)
.+...... .....+..+|++....+.+ .++..++|.++|+++| +..|+.++..+||+++++++|++++...
T Consensus 233 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~yda~~~l~~A~~~ag~~ 307 (344)
T cd06345 233 VEGNSPAF---WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--GGPPNYMGASTYDSIYILAEAIERAGST 307 (344)
T ss_pred CCcCCHHH---HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--CCCCcccchHHHHHHHHHHHHHHHhcCC
Confidence 11100000 0122345667666555544 4677899999999998 5668889999999999999999995321
Q ss_pred CCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCccc
Q 002364 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIH 395 (930)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~ 395 (930)
+++.|.++|++++|+|++|+++||++|++..
T Consensus 308 -----------------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 308 -----------------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred -----------------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 3788999999999999999999999999643
No 43
>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=3.6e-36 Score=333.42 Aligned_cols=308 Identities=31% Similarity=0.522 Sum_probs=267.0
Q ss_pred EEEEEeeCCCc-------------chhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc----
Q 002364 33 NVGALFTLDST-------------IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET---- 95 (930)
Q Consensus 33 ~IG~i~~~s~~-------------~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~---- 95 (930)
.||++||++.. .|.....++.+|+++||+++++++|++|+++++|++|++.+|+..+.+|+.+
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 47899998852 2567778999999999999999899999999999999999999999999975
Q ss_pred ----------CcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCc
Q 002364 96 ----------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGW 164 (930)
Q Consensus 96 ----------~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w 164 (930)
+|.+||||.+|..+.+++++++++++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 8999999999999999999999999999999999999976 67899999999999999999999999999
Q ss_pred cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 165 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
++|++++.+++||....+.+++.+++.|++|+..+.++.+ .+..|+.+++++++++++|+||+++.+.++..++++|+
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~ 238 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAY 238 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999998888865 34689999999999999999999999999999999999
Q ss_pred HcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHH
Q 002364 245 YLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWL 324 (930)
Q Consensus 245 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~ 324 (930)
++|+ ...++| +.+.+.... +......+.++|++++.++.+.+...+.|.+.+++ ++.++||||++
T Consensus 239 ~~g~-~~~~~i-~~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~~ 303 (348)
T cd06350 239 KLGM-TGKYWI-ISTDWDTST---CLLLFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVYA 303 (348)
T ss_pred HhCC-CCeEEE-EEccccCcc---ccccCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhheeE
Confidence 9999 444444 544443321 11123456789999999988866666677777764 67889999866
Q ss_pred HHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee
Q 002364 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (930)
Q Consensus 325 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~ 404 (930)
.+.||++|++ ...|.|++++
T Consensus 304 -----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~~ 323 (348)
T cd06350 304 -----------------------------------------------------------EVKFDENGDR-LASYDIINWQ 323 (348)
T ss_pred -----------------------------------------------------------EEEecCCCCc-ccceeEEEEE
Confidence 6899999995 6678898887
Q ss_pred c----cceEEEEEEcCC
Q 002364 405 G----TGFRMIGYWSNY 417 (930)
Q Consensus 405 ~----~~~~~vg~w~~~ 417 (930)
. .++++||.|++.
T Consensus 324 ~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 324 IFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EcCCcEEEEEEEEEcCC
Confidence 6 679999999874
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=6.8e-36 Score=330.17 Aligned_cols=334 Identities=15% Similarity=0.233 Sum_probs=277.7
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|+| +..|.....|+++|++++|++||+ .|++|+++++|++++|..+.+++++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi-~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGV-NGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCc-CCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 599999999 556899999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHH-HHHHHHhc-CccEEEEEEEcC-ccccchHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTA-VAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~a-i~~~l~~~-~w~~v~ii~~d~-~~g~~~~~~l~ 185 (930)
+.++.+++++.++|+|+++++++.+.+ .++|+||+.+++..+... +..+++++ +|++++++|.++ .||+.....++
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~ 158 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKGIPE-IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQ 158 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCCcCC-CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHH
Confidence 999999999999999998877776643 468999998877665544 44567777 999999999754 49999999999
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 265 (930)
+.+++.|++++....++.+ ..|+.+++.+++++++|+|++.+.+.++..+++++++.|+..+ ++.++++....
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTPN 231 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCHH
Confidence 9999999999998888876 7899999999999999999999999999999999999998542 55554432211
Q ss_pred cCCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
. .....+..+|++...++.+ +++..++|.++|++++ +..++.++..+||+++++++|++++..++....
T Consensus 232 ~----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~~--- 302 (344)
T cd06348 232 V----FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKY--GKAPPQFSAQAFDAVQVVAEALKRLNQKQKLAE--- 302 (344)
T ss_pred H----HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHH--CCCccHHHHHHHHHHHHHHHHHHHhcCCCcccc---
Confidence 1 1234466788888877765 3467899999999998 456788899999999999999999864321100
Q ss_pred CccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEE
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I 400 (930)
|. .-..+..|.++|++.+|+|++|++.||++|++....|.|
T Consensus 303 -------------~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 303 -------------LP---LPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred -------------ch---hhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 00 001367899999999999999999999999987777654
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=3.2e-35 Score=324.00 Aligned_cols=337 Identities=16% Similarity=0.141 Sum_probs=278.4
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|+| +..|.....|+++|+++||++||++ |++|+++++|++++|.++++.+.+|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVL-GRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 599999998 5568899999999999999999996 9999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh-cCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.++.+++++.++|+|++.+... ....||+||+.+++..++..+++++.. .++++|++++.|++||++..+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998653322 235699999999999999999998764 57999999999999999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
+++.|++|+....++.+ ..|+.+++.++++.++|+|++...+.++..+++++++.|+......++........+.
T Consensus 157 ~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~- 231 (348)
T cd06355 157 LESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR- 231 (348)
T ss_pred HHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh-
Confidence 99999999998888876 8999999999999999999999999999999999999998654445554432211111
Q ss_pred CCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
....+...|+++...+.+ +++..++|.++|+++|+....++.++..+||+++++++|++++...
T Consensus 232 ----~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~ag~~---------- 297 (348)
T cd06355 232 ----GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKAGSF---------- 297 (348)
T ss_pred ----hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC----------
Confidence 111235677766554433 5678899999999998322334667889999999999999996321
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee-ccceEEE
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMI 411 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~-~~~~~~v 411 (930)
+++.|.++|+++.|+++.|+++|+++++.....+.|.+++ ++.++.|
T Consensus 298 -------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 -------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 3889999999999999999999998544355566777775 4555544
No 46
>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=1.1e-35 Score=324.57 Aligned_cols=304 Identities=18% Similarity=0.225 Sum_probs=239.0
Q ss_pred CCCChHHHHHHHHHHHhc-CcEEEE-cCCChh--HHHHHHHhhccCCCcEEecccCCC-CCCC-CCCCceEeecCCchHH
Q 002364 78 SNCSGFIGMVEALRFMET-DIVAII-GPQCST--VAHIVSYVSNELQVPLLSFGVTDP-TLSS-LQYPFFVRTTQSDSYQ 151 (930)
Q Consensus 78 ~~~~~~~a~~~a~~li~~-~v~aii-Gp~~s~--~~~~v~~~~~~~~iP~is~~a~~~-~l~~-~~~p~~~r~~p~~~~~ 151 (930)
...||.....+.|+++.. +|.|+| ||.++. .+..++.++++++||+|+++++++ .+++ ..+|||+|+.|++..|
T Consensus 43 ~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q 122 (362)
T cd06378 43 NETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQ 122 (362)
T ss_pred CCCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHH
Confidence 445899999999999977 699765 999997 556788888889999999976665 5565 6799999999999999
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
+.++++++++|+|++|++||++++.+..+...+++.+++.++|+.....++... ....+....+.+++..++++||++|
T Consensus 123 ~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~l~~lk~~~arViVl~~ 201 (362)
T cd06378 123 AAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDM-SDDDGDARTQRQLKKLESQVILLYC 201 (362)
T ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeecc-CCCcchHHHHHHHHhcCCCEEEEEC
Confidence 999999999999999999999988777788888887777666654443333221 1133477889999999999999999
Q ss_pred ChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCC
Q 002364 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM 311 (930)
Q Consensus 232 ~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 311 (930)
+.+.+..++++|+++||++.+|+||++++.....+. ...+...|++++.. ++|+.
T Consensus 202 s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~-----~~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 202 SKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL-----GPSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred CHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc-----ccccCCcceEeecc------------ccccc--------
Confidence 999999999999999999999999999976554221 11234466666552 23321
Q ss_pred CchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCC-cc-ccCchHHHHHHHHhCcccccccceEEcc
Q 002364 312 NSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGA-MS-IFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (930)
Q Consensus 312 ~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~g~~l~~~l~~~~f~G~~G~v~fd~ 389 (930)
...+..||||+++|+|++.++++++..+. ....|.+ .. +|..|..|+++|++++|+|+ +++||+
T Consensus 257 -~~~a~~~DaV~vva~Al~~l~~~~~~~~~-----------~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~ 322 (362)
T cd06378 257 -SLRARVRDGVAIIATGASAMLRQHGFIPE-----------AKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTE 322 (362)
T ss_pred -cHHHHHHHHHHHHHHHHHHHHhccCCCCC-----------CCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECC
Confidence 13567899999999999998765444321 1123432 33 48889999999999999996 899999
Q ss_pred CCCcccceEEEEEeec-cceEEEEEEcCCCCCCc
Q 002364 390 DRSLIHAAYDIINVIG-TGFRMIGYWSNYSGLSK 422 (930)
Q Consensus 390 ~g~~~~~~~~I~~~~~-~~~~~vg~w~~~~gl~~ 422 (930)
+|+|.++.|+|+|++. .+|++||+|++ .+|.+
T Consensus 323 ~G~r~~~~ldIinl~~~~g~~kVG~W~~-~~L~~ 355 (362)
T cd06378 323 DGYLVNPKLVVISLNKERVWEEVGKWEN-GSLRL 355 (362)
T ss_pred CCeEccceEEEEEecCCCCceEEEEEcC-CeEEE
Confidence 9999999999999996 59999999985 44543
No 47
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=4.4e-35 Score=323.50 Aligned_cols=339 Identities=22% Similarity=0.250 Sum_probs=281.2
Q ss_pred CceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCC
Q 002364 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQ 104 (930)
Q Consensus 29 ~~~i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 104 (930)
.++|+||++.|+| +.+|.....++++|+++||+.||++ |++|++++.|+.|+|..+...+.+|+.+ +|.+|||+.
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~ 86 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT 86 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec
Confidence 4489999999998 5679999999999999999999985 8889999999999999999999999985 899999999
Q ss_pred ChhHHHHHHHhhccCCCcEEecccCCCCCCCCC-CCceEeecCCchHHHHHHHHHHH-hcCccEEEEEEEcCccccchHH
Q 002364 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQ-YPFFVRTTQSDSYQMTAVAEMVS-YYGWNAVSVIFVDNEYGRNGVS 182 (930)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~-~p~~~r~~p~~~~~~~ai~~~l~-~~~w~~v~ii~~d~~~g~~~~~ 182 (930)
+|..+.++.+++++.++|+|+++++++.+.... .+++||+.|++..|+.++++++. ..+.++|++++.|+.||++..+
T Consensus 87 ~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~ 166 (366)
T COG0683 87 TSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLAD 166 (366)
T ss_pred cCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHH
Confidence 999999999999999999999999999877644 45699999999999999999976 4555699999999999999999
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
.+++.+++.|+++...+.+.+. ..++..++.++++.++|+|++.+.+.++..+++++++.|+... ..++......
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~ 241 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTA 241 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCch
Confidence 9999999999986666777766 5559999999999999999999999999999999999998653 2222221111
Q ss_pred hcccCCCCChhhhhcccc-EEEEEE-ecC-CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcc
Q 002364 263 YMLDSASLPSETLESMQG-VLVLRQ-HIP-ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (930)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g-~~~~~~-~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 339 (930)
... ........+ .+.... ..+ ..|..+.|.++|+++++....++.++..+||++++++.|++++.. +
T Consensus 242 ~~~------~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~---~- 311 (366)
T COG0683 242 EFE------EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK---S- 311 (366)
T ss_pred hhh------hhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc---C-
Confidence 110 011122233 333333 333 456778899999999943466677999999999999999999753 0
Q ss_pred eecCCccccccCCCcccCCCccccCchHHHHHHHHhCc-ccccccceEEccCCCcccceEEEEEeeccc
Q 002364 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVIGTG 407 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~G~~G~v~fd~~g~~~~~~~~I~~~~~~~ 407 (930)
. +++.+.++|++.. +.+.+|++.||++|++....+.|.+++..+
T Consensus 312 -----------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~~ 356 (366)
T COG0683 312 -----------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKGG 356 (366)
T ss_pred -----------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEecC
Confidence 1 2788999999987 689999999999999999999999888543
No 48
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.5e-35 Score=325.22 Aligned_cols=324 Identities=20% Similarity=0.255 Sum_probs=276.3
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCC--CCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSI--LHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~i--l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 106 (930)
+||++.|++ +..|.....|+++|+++||+.||+ ++|++|+++++|+++++..+++.+++|+++ +|.+|+||.+|
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 599999998 456888999999999999999973 479999999999999999999999999988 99999999999
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc------CccEEEEEEEcCccccch
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDNEYGRNG 180 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~------~w~~v~ii~~d~~~g~~~ 180 (930)
..+.++++++++.++|+|+++++++.+++..+||+||+.|++..++.++++++.++ +|+++++++.|++||+..
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 99999999999999999999888888887778999999999999999999998876 469999999999999999
Q ss_pred HHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCc
Q 002364 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (930)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 260 (930)
.+.+++.+++.|++|+..+.++.+ ..|+.+++.+++++++|+|++.+++.++..+++++++.|+..+ .++...++
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~ 235 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYPAN----ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGG 235 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccCCC----CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCC
Confidence 999999999999999988888866 7899999999999999999999999999999999999998543 22222222
Q ss_pred chhcccCCCCChhhhhccccEEEEEEecCC-ChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcc
Q 002364 261 LAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (930)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 339 (930)
....... ....+..+|+++..++.+. .+..+.|.++|+++| +..++.++..+||+++++++|++++.+.
T Consensus 236 ~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~Y~a~~~l~~A~~~ag~~---- 305 (347)
T cd06340 236 AEDPSFV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARF--GVDLSGNSARAYTAVLVIADALERAGSA---- 305 (347)
T ss_pred cCcHHHH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC----
Confidence 2111101 2334567898888777664 678899999999998 4568899999999999999999996321
Q ss_pred eecCCccccccCCCcccCCCccccCchHHHH--HHHHhCccc---ccccceEEccCCCcccc
Q 002364 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLL--GNILQSNLV---GLTGPLKFNSDRSLIHA 396 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~--~~l~~~~f~---G~~G~v~fd~~g~~~~~ 396 (930)
+++.+. .+|++..+. ++.|++.||++|+..++
T Consensus 306 -------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 -------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred -------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 377788 488888765 56889999999985443
No 49
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=1.1e-34 Score=319.79 Aligned_cols=340 Identities=10% Similarity=0.069 Sum_probs=277.2
Q ss_pred EEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002364 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (930)
Q Consensus 32 i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (930)
|+||++.|+| +..|.....|+++|+++||++||++ |++|+++++|++++|..++..+.+|+++ +|.+||||.+|.
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 6899999999 5568899999999999999999996 9999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
.+.++.+++.+.++|+|.... ... ...+|+||+.|++..++.++++++....-+++++++.|++||+...+.+++
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~----~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~ 155 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQ----YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRV 155 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcc----cccccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHH
Confidence 999999999999999996422 122 346899999999999999999997654337899999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
.+++.|++++....++.+ .+|+.+++.+|++++||+|++...+.+...+++|++++|+..+ ++..........
T Consensus 156 ~~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~ 228 (374)
T TIGR03669 156 IAKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYE 228 (374)
T ss_pred HHHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhh
Confidence 999999999998888876 8999999999999999999999999999999999999998543 222221111100
Q ss_pred CCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCC
Q 002364 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 344 (930)
. .....+...|+++..++.+ +++..++|.++|+++|+....++.++..+||+++++++|++++.+.
T Consensus 229 ~---~~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai~~AGs~--------- 296 (374)
T TIGR03669 229 H---KRFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAVEEAGTT--------- 296 (374)
T ss_pred h---hhcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 0 0011234667776666654 4678899999999999322233667889999999999999996321
Q ss_pred ccccccCCCcccCCCccccCchHHHHHHHHh-CcccccccceEEccCCCcccceEEEEEeec-cceEEEEEEc
Q 002364 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRSLIHAAYDIINVIG-TGFRMIGYWS 415 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~-~~~~~vg~w~ 415 (930)
+++.|.++|++ ..|+|+.|+++||++++.....+.|.+++. +++..+..|.
T Consensus 297 --------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 --------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred --------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 38899999997 579999999999987665555667777764 4456666665
No 50
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.2e-35 Score=321.03 Aligned_cols=320 Identities=15% Similarity=0.152 Sum_probs=270.4
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHH
Q 002364 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~~ 109 (930)
+||++.|++ +..|.....|+++|+++||+.||+ +|++|+++++|++++|..+++.+.+|+++ +|.+|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999998 567889999999999999999998 59999999999999999999999999987 89999999999999
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcC-ccEEEEEEEcCc-cccchHHHHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNE-YGRNGVSALNDK 187 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~-w~~v~ii~~d~~-~g~~~~~~l~~~ 187 (930)
.++++++++.++|+|++.++++.++ ..+||+||+.|++..++.++++++.+.+ |+++++++.|++ ||+...+.+++.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~ 158 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSA 158 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHH
Confidence 9999999999999999988888777 4679999999999999999999998876 999999998876 999999999999
Q ss_pred Hhh-cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 188 l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
+++ .|.++.....++.. +.++..++.++++.++++|++.+.......+++++++.|. ...+++++.+.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~~~ 231 (332)
T cd06344 159 LLERGGGIVVTPCDLSSP----DFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTPDT 231 (332)
T ss_pred HHHhcCCeeeeeccCCCC----CCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCHHH
Confidence 999 58888765544433 6678889999999999999999998888889999988764 233555544322211
Q ss_pred CCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
. ....+..+|+++..++.++++..++|.+.|++++ +..++.++..+||+++++++|++++.+.
T Consensus 232 ~----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~a~~~Yda~~~l~~A~~~ag~~----------- 294 (332)
T cd06344 232 L----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLW--GGDVSWRTATAYDATKALIAALSQGPTR----------- 294 (332)
T ss_pred H----HhchhhhcCeEEEEecccccccchHHHHHHHHHh--cCCchHHHHhHHHHHHHHHHHHHhCCCh-----------
Confidence 1 1223567899988888888788899999999999 4578889999999999999999985321
Q ss_pred ccccCCCcccCCCccccCchHHHH-HHHHhCcccccccceEEccCCCcccc
Q 002364 347 LKTMEGGNLHLGAMSIFDDGMLLL-GNILQSNLVGLTGPLKFNSDRSLIHA 396 (930)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~-~~l~~~~f~G~~G~v~fd~~g~~~~~ 396 (930)
++..+. .++++..|+|+.|+++||++|++...
T Consensus 295 ------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 ------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred ------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 144444 67788889999999999999996543
No 51
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=7.5e-35 Score=320.99 Aligned_cols=316 Identities=16% Similarity=0.183 Sum_probs=273.8
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+||++.|++ +..|.....++++|+++||++||+ .|++|+++++|+++++.++++.+++|++++|.+||||.+|..+
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 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGV-DGRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 589999998 456889999999999999999999 5999999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcC-ccEEEEEEEcCccccch
Q 002364 110 HIV-------SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNG 180 (930)
Q Consensus 110 ~~v-------~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~ 180 (930)
.++ +++++.+++|+|++.++++.+++ ..+||+||+.|++..++.++++++.+.+ |+++++++.|+.||+..
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 78888999999999888888876 5679999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHhh--cceEEEEEEecCCCCCCCh-hHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 181 VSALNDKLAE--RRCRISYKSGIPPESGVNT-GYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 181 ~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~-~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
.+.+++.+++ .|++|+....++.+ . +|+.+++.++++.++|+|++...+.++..+++++++.|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEe
Confidence 9999999999 99999988777765 6 899999999999999999999888899999999999998533 444
Q ss_pred eCcchhcccCCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhc
Q 002364 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (930)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 335 (930)
..+....+ .....+..+|++...++.+ +++..+.|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 233 ~~~~~~~~-----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~y~~~~~~~~a~~~ag~~ 305 (342)
T cd06329 233 PYLDQPGN-----PAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY--GRVPDYYEGQAYNGIQMLADAIEKAGST 305 (342)
T ss_pred ccccchhH-----HHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHHHHHHHhCCC
Confidence 43322221 1233456678877776654 3678899999999998 4577888999999999999999985211
Q ss_pred CCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEcc-CCC
Q 002364 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRS 392 (930)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~-~g~ 392 (930)
+++.|.++|++++|+|+.|+++|++ +++
T Consensus 306 -----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~~ 334 (342)
T cd06329 306 -----------------------------DPEAVAKALEGMEVDTPVGPVTMRASDHQ 334 (342)
T ss_pred -----------------------------CHHHHHHHHhCCccccCCCCeEEcccCcc
Confidence 3789999999999999999999986 444
No 52
>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=8.8e-34 Score=315.67 Aligned_cols=342 Identities=15% Similarity=0.194 Sum_probs=287.0
Q ss_pred CceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCC
Q 002364 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQ 104 (930)
Q Consensus 29 ~~~i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~ 104 (930)
+++|+||+++|++ +..|.....++++|++++|+.||+ .|++|+++++|+++++..+++.+.+|+++ +|.+||||.
T Consensus 4 ~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 4 DTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGI-NGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCc-CCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 5689999999998 456889999999999999999999 59999999999999999999999999975 899999999
Q ss_pred ChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHH
Q 002364 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVS 182 (930)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~ 182 (930)
+|..+.++++++++.+||+|++.++++.+++ ..+||+||+.|++..++.++++++ ++++|+++++|+.|+.||+...+
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~ 162 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLK 162 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHH
Confidence 9999999999999999999998888788877 478999999999999999999974 57799999999999999999999
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
.+++.+++.|++++....++.+ .+|+.+++.++++.++|+|++.+.+.++..+++++++.|+... ++.++++.
T Consensus 163 ~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~ 235 (362)
T cd06343 163 GLKDGLGDAGLEIVAETSYEVT----EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVSA 235 (362)
T ss_pred HHHHHHHHcCCeEEEEeeecCC----CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEeccc
Confidence 9999999999999988888876 7899999999999999999999999999999999999998643 45554432
Q ss_pred hcccCCCCChhhhhccccEEEEEEec-------CCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhc
Q 002364 263 YMLDSASLPSETLESMQGVLVLRQHI-------PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (930)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 335 (930)
..... ......+..+|+++...+. ..++..++|.+.|+++++....++.++..+||++.++++|++++..
T Consensus 236 ~~~~~--~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~ag~- 312 (362)
T cd06343 236 SVASV--LKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQAGD- 312 (362)
T ss_pred ccHHH--HHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhCC-
Confidence 22100 0112235678887776543 2357789999999998832225888999999999999999999621
Q ss_pred CCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcc---cc-cccceEEccCCCcccceEEEEEeeccce
Q 002364 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNL---VG-LTGPLKFNSDRSLIHAAYDIINVIGTGF 408 (930)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f---~G-~~G~v~fd~~g~~~~~~~~I~~~~~~~~ 408 (930)
. .+++.|.++|+++++ .+ ..|++.|++++++....+.|.++++++|
T Consensus 313 --~-------------------------~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 313 --D-------------------------LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred --C-------------------------CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 1 138899999999987 33 3458999887666677888888887764
No 53
>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=8.8e-34 Score=313.76 Aligned_cols=330 Identities=15% Similarity=0.115 Sum_probs=267.9
Q ss_pred EEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002364 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (930)
Q Consensus 32 i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (930)
|+||++.|++ +..|..+..|+++|+++||++||++ |++|+++++|++++|..++..+++|+++ +|.+|+||.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 6899999998 4568889999999999999999995 9999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh-cCccEEEEEEEcCccccchHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~-~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
.+.++.+++++.++|++++..... +...||+||+.+++..++.++++++.. .|.+++++++.|++||+...+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYEG---EECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCcccC---cccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 999999999999999997643221 245689999999999999999998776 5999999999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
.+++.|++++....++.+ .+|+.+++.+|++.++|+|++...+..+..+++++++.|+......++........+.
T Consensus 157 ~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR 232 (359)
T ss_pred HHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh
Confidence 999999999988888876 8999999999999999999998888888899999999998544333444322111111
Q ss_pred CCCCChhhhhccccEEEEEEe--cCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCC
Q 002364 267 SASLPSETLESMQGVLVLRQH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 344 (930)
....+.+.|+.+...+ ..+.+..+.|.++|+++++....+..++..+||+++++++|++++...
T Consensus 233 -----~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~~--------- 298 (359)
T TIGR03407 233 -----GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGSF--------- 298 (359)
T ss_pred -----hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1112456777654333 235678899999999998322233456678999999999999996321
Q ss_pred ccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEe
Q 002364 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV 403 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~ 403 (930)
+++.+.++|++++|+++.|+++|+++++.....+.+.++
T Consensus 299 --------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 299 --------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred --------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 388999999999999999999999844323334444333
No 54
>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=3.8e-34 Score=314.49 Aligned_cols=320 Identities=16% Similarity=0.144 Sum_probs=270.8
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++ +..|.....++++|++++|++||+ .|++|+++++|++++|..+.+++++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 599999998 446889999999999999999998 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
+.++++++++.++|+|++.+.... ...||+||+.|++..++.++++++...+|++|++|+.|+.||+...+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~ 156 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALL 156 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHH
Confidence 999999999999999987543221 24589999999999999999998876669999999999999999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
++.|.+|+....++++ ..|+.+++.++++.++|+|++++.+.++..+++++.+.|+......++.. ...... .
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~-~- 229 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIPILSL-TLDENE-L- 229 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCeeEEc-ccchhh-h-
Confidence 9999999988888876 78999999999999999999999999999999999999986333333332 222111 1
Q ss_pred CCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
.........|+++..++.+ +.+..+.|.++|+++++....++.++..+||++++++.|++++..
T Consensus 230 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~------------ 295 (333)
T cd06331 230 --AAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGS------------ 295 (333)
T ss_pred --hccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCC------------
Confidence 1112245688888777654 467789999999998832225788899999999999999998521
Q ss_pred ccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcc
Q 002364 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLI 394 (930)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~ 394 (930)
.+++.|.++|++++|+|++|++.|++++++.
T Consensus 296 -----------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 -----------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred -----------------CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 1388999999999999999999999987754
No 55
>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=7.8e-34 Score=313.15 Aligned_cols=330 Identities=18% Similarity=0.223 Sum_probs=276.5
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|++ +..|.....|+++|++++|++||+ +|++|+++++|+++++..+.+.+.+|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGV-GGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCc-CCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHh
Confidence 599999998 556899999999999999999999 69999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.++++++++.++|+|+++++.+.+++ ..+|+||+.|++..++.++++++ ++.+|+++++++.|++||+...+.+++.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~ 158 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKA 158 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHH
Confidence 999999999999999999887777764 46899999999999999999985 6789999999999999999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
+++.|++++....++++ ..|+.+++.+++++++|+|++.+.+.+...+++++++.|+..+ ++....+......
T Consensus 159 ~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 231 (340)
T cd06349 159 AEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSPKFI 231 (340)
T ss_pred HHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCHHHH
Confidence 99999999988888876 7899999999999999999999999999999999999998543 4444332211111
Q ss_pred CCCChhhhhccccEEEEEEecCC--ChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 268 ASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
....+...|++...++.++ .+..+.|.++|+++| +..++.++..+||+++++++|++++...
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~a~~~ag~~---------- 295 (340)
T cd06349 232 ----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY--GAQPDAFAAQAYDAVGILAAAVRRAGTD---------- 295 (340)
T ss_pred ----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhhhhHHHHHHHHHHHHHHhCCC----------
Confidence 1223467888887777664 567899999999888 4567889999999999999999995321
Q ss_pred cccccCCCcccCCCccccCchHHHHHH-HHhCcccccccceEEccC-CCcccceEEEEEeeccc
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGN-ILQSNLVGLTGPLKFNSD-RSLIHAAYDIINVIGTG 407 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~-l~~~~f~G~~G~v~fd~~-g~~~~~~~~I~~~~~~~ 407 (930)
....+.+. +.+..+.|++|++.|+++ |+ ....|.++.+++++
T Consensus 296 -------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~-~~~~~~~~~~~~g~ 339 (340)
T cd06349 296 -------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRR-VIKRFVPLVVRNGK 339 (340)
T ss_pred -------------------CHHHHHHHHHhccCcccceEeEEECCCCCC-ccCceEEEEEeCCc
Confidence 12223232 245568899999999997 55 44588888877665
No 56
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.1e-33 Score=311.86 Aligned_cols=320 Identities=18% Similarity=0.270 Sum_probs=273.6
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++. ..|.....|+++|++++|++||+ +|++|+++++|+++++..+++.+++|+++ +|.+||||.++..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGV-LGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCC-CCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHh
Confidence 5999999994 45788899999999999999997 69999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcC-ccccchHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDN-EYGRNGVSALND 186 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~-~~g~~~~~~l~~ 186 (930)
+.+++++++..+||+|++.++.+.+++. .+|+||+.|++..++.++++++ ++++|++|++|+.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 9999999999999999998887777653 2589999999999999999986 677999999999875 899999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
.+++.|++++....++.+ ..++.+.+.++++.++|+|++.+.+.....+++++++.|+. ..|++++.|.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~ 231 (334)
T cd06347 159 AFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKL 231 (334)
T ss_pred HHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHH
Confidence 999999999988888765 67899999999999999999999999999999999999974 34777665543211
Q ss_pred CCCCChhhhhccccEEEEEEecCC--ChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCC
Q 002364 267 SASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 344 (930)
. ....+...|+....++.+. ++..+.|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~Al~~ag~~--------- 296 (334)
T cd06347 232 E----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKY--GKEPDAFAALGYDAYYLLADAIERAGST--------- 296 (334)
T ss_pred H----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1 2234567888777776653 577899999999988 4678888999999999999999985211
Q ss_pred ccccccCCCcccCCCccccCchHHHHHHHHhC-cccccccceEEccCCCcccc
Q 002364 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS-NLVGLTGPLKFNSDRSLIHA 396 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~-~f~G~~G~v~fd~~g~~~~~ 396 (930)
+++.+.++|++. .|+|++|+++||++|+..+.
T Consensus 297 --------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 297 --------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred --------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 378899998865 69999999999999885433
No 57
>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=7.1e-34 Score=312.47 Aligned_cols=320 Identities=16% Similarity=0.161 Sum_probs=273.0
Q ss_pred EEEEEeeCCCc----chhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002364 33 NVGALFTLDST----IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (930)
Q Consensus 33 ~IG~i~~~s~~----~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (930)
+||+++|++.+ .|.....|+++|++++| ||+ .|++|+++++|++++|..+++.+.+|+++ +|.+||||.+|.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi-~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGV-LGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCc-cCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 58999999844 47889999999999999 888 59999999999999999999999999987 899999999999
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
.+.++++++++.++|+|+++++++.+++ ..+||+||+.+++..++.++++++...+++++++++.|++||+...+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 9999999999999999999988888886 457999999999999999999998877899999999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhccc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 266 (930)
.+++.|++++....++.+ .+|+.+++.++++.++|+|++.+.+.++..+++++++.|+.. ...++........+
T Consensus 158 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~- 231 (334)
T cd06327 158 VVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDV- 231 (334)
T ss_pred HHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHH-
Confidence 999999999988888866 789999999999999999999999999999999999999852 23333322211110
Q ss_pred CCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCC
Q 002364 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 344 (930)
. ....+..+|+++..++.+ +.+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~Y~~~~~~~~A~~~ag~~--------- 296 (334)
T cd06327 232 H----SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY--GKMPSMVQAGAYSAVLHYLKAVEAAGTD--------- 296 (334)
T ss_pred H----hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHHHHHHHHHHCCC---------
Confidence 0 112346788888877654 3678899999999998 4568889999999999999999997432
Q ss_pred ccccccCCCcccCCCccccCchHHHHHHHHhCc-ccccccceEEcc-CCCcccc
Q 002364 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNS-DRSLIHA 396 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~G~~G~v~fd~-~g~~~~~ 396 (930)
++..|.++|+++. ++++.|+++|+. +|+...+
T Consensus 297 --------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~ 330 (334)
T cd06327 297 --------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMVHD 330 (334)
T ss_pred --------------------ChHHHHHhccccceeccCCCCceeeccccchhcc
Confidence 3677999999986 588999999987 6664333
No 58
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=5.8e-33 Score=307.38 Aligned_cols=339 Identities=15% Similarity=0.149 Sum_probs=275.4
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|+| +..|.....|+++|+++||++||++ |++|+++++|++++|..++..+++|+++ +|.+|||+.+|..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVL-GRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 599999999 5678999999999999999999995 9999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
+.++++++++.++|++++++... . ...|++|++.+++..++.++++++...+-+++++|+.|+.||++....+++.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999998654321 1 23378888888888788899998776656899999999999999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchh-cccC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY-MLDS 267 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~-~~~~ 267 (930)
++.|++++....++.+ .+..|+.+++.++++.++|+|++...+..+..++++++++|+.... ..+.+..... .+.
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~~~~- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEAEVA- 232 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHHHHh-
Confidence 9999999876555544 3489999999999999999999999999999999999999986432 2222322111 111
Q ss_pred CCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
....+..+|+++..++.+ ++|..+.|.++|+++|+....++.++..+||+++++++|++++...
T Consensus 233 ----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ag~~---------- 298 (360)
T cd06357 233 ----AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRAGSD---------- 298 (360)
T ss_pred ----hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCC----------
Confidence 122356788888777644 5688899999999999322236778999999999999999985221
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEe-eccceEEEE
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV-IGTGFRMIG 412 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~-~~~~~~~vg 412 (930)
+++.|.++|+++.|+|+.|.+.||++++.......+.++ ++++|..+.
T Consensus 299 -------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 -------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 378899999999999999999999876544445555566 455555554
No 59
>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=2.4e-33 Score=307.92 Aligned_cols=324 Identities=13% Similarity=0.178 Sum_probs=270.3
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++ +..|.....|+++|++++| +|+ .|++|+++++|++++|..+++.+.+|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi-~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKL-GGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--Ccc-CCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHH
Confidence 599999998 4457889999999999998 677 69999999999999999999999999977 9999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.++++++++.++|+|+++++.+.+.+ ..+||+||+.|++..++.++++++...+|+++++++.|++||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998776666665 4589999999999999999999999999999999999999999999988887
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
++ .++.....++.+ .+|+..++.++++.++|+|++...+..+..++++++++|+.. ...++...+.....
T Consensus 158 ~~---~~v~~~~~~~~~----~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~~-- 227 (333)
T cd06359 158 FK---GEVVGEVYTKLG----QLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEED-- 227 (333)
T ss_pred hC---ceeeeeecCCCC----CcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCHH--
Confidence 75 355555555544 789999999999999999999988888999999999999853 33455544332210
Q ss_pred CCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
......+..+|+++..++.+ +++..++|.++|++++ +..++.++..+||+++++++|++++..+ .
T Consensus 228 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~A~~~ag~~---~------ 294 (333)
T cd06359 228 --TLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--GRLPTLYAAQAYDAAQLLDSAVRKVGGN---L------ 294 (333)
T ss_pred --HHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC---C------
Confidence 01223456788888887766 4688899999999998 4578899999999999999999996321 0
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEE
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~ 401 (930)
.+++.|.++|+++.|+|++|+++|+++|+. ...+.++
T Consensus 295 ------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 295 ------------------SDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred ------------------CCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 137889999999999999999999999874 3334443
No 60
>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=2e-33 Score=310.82 Aligned_cols=325 Identities=19% Similarity=0.175 Sum_probs=271.5
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++. ..|.....|+++|++++|++||+ +|++|+++++|+++++..+++.+++|+++ +|.+||||.++..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi-~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGI-GGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHH
Confidence 5999999984 44788999999999999999998 69999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcC--ccEEEEEEEcCccccchHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG--WNAVSVIFVDNEYGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~--w~~v~ii~~d~~~g~~~~~~l~ 185 (930)
+.++++++++.++|+|++.++++.+.+ ..++|+||+.|++..+..++++++++++ |++|++++.|++||+...+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999999888888876 5789999999999999999999998774 9999999999999999999999
Q ss_pred HHHhhcc--eEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchh
Q 002364 186 DKLAERR--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (930)
Q Consensus 186 ~~l~~~g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 263 (930)
+.+++.| ++++....++.. .+|+.+++.+|++.++|+|++.+.+.+...+++++++.|+.. +..|+.+.+...
T Consensus 160 ~~~~~~g~~~~~v~~~~~~~~----~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 234 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPKLG----APDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAP 234 (346)
T ss_pred HHHHHhCCCCeecccccCCCC----CcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchh
Confidence 9999985 555544444433 789999999999999999999999999999999999999854 566777665332
Q ss_pred cccCCCCChhhhhccccEEEEEEe--c--CCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcc
Q 002364 264 MLDSASLPSETLESMQGVLVLRQH--I--PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (930)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~--~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 339 (930)
.+. ....+...|++....+ . ++++..++|.++|++++ +..++.++..+||+++++++|++++..+...
T Consensus 235 ~~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~y~a~~~l~~a~~~a~~~~~~- 306 (346)
T cd06330 235 ELA-----PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKY--GDYPTYGAYGAYQAVMALAAAVEKAGATDGG- 306 (346)
T ss_pred hhh-----hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHH--CCCCChHHHHHHHHHHHHHHHHHHhcCCCCC-
Confidence 211 1223456676654432 1 14678899999999998 4677888999999999999999997543111
Q ss_pred eecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCccc
Q 002364 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIH 395 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~ 395 (930)
.+ .+.+.++|++++|.|+.|++.|+++.+...
T Consensus 307 -----------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~~~~~ 338 (346)
T cd06330 307 -----------------------AP-PEQIAAALEGLSFETPGGPITMRAADHQAT 338 (346)
T ss_pred -----------------------Cc-HHHHHHHHcCCCccCCCCceeeecCCCccc
Confidence 11 257999999999999999999998543333
No 61
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.3e-33 Score=311.47 Aligned_cols=324 Identities=18% Similarity=0.198 Sum_probs=272.3
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCC-CC--CEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL-HG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il-~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 105 (930)
+||++.|++ +..|.....++++|++++|++||++ +| ++|+++++|++++|..+.+.+.+|+++ +|.+|+||.+
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~ 80 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPIG 80 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCCC
Confidence 589999998 4568889999999999999999986 46 489999999999999999999999987 9999999999
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHH
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (930)
+..+.. ++++++.++|+|++.++++.++...++|+||+.|++..++.++++++.+.+|++|++++.|+.||+...+.++
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 9999999999999998888887666799999999999999999999888999999999999999999999999
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHHHHHHcCcccCCeEEEEeCcchhc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 264 (930)
+.+++.|++++....++.+ ..|+.+++.++++.++|+|++.+.+. ++..++++++++|+..+ ..++........
T Consensus 160 ~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHH
Confidence 9999999999988888876 88999999999999999999999988 99999999999998643 222222111110
Q ss_pred ccCCCCChhhhhccccEEEEEEecC----CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcce
Q 002364 265 LDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (930)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~ 340 (930)
.. ....+.+.|++...++.+ .+|..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 235 ~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~Al~~ag~~----- 302 (347)
T cd06336 235 LV-----ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY--GEPPNSEAAVSYDAVYILKAAMEAAGSV----- 302 (347)
T ss_pred HH-----HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH--CCCCcHHHHHHHHHHHHHHHHHHhcCCC-----
Confidence 10 122356788888887655 4678899999999998 4458889999999999999999996322
Q ss_pred ecCCccccccCCCcccCCCccccCchHHHHHHHHh--------CcccccccceEEccCCCcccceE
Q 002364 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ--------SNLVGLTGPLKFNSDRSLIHAAY 398 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~--------~~f~G~~G~v~fd~~g~~~~~~~ 398 (930)
+...+.+++.. ..|+++.|.+.||++|++..+..
T Consensus 303 ------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 303 ------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred ------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 13334444432 56889999999999999765543
No 62
>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=6.6e-33 Score=303.86 Aligned_cols=316 Identities=14% Similarity=0.140 Sum_probs=264.2
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHh-cCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVN-SNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN-~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (930)
+||++.|++ +..|.....|+++|++++| +.||+ +|++|++++.|++++|..++..+.+|+++ +|.+|+||.+|.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 599999999 4568899999999999995 56777 69999999999999999999999999998 899999999999
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
.+.++++++++.++|+|+++++++.+++ ..++|+||+.+++..++..+++++... +++|++++.|++||++..+.+++
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~ 158 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKA 158 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHH
Confidence 9999999999999999998888888876 346999999998888899988887666 89999999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHHHHHHcCcccCCeEEEEeCcchhcc
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 265 (930)
.+++.|++++....++++ ..|+.+++.++++.++|+|++...+. ....+++++...|+... ...........
T Consensus 159 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (333)
T cd06328 159 ALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANL 231 (333)
T ss_pred HHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcc
Confidence 999999999998888876 88999999999999999998876655 67777888887776422 22222111111
Q ss_pred cCCCCChhhhhccccEEEEEEec-CCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCC
Q 002364 266 DSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (930)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~ 344 (930)
.. ....+...|+....++. +.++..+.|.++|+++| +..|+.++..+||++.++++|++++..
T Consensus 232 ~~----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~y~a~~~l~~Ai~~ag~---------- 295 (333)
T cd06328 232 TM----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--GSPPDLFTAGGMSAAIAVVEALEETGD---------- 295 (333)
T ss_pred cc----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--CCCcchhhHHHHHHHHHHHHHHHHhCC----------
Confidence 10 12334456666555554 67788899999999999 566888999999999999999999631
Q ss_pred ccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEcc-CCC
Q 002364 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRS 392 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~-~g~ 392 (930)
.+++.|.++|++..|+++.|+++|++ +|+
T Consensus 296 -------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~ 325 (333)
T cd06328 296 -------------------TDTEALIAAMEGMSFETPKGTMTFRKEDHQ 325 (333)
T ss_pred -------------------CCHHHHHHHHhCCeeecCCCceEECcccch
Confidence 13889999999999999999999986 444
No 63
>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=1.1e-33 Score=310.09 Aligned_cols=330 Identities=16% Similarity=0.145 Sum_probs=244.1
Q ss_pred CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecC------CC-ChHHHHHHHHHHHhcCc--EEEEcCCChhHHHH
Q 002364 41 DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS------NC-SGFIGMVEALRFMETDI--VAIIGPQCSTVAHI 111 (930)
Q Consensus 41 s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~------~~-~~~~a~~~a~~li~~~v--~aiiGp~~s~~~~~ 111 (930)
+...|.+.+.|+++|++++|++. |.++.+.+.++ .+ +...+.+++|+++++++ .|||||.++..+..
T Consensus 7 ~~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~ 82 (368)
T cd06383 7 TEDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASE 82 (368)
T ss_pred cccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHH
Confidence 34468899999999999999985 67777777777 55 55666677999999988 89999999999999
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH-HHhh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND-KLAE 190 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~-~l~~ 190 (930)
++.+++.++||+|+++.. ..++.++||++|+.|++..++.|+++++++|+|++|++||+++.++......+.. ...+
T Consensus 83 V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~ 160 (368)
T cd06383 83 IKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 999999999999987443 2333578999999999999999999999999999999999776644323333333 3333
Q ss_pred cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC-hhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCC
Q 002364 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (930)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 269 (930)
.+.++. +.. ..++...|++|+..+.+.||+.+. ++.+..++++|.++||++.+|+||++++.....+.
T Consensus 161 ~~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl-- 229 (368)
T cd06383 161 HVITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD-- 229 (368)
T ss_pred CCEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh--
Confidence 444442 112 456889999999988845555555 69999999999999999999999999875544333
Q ss_pred CChhhhhccccEEEEEEecCCChhhHHHHHHHhhhc-C--CCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLT-G--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~-~--~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
+.......++.+++...+.....+.+.++|.+.. . ........++.+||||++++.|++++.......
T Consensus 230 --~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~------- 300 (368)
T cd06383 230 --LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVED------- 300 (368)
T ss_pred --hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccC-------
Confidence 2334456789999997666655577877764321 0 011223458999999999999999863111110
Q ss_pred ccccCCCcccCCCc---ccc-CchHHHHHHHHhCcccccccceEEccCCCcccce
Q 002364 347 LKTMEGGNLHLGAM---SIF-DDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAA 397 (930)
Q Consensus 347 ~~~~~~~~~~~~~~---~~~-~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~ 397 (930)
.......+.|.+. .+| .+|..+.++|++++|+|+||+|+||++|.|.+..
T Consensus 301 -~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~ 354 (368)
T cd06383 301 -GSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKT 354 (368)
T ss_pred -CCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeee
Confidence 0001012233332 256 6677999999999999999999999999875544
No 64
>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=6e-33 Score=307.26 Aligned_cols=332 Identities=23% Similarity=0.331 Sum_probs=279.5
Q ss_pred eEEEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCh
Q 002364 31 VVNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCS 106 (930)
Q Consensus 31 ~i~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s 106 (930)
+|+||++.|++. .+|.....|+++|++++|++||+ .|++|+++++|+++++..+.+.+.+|++ ++|.+||||.++
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi-~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGI-NGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEE-TTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCc-CCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 599999999984 45788999999999999999999 4999999999999999999999999999 699999999999
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHHHHH
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (930)
..+.++++.+...++|+|++++.++ ...++|+||+.|++..++.++++++ ++++.+++++|+.+++||+...+.++
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999664442 3567999999999999999999985 56899999999999999999999999
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 265 (930)
+.+++.|++++....++++ ..|+.+++.++++.++|+|++.+.+.+...+++++.+.|+..+.+....+......+
T Consensus 157 ~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 232 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASL 232 (343)
T ss_dssp HHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHH
T ss_pred HHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHH
Confidence 9999999999888888877 799999999999999999999999999999999999999864434444433222211
Q ss_pred cCCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
. ....+..+|++...++.+ +.+..++|.++|++.++....++.++..+||++.+++.|++++. +.
T Consensus 233 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g----~~---- 299 (343)
T PF13458_consen 233 Q-----QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAG----SL---- 299 (343)
T ss_dssp H-----HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHT----SH----
T ss_pred H-----HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhC----CC----
Confidence 1 122346889999888776 46788999999999993222488999999999999999999962 11
Q ss_pred CccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~ 404 (930)
+++.+.++|++++|+|+.|++.|++.++.....+.|++++
T Consensus 300 ---------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~ 339 (343)
T PF13458_consen 300 ---------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVK 339 (343)
T ss_dssp ---------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEE
T ss_pred ---------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEe
Confidence 4899999999999999999999987655578889999998
No 65
>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=2.3e-32 Score=301.51 Aligned_cols=325 Identities=17% Similarity=0.251 Sum_probs=278.3
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++. ..|.....++++|++++| +++ .|++|+++++|+++++..+.+.+.+|+++ +|.+||||.++..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKL-GGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCc-CCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHh
Confidence 5999999984 446889999999999986 455 79999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.++.+.+++.++|+|+++++++.+++ ..+||+||+.+++..++..+++++...+|+++++++.++.||+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999999999999888888876 4589999999999999999999999899999999999999999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
+++.|+++.....++.+ .+|+.+++.++++.++|+|++...+.++..+++++++.|+.. ...++.++++......
T Consensus 158 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 232 (336)
T cd06360 158 FTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTL 232 (336)
T ss_pred HHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHH
Confidence 99999999887777765 789999999999999999999999999999999999999843 2345665544322111
Q ss_pred CCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
....+..+|++...++.+ +++..+.|.++|++++ +..++.++..+||+++++++|++++..+.
T Consensus 233 ----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~yda~~~~~~A~~~a~~~~--------- 297 (336)
T cd06360 233 ----GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY--PDTPSVYAVQGYDAGQALILALEAVGGDL--------- 297 (336)
T ss_pred ----HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHHHHHHHHHhCCCC---------
Confidence 234467788888777655 4678899999999998 45788899999999999999999963220
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceE
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~ 398 (930)
.+++.|.++|+++.|.|..|+++|+++|++..+.|
T Consensus 298 ------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 ------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred ------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 13778999999999999999999999998655543
No 66
>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=4e-32 Score=297.85 Aligned_cols=317 Identities=13% Similarity=0.107 Sum_probs=262.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|+| +..|.....++++|+++||+.||+ .|++|+++.+|++++|..++..+++|+++ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi-~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGI-LGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCC-CCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 599999999 556899999999999999999999 59999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
+.++.+++++.++|+|+...... +...||+||+.+++..++.++++++...+-+++++|+.|++||++..+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999997533322 223589999999999999999999876555899999999999999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
++.|++++....++.+ ..|+++++.++++.++|+|++...+.+...+++++++.|+ .. ...+...+........
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~~~~~~~~ 230 (334)
T cd06356 157 EENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-GN-IPMASSTLGAQGYEHK 230 (334)
T ss_pred HHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-cc-CceeeeecccchhHHh
Confidence 9999999988888876 8899999999999999999999989899999999999998 11 1122221111111000
Q ss_pred CCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCC-CCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSL-GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
....+..+|+++..++.+ +.+..++|.++|+++++ .. .++.++..+||+++++++|++++.+.
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~p~~~~~~~~~y~a~~~~~~A~~~ag~~---------- 296 (334)
T cd06356 231 ---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFP-DAPYINEEAENNYEAIYLYKEAVEKAGTT---------- 296 (334)
T ss_pred ---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcC-CCCCCCchhHHHHHHHHHHHHHHHHHCCC----------
Confidence 011245678877766644 35778999999999993 32 23678999999999999999996321
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHh-CcccccccceEEccCCC
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRS 392 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~G~~G~v~fd~~g~ 392 (930)
+++.|.++|++ ..|+|+.|++.|+++++
T Consensus 297 -------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 297 -------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred -------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 37889999997 56899999999998554
No 67
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=100.00 E-value=6.3e-32 Score=296.71 Aligned_cols=315 Identities=18% Similarity=0.199 Sum_probs=263.4
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|+|. ..|.....|+++|++++|+.||+ .|++|+++++|++++|..++..+.+|+++ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGI-LGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCc-CCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 5999999984 46889999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.++.++++ .++|+|++.+.+.. ...||+||+.+++..++.++++++ +..+|++|++++.|+.||++..+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997543321 346999999999999988788775 5679999999999999999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE-eCcchhccc
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA-TDWLAYMLD 266 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~-~~~~~~~~~ 266 (930)
+++.|++|+....++++ ..|+.+++.++++.++|+|++...+.+...+++++++.|+..+ ++. ...+.....
T Consensus 156 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~ 228 (333)
T cd06358 156 IAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENML 228 (333)
T ss_pred HHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHH
Confidence 99999999988888876 8999999999999999999999998889999999999998654 222 222221111
Q ss_pred CCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCC-CCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS-LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
. ....+..+|++...++.+ ..+..+.|.++|+++|+.. ..++.++..+||+++++++|++++.. .
T Consensus 229 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~----~---- 296 (333)
T cd06358 229 L----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGS----L---- 296 (333)
T ss_pred H----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCC----C----
Confidence 1 112234678777665544 5688999999999998321 24677889999999999999998421 1
Q ss_pred CccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCC
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~ 392 (930)
++..|.++|++++|+|++|++.|++++.
T Consensus 297 ---------------------~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 297 ---------------------DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred ---------------------CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 3789999999999999999999998864
No 68
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=8e-32 Score=280.59 Aligned_cols=316 Identities=16% Similarity=0.151 Sum_probs=234.1
Q ss_pred EEEEEEeeCCCcc---hhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCChh
Q 002364 32 VNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCST 107 (930)
Q Consensus 32 i~IG~i~~~s~~~---g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~s~ 107 (930)
|+||+++++++.. +.....|+++|++|||++||++ |++|+.+++|.++|+....+.|.+|+. ++|.+|+|+++|.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvl-G~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVL-GRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBT-TB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhh
Confidence 7899999999544 5778899999999999999997 999999999999999999999999986 5999999999999
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCC--CCCCceEeecCCchHHHHHHHHH-HHhcCccEEEEEEEcCccccchHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGVSAL 184 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~--~~~p~~~r~~p~~~~~~~ai~~~-l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (930)
+.+++.++.++++-+++.+ ...+ +..|++|-+.....+|...++++ ++++|.+|+.+|.+|+.|++.....+
T Consensus 80 sRKaVlPvvE~~~~LL~Yp-----~~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~ 154 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYP-----TQYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRII 154 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE------S--------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEec-----cccccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHH
Confidence 9999999999999999964 3444 56799999999999999999997 67889999999999999999999999
Q ss_pred HHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhc
Q 002364 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 264 (930)
++.+++.|++|+.+..+|.+ .+|+..++.+|++.+||+|+-...++....|+++.+++|+... ..-|.+-.....
T Consensus 155 r~~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~ 229 (363)
T PF13433_consen 155 RDLLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEA 229 (363)
T ss_dssp HHHHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HH
T ss_pred HHHHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHH
Confidence 99999999999999999987 8999999999999999999999999999999999999998744 344444332221
Q ss_pred ccCCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceec
Q 002364 265 LDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (930)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~ 342 (930)
-.. .-..+...|.++..++.. ++|..++|+++|+++|+.+..++.....+|.+|+++|+|++++.+.
T Consensus 230 E~~----~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags~------- 298 (363)
T PF13433_consen 230 ELA----AMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGSD------- 298 (363)
T ss_dssp HHT----TS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS--------
T ss_pred HHh----hcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 111 122347889999888764 6899999999999999655567788888999999999999997432
Q ss_pred CCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCC
Q 002364 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (930)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g 391 (930)
+.++++++|.+.+|+++.|.+++|++.
T Consensus 299 ----------------------d~~~vr~al~g~~~~aP~G~v~id~~n 325 (363)
T PF13433_consen 299 ----------------------DPEAVREALAGQSFDAPQGRVRIDPDN 325 (363)
T ss_dssp -----------------------HHHHHHHHTT--EEETTEEEEE-TTT
T ss_pred ----------------------CHHHHHHHhcCCeecCCCcceEEcCCC
Confidence 489999999999999999999999943
No 69
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.2e-32 Score=297.55 Aligned_cols=325 Identities=14% Similarity=0.139 Sum_probs=267.4
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||++.|++ +..|.....|+++|+++||+.||+ .|++|+++++|++++|..++..+.+|+++ +|.+|+ +.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI-~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGI-NGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCc-CCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 589999998 566889999999999999999999 59999999999999999999999999988 677765 678899
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcC-----ccEEEEEEEcCccccchHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-----WNAVSVIFVDNEYGRNGVS 182 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~-----w~~v~ii~~d~~~g~~~~~ 182 (930)
+.++++++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++...+ .++|++|+.|++||+...+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998877776764 6689999999999999999999987654 7999999999999999999
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
.+++.+++.|++|+....++.+ .+|+.+++.++++.++|+|++...+.++..++++++++|+..+ ++.+.+..
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDK---FIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCce---EEEeeccC
Confidence 9999999999999988888876 7899999999999999999999999999999999999998432 55443322
Q ss_pred hcccCCCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCC----CCCCchhHHHhHHHHHHHHHHHHHHhcC
Q 002364 263 YMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (930)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~----~~~~~~~~~~YDav~~la~Al~~~~~~~ 336 (930)
... ......+..+|+++..++.+ ++|..++|.+.|+++++.. ..++.++..+||++++++.|++++.++.
T Consensus 232 ~~~----~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 232 DEE----DVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred cHH----HHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 111 11233456788887777654 6788999999999998311 1345789999999999999999997664
Q ss_pred CcceecCCccccccCCCcccCCCccccCc------hHHHHHHHHhCcccccccceEEccCCC
Q 002364 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDD------GMLLLGNILQSNLVGLTGPLKFNSDRS 392 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------g~~l~~~l~~~~f~G~~G~v~fd~~g~ 392 (930)
+... ... -+.-++.+.+....|+.|+++|....+
T Consensus 308 ~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~ 347 (351)
T cd06334 308 GETT----------------------IAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDH 347 (351)
T ss_pred CCCC----------------------CcHHHHHHhhhhhhhhhhhcCcccccCCceeccccC
Confidence 3211 111 123345666677889999999976443
No 70
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.9e-32 Score=297.39 Aligned_cols=319 Identities=18% Similarity=0.201 Sum_probs=263.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++ +..|.....|+++|++++|++||+ .|++|+++++|++++|..+.+.+.+|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi-~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGV-LGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 599999998 466889999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC--CCCCceEeecCCchHHHHHHHHHH-HhcCccEEEEEEEcCccccchHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~--~~~p~~~r~~p~~~~~~~ai~~~l-~~~~w~~v~ii~~d~~~g~~~~~~l~ 185 (930)
+.++.+++++.+||+|++.++.+.+++ ..++|+||+.+++..++.++++++ ++.+|++|+++|.|++||+...+.++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 159 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLT 159 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHH
Confidence 999999999999999998887777765 346899999999999999999986 45669999999999999999999999
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 265 (930)
+.+++.|++++....++++ ..|+.+.+.+|++.++++|++.+.+.+...+++++++.|+..+ ++........
T Consensus 160 ~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~- 231 (347)
T cd06335 160 AALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLSGG- 231 (347)
T ss_pred HHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCcCc-
Confidence 9999999999988888876 7899999999999999999999999999999999999998532 2322211111
Q ss_pred cCCCCChhhhhccccEEEEEEec---CCChhhHHHHHHHhhhcCCCC----CCCchhHHHhHHHHHHHHHHHHHHhcCCc
Q 002364 266 DSASLPSETLESMQGVLVLRQHI---PESDRKKNFLSRWKNLTGGSL----GMNSYGLYAYDSVWLLAHAIESFFNQGGK 338 (930)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDav~~la~Al~~~~~~~~~ 338 (930)
.. .....+...|++....+. +.++..++|.++|+++++... .++.++..+||+++++++|++++...
T Consensus 232 ~~---~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~--- 305 (347)
T cd06335 232 NF---IEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST--- 305 (347)
T ss_pred hh---hhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHHHHHHHHHHhcCC---
Confidence 10 012234567877665433 256788999999999983111 35667789999999999999996321
Q ss_pred ceecCCccccccCCCcccCCCccccCchHHHHHHHHhC--cccccccc--eEEccCCC
Q 002364 339 ISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS--NLVGLTGP--LKFNSDRS 392 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~--~f~G~~G~--v~fd~~g~ 392 (930)
..+.+.++|+++ .+.|+.|. +.|++..+
T Consensus 306 --------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 306 --------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred --------------------------CHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 247799999876 46788775 35765433
No 71
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=100.00 E-value=1.3e-31 Score=294.56 Aligned_cols=315 Identities=24% Similarity=0.353 Sum_probs=254.2
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CChHHHHHHHHHHH-hcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~ 110 (930)
+||++++.+. .....|+++|++++|.+++++++.++.+.+.+.+ +++..++..+|+++ .++|.+||||.++..+.
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 4899998765 6788999999999999999877767666666555 79999999999999 67999999999999999
Q ss_pred HHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHh
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (930)
+++++++.++||+|+++++.+.+++ ..+||+||+.|++..++.++++++.+++|++|++||++++++... +.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l-~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRL-QELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHH-HHHHHhhc
Confidence 9999999999999999888887775 578999999999999999999999999999999999988854333 33333333
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCc-eEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMES-RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
..+..+.. ..++++ .+++...++++++.++ ++|++++..+.+..++++|.++||++.+|+||.++......+.
T Consensus 157 ~~~~~v~~-~~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~- 230 (328)
T cd06351 157 IKGIQVTV-RRLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL- 230 (328)
T ss_pred ccCceEEE-EEecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch-
Confidence 33444443 345544 3489999999999988 5555555559999999999999999999999999875544333
Q ss_pred CCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcC--CCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCcc
Q 002364 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~ 346 (930)
........|+++++...+..+..+.|..+|..... ....+...++.+||+++++
T Consensus 231 ---~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~--------------------- 286 (328)
T cd06351 231 ---EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLLL--------------------- 286 (328)
T ss_pred ---hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEEE---------------------
Confidence 34556789999999999999999999999854432 1223334455555554211
Q ss_pred ccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee-ccceEEEEEEcC
Q 002364 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (930)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~-~~~~~~vg~w~~ 416 (930)
+|+++||++|+|.+..++|++++ +.++++||.|++
T Consensus 287 -----------------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 -----------------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred -----------------------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 99999999999999999999999 899999999984
No 72
>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=8.4e-31 Score=280.30 Aligned_cols=339 Identities=15% Similarity=0.177 Sum_probs=246.3
Q ss_pred CceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC-CChHHHHHHHHHH-HhcCcEEEEc-CCC
Q 002364 29 PAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRF-METDIVAIIG-PQC 105 (930)
Q Consensus 29 ~~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~-~~~~~a~~~a~~l-i~~~v~aiiG-p~~ 105 (930)
+..|+||++|+.. ...+.|+++|++.+|.+..++++.+|+..+.... .|++.+....|++ +.++|.||+| |.+
T Consensus 16 ~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~s 91 (382)
T cd06377 16 GHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQT 91 (382)
T ss_pred CCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCCC
Confidence 4569999999865 3579999999999999988877889998887665 4899999999999 5999999999 588
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCC-CCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHH
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTL-SSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l-~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l 184 (930)
+..+..+..+|+.++||+|+++..++.. +...+.+..++.|+...++.|+++++++|+|++|++||+.+.... .|
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~----~l 167 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPT----GL 167 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHH----HH
Confidence 8888999999999999999986654332 222222334669999999999999999999999999998876333 34
Q ss_pred HHHHhhcce----EEEEEEecCCCCCCChhHH-HHHHHHHHhCC-ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 185 NDKLAERRC----RISYKSGIPPESGVNTGYV-MDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 185 ~~~l~~~g~----~v~~~~~~~~~~~~~~~~~-~~~l~~l~~~~-~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
++.++..+. .+......+..+ .+..++ .+.|+++++.+ .++|++.|+.+.+..+++++.+ +|+||++
T Consensus 168 q~l~~~~~~~~~~~~i~v~~~~~~~-~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wIv~ 240 (382)
T cd06377 168 LLLWTNHARFHLGSVLNLSRNDPST-ADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWILG 240 (382)
T ss_pred HHHHHHhcccccCceEEEEeccCcc-CChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEEEc
Confidence 444443321 122222233210 123455 99999999999 9999999999999999988765 4999998
Q ss_pred CcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCc
Q 002364 259 DWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGK 338 (930)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 338 (930)
+. .+.+.. .....-.|+++ |.+. +. ....++.||||+++|+|++.+......
T Consensus 241 ~~----~~le~~--~~~g~nigLl~-----------------~~~~---~~--~~l~ali~DAV~lvA~a~~~l~~~~~~ 292 (382)
T cd06377 241 DP----LPPEAL--RTEGLPPGLLA-----------------HGET---TQ--PPLEAYVQDALELVARAVGSATLVQPE 292 (382)
T ss_pred CC----cChhhc--cCCCCCceEEE-----------------Eeec---cc--ccHHHHHHHHHHHHHHHHHHhhhcccc
Confidence 72 111000 00112223331 1111 11 123789999999999999986311111
Q ss_pred ceecCCccccccCCCcccCCCc--c-ccCchHHHHHHHHhCcccccccceEEccCCCc--ccceEEEEEee--ccc---e
Q 002364 339 ISFSNDSRLKTMEGGNLHLGAM--S-IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSL--IHAAYDIINVI--GTG---F 408 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~--~-~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~--~~~~~~I~~~~--~~~---~ 408 (930)
.. ..-...+|.+. + +|++|..|.++|++++|+|.||+|.| ++|.| .+..++|++++ ..| |
T Consensus 293 ~~---------l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~G~~~W 362 (382)
T cd06377 293 LA---------LIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPVGQPTW 362 (382)
T ss_pred cc---------cCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccCCCccc
Confidence 00 01112356544 5 99999999999999999999999999 55777 78999999998 433 5
Q ss_pred EEEEEEcCCCCC
Q 002364 409 RMIGYWSNYSGL 420 (930)
Q Consensus 409 ~~vg~w~~~~gl 420 (930)
++||+|++...+
T Consensus 363 ~kVG~W~~~~~~ 374 (382)
T cd06377 363 TTVGSWQGGRKI 374 (382)
T ss_pred eEEEEecCCCce
Confidence 999999986433
No 73
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=100.00 E-value=6.3e-31 Score=289.80 Aligned_cols=320 Identities=18% Similarity=0.248 Sum_probs=268.6
Q ss_pred EEEEEeeCCCc---chhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLDST---IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++.+ .|.....|+++|++++| +++ .|++++++++|+.+++..+.+.+.+|+++ +|.+||||.++..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKL-GGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHH
Confidence 59999999944 56788999999999997 566 69999999999999999999999999987 9999999999998
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCC-CCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~-~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.++.+.+++.++|+|+++++.+.+++. .+|++||+.|++..++..+++++...+|+++++++.++.||+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8899999999999999998887777763 479999999999999999999999999999999999999999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
++ ..+.....++.+ ..|+.++++++++.++|+|++...+..+..++++++++|+.. ...++.++.+......
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL 229 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH
Confidence 87 355555566655 678999999999999999999988889999999999999843 3446665543322111
Q ss_pred CCCChhhhhccccEEEEEEecC--CChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCc
Q 002364 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~ 345 (930)
....+..+|+++..++.+ +++..++|.++|++++ +..++.++..+||++++++.|++++...
T Consensus 230 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~a~~~ag~~---------- 293 (333)
T cd06332 230 ----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY--GRVPSVYAAQGYDAAQLLDAALRAVGGD---------- 293 (333)
T ss_pred ----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC----------
Confidence 233456788888887766 3578899999999998 4557889999999999999999996321
Q ss_pred cccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccc
Q 002364 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHA 396 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~ 396 (930)
..+++.|.++|++++|+|++|++.||++|+....
T Consensus 294 -----------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 294 -----------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred -----------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 0136789999999999999999999999884333
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=1.8e-30 Score=287.37 Aligned_cols=330 Identities=12% Similarity=0.067 Sum_probs=262.4
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCC--CEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s 106 (930)
+||++.|+| +.+|.....+++++++++|..+++ .| ++|+++++|++++|.+++..+++|+++ +|.+|||+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 599999998 456888899999999999965544 46 589999999999999999999999987 89999999999
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCC-------CCCCCCceEeecCCchHHHHHHHHHHHhcC-ccEEEEEEEcCcccc
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTL-------SSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGR 178 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l-------~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~ 178 (930)
..+.++++++++.+||+|++.+..+.+ ....++|+||+.+++..++.+++++++..+ +++|++++.|++||+
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999875432221 123478999999999888999999888877 999999999999999
Q ss_pred chHHHHH---HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEE
Q 002364 179 NGVSALN---DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (930)
Q Consensus 179 ~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~ 255 (930)
...+.+. +.+++.|++++..+.++++ .+|+.+++.+|+++++|+|++.+.+.++..++++++++|+..+ +
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~ 232 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFEPG----TDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---I 232 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccCCC----CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---e
Confidence 7766554 6777899999998888877 8899999999999999999999999999999999999998544 2
Q ss_pred EEe-Ccc-hhcccCCCCChhhhhccccEEEEEEecCCC--------hhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHH
Q 002364 256 IAT-DWL-AYMLDSASLPSETLESMQGVLVLRQHIPES--------DRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLL 325 (930)
Q Consensus 256 i~~-~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~--------~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~l 325 (930)
+.. .+. ...+. ....+..+|++....+.+.. +..++|.++|++++ +..+...+.++||+++++
T Consensus 233 ~~~~~~~~~~~~~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~--g~~~~~~~~~~~~~~~~l 305 (357)
T cd06337 233 VTIAKALLFPEDV-----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAAT--GRQWTQPLGYAHALFEVG 305 (357)
T ss_pred EEEeccccCHHHH-----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHh--CCCccCcchHHHHHHHHH
Confidence 322 221 11110 11223346666554444432 34789999999998 445566678899999999
Q ss_pred HHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEeec
Q 002364 326 AHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG 405 (930)
Q Consensus 326 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~~ 405 (930)
++|++++... .+++.|.++|++++++++.|++.||++ ......|+.+.+
T Consensus 306 ~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~---~~~~~~~~~~~~ 354 (357)
T cd06337 306 VKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS---PIKNVAKTPLVG 354 (357)
T ss_pred HHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC---CCcccccccccc
Confidence 9999986321 137889999999999999999999875 234566666666
Q ss_pred cce
Q 002364 406 TGF 408 (930)
Q Consensus 406 ~~~ 408 (930)
++|
T Consensus 355 ~~~ 357 (357)
T cd06337 355 GQW 357 (357)
T ss_pred CCC
Confidence 544
No 75
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.97 E-value=9.6e-31 Score=285.39 Aligned_cols=369 Identities=21% Similarity=0.320 Sum_probs=299.1
Q ss_pred CCceEEEEEEeeCC-----CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc--CcEEE
Q 002364 28 RPAVVNVGALFTLD-----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAI 100 (930)
Q Consensus 28 ~~~~i~IG~i~~~s-----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~ai 100 (930)
...+..|+.++|+. ...|+....|+++|++++|..+.+|||++|.++.+|++|++..+.++..+++.. .-..+
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~ml 117 (865)
T KOG1055|consen 38 SRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLML 117 (865)
T ss_pred CCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhee
Confidence 34468888888886 234678899999999999999999999999999999999999999999999987 46666
Q ss_pred EcCCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccc
Q 002364 101 IGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRN 179 (930)
Q Consensus 101 iGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~ 179 (930)
+|. |++.+..++.-+..++.-+++|++++|.|++ +.||++||+.|++.........++++++|++|+.++++..-...
T Consensus 118 l~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~ 196 (865)
T KOG1055|consen 118 LGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSS 196 (865)
T ss_pred ccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcc
Confidence 777 9999999999999999999999999999998 78999999999999999999999999999999999999888888
Q ss_pred hHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
..+.+...+.+.+++++.+..+. .|....+.+++....|+|+-..+...|+..++++++.+|-+..|+|+...
T Consensus 197 ~~~dl~~~~~~~~ieiv~~qsf~-------~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 197 TLNDLEARLKEAGIEIVFRQSFS-------SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred hHHHHHHhhhccccEEEEeeccc-------cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 89999999999999999877654 34556688888888999999999999999999999999999999999877
Q ss_pred cchhccc-----C-CCCChhhhhccccEEEEEEe--cCCC------hhhHHHHHHHhhhcC---CCCCCCchhHHHhHHH
Q 002364 260 WLAYMLD-----S-ASLPSETLESMQGVLVLRQH--IPES------DRKKNFLSRWKNLTG---GSLGMNSYGLYAYDSV 322 (930)
Q Consensus 260 ~~~~~~~-----~-~~~~~~~~~~~~g~~~~~~~--~~~~------~~~~~f~~~~~~~~~---~~~~~~~~~~~~YDav 322 (930)
|.....- . +|.-+++..+++|.+++... .+.. ...+.|...+..+.. ........+.++|||+
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~I 349 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDAI 349 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHHH
Confidence 5544332 2 46667888899998887653 2221 123455555544331 2345667789999999
Q ss_pred HHHHHHHHHHHhcCCcceecCCccccccCCCcccCC-CccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEE
Q 002364 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLG-AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (930)
Q Consensus 323 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~ 401 (930)
|++|+|++++....+..+.+. .+.+ +.+. -.++|.++|.+++|+|++|.|.|.. |+|. ..-.|-
T Consensus 350 wa~ala~n~t~e~l~~~~~~l-----------~~f~y~~k~--i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ie 414 (865)
T KOG1055|consen 350 WALALALNKTMEGLGRSHVRL-----------EDFNYNNKT--IADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIE 414 (865)
T ss_pred HHHHHHHHHHHhcCCccceec-----------cccchhhhH--HHHHHHHHhhcccccccccceEecc-hhhH-HHHHHH
Confidence 999999999976543211000 0000 0111 1678999999999999999999966 8864 445777
Q ss_pred EeeccceEEEEEEcCCCC
Q 002364 402 NVIGTGFRMIGYWSNYSG 419 (930)
Q Consensus 402 ~~~~~~~~~vg~w~~~~g 419 (930)
|+++++++++|+|+...+
T Consensus 415 Q~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 415 QFQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HHhCCceEeecccccccc
Confidence 899999999999987653
No 76
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=1e-28 Score=272.43 Aligned_cols=319 Identities=14% Similarity=0.154 Sum_probs=260.7
Q ss_pred EEEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002364 32 VNVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (930)
Q Consensus 32 i~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (930)
|+||++.|+|. ..|.....|+++|+++||+.||+ .|++|+++.+|+++++..+.+.+.+|+++ +|.+|||+.++.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi-~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGV-NGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCc-CCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 68999999994 45788999999999999999998 69999999999999999999999999996 999999999888
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
.+.++.+++.+.++|+|+++++++.++....|++||+.+++..++..+++++.+.||+++++++.++.+|+...+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 88888899999999999987666655544468999999999999999999999999999999999999999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
+++.|+++.....++.+ ..|+..++.++++.++|+|++..+...+..++++++++|+..+ ++...+.....
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~---~~~~~~~~~~~-- 230 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ---FYNLSFVGADA-- 230 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc---EEEEeccCHHH--
Confidence 99999998777777755 6789999999999899999999988889999999999998532 22222221110
Q ss_pred CCCChhhhhccccEEEEEE----ecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 268 ASLPSETLESMQGVLVLRQ----HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
......+..+|++.... .....|..+.|.+.|++++ +...++.++..+||+++++++|++++.. +
T Consensus 231 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~y~~~~~~~~a~~~~g~---~----- 299 (336)
T cd06326 231 --LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYG-PGAPPSYVSLEGYIAAKVLVEALRRAGP---D----- 299 (336)
T ss_pred --HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhC-CCCCCCeeeehhHHHHHHHHHHHHHcCC---C-----
Confidence 01223345677765432 1224677899999999888 3346788889999999999999998521 1
Q ss_pred CccccccCCCcccCCCccccCchHHHHHHHHhCcc-cccccceEEccCC
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNL-VGLTGPLKFNSDR 391 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f-~G~~G~v~fd~~g 391 (930)
.+++.|.++|++++. .+..|.+.|++..
T Consensus 300 --------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~~ 328 (336)
T cd06326 300 --------------------PTRESLLAALEAMGKFDLGGFRLDFSPGN 328 (336)
T ss_pred --------------------CCHHHHHHHHHhcCCCCCCCeEEecCccc
Confidence 138899999999886 4444589997643
No 77
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.97 E-value=5.1e-29 Score=272.83 Aligned_cols=301 Identities=15% Similarity=0.152 Sum_probs=245.3
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+||+++|++. .+|.....|+++|++++| |++++++++|+++ +..+...+.+|++++|.+||||.+|..+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in-------G~~i~l~~~D~~~-~~~a~~~~~~li~~~V~~iiG~~~s~~~ 72 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN-------GASIELRVYDTAG-AAGAAAAARQAVAEGADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc-------CCCceEEEEeCCC-cccHHHHHHHHHHcCCCEEEccCCHHHH
Confidence 5999999985 468889999999999999 6889999999999 9999999999998899999999999999
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHh
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~ 189 (930)
.++++++.+.++|+|+++++.+ +.. .|++||+.+++..++.++++++...|++++++++.+++||++..+.+.+.++
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 322 5899999999999999999999888999999999999999999999999999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC---------------------CceEEEEEcChh-hHHHHHHHHHHcC
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---------------------ESRVIVLHVSPS-LGFQVFSVAKYLG 247 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~viil~~~~~-~~~~~~~~a~~~g 247 (930)
+.|++|+....++++ .+|+.+++.+|++. ++|+|++...+. ++..+.++++..+
T Consensus 150 ~~G~~vv~~~~~~~~----~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~ 225 (336)
T cd06339 150 QLGGTVVAIESYDPS----PTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYY 225 (336)
T ss_pred HcCCceeeeEecCCC----HHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhc
Confidence 999999998888876 89999999999998 999999988886 6666777777655
Q ss_pred cccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCC-CchhHHHhHHHHHHH
Q 002364 248 MMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM-NSYGLYAYDSVWLLA 326 (930)
Q Consensus 248 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~YDav~~la 326 (930)
.....-.+++++++...... ....+..+|++...+.. +...+|.++|+++| +..| +.+++.+|||+.+++
T Consensus 226 ~~~~~~~~~g~~~~~~~~~~----~~~g~~~~g~~~~~~~~---~~~~~f~~~y~~~~--~~~p~~~~~a~~YDa~~l~~ 296 (336)
T cd06339 226 GVPGDVPLYGTSRWYSGTPA----PLRDPDLNGAWFADPPW---LLDANFELRYRAAY--GWPPLSRLAALGYDAYALAA 296 (336)
T ss_pred cCcCCCCEEEeccccCCCCC----cccCcccCCcEEeCCCc---ccCcchhhhHHHHh--cCCCCchHHHHHHhHHHHHH
Confidence 31123347777766543111 22334567776554421 12348999999998 4567 899999999999998
Q ss_pred HHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHHh-CcccccccceEEccCCC
Q 002364 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRS 392 (930)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~G~~G~v~fd~~g~ 392 (930)
.++++... +. +|.+ ..|+|++|+++||++|+
T Consensus 297 ~~~~~~~~------------------------------~~-----al~~~~~~~g~~G~~~f~~~g~ 328 (336)
T cd06339 297 ALAQLGQG------------------------------DA-----ALTPGAGFSGVTGVLRLDPDGV 328 (336)
T ss_pred HHHHcccc------------------------------cc-----ccCCCCccccCcceEEECCCCe
Confidence 87776310 01 3333 46899999999999997
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=2.5e-28 Score=265.14 Aligned_cols=299 Identities=13% Similarity=0.082 Sum_probs=233.2
Q ss_pred hhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCCcEE
Q 002364 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLL 124 (930)
Q Consensus 45 g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~i 124 (930)
+.....|+++|+|+||+.||++ |++|+++..|. ++|..++..+.+|++++|.+|+|+.+|.++.++.+++.+.++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 4567899999999999999996 99999999985 789999999999998899999999999999999999999999999
Q ss_pred ecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCC
Q 002364 125 SFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPP 203 (930)
Q Consensus 125 s~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~ 203 (930)
+++++++.+++ ..+||+||+.|++..++.++++++...+.+++++|+.|++||+...+.+++.+++.|++|+..+.++.
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 99999999987 56899999999999999999999887799999999999999999999999999999999999888876
Q ss_pred CCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCCCCChhhhhccccEEE
Q 002364 204 ESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLV 283 (930)
Q Consensus 204 ~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~ 283 (930)
+.....+|+.......+.+++|+|++.....+....+.... +. .... ....|+..
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~---~~~~--------------------~g~~G~~~ 222 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL---PRPV--------------------AGSAGLVP 222 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc---cccc--------------------ccccCccc
Confidence 52122345443222233478999999765543222111000 00 0000 11122221
Q ss_pred EEE-ecCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecCCccccccCCCcccCCCccc
Q 002364 284 LRQ-HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSI 362 (930)
Q Consensus 284 ~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (930)
... +..+.+..++|.++|+++| +..|+.++..+||++++++.|++++.+.
T Consensus 223 ~~~~~~~~~~~~~~f~~~f~~~~--g~~p~~~~a~aY~av~~~a~Ai~~AGs~--------------------------- 273 (347)
T TIGR03863 223 TAWHRAWERWGATQLQSRFEKLA--GRPMTELDYAAWLAVRAVGEAVTRTRSA--------------------------- 273 (347)
T ss_pred cccCCcccchhHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC---------------------------
Confidence 111 1224467889999999998 5677888999999999999999997432
Q ss_pred cCchHHHHHHHHhCcc--ccccc-ceEEcc-CCCcccceEEEEE
Q 002364 363 FDDGMLLLGNILQSNL--VGLTG-PLKFNS-DRSLIHAAYDIIN 402 (930)
Q Consensus 363 ~~~g~~l~~~l~~~~f--~G~~G-~v~fd~-~g~~~~~~~~I~~ 402 (930)
++++|.++|+++.+ .+..| +++|.+ ||+.. ....+.+
T Consensus 274 --d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~ 314 (347)
T TIGR03863 274 --DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR-QPVLLVH 314 (347)
T ss_pred --CHHHHHHHHcCCCceecccCCCcceeeCCCcccc-cceEecc
Confidence 48999999999877 57877 699986 67644 3334433
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=3e-27 Score=260.96 Aligned_cols=308 Identities=11% Similarity=0.062 Sum_probs=251.6
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++ +..|.....|+++|++++|+.||+ .|++++++++|+++++..+.+.+.+|+++ +|.+|||+.++..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi-~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGI-AGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCc-CCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccc
Confidence 599999998 466889999999999999999998 59999999999999999999999999998 9999999998887
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc-cccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~ 187 (930)
+.++ +.+.+.++|+|++.++++.+.+ .|++|++.+++..++..+++++...+.+++++++.++. ||+...+.+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 7666 8889999999998776665543 57889999999999999999999889999999987665 999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
+++.|+++.....++.+ ..|+...+.++++.++|+|++..++..+..++++++++|+..+.. +........+
T Consensus 157 ~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~--~~~~~~~~~~-- 228 (341)
T cd06341 157 LAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKVV--LSGTCYDPAL-- 228 (341)
T ss_pred HHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCEE--EecCCCCHHH--
Confidence 99999998877666654 678999999999999999999999889999999999999865422 1211111111
Q ss_pred CCCChhhhhccccEEEEEEecC---CChhhHHHHHHHhhhcC-CCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcceecC
Q 002364 268 ASLPSETLESMQGVLVLRQHIP---ESDRKKNFLSRWKNLTG-GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~~~ 343 (930)
.....+..+|++...++.| ..|..+.|.+.+++... .+..++.++..+||+++++++|++++...
T Consensus 229 ---~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~-------- 297 (341)
T cd06341 229 ---LAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC-------- 297 (341)
T ss_pred ---HHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC--------
Confidence 1233457899888887765 45777888776554331 13478899999999999999999996321
Q ss_pred CccccccCCCcccCCCccccCchHH-HHHHHHhCccccccc
Q 002364 344 DSRLKTMEGGNLHLGAMSIFDDGML-LLGNILQSNLVGLTG 383 (930)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~-l~~~l~~~~f~G~~G 383 (930)
.+++. +.++|++++.....|
T Consensus 298 --------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 --------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred --------------------CChHHHHHHHhhcCCCCCCCC
Confidence 12676 999999997654444
No 80
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.96 E-value=5.8e-27 Score=253.82 Aligned_cols=224 Identities=32% Similarity=0.531 Sum_probs=206.6
Q ss_pred EEEEEeeCCC-----cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 002364 33 NVGALFTLDS-----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-----DIVAIIG 102 (930)
Q Consensus 33 ~IG~i~~~s~-----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-----~v~aiiG 102 (930)
.||++++.+. ..+.....++..|++++|++ ++|+++++.++|++|++..+...+.++++. ++.+|||
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999875 34567789999999999998 479999999999999999999999999974 8999999
Q ss_pred CCChhHHHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchH
Q 002364 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV 181 (930)
Q Consensus 103 p~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~ 181 (930)
|.++..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..++.++++++++++|++|+++|+++++|....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999999988887 6789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcc
Q 002364 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (930)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 261 (930)
+.+++.+++.|+++.....++.. ..++...+++++..++++||+++.++++..++++|+++||+ .+++||.++.+
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~~~----~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~ 232 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIPDG----SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLW 232 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcCCC----HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChh
Confidence 99999999999999998888866 58999999999999999999999999999999999999998 88999999876
Q ss_pred hhc
Q 002364 262 AYM 264 (930)
Q Consensus 262 ~~~ 264 (930)
...
T Consensus 233 ~~~ 235 (298)
T cd06269 233 LTS 235 (298)
T ss_pred hcc
Confidence 543
No 81
>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=2.2e-26 Score=250.65 Aligned_cols=278 Identities=19% Similarity=0.285 Sum_probs=230.7
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|++ +..|.....|+++|+++||+ ||+ +|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi-~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGI-GGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHH
Confidence 599999999 55688899999999999999 888 69999999999999999999999999986 9999999998888
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
+.++.+.+.+.++|+|++.++++.+. ...+|+||+.+++..++..+++++...||+++++++.++.+|+...+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 88888999999999999876654433 45689999999999999999999999999999999998899999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
++.|+++.....++.. ..++...+.+++..++|+|++..+...+..+++++++.|+..+ ++.++......
T Consensus 158 ~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~~--- 227 (312)
T cd06333 158 PKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASPD--- 227 (312)
T ss_pred HHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcHH---
Confidence 9999999877777655 5678889999988889999999888888889999999998644 33333322211
Q ss_pred CCChhhhhccccEEEEEEe------cCC----ChhhHHHHHHHhhhcCCCCC-CCchhHHHhHHHHHHH
Q 002364 269 SLPSETLESMQGVLVLRQH------IPE----SDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLA 326 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~------~~~----~~~~~~f~~~~~~~~~~~~~-~~~~~~~~YDav~~la 326 (930)
......+..+|++.+..+ .|+ ++..++|.++|+++| +.. +..++..+|||+++++
T Consensus 228 -~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~--g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 228 -FLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY--GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred -HHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh--CCCCCCchhHHHHHHHHHHH
Confidence 012334567787655422 232 356899999999998 444 8889999999999998
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=1.8e-26 Score=250.04 Aligned_cols=280 Identities=26% Similarity=0.383 Sum_probs=239.3
Q ss_pred EEEEEeeCCC---cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002364 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~~ 108 (930)
+||+++|+++ ..|.....|+++|++++|+++|+ +|++++++++|+++++..+...+.+++++ +|.+||||.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 5999999984 56788999999999999999987 69999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~ 187 (930)
+.+++++++..+||+|++.+..+.+.+ ..+|++|++.|++..++..+++++.+++|+++++++.++.+++...+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 999999999999999999887776654 5689999999999999999999999999999999999988999999999999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 267 (930)
+++.|+++.....++.+ .+++...++++++.++++|++++++..+..+++++++.|+. .++.|+..+.+......
T Consensus 160 ~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~ 234 (299)
T cd04509 160 FKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL 234 (299)
T ss_pred HHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH
Confidence 99999998876666654 46888999999888899999999989999999999999987 77899998765443221
Q ss_pred CCCChhhhhccccEEEEEEecCCC--hhhHHHH---HHHhhhcCCCCCCCchhHHHhHHHHH
Q 002364 268 ASLPSETLESMQGVLVLRQHIPES--DRKKNFL---SRWKNLTGGSLGMNSYGLYAYDSVWL 324 (930)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~YDav~~ 324 (930)
....+.+.|+++..++.+.. +..+.|. ..++..+ +..++.++.++||++++
T Consensus 235 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY--EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh--CCCCChhhhhhcceeee
Confidence 23446788999888876543 3334443 3444444 66788999999999988
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=99.94 E-value=1.2e-24 Score=235.62 Aligned_cols=280 Identities=25% Similarity=0.341 Sum_probs=239.1
Q ss_pred EEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+||+++|++ +..|.....|+++|++++|+.||+ +|++++++++|+++++..+.+.+.++++++|.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999998 566889999999999999999987 6999999999999999999999999999999999999999888
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcC-ccEEEEEEEcCccccchHHHHHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNGVSALNDKL 188 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~-w~~v~ii~~d~~~g~~~~~~l~~~l 188 (930)
..+.+.+.+.+||+|++.+..+.+.+..+|++|++.|++..++.++++++...+ |+++++++.++.++....+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 899999999999999988877766544579999999999999999999998887 9999999999889999999999999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchhcccCC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 268 (930)
++.|+++.....++.+ ..++...+.++++.++++|++.+.+..+..+++++++.|+ ...|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~- 231 (298)
T cd06268 160 KKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL- 231 (298)
T ss_pred HHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH-
Confidence 9999998877666654 5688999999998899999999998999999999999987 3457776654432211
Q ss_pred CCChhhhhccccEEEEEEecCC--ChhhHHHH-HHHhhhcCCCCCCCchhHHHhHHHHHHH
Q 002364 269 SLPSETLESMQGVLVLRQHIPE--SDRKKNFL-SRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (930)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~YDav~~la 326 (930)
....+...|+++..++.+. .+....|. +.|++.+ +..++.++..+||++++++
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ---ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ---HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--CCCcccchHHHHHHHHHHc
Confidence 2234567888888887653 34445565 7788777 6788999999999999998
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=99.93 E-value=4.6e-24 Score=221.46 Aligned_cols=324 Identities=16% Similarity=0.221 Sum_probs=247.7
Q ss_pred hhHHHHHHHHHHHHhcCCCCCCCCEEEE----------EEecCCC--ChHHHHHHHHHHHhc--CcEEEEcCCChhHHHH
Q 002364 46 RVAKIAIEEAVKDVNSNSSILHGTKLNI----------TMQSSNC--SGFIGMVEALRFMET--DIVAIIGPQCSTVAHI 111 (930)
Q Consensus 46 ~~~~~a~~~Av~~iN~~~~il~g~~l~l----------~~~D~~~--~~~~a~~~a~~li~~--~v~aiiGp~~s~~~~~ 111 (930)
+..+.|++.|++.+++.. ..+|.++.+ ++.+..| +.=.++++..+|+.. .-.+++||.|+.++.+
T Consensus 18 ~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 456789999999988755 336888888 7766666 345577777778765 6899999999999999
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH------HhcCccEEEEEEEcCccccch---HH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV------SYYGWNAVSVIFVDNEYGRNG---VS 182 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l------~~~~w~~v~ii~~d~~~g~~~---~~ 182 (930)
++++...+++|+||.++-. ++-..++++-|+.|+.+..+..+.++. .+++|++.. ||.++.-.++- ++
T Consensus 97 ~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999865533 443455689999999999999999998 489998666 99777543332 45
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
++....+.-+..+.+.+.+. +.+++..+++.++ .++||||+|+.+.+.++++.+ ++...+|++|..|...
T Consensus 174 al~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~ 243 (380)
T cd06369 174 ALEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFN 243 (380)
T ss_pred hhhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEeccc
Confidence 55555555444454443332 3578888888876 469999999999999999987 3444699999998664
Q ss_pred hcccCCCCChhhhhccccEEEEEEecCCChhhHHHHHHHhhhcCCCCCCC-chhHHHhHHHHHHHHHHHHHHhcCCccee
Q 002364 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMN-SYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (930)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~YDav~~la~Al~~~~~~~~~~~~ 341 (930)
.... .+....++++.++.+++..|+++..++. ..+ +.... .+++..||||+++|+||++.+..+++..
T Consensus 244 ~sy~---~d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~f--n~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~~- 312 (380)
T cd06369 244 DVYY---ENTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTD--NSLLKDDYVAAYHDGVLLFGHVLKKFLESQEGVQ- 312 (380)
T ss_pred chhc---cCcchHHHHhceEEEecCCCCCcccccC-----CCC--CcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC-
Confidence 3321 2235567899999999888866554431 112 22222 8899999999999999999998866531
Q ss_pred cCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee--ccceEEEEEEcCCCC
Q 002364 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI--GTGFRMIGYWSNYSG 419 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~--~~~~~~vg~w~~~~g 419 (930)
+.++.+.|+|.+|+|++|.+++|+|||| ..+|.++-.. .+++++||.|+...+
T Consensus 313 ------------------------~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~n 367 (380)
T cd06369 313 ------------------------TFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTSTN 367 (380)
T ss_pred ------------------------cHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCCC
Confidence 4789999999999999999999999995 7889998775 478999999988553
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.87 E-value=4.3e-21 Score=201.01 Aligned_cols=219 Identities=26% Similarity=0.451 Sum_probs=187.8
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
+.++|+|++.. +|+||.+.+ ++.+.|+++||++++++++|.+ +++++ .+|.+++.++.+|++|++++
T Consensus 23 ~~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~--~~~~~-------~~~~~~~~~l~~G~vDi~~~ 89 (247)
T PRK09495 23 ADKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLD--YTLKP-------MDFSGIIPALQTKNVDLALA 89 (247)
T ss_pred cCCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCc--eEEEe-------CCHHHHHHHHhCCCcCEEEe
Confidence 35689999875 789998864 5789999999999999999966 44444 34999999999999999988
Q ss_pred eeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCcccc
Q 002364 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
+++.+++|.+.++||.||+.+++.+++++..
T Consensus 90 ~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 120 (247)
T PRK09495 90 GITITDERKKAIDFSDGYYKSGLLVMVKANN------------------------------------------------- 120 (247)
T ss_pred cCccCHHHHhhccccchheecceEEEEECCC-------------------------------------------------
Confidence 8899999999999999999999999998665
Q ss_pred chhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002364 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~ 702 (930)
.++++++||. +++||+..|+.
T Consensus 121 ---------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~ 141 (247)
T PRK09495 121 ---------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTG 141 (247)
T ss_pred ---------------------------------------------------------CCCCChHHhC--CCEEEEecCch
Confidence 5689999997 88999999988
Q ss_pred HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc--cEEEeCccccccceeeeeCCCC
Q 002364 703 AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQEFTKSGWGFAFPRDS 780 (930)
Q Consensus 703 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~s 780 (930)
..+++.... +..++..+.+.++.+++|.+ |++|+++.+.....++.++.. ++..++.......++++++|++
T Consensus 142 ~~~~l~~~~--~~~~i~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 215 (247)
T PRK09495 142 SVDYAKANI--KTKDLRQFPNIDNAYLELGT----GRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGS 215 (247)
T ss_pred HHHHHHhcC--CCCceEEcCCHHHHHHHHHc----CceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcH
Confidence 888875432 44567778899999999999 999999999988888777642 5667766666678899999999
Q ss_pred cchHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 781 PLAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 781 pl~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
.+++.+|++|.++.++|.++++.++|+.
T Consensus 216 ~l~~~~n~al~~~~~~g~~~~i~~k~~~ 243 (247)
T PRK09495 216 ELREKVNGALKTLKENGTYAEIYKKWFG 243 (247)
T ss_pred HHHHHHHHHHHHHHHCCcHHHHHHHHcC
Confidence 9999999999999999999999999997
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.87 E-value=7.6e-21 Score=203.41 Aligned_cols=224 Identities=17% Similarity=0.276 Sum_probs=187.4
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHH----hCCC-cccEEEEecCCCCCCCCHHHHHHHHHcCcc
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVN----LLPY-AVPYQFVAFGDGHKNPSYTQLVDSITTGVF 537 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~----~l~f-~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~ 537 (930)
..+.|+||+.. +|+||.+.++ ++.+.||++|++++|++ ++|. .+++++++ .+|..++..|..|++
T Consensus 38 ~~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~ 107 (302)
T PRK10797 38 KNGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTF 107 (302)
T ss_pred hCCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCc
Confidence 35679999986 8899998865 67899999998777765 6653 36677777 458889999999999
Q ss_pred cEEEeeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCC
Q 002364 538 DAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRG 617 (930)
Q Consensus 538 D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (930)
|++++++++|++|.+.++||.||+..+..+++++..
T Consensus 108 Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~-------------------------------------------- 143 (302)
T PRK10797 108 DFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG-------------------------------------------- 143 (302)
T ss_pred cEEecCCccCcchhhcceecccEeeccEEEEEECCC--------------------------------------------
Confidence 999989999999999999999999999999998754
Q ss_pred CccccchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEE
Q 002364 618 PPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGY 697 (930)
Q Consensus 618 ~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~ 697 (930)
.|++++||. |++||+
T Consensus 144 ---------------------------------------------------------------~i~sl~dL~--Gk~V~v 158 (302)
T PRK10797 144 ---------------------------------------------------------------DIKDFADLK--GKAVVV 158 (302)
T ss_pred ---------------------------------------------------------------CCCChHHcC--CCEEEE
Confidence 478999997 889999
Q ss_pred EeCchHHHHHHHhhc--cccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhc--Cc-cEEEeCccccccce
Q 002364 698 QEGSFAEYYLSQELN--ISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS--QC-SFRIVGQEFTKSGW 772 (930)
Q Consensus 698 ~~~s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~--~~-~l~~~~~~~~~~~~ 772 (930)
..|+....++.+... .+..+++.+.+.++.+++|.+ |++|+++.+...+.+...+ .. .++++++.+...++
T Consensus 159 ~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~----GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~ 234 (302)
T PRK10797 159 TSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLES----GRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAY 234 (302)
T ss_pred eCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHc----CCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCce
Confidence 999988887743221 123567788999999999999 9999999998776654333 22 47788877777789
Q ss_pred eeeeCCCCc-chHHHHHHHHhhhhccchHHHHHHhccc
Q 002364 773 GFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLMK 809 (930)
Q Consensus 773 ~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~~ 809 (930)
+++++|+++ ++..+|.+|.+++++|.+++|.++|+..
T Consensus 235 ~~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 235 GCMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred eEEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 999999987 9999999999999999999999999994
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=1.4e-20 Score=194.70 Aligned_cols=221 Identities=26% Similarity=0.417 Sum_probs=183.7
Q ss_pred eEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 002364 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (930)
Q Consensus 467 lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 546 (930)
||||+.. +++||.+.+. ++.+.|+++||++++++++|+++++...+ |.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeecc---------cccccccccccccccccccccc
Confidence 6899965 8899999886 88999999999999999999876665544 9999999999999999989999
Q ss_pred ecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccchhh
Q 002364 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (930)
Q Consensus 547 t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (930)
+++|.+.++||.||+....++++++.+..
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~--------------------------------------------------- 97 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAP--------------------------------------------------- 97 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTC---------------------------------------------------
T ss_pred cccccccccccccccchhheeeecccccc---------------------------------------------------
Confidence 99999999999999999999999975310
Q ss_pred hHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchHHHH
Q 002364 627 LWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEYY 706 (930)
Q Consensus 627 ~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~~~~ 706 (930)
....+++++||. +.++|+..|+...++
T Consensus 98 ---------------------------------------------------~~~~~~~~~dl~--~~~i~~~~g~~~~~~ 124 (225)
T PF00497_consen 98 ---------------------------------------------------PIKTIKSLDDLK--GKRIGVVRGSSYADY 124 (225)
T ss_dssp ---------------------------------------------------STSSHSSGGGGT--TSEEEEETTSHHHHH
T ss_pred ---------------------------------------------------ccccccchhhhc--CcccccccchhHHHH
Confidence 014677888995 778999999988888
Q ss_pred HHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc--cEEEeCccccccceeeeeCCCCc-ch
Q 002364 707 LSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQEFTKSGWGFAFPRDSP-LA 783 (930)
Q Consensus 707 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~sp-l~ 783 (930)
+.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++.+.. ............+++++++++.+ ++
T Consensus 125 l~~~~~~-~~~~~~~~~~~~~~~~l~~----g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 199 (225)
T PF00497_consen 125 LKQQYPS-NINIVEVDSPEEALEALLS----GRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELL 199 (225)
T ss_dssp HHHHTHH-TSEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHH
T ss_pred hhhhccc-hhhhcccccHHHHHHHHhc----CCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHH
Confidence 8553321 4567778999999999999 999999999999999988865 23332445556667777766555 99
Q ss_pred HHHHHHHHhhhhccchHHHHHHhcc
Q 002364 784 VDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 784 ~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+.||++|.+|.++|.+++|.+||++
T Consensus 200 ~~~n~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 200 EIFNKAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhCcHHHHHHHHHcC
Confidence 9999999999999999999999986
No 88
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.84 E-value=8.2e-20 Score=192.69 Aligned_cols=222 Identities=21% Similarity=0.349 Sum_probs=179.0
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
..++|+|++.. +|+||.+.++ ++++.|+++||++++++++|.++++ ++ ..|+.++.++..|++|++++
T Consensus 24 ~~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~~--~~-------~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCTW--VA-------SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceEE--Ee-------CCHHHHHHHHHCCCCCEEEe
Confidence 45789999885 6899999865 6899999999999999999966544 43 34999999999999999988
Q ss_pred eeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCcccc
Q 002364 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
.+..+++|.+.++||.||+.+..++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------- 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999998765
Q ss_pred chhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002364 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~ 702 (930)
+...+++||. |++||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl~--g~~Igv~~gs~ 143 (260)
T PRK15010 123 ---------------------------------------------------------PIQPTLDSLK--GKHVGVLQGST 143 (260)
T ss_pred ---------------------------------------------------------CCCCChhHcC--CCEEEEecCch
Confidence 2234688996 88899999998
Q ss_pred HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHH-HHhcC--ccEEEeCcccc-----ccceee
Q 002364 703 AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL-FLSSQ--CSFRIVGQEFT-----KSGWGF 774 (930)
Q Consensus 703 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~--~~l~~~~~~~~-----~~~~~~ 774 (930)
...++.........+++.+.+.++++++|.+ |++|+++.+.....+ +..+. .++...+..+. ..++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (260)
T PRK15010 144 QEAYANETWRSKGVDVVAYANQDLVYSDLAA----GRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGV 219 (260)
T ss_pred HHHHHHHhcccCCceEEecCCHHHHHHHHHc----CCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEE
Confidence 7777754332222456677888999999999 999999998877654 33332 24555543221 224578
Q ss_pred eeCCCCc-chHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 775 AFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 775 ~~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+++++.+ |+..+|++|.++.++|.+++|.+||++
T Consensus 220 a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 220 GLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred EEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9998876 999999999999999999999999997
No 89
>PRK11260 cystine transporter subunit; Provisional
Probab=99.84 E-value=7.7e-20 Score=193.59 Aligned_cols=223 Identities=22% Similarity=0.379 Sum_probs=189.3
Q ss_pred CCCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEE
Q 002364 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (930)
Q Consensus 462 ~~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~ 541 (930)
...++|+|++.. +++||.+.+. ++.+.|+.+|+++++++++|.+ +++++ ..|.+++.+|.+|++|+++
T Consensus 38 ~~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~e~~~-------~~~~~~~~~l~~G~~D~~~ 105 (266)
T PRK11260 38 KERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVK--ASLKP-------TKWDGMLASLDSKRIDVVI 105 (266)
T ss_pred hcCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCe--EEEEe-------CCHHHHHHHHhcCCCCEEE
Confidence 356789999875 7889988764 7889999999999999999966 44444 3499999999999999998
Q ss_pred eeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccc
Q 002364 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (930)
Q Consensus 542 ~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (930)
++++.+++|.+.+.||.||...+..+++++...
T Consensus 106 ~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------------- 138 (266)
T PRK11260 106 NQVTISDERKKKYDFSTPYTVSGIQALVKKGNE----------------------------------------------- 138 (266)
T ss_pred eccccCHHHHhccccCCceeecceEEEEEcCCc-----------------------------------------------
Confidence 888899999999999999999999999887551
Q ss_pred cchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCc
Q 002364 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS 701 (930)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s 701 (930)
..+++++||. ++++|+..|+
T Consensus 139 ----------------------------------------------------------~~~~~~~dL~--g~~Igv~~G~ 158 (266)
T PRK11260 139 ----------------------------------------------------------GTIKTAADLK--GKKVGVGLGT 158 (266)
T ss_pred ----------------------------------------------------------CCCCCHHHcC--CCEEEEecCC
Confidence 3678899996 8889999999
Q ss_pred hHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCcc-EEEeCccccccceeeeeCCCC
Q 002364 702 FAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCS-FRIVGQEFTKSGWGFAFPRDS 780 (930)
Q Consensus 702 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~k~s 780 (930)
....++.+ +.+..++..+++..+++++|.+ |++|+++.+.....+++.+... +.+....+...+++++++|++
T Consensus 159 ~~~~~l~~--~~~~~~i~~~~~~~~~l~~L~~----GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~ 232 (266)
T PRK11260 159 NYEQWLRQ--NVQGVDVRTYDDDPTKYQDLRV----GRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGN 232 (266)
T ss_pred cHHHHHHH--hCCCCceEecCCHHHHHHHHHc----CCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCC
Confidence 88888754 2345567788999999999999 9999999999888888776543 555556666778999999998
Q ss_pred c-chHHHHHHHHhhhhccchHHHHHHhccc
Q 002364 781 P-LAVDLSSAILELAENGDLQRIHDKWLMK 809 (930)
Q Consensus 781 p-l~~~i~~~i~~l~e~G~~~~~~~~w~~~ 809 (930)
+ ++..+|++|.++.++|.++++.++|+..
T Consensus 233 ~~l~~~ln~~l~~~~~~g~~~~i~~k~~~~ 262 (266)
T PRK11260 233 PDLLKAVNQAIAEMQKDGTLKALSEKWFGA 262 (266)
T ss_pred HHHHHHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 8 9999999999999999999999999983
No 90
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.84 E-value=1.3e-19 Score=190.05 Aligned_cols=219 Identities=18% Similarity=0.289 Sum_probs=180.7
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhC-CCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEE
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~ 541 (930)
+.++|+||+.. +++||.+.++.++++.|+++||++++++++ |..+++++.+ .+|.....+|.+|++|+++
T Consensus 36 ~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 56789999996 899999875447899999999999999994 8655666665 3477788999999999999
Q ss_pred eeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccc
Q 002364 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (930)
Q Consensus 542 ~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (930)
+.+++|++|.+.++||.||+.++..+++++..
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------ 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC------------------------------------------------
Confidence 99999999999999999999999999998765
Q ss_pred cchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCc
Q 002364 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS 701 (930)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s 701 (930)
.+++++||. |++||+..|+
T Consensus 139 -----------------------------------------------------------~~~s~~dL~--g~~V~v~~gs 157 (259)
T PRK11917 139 -----------------------------------------------------------NYKSLADMK--GANIGVAQAA 157 (259)
T ss_pred -----------------------------------------------------------CCCCHHHhC--CCeEEEecCC
Confidence 478899997 8999999999
Q ss_pred hHHHHHHHhhcc--ccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccccccceeeeeCCC
Q 002364 702 FAEYYLSQELNI--SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFAFPRD 779 (930)
Q Consensus 702 ~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~ 779 (930)
...+.+.+.... ...++..+++..+.+++|.. |++|+++.+...+.++..+ +..++++.+...+++++++|+
T Consensus 158 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~----GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~~~~a~~k~ 231 (259)
T PRK11917 158 TTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDA----KRVDAFSVDKSILLGYVDD--KSEILPDSFEPQSYGIVTKKD 231 (259)
T ss_pred cHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHc----CCCcEEEecHHHHHHhhhc--CCeecCCcCCCCceEEEEeCC
Confidence 877766433211 12345678889999999999 9999999998876665544 235666667777899999999
Q ss_pred Cc-chHHHHHHHHhhhhccchHHHHHHhc
Q 002364 780 SP-LAVDLSSAILELAENGDLQRIHDKWL 807 (930)
Q Consensus 780 sp-l~~~i~~~i~~l~e~G~~~~~~~~w~ 807 (930)
++ ++..+|..|.++.. .+++|.+||-
T Consensus 232 ~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 232 DPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred CHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 88 99999999999865 7999999994
No 91
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.83 E-value=2.1e-19 Score=189.06 Aligned_cols=218 Identities=25% Similarity=0.438 Sum_probs=183.5
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
++|+|++.. +|+||.+.++ ++++.|+++|+++++++.+|.+ +++++ .+|..++.++.+|++|++++++
T Consensus 24 ~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAK--CKFVE-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhCCCcCEEEecC
Confidence 689999965 7899998765 7899999999999999999966 55554 4599999999999999998878
Q ss_pred eeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccch
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVI 624 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (930)
..+++|.+.+.||.||+..+..+++++..
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS--------------------------------------------------- 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC---------------------------------------------------
Confidence 88999999999999999999999998765
Q ss_pred hhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchHH
Q 002364 625 TILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAE 704 (930)
Q Consensus 625 ~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~~ 704 (930)
+.+.+++||. ++++|+..|+...
T Consensus 121 -------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~~ 143 (250)
T TIGR01096 121 -------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTHE 143 (250)
T ss_pred -------------------------------------------------------CcCCChHHcC--CCEEEEecCchHH
Confidence 3456788996 8889999999888
Q ss_pred HHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc---cEEEeCccccc-----cceeeee
Q 002364 705 YYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC---SFRIVGQEFTK-----SGWGFAF 776 (930)
Q Consensus 705 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~---~l~~~~~~~~~-----~~~~~~~ 776 (930)
.++.+.+.. ..++..+.+.++++++|.+ |++|+++.+...+.+++++.. ++.+++..+.. ..+++++
T Consensus 144 ~~l~~~~~~-~~~~~~~~s~~~~~~~L~~----g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 218 (250)
T TIGR01096 144 QYLKDYFKP-GVDIVEYDSYDNANMDLKA----GRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGL 218 (250)
T ss_pred HHHHHhccC-CcEEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEE
Confidence 888554421 3456778899999999999 999999999999988877644 36666544332 2478999
Q ss_pred CCCCc-chHHHHHHHHhhhhccchHHHHHHhc
Q 002364 777 PRDSP-LAVDLSSAILELAENGDLQRIHDKWL 807 (930)
Q Consensus 777 ~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~ 807 (930)
+++++ ++..||++|.+|.++|.+++|.+||+
T Consensus 219 ~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 219 RKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred eCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 99887 99999999999999999999999996
No 92
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.83 E-value=2.5e-19 Score=187.45 Aligned_cols=217 Identities=20% Similarity=0.366 Sum_probs=179.5
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
..+|+|++.. +|+||.+.+. ++.+.|+++|+++++++++|.+++| +. .+|..++..+.+|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~--~~-------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTF--SN-------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEE--Ee-------CCHHHHhHHHhCCCcCEEEEc
Confidence 4689999985 7899998764 7889999999999999999976555 43 359999999999999998888
Q ss_pred eeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccc
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (930)
++.+++|.+.++||.||+..+..++.+..
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~--------------------------------------------------- 116 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQG--------------------------------------------------- 116 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCC---------------------------------------------------
Confidence 88899999999999999998877665432
Q ss_pred hhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchH
Q 002364 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFA 703 (930)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~ 703 (930)
.+++++||. +++||+..|+..
T Consensus 117 ---------------------------------------------------------~~~~~~dL~--g~~Igv~~g~~~ 137 (243)
T PRK15007 117 ---------------------------------------------------------KYTSVDQLK--GKKVGVQNGTTH 137 (243)
T ss_pred ---------------------------------------------------------CCCCHHHhC--CCeEEEecCcHH
Confidence 356789996 889999999988
Q ss_pred HHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccc-----cccceeeeeCC
Q 002364 704 EYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEF-----TKSGWGFAFPR 778 (930)
Q Consensus 704 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~~~~~~k 778 (930)
.+++.+. .+..+++.+.+.++.+++|.. |++|+++.+...+.+++.+...+..++..+ ...++++++++
T Consensus 138 ~~~l~~~--~~~~~~~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 211 (243)
T PRK15007 138 QKFIMDK--HPEITTVPYDSYQNAKLDLQN----GRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVRQ 211 (243)
T ss_pred HHHHHHh--CCCCeEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEeC
Confidence 8887543 244566778899999999999 999999999888888877766555544322 23357899998
Q ss_pred CCc-chHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 779 DSP-LAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 779 ~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+.+ ++..||++|.++.++|.++++.++|+.
T Consensus 212 ~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 212 GNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred CCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 776 999999999999999999999999985
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.82 E-value=4.4e-19 Score=187.03 Aligned_cols=222 Identities=18% Similarity=0.313 Sum_probs=177.3
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.++|+|++.. +|+||.+.++ ++++.|+++|+++++++++|.++++... .|+.++.++.+|++|+++++
T Consensus 25 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEec
Confidence 5789999874 6889988765 7889999999999999999977665544 39999999999999999988
Q ss_pred eeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccc
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (930)
++.+++|.+.++||.||...+.++++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS-------------------------------------------------- 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999998765
Q ss_pred hhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchH
Q 002364 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFA 703 (930)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~ 703 (930)
+...+++||. +++||+..|+..
T Consensus 123 --------------------------------------------------------~~~~~~~dl~--g~~Igv~~g~~~ 144 (259)
T PRK15437 123 --------------------------------------------------------DIQPTVESLK--GKRVGVLQGTTQ 144 (259)
T ss_pred --------------------------------------------------------CCCCChHHhC--CCEEEEecCcHH
Confidence 2234788986 888999999987
Q ss_pred HHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHH-HHhcC--ccEEEeC-----ccccccceeee
Q 002364 704 EYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL-FLSSQ--CSFRIVG-----QEFTKSGWGFA 775 (930)
Q Consensus 704 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~--~~l~~~~-----~~~~~~~~~~~ 775 (930)
..++.........+++.+.+.++.+++|.. |++|+++.+.....+ +..+. .++.+.+ +.+...+++++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~----grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia 220 (259)
T PRK15437 145 ETFGNEHWAPKGIEIVSYQGQDNIYSDLTA----GRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMG 220 (259)
T ss_pred HHHHHhhccccCceEEecCCHHHHHHHHHc----CCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEE
Confidence 777754322223456778899999999999 999999998876643 23322 2343322 22223346788
Q ss_pred eCCCCc-chHHHHHHHHhhhhccchHHHHHHhccc
Q 002364 776 FPRDSP-LAVDLSSAILELAENGDLQRIHDKWLMK 809 (930)
Q Consensus 776 ~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~~ 809 (930)
++++.+ +++.+|.+|.++.++|.+++|.+||++.
T Consensus 221 ~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~ 255 (259)
T PRK15437 221 LRKEDNELREALNKAFAEMRADGTYEKLAKKYFDF 255 (259)
T ss_pred EeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcCC
Confidence 887766 9999999999999999999999999983
No 94
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.81 E-value=7.2e-19 Score=186.93 Aligned_cols=223 Identities=18% Similarity=0.241 Sum_probs=180.7
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCc-ccEEEEecCCCCCCCCHHHHHHHHHcCcccEEE
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYA-VPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~-~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~ 541 (930)
..+.|+|++. +|+||.+.+. ++.+.|+++||++++++++|.+ +++.. .+|+.++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 4577999986 6789988764 6789999999999999999964 33333 3599999999999999988
Q ss_pred eeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccc
Q 002364 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (930)
Q Consensus 542 ~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (930)
++++++++|...++||.||+.+...+++++...
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~----------------------------------------------- 130 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNP----------------------------------------------- 130 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCC-----------------------------------------------
Confidence 888999999999999999999999999987651
Q ss_pred cchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhh-CCCCeEEEeC
Q 002364 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRK-SDDPIGYQEG 700 (930)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~~~v~~~~~ 700 (930)
..+++++||.. .+.+||+..|
T Consensus 131 ----------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g 152 (275)
T TIGR02995 131 ----------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGG 152 (275)
T ss_pred ----------------------------------------------------------CCCCCHHHhccCCCceEEEeCC
Confidence 35778888853 2678999999
Q ss_pred chHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc--cEEEeCcc---ccccceeee
Q 002364 701 SFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQE---FTKSGWGFA 775 (930)
Q Consensus 701 s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~---~~~~~~~~~ 775 (930)
+...+++.+ .+.+..+++.+++.++.+++|.+ |++|+++.+...+.+++++.. ++..+... .....++++
T Consensus 153 ~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~----grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (275)
T TIGR02995 153 GTEEKLARE-AGVKREQIIVVPDGQSGLKMVQD----GRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAA 227 (275)
T ss_pred cHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHc----CCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEE
Confidence 988888843 44444567788999999999999 999999999998888876532 44443321 111234788
Q ss_pred eCCCCc-chHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 776 FPRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 776 ~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
++++++ |++.||++|.++.++|.+++|.++|--
T Consensus 228 ~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~~ 261 (275)
T TIGR02995 228 FRPEDKELRDAFNVELAKLKESGEFAKIIAPYGF 261 (275)
T ss_pred ECCCCHHHHHHHHHHHHHHHhChHHHHHHHHhCC
Confidence 888776 999999999999999999999999943
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.77 E-value=8.4e-18 Score=191.71 Aligned_cols=223 Identities=16% Similarity=0.209 Sum_probs=178.4
Q ss_pred CCCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEE
Q 002364 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (930)
Q Consensus 462 ~~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~ 541 (930)
.+.++|||++.. .|+.+..+ ++...|+++||++++++++|.++++... .+|++++.+|.+|++|+++
T Consensus 40 ~~~g~LrVg~~~----~P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~ 106 (482)
T PRK10859 40 QERGELRVGTIN----SPLTYYIG-NDGPTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAA 106 (482)
T ss_pred HhCCEEEEEEec----CCCeeEec-CCCcccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEe
Confidence 356789999985 24444333 2334999999999999999976554422 5699999999999999998
Q ss_pred eeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccc
Q 002364 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (930)
Q Consensus 542 ~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (930)
+++++|++|.+.++||.||+....++++++..
T Consensus 107 ~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------ 138 (482)
T PRK10859 107 AGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------ 138 (482)
T ss_pred ccCcCChhhhccCcccCCceeeeEEEEEeCCC------------------------------------------------
Confidence 88999999999999999999999999988765
Q ss_pred cchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCc
Q 002364 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS 701 (930)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s 701 (930)
+.+++++||. |++|++..|+
T Consensus 139 ----------------------------------------------------------~~i~~l~dL~--Gk~I~V~~gS 158 (482)
T PRK10859 139 ----------------------------------------------------------PRPRSLGDLK--GGTLTVAAGS 158 (482)
T ss_pred ----------------------------------------------------------CCCCCHHHhC--CCeEEEECCC
Confidence 5688999997 8899999999
Q ss_pred hHHHHHHHhh-cccccc--ceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccccccceeeeeCC
Q 002364 702 FAEYYLSQEL-NISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFAFPR 778 (930)
Q Consensus 702 ~~~~~l~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k 778 (930)
...+.+.+.. ..+... ...+.+.++++++|.+ |++|+++.+...+.+......++.+........+++++++|
T Consensus 159 ~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~----G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av~k 234 (482)
T PRK10859 159 SHVETLQELKKKYPELSWEESDDKDSEELLEQVAE----GKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWALPP 234 (482)
T ss_pred cHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHC----CCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEEeC
Confidence 8887774321 112222 2345789999999999 99999999988777655555566665444445678999999
Q ss_pred -CCc-chHHHHHHHHhhhhccchHHHHHHhccc
Q 002364 779 -DSP-LAVDLSSAILELAENGDLQRIHDKWLMK 809 (930)
Q Consensus 779 -~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~~ 809 (930)
+++ |+..+|++|.++.++|.+++|.+||+..
T Consensus 235 ~~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg~ 267 (482)
T PRK10859 235 SGDDSLYAALLDFFNQIKEDGTLARLEEKYFGH 267 (482)
T ss_pred CCCHHHHHHHHHHHHHhhcCCHHHHHHHHHhhh
Confidence 455 9999999999999999999999999983
No 96
>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=99.73 E-value=4.3e-19 Score=169.78 Aligned_cols=107 Identities=31% Similarity=0.531 Sum_probs=82.8
Q ss_pred chhHHHHHHHHHHHHHHHhhhhhcccCCCCCC-------CccccchhhhHHHHHHhhhcCcC-cccccchhhhHHHHHHH
Q 002364 586 SPLMWTVTACFFVVVGIVVWILEHRINDEFRG-------PPKRQVITILWFSLSTLFFAHKE-NTVSTLGRLVLIIWLFV 657 (930)
Q Consensus 586 ~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~~~-~~~s~s~R~~~~~w~~~ 657 (930)
+++||++++++++++++++|++++..+.+++. .....+.+++|++++++++|+.. .|++.+.|++.++|+++
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 57899999999999999999999987766655 22345889999999999977654 89999999999999999
Q ss_pred HHhhhhhhhhhhheeeecccccCCCCChHHhhhCC
Q 002364 658 VLIINSSYTASLTSILTVQQLYSPINGIESLRKSD 692 (930)
Q Consensus 658 ~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 692 (930)
+++++++|||+|+|+||.|+++++|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999766
No 97
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.73 E-value=8.1e-17 Score=207.36 Aligned_cols=217 Identities=13% Similarity=0.198 Sum_probs=179.1
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
+.++|+|++.. +|+||.+.+. +|++.||++|++++|++++|.+ +++++. .+|..+...|.+|++|++.+
T Consensus 300 ~~~~l~v~~~~--~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~~ 368 (1197)
T PRK09959 300 QHPDLKVLENP--YSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIPG 368 (1197)
T ss_pred HCCceEEEcCC--CCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEeec
Confidence 35679999886 8999999875 7999999999999999999955 666653 45888999999999998754
Q ss_pred eeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCcccc
Q 002364 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
+..+++|.+.++||.||+..++++++++..
T Consensus 369 -~~~t~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------- 398 (1197)
T PRK09959 369 -AIYSEDRENNVLFAEAFITTPYVFVMQKAP------------------------------------------------- 398 (1197)
T ss_pred -ccCCccccccceeccccccCCEEEEEecCC-------------------------------------------------
Confidence 567999999999999999999999987544
Q ss_pred chhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002364 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~ 702 (930)
..+.+ +. .|+++|+..|+.
T Consensus 399 ---------------------------------------------------------~~~~~---~~-~g~~vav~~g~~ 417 (1197)
T PRK09959 399 ---------------------------------------------------------DSEQT---LK-KGMKVAIPYYYE 417 (1197)
T ss_pred ---------------------------------------------------------CCccc---cc-cCCEEEEeCCcc
Confidence 12222 22 488899999998
Q ss_pred HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc--cE-EEeCccccccceeeeeCCC
Q 002364 703 AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SF-RIVGQEFTKSGWGFAFPRD 779 (930)
Q Consensus 703 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l-~~~~~~~~~~~~~~~~~k~ 779 (930)
..+++.+.+ +..+++.+++.++++++|.+ |++||++.+...+.|+++++. .+ ......+....++|+++|+
T Consensus 418 ~~~~~~~~~--p~~~~~~~~~~~~~l~av~~----G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~ 491 (1197)
T PRK09959 418 LHSQLKEMY--PEVEWIKVDNASAAFHKVKE----GELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRG 491 (1197)
T ss_pred hHHHHHHHC--CCcEEEEcCCHHHHHHHHHc----CCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCC
Confidence 888886543 55688899999999999999 999999999999999888742 23 3333444556789999999
Q ss_pred Cc-chHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 780 SP-LAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 780 sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
.| |+..+|++|..+.++ .+++|.+||+.
T Consensus 492 ~~~L~~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 492 EPELKDIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred CHHHHHHHHHHHHhCCHH-HHHHHHhhccc
Confidence 98 999999999999998 69999999997
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=99.71 E-value=1.7e-16 Score=165.41 Aligned_cols=208 Identities=19% Similarity=0.232 Sum_probs=156.1
Q ss_pred eeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHH---HHHHcCcccEEEe
Q 002364 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLV---DSITTGVFDAVVG 542 (930)
Q Consensus 466 ~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~---~~l~~g~~D~~~~ 542 (930)
+|+||+.. +|+||.+.+. .||++||+++|++++|++++ +++ .+|++++ ..|.+|++|+++
T Consensus 1 ~l~vg~~~--~~pPf~~~~~-----~Gfdvdl~~~ia~~lg~~~~--~~~-------~~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKDG-----SGFENKIAAALAAAMGRKVV--FVW-------LAKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeCC--CCCCCccCCC-----CcchHHHHHHHHHHhCCCeE--EEE-------eccchhhHHHHHHhcCCccEEE-
Confidence 48899987 8999999641 69999999999999996644 444 3488766 699999999988
Q ss_pred eeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCcccc
Q 002364 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
+++++++| +.||.||+.++.++++++.+.
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 48887777 679999999999999998761
Q ss_pred chhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHH--hhhCCC-CeEEEe
Q 002364 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIES--LRKSDD-PIGYQE 699 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~d--L~~~~~-~v~~~~ 699 (930)
..+++++| |. |+ ++|+..
T Consensus 93 ---------------------------------------------------------~~~~~~~d~~L~--g~~~vgv~~ 113 (246)
T TIGR03870 93 ---------------------------------------------------------LDIKSWNDPRLK--KVSKIGVIF 113 (246)
T ss_pred ---------------------------------------------------------CCCCCccchhhc--cCceEEEec
Confidence 35777765 65 87 999999
Q ss_pred CchHHHHHHHhhccc-----cccceecC---------CHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc-cEE--E
Q 002364 700 GSFAEYYLSQELNIS-----KSRLVALR---------TPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC-SFR--I 762 (930)
Q Consensus 700 ~s~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~-~l~--~ 762 (930)
|+..+.++.+..... ...+..+. +..+.+++|.. |++||++.+...+.+++.+.. ++. .
T Consensus 114 gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~----GrvDa~i~~~~~~~~~~~~~~~~~~~~~ 189 (246)
T TIGR03870 114 GSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVAT----GKADLAVAFAPEVARYVKASPEPLRMTV 189 (246)
T ss_pred CChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHc----CCCCEEEeeHHhHHHHHHhCCCCceEEe
Confidence 999888885421110 01111121 35788999999 999999998777766666432 333 2
Q ss_pred eCccc-------c--ccceeeeeCCCCc-chHHHHHHHHhhhhccchHHHHHHh
Q 002364 763 VGQEF-------T--KSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKW 806 (930)
Q Consensus 763 ~~~~~-------~--~~~~~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w 806 (930)
+++.. . ..+++++++|+.+ |++.||++|.+|. |.+++|.++|
T Consensus 190 ~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 190 IPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 33221 1 1135899999998 9999999999999 4899999998
No 99
>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=99.70 E-value=2.4e-16 Score=167.04 Aligned_cols=229 Identities=13% Similarity=0.147 Sum_probs=164.7
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhC-CCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l-~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
.++|+++.. +|+||.+.+. ++...|+..++++++++++ ++++++...+ |++++.++ .|+.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~~~~~~~p---------w~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYEHRFVRVS---------FARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCceeEEECC---------HHHHHHHH-hcCCCeEEe
Confidence 568998877 7899998753 6788999999999999998 8776666544 99999999 788887777
Q ss_pred eeeeecCceeeeeecccccc-cceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccc
Q 002364 543 DITIVTNRTKIVDFSQPYAA-SGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~-~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (930)
++++|++|.+.++||.||+. ...++++++..... +.
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~-~~------------------------------------------ 119 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG-VR------------------------------------------ 119 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh-cc------------------------------------------
Confidence 79999999999999999975 57888888754100 00
Q ss_pred cchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhh-hCCCCeEEEeC
Q 002364 622 QVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLR-KSDDPIGYQEG 700 (930)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~-~~~~~v~~~~~ 700 (930)
.+.....++.+|. .+++++|+..|
T Consensus 120 -------------------------------------------------------~~~d~~~~~~~l~~l~g~~vgv~~g 144 (268)
T TIGR02285 120 -------------------------------------------------------DEQDGDVDLKKLLASKKKRLGVIAS 144 (268)
T ss_pred -------------------------------------------------------ccCCCCccHHHHhcCCCeEEEEecc
Confidence 0001001233332 12678999887
Q ss_pred chHHHHHH---Hhhccc-cccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC----ccEEEeCccc--ccc
Q 002364 701 SFAEYYLS---QELNIS-KSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ----CSFRIVGQEF--TKS 770 (930)
Q Consensus 701 s~~~~~l~---~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~----~~l~~~~~~~--~~~ 770 (930)
+.....+. +..... ..++..+.+.++.+++|.. |++|+++.+...+.|++.+. ..+....... ...
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~----GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (268)
T TIGR02285 145 RSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEK----GRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHI 220 (268)
T ss_pred eeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHc----CCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccce
Confidence 65433221 212111 1234556777889999999 99999999999888887642 1344443221 223
Q ss_pred ceeeeeCCCC---cchHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 771 GWGFAFPRDS---PLAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 771 ~~~~~~~k~s---pl~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+++++++|+. .+++.||++|.+|.++|.+++|.+||+.
T Consensus 221 ~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 221 SVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 5788999874 3999999999999999999999999997
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.68 E-value=1.2e-15 Score=163.00 Aligned_cols=225 Identities=26% Similarity=0.353 Sum_probs=182.0
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
....++|++... ..+||.+.+.+.+.+.|+++|+++++++.++......+++ ..|++++..+..|++|++++
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 103 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIA 103 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEe
Confidence 456788888863 4569998876336999999999999999998653344443 46999999999999999999
Q ss_pred eeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCcccc
Q 002364 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
.+++|++|.+.++||.||+..+..+++++...
T Consensus 104 ~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 135 (275)
T COG0834 104 GMTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------ 135 (275)
T ss_pred ccccCHHHhccccccccccccCeEEEEECCCC------------------------------------------------
Confidence 99999999999999999999999999998771
Q ss_pred chhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002364 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~ 702 (930)
..+.+++||. ++++|+..|+.
T Consensus 136 ---------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~ 156 (275)
T COG0834 136 ---------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTT 156 (275)
T ss_pred ---------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcc
Confidence 2378999998 88999999998
Q ss_pred --HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHH--HhcCcc-EEEeCccccc-cceeeee
Q 002364 703 --AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF--LSSQCS-FRIVGQEFTK-SGWGFAF 776 (930)
Q Consensus 703 --~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~--~~~~~~-l~~~~~~~~~-~~~~~~~ 776 (930)
....... ..+...++.+++..+.++++.+ |++|+++.+...+.+. ..+..+ .......... .++++++
T Consensus 157 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~al~~----Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (275)
T COG0834 157 DEAEEKAKK--PGPNAKIVAYDSNAEALLALKN----GRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIAL 230 (275)
T ss_pred hhHHHHHhh--ccCCceEEeeCCHHHHHHHHHc----CCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEe
Confidence 3443322 2234577889999999999999 9999999999988883 333332 2233333333 6899999
Q ss_pred CCC--CcchHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 777 PRD--SPLAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 777 ~k~--spl~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+|+ ..+++.+|.+|.++.++|.++++.++|+.
T Consensus 231 ~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 231 RKGDDPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred ccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 999 46999999999999999999999999998
No 101
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.67 E-value=2.8e-15 Score=153.55 Aligned_cols=214 Identities=29% Similarity=0.521 Sum_probs=177.3
Q ss_pred eEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 002364 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (930)
Q Consensus 467 lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 546 (930)
|+|++.. .++||.+.+. ++.+.|++.++++.+.+++|.+ +++++ ..|.+++.+|.+|++|+++.....
T Consensus 1 l~i~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDA-NGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 5778876 7889998864 8999999999999999999955 55554 239999999999999999887767
Q ss_pred ecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccchhh
Q 002364 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (930)
Q Consensus 547 t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (930)
+.+|.+.+.|+.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 888988999999999999999998766
Q ss_pred hHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchHHHH
Q 002364 627 LWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEYY 706 (930)
Q Consensus 627 ~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~~~~ 706 (930)
++.+++||. |+++++..++....+
T Consensus 96 ------------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~ 119 (218)
T cd00134 96 ------------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKY 119 (218)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHH
Confidence 445889996 888999988877777
Q ss_pred HHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC-ccEEEeCcc--ccccceeeeeCCCCc-c
Q 002364 707 LSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVGQE--FTKSGWGFAFPRDSP-L 782 (930)
Q Consensus 707 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~--~~~~~~~~~~~k~sp-l 782 (930)
+.+... ...+..+.+.++.+++|.+ |++|+++.+.....+...+. +++.++... .....++++..++++ +
T Consensus 120 ~~~~~~--~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l 193 (218)
T cd00134 120 LKKALP--EAKVVSYDDNAEALAALEN----GRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKEL 193 (218)
T ss_pred HHHhCC--cccEEEeCCHHHHHHHHHc----CCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHH
Confidence 754332 3456778889999999999 89999999998888877665 667776653 344456777777775 9
Q ss_pred hHHHHHHHHhhhhccchHHHHHHhc
Q 002364 783 AVDLSSAILELAENGDLQRIHDKWL 807 (930)
Q Consensus 783 ~~~i~~~i~~l~e~G~~~~~~~~w~ 807 (930)
...++++|.++.++|.++.+.++|+
T Consensus 194 ~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 194 LDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHHHHHhCccHHHHHHhhC
Confidence 9999999999999999999999996
No 102
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.66 E-value=8.4e-16 Score=197.98 Aligned_cols=227 Identities=13% Similarity=0.165 Sum_probs=186.9
Q ss_pred CCcccccCCCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHc
Q 002364 455 PRGWVFPNNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITT 534 (930)
Q Consensus 455 p~~~~~~~~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~ 534 (930)
.+.|. .+.++|+||+.. +|.|+.+..+.+|++.||.+|+++.+++++| +++++++. .+|++++.++.+
T Consensus 48 e~~~l--~~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG--~~~e~v~~------~~~~~~l~~l~~ 115 (1197)
T PRK09959 48 ELRWL--ASKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALN--IKLTLREY------ADHQKAMDALEE 115 (1197)
T ss_pred HHHHH--hhCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcC--CceEEEeC------CCHHHHHHHHHc
Confidence 34555 456789999986 5655555433488999999999999999999 55777652 479999999999
Q ss_pred CcccEEEeeeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCC
Q 002364 535 GVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDE 614 (930)
Q Consensus 535 g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~ 614 (930)
|++|++.+.++.+++|.+.++||.||+....++++++..
T Consensus 116 g~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~----------------------------------------- 154 (1197)
T PRK09959 116 GEVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHD----------------------------------------- 154 (1197)
T ss_pred CCCcEecCccccccccccchhcCCCccCCCceEEEeCCC-----------------------------------------
Confidence 999999888899999999999999999999999998754
Q ss_pred CCCCccccchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCC
Q 002364 615 FRGPPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP 694 (930)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 694 (930)
.+++++|+. +++
T Consensus 155 ------------------------------------------------------------------~~~~~~~l~--~~~ 166 (1197)
T PRK09959 155 ------------------------------------------------------------------SMRPLTSSK--PVN 166 (1197)
T ss_pred ------------------------------------------------------------------CCCCccccc--CeE
Confidence 456677775 788
Q ss_pred eEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc--cEEEeCcc-ccccc
Q 002364 695 IGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQE-FTKSG 771 (930)
Q Consensus 695 v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~-~~~~~ 771 (930)
+++..|+...+++.+.+ |..+++.+++..+++++|.. |++||++.+...+.|++.++. ++.+++.. .....
T Consensus 167 i~~~~g~~~~~~~~~~~--p~~~i~~~~s~~~al~av~~----G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~ 240 (1197)
T PRK09959 167 IARVANYPPDEVIHQSF--PKATIISFTNLYQALASVSA----GQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQY 240 (1197)
T ss_pred EEEeCCCCCHHHHHHhC--CCCEEEeCCCHHHHHHHHHc----CCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCc
Confidence 99999998888886544 66788999999999999999 999999999999999888743 45555322 22334
Q ss_pred eeeeeCCCCc-chHHHHHHHHhhhhccchHHHHHHhccc
Q 002364 772 WGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLMK 809 (930)
Q Consensus 772 ~~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~~ 809 (930)
..++++|+.| |...+|++|..+.++|.. +|.++|+..
T Consensus 241 ~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 241 NFFLTRKESVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred eeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 6688899988 889999999999999966 999999973
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.65 E-value=4.8e-15 Score=151.67 Aligned_cols=215 Identities=28% Similarity=0.520 Sum_probs=179.6
Q ss_pred eeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeee
Q 002364 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDIT 545 (930)
Q Consensus 466 ~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~ 545 (930)
+|+||+.. .++||...+. ++.+.|+.+|+++.+.+++|.+ +++.+ ..|..++..+.+|++|++++...
T Consensus 1 ~l~v~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 47889973 8889988764 6789999999999999999955 55554 35999999999999999998776
Q ss_pred eecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccchh
Q 002364 546 IVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVIT 625 (930)
Q Consensus 546 ~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (930)
.+.+|.+.+.++.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 6788888899999999999999888655
Q ss_pred hhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchHHH
Q 002364 626 ILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEY 705 (930)
Q Consensus 626 ~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~~~ 705 (930)
++++++||. |+++++..|+....
T Consensus 97 -------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~ 119 (219)
T smart00062 97 -------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEE 119 (219)
T ss_pred -------------------------------------------------------CCCChHHhC--CCEEEEecCccHHH
Confidence 578999996 88899998887777
Q ss_pred HHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC--ccEEEeCccccc-cceeeeeCCCCc-
Q 002364 706 YLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ--CSFRIVGQEFTK-SGWGFAFPRDSP- 781 (930)
Q Consensus 706 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~~~~~~k~sp- 781 (930)
++... .+..++..+.+..+.+.+|.. |++|+++...+...+...+. +++.++...... ..++++++++++
T Consensus 120 ~~~~~--~~~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (219)
T smart00062 120 LLKKL--YPEAKIVSYDSQAEALAALKA----GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPE 193 (219)
T ss_pred HHHHh--CCCceEEEcCCHHHHHHHhhc----CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHH
Confidence 77443 233466677888999999999 99999999999888877665 567777665555 778999999987
Q ss_pred chHHHHHHHHhhhhccchHHHHHHhc
Q 002364 782 LAVDLSSAILELAENGDLQRIHDKWL 807 (930)
Q Consensus 782 l~~~i~~~i~~l~e~G~~~~~~~~w~ 807 (930)
+.+.++++|.++.++|.++++.++|+
T Consensus 194 ~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 194 LLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHHHHHhCchHHHHHhccC
Confidence 99999999999999999999999986
No 104
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.63 E-value=8.5e-15 Score=151.94 Aligned_cols=210 Identities=15% Similarity=0.212 Sum_probs=158.6
Q ss_pred eEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 002364 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (930)
Q Consensus 467 lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 546 (930)
|||++.. .|+||.+.+ ..|+++||++++++++|.++++...+ ..+..++..+.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~~-----~~G~~~el~~~i~~~~g~~i~~~~~~-------~~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNEK-----GEGFENKIAQLLADDLGLPLEYTWFP-------QRRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeCC--CCCCccCCC-----CCchHHHHHHHHHHHcCCceEEEecC-------cchhhHHHHHhcCCccEEEe----
Confidence 7888885 788988642 36999999999999999886666554 22444677899999999875
Q ss_pred ecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccchhh
Q 002364 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (930)
Q Consensus 547 t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (930)
+++|.+.++||.||+..++++++++...
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~~---------------------------------------------------- 91 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDSL---------------------------------------------------- 91 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCCc----------------------------------------------------
Confidence 4778889999999999999999987741
Q ss_pred hHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCchHHHH
Q 002364 627 LWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSFAEYY 706 (930)
Q Consensus 627 ~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~~~~~ 706 (930)
..+++++|+...+++||+..|+...++
T Consensus 92 -----------------------------------------------------~~~~~~~d~~l~g~~V~v~~g~~~~~~ 118 (232)
T TIGR03871 92 -----------------------------------------------------LDVKSLDDPRLKKLRIGVFAGTPPAHW 118 (232)
T ss_pred -----------------------------------------------------ccccchhhhhhcCCeEEEEcCChHHHH
Confidence 367788883223888999999988888
Q ss_pred HHHhhccccccce---------ecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC-ccEEEeCccc------ccc
Q 002364 707 LSQELNISKSRLV---------ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVGQEF------TKS 770 (930)
Q Consensus 707 l~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~------~~~ 770 (930)
+.+. +.. .++. ...+..+.+.+|.+ |++|+++.+...+.|+.++. .++.+..... ...
T Consensus 119 l~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (232)
T TIGR03871 119 LARH-GLV-ENVVGYSLFGDYRPESPPGRMVEDLAA----GEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDY 192 (232)
T ss_pred HHhc-Ccc-cccccccccccccccCCHHHHHHHHHc----CCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccc
Confidence 8542 211 1211 13467899999999 99999999988888877653 2344433211 233
Q ss_pred ceeeeeCCCCc-chHHHHHHHHhhhhccchHHHHHHhc
Q 002364 771 GWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 807 (930)
Q Consensus 771 ~~~~~~~k~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~ 807 (930)
+++++++++++ ++..||++|.++.+ .+++|.+||-
T Consensus 193 ~~~~~~~~~~~~l~~~~n~~l~~~~~--~~~~i~~kyg 228 (232)
T TIGR03871 193 RIAMGVRKGDKAWKDELNAVLDRRQA--EIDAILREYG 228 (232)
T ss_pred eEEEEEecCCHHHHHHHHHHHHHHHH--HHHHHHHHcC
Confidence 56888898877 99999999999864 6999999994
No 105
>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=99.58 E-value=2.4e-13 Score=144.09 Aligned_cols=216 Identities=20% Similarity=0.316 Sum_probs=177.0
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
+||+++|.+ ...+.....+++.|++++ |..+++++.|+++++....+.+.++...++.++||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 556677788888888887 4667888999999998888888999988999999999887776
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC-ccccchHHHHHHHHh
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 189 (930)
.+...+...++|+|++.+..+... .+++++++.+++..++..+++++.+.+|+++++++.+. .++....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 688889999999999877665544 56889999999999999999999999999999999777 677788899999999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC-CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcch
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM-ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 262 (930)
+.|.++......+.. ...++......+++. ++++|+++++ ..+..+++++.+.|+.+.++.|++.+.+.
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 998776644443332 235677777777766 6888888877 88899999999999874567777766543
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=99.38 E-value=3.8e-11 Score=137.09 Aligned_cols=310 Identities=14% Similarity=0.145 Sum_probs=170.1
Q ss_pred CceEEEEEEeeCCCcc---hhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 002364 29 PAVVNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC 105 (930)
Q Consensus 29 ~~~i~IG~i~~~s~~~---g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 105 (930)
..+-+|++++|+|+.. |...+.||..|. ++++ +.+.++.++|+..+... ....+.+.+++.+||||..
T Consensus 217 ~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~----~~~~~l~~~Dt~~~~~~--~~~~~a~~~ga~~ViGPL~ 287 (536)
T PF04348_consen 217 APPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA----DSRPELRFYDTNADSAD--ALYQQAVADGADFVIGPLL 287 (536)
T ss_dssp -----EEEEE--SSTTHHHHHHHHHHHHHHH------T----T--S-EEEEETTTS-HH--HHHHHHHHTT--EEE---S
T ss_pred CCccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc----cCCCceEEecCCCCCHH--HHHHHHHHcCCCEEEcCCC
Confidence 3467899999999554 677788888888 2221 34567888998877333 3466677789999999999
Q ss_pred hhHHHHHHHhhcc--CCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHH
Q 002364 106 STVAHIVSYVSNE--LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 106 s~~~~~v~~~~~~--~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~ 183 (930)
.+....++..-.. ..||++.....+..-. -+.++.+.-+....+..+|+.+..-|+++..|++.+++||+...+.
T Consensus 288 k~~V~~l~~~~~~~~~~vp~LaLN~~~~~~~---~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~a 364 (536)
T PF04348_consen 288 KSNVEALAQLPQLQAQPVPVLALNQPDNSQA---PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEA 364 (536)
T ss_dssp HHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHH
T ss_pred HHHHHHHHhcCcccccCCceeeccCCCcccC---ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHH
Confidence 9998888877653 5899998766554311 2456666666678899999999999999999999999999999999
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCcchh
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 263 (930)
|.+.+.+.|+.+.....+. . ..++...++.-...+.|.|++.+.+.+++.+--...-.. ...-..+.++....
T Consensus 365 F~~~W~~~gg~~~~~~~~~-~----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~~--a~~lPvyatS~~~~ 437 (536)
T PF04348_consen 365 FNQQWQALGGQVAEVSYYG-S----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFHF--AGDLPVYATSRSYS 437 (536)
T ss_dssp HHHHHHHHHSS--EEEEES-S----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT-T---TT-EEEE-GGG--
T ss_pred HHHHHHHcCCCceeeEecC-C----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhccccc--CCCCCEEEeccccC
Confidence 9999999998876655555 2 568888888655568999999999988887766554321 22333444443322
Q ss_pred cccCCCCChhhhhccccEEEEEE-ec--CCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHHHHHHHHHHHhcCCcce
Q 002364 264 MLDSASLPSETLESMQGVLVLRQ-HI--PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (930)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~-~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~ 340 (930)
.. .+......+.|+..+.. +. +..+..+.+...|.... ....-..+.+|||..++.+
T Consensus 438 g~----~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---~~~~RL~AlG~DA~~L~~~------------- 497 (536)
T PF04348_consen 438 GS----PNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---NSLQRLYALGIDAYRLAPR------------- 497 (536)
T ss_dssp HH----T-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHHT-------------
T ss_pred CC----CCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc---cHHHHHHHHHHHHHHHHHH-------------
Confidence 11 12334457888876653 32 22333333443333211 0111123456666554411
Q ss_pred ecCCccccccCCCcccCCCccccCchHHHHHHHHhCcccccccceEEccCCCcccceEEEEEee
Q 002364 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~~G~v~fd~~g~~~~~~~~I~~~~ 404 (930)
-.-++.+....+.|.||.+++|++|. +.....-..+.
T Consensus 498 --------------------------l~~l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~f~ 534 (536)
T PF04348_consen 498 --------------------------LPQLRQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQFR 534 (536)
T ss_dssp --------------------------HHHHHHSTT--EEETTEEEEE-TT-B-EEEE-EEEEEE
T ss_pred --------------------------HHHHhhCCCCcccCCceeEEECCCCe-EEEeecceeec
Confidence 11234445567899999999999986 55555544443
No 107
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.34 E-value=7.2e-12 Score=117.41 Aligned_cols=123 Identities=33% Similarity=0.561 Sum_probs=106.4
Q ss_pred CCCChHHhhhC-CCCeEEEeCchHHHHHHHhhccc------c---ccceecCCHHHHHHHHhcCCCCCceEEEEecchhH
Q 002364 681 PINGIESLRKS-DDPIGYQEGSFAEYYLSQELNIS------K---SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (930)
Q Consensus 681 ~i~s~~dL~~~-~~~v~~~~~s~~~~~l~~~~~~~------~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 750 (930)
||++++||..+ ++++|+..|+..+.++.+..... . .++..+.+..+++.+|.. |+ ||++.+.+.+
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----g~-da~v~d~~~~ 75 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRV----SN-YAFLMESTYL 75 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHc----CC-CEEEeehHhH
Confidence 47899999843 26899999999999985532210 0 256678999999999999 89 9999999999
Q ss_pred HHHHhcCccEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 751 ELFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 751 ~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
.++..+.|++.+++..+...+++++++|+++|++.+|.+|.+|.++|.++++.++|+.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 76 DYELSQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred HHHHhCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 9988888999999888888899999999999999999999999999999999999986
No 108
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.28 E-value=4.7e-11 Score=121.41 Aligned_cols=221 Identities=16% Similarity=0.172 Sum_probs=177.5
Q ss_pred CCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 463 ~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
..+.|||++.+. |..+... ++...|+++++.+++++.||.+ .+..+. .+-+.++.+|.+|++|++.+
T Consensus 21 ~rGvLrV~tins----p~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aa 87 (473)
T COG4623 21 ARGVLRVSTINS----PLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAA 87 (473)
T ss_pred hcCeEEEEeecC----ccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceecc
Confidence 357899999974 4444443 5556799999999999999955 555552 45799999999999999999
Q ss_pred eeeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCcccc
Q 002364 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (930)
Q Consensus 543 ~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
++....+|.+.+....-|+..++.++.++..
T Consensus 88 gl~~~~~~l~~~~~gP~y~svs~qlVyRkG~------------------------------------------------- 118 (473)
T COG4623 88 GLLYNSERLKNFQPGPTYYSVSQQLVYRKGQ------------------------------------------------- 118 (473)
T ss_pred cccCChhHhcccCCCCceecccHHHHhhcCC-------------------------------------------------
Confidence 9999999999999888899999999988877
Q ss_pred chhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCch
Q 002364 623 VITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGSF 702 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s~ 702 (930)
...+++++|. +..+.+..|+.
T Consensus 119 ---------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs~ 139 (473)
T COG4623 119 ---------------------------------------------------------YRPRSLGQLK--GRQITVAKGSA 139 (473)
T ss_pred ---------------------------------------------------------CCCCCHHHcc--CceeeccCCcH
Confidence 5667899997 77788889987
Q ss_pred HHHHHHHh--hcccc--ccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccccccceeeeeCC
Q 002364 703 AEYYLSQE--LNISK--SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFAFPR 778 (930)
Q Consensus 703 ~~~~l~~~--~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k 778 (930)
..+.++.. ...|. -+.-.-.+.++.++.+.. |.++..+.++..+..+.+-++++.+.-+.-...+.++.+|.
T Consensus 140 ~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~----Gkldytiads~~is~~q~i~P~laVafd~tde~~v~Wy~~~ 215 (473)
T COG4623 140 HVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAE----GKLDYTIADSVEISLFQRVHPELAVAFDLTDEQPVAWYLPR 215 (473)
T ss_pred HHHHHHHHHHhhcchhhhhhcccccHHHHHHHHhc----CCcceeeeccHHHHHHHHhCccceeeeecccccCceeeccC
Confidence 66655321 11221 112223467899999999 99999999999998888878887777666566789999998
Q ss_pred CC--cchHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 779 DS--PLAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 779 ~s--pl~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+. .|...++..+..+.|.|.++++.+||++
T Consensus 216 ~dd~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 216 DDDSTLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred CchHHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 64 4999999999999999999999999997
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=98.89 E-value=1.1e-07 Score=100.54 Aligned_cols=202 Identities=12% Similarity=0.084 Sum_probs=145.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||+++|.+ .........+++.++++. |+ ++.+.|+.+++....+.+.+++..++.++|+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g~--~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------GY--QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------CC--eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999985 445566677777777761 33 5667788888877888888888889999987666555444
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (930)
....+.+.++|+|.+....+. .+++++..+++...+..+++++...+-++++++..+.. ++....+.+++.++
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 678888899999987665443 25677888888999999999999889999999986544 56667889999998
Q ss_pred hcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 190 ERR-CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 190 ~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+.| ..+....... .+..+....+.++.+.+ ++++++. +...+..+++++.++|+..+..+
T Consensus 146 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i 208 (264)
T cd01537 146 EAGPIEIVLVQEGD----WDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDI 208 (264)
T ss_pred HcCCcChhhhccCC----CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCe
Confidence 887 4333222222 23566677777777666 4555544 33566678899999987543333
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=98.88 E-value=2e-08 Score=105.69 Aligned_cols=199 Identities=18% Similarity=0.207 Sum_probs=139.8
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.++|+||+.. .+.|+. +.+...++.+.+++++|.++ +++.. .+|+.++..+.+|++|+++.+
T Consensus 31 ~~~l~vg~~~--~~~~~~--------~~~~~~~l~~~l~~~~g~~v--~~~~~------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGILP--GENASN--------LTRRWEPLADYLEKKLGIKV--QLFVA------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEECC--CCCHHH--------HHHHHHHHHHHHHHHhCCcE--EEEeC------CCHHHHHHHHHcCCccEEEEC
Confidence 3579999985 444433 23446789999999999664 44431 469999999999999999865
Q ss_pred eeeec---Cceeeeeeccccccc------ceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCC
Q 002364 544 ITIVT---NRTKIVDFSQPYAAS------GLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDE 614 (930)
Q Consensus 544 ~~~t~---~r~~~vdft~p~~~~------~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~ 614 (930)
..... +|....+|+.||... ...+++++.
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d------------------------------------------ 130 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKAD------------------------------------------ 130 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECC------------------------------------------
Confidence 54332 566667788876543 245666543
Q ss_pred CCCCccccchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCC
Q 002364 615 FRGPPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP 694 (930)
Q Consensus 615 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 694 (930)
.+|++++||. |++
T Consensus 131 -----------------------------------------------------------------~~i~~~~dL~--gk~ 143 (254)
T TIGR01098 131 -----------------------------------------------------------------SPIKSLKDLK--GKT 143 (254)
T ss_pred -----------------------------------------------------------------CCCCChHHhc--CCE
Confidence 3688999996 888
Q ss_pred eEEEe-CchH-----HHHHHHhhcccc----ccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc----cE
Q 002364 695 IGYQE-GSFA-----EYYLSQELNISK----SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC----SF 760 (930)
Q Consensus 695 v~~~~-~s~~-----~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~----~l 760 (930)
+++.. ++.. ..++.+..+... .++....+..+.++++.. |++|+.+.+.+....+..+.. ++
T Consensus 144 I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~----G~~Da~~~~~~~~~~~~~~~~~~~~~~ 219 (254)
T TIGR01098 144 FAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVAN----GKVDAATNNSSAIGRLKKRGPSDMKKV 219 (254)
T ss_pred EEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHc----CCCCeEEecHHHHHHHHHhCccchhhe
Confidence 99874 3221 233434333221 345555667889999999 999999998888877665532 57
Q ss_pred EEeCccccccceeeeeCCC-Cc-chHHHHHHHHhh
Q 002364 761 RIVGQEFTKSGWGFAFPRD-SP-LAVDLSSAILEL 793 (930)
Q Consensus 761 ~~~~~~~~~~~~~~~~~k~-sp-l~~~i~~~i~~l 793 (930)
.++.+.....+++++++|+ .+ +++.+|++|..+
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 220 RVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred EEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 8877665556789999999 55 999999999764
No 111
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.80 E-value=8.2e-07 Score=94.11 Aligned_cols=206 Identities=11% Similarity=0.084 Sum_probs=140.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-hhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-STVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~-s~~~~ 110 (930)
+||++.|.. +.+......+++.+.++. |+ ++.+.++..++........+++.+++.+||+... .....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g~--~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------GV--ELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------Cc--eEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999874 555566778887777772 34 4556777778888888888888889998886433 33333
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC--ccccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (930)
.....+.+.++|+|......+. .+.+..+.+++...+..+++++... |-+++++++.+. .++....+.+++
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 4556677789999987654332 1345567777788889999988776 889999998654 467777899999
Q ss_pred HHhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE-EEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
.+++.+ .++....... .+..+....+.++.+..++. .|++++...+..+++++++.|+. .+...++.
T Consensus 146 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~ 214 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN----WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGV 214 (267)
T ss_pred HHHhCCCcEEEEEecCC----CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEec
Confidence 999884 6654332222 22455667777776555433 33344446777799999999875 34444443
No 112
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.79 E-value=2.8e-08 Score=105.41 Aligned_cols=164 Identities=20% Similarity=0.239 Sum_probs=130.4
Q ss_pred CCHHHHHHHHHcCcccEEEeeeeeecCceeeeeeccc--ccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHH
Q 002364 523 PSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQP--YAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVV 600 (930)
Q Consensus 523 ~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p--~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~ 600 (930)
.+|.++...|.+|++|+++.+..++.+|.+.++|+.| |....+++++|+..
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~--------------------------- 103 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS--------------------------- 103 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC---------------------------
Confidence 4589999999999999999998889999989999988 66777788887654
Q ss_pred HHHhhhhhcccCCCCCCCccccchhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccC
Q 002364 601 GIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYS 680 (930)
Q Consensus 601 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 680 (930)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCChHHhhhCCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccE
Q 002364 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSF 760 (930)
Q Consensus 681 ~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l 760 (930)
+|++++||. |+++++..+.....++.+ .+. ..+++.+.+..+. ++.. |..|++++.......+... ++
T Consensus 104 ~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi-~~~iv~~~gs~ea--a~~~----G~aDaivd~~~~~~~l~~~--~L 171 (287)
T PRK00489 104 DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGI-DAEVVELSGAVEV--APRL----GLADAIVDVVSTGTTLRAN--GL 171 (287)
T ss_pred CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCC-ceEEEECCCchhh--hhcC----CcccEEEeeHHHHHHHHHC--CC
Confidence 678899997 889999888888888843 333 2355666655554 5555 8999999877777766553 56
Q ss_pred EEeCccccccceeeeeCC--CCc-chHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 761 RIVGQEFTKSGWGFAFPR--DSP-LAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 761 ~~~~~~~~~~~~~~~~~k--~sp-l~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
.++ +.+.....+++.+| .+| .+..+|..+.++ .|.+..+.+||+.
T Consensus 172 ~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~ 219 (287)
T PRK00489 172 KIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLM 219 (287)
T ss_pred EEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEE
Confidence 766 55566678999998 666 888899999999 5999999999998
No 113
>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=98.72 E-value=8.7e-07 Score=93.66 Aligned_cols=204 Identities=10% Similarity=0.027 Sum_probs=140.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||++.|.. ..+......+++.+.++. |++ +.+.|...++....+...+++++++.++|....+..+..
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYS--VLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCE--EEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 489999875 445556666666666652 444 445677788888888888999889998887665555554
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (930)
...+...++|+|.+....+. +.+....+++...+..+++++...|.+++++++.+.. ++....+.+++.++
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 66788999999987654332 3456677788888898989988889999999986543 66677788899998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
+.+..+......... .+..+....+.++.... +++|+. .+...+..+++++++.|+..++.+.+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~~~~i~i 209 (264)
T cd06267 144 EAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFA-ANDLMAIGALRALRELGLRVPEDVSV 209 (264)
T ss_pred HcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEE
Confidence 887533222122222 22455666777766555 566654 35566777888999988754444333
No 114
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.69 E-value=4.9e-09 Score=80.94 Aligned_cols=49 Identities=22% Similarity=0.536 Sum_probs=39.4
Q ss_pred CCcceEeeeHHHHHHHHHhCCCcccEEEEecC---CCCCCCCHHHHHHHHHc
Q 002364 486 GSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFG---DGHKNPSYTQLVDSITT 534 (930)
Q Consensus 486 ~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~---~~~~~~~~~~~~~~l~~ 534 (930)
++.++.|||+||+++|++.|||++++..++.+ ..++|++|+|++++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 47799999999999999999999777777643 23368999999999974
No 115
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.67 E-value=3.1e-06 Score=90.06 Aligned_cols=202 Identities=13% Similarity=0.045 Sum_probs=137.4
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHH
Q 002364 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAH 110 (930)
Q Consensus 33 ~IG~i~~~s~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~ 110 (930)
+||+++|... ++-.....+++.++++. +. .|+++++.+.|+..++....+...+++.++|.+||..... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~-~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KK-AGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hc-cCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 5899997542 22234445555555442 22 3678889999999998888888888998899999874443 3334
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEc--CccccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (930)
.....+.+.++|+|......+ . +.+.++.+++...+..+++++... +-++++++..+ ...+..-...+++
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 455667778999998754321 1 456778889889999999988766 78899999743 3345566788899
Q ss_pred HHhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhCCc--eEEEEEcChhhHHHHHHHHHHcCcccC
Q 002364 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMES--RVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (930)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~--~viil~~~~~~~~~~~~~a~~~g~~~~ 251 (930)
++++.+ +.+.... ..+ .+.++....+.++.++.+ ++|++..+ . +..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d-~-A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGEV--YGD--WDQAVAQKAVADFLASNPDVDGIWTQGG-D-AVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEeec--CCC--CCHHHHHHHHHHHHHhCCCcCEEEecCC-C-cHHHHHHHHHcCCCCc
Confidence 998887 7665322 212 234556667777765544 54444433 3 8889999999998433
No 116
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.66 E-value=1.8e-06 Score=92.43 Aligned_cols=201 Identities=15% Similarity=0.117 Sum_probs=137.2
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||++.+.+.+.-.....+++ +++++.|..+ |.++++.+.|+..++........++++++|.++|+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 589999866543333344444 5666666664 8999999999999998888888899888999999865432 2222
Q ss_pred HHhhccCCCcEEecccCCCCCCC----CCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC-ccccchHHHHH
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALN 185 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~----~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~ 185 (930)
.....++|+|.++...+.... ...+....+..++...+..+++++... |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 256789999987654332111 111222334445666678888888765 999999998543 36777788999
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
+.+++.|+++.... . . +..++...++++.+ ++++|++..+ ..+..+++++++.|+
T Consensus 154 ~~~~~~g~~~~~~~-~-~----~~~~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V-S----SSNDVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c-C----CHHHHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999998876532 1 1 25567777777764 3677766544 567778888888775
No 117
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.53 E-value=6e-06 Score=88.83 Aligned_cols=320 Identities=11% Similarity=0.081 Sum_probs=189.5
Q ss_pred ceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 002364 30 AVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (930)
Q Consensus 30 ~~i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s 106 (930)
.+=+|++++|++ +..|...+.||..|-. -|+. . ++-..++.++|+...+..++ ..+...+++..||||...
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~--~-~~~~~~~~i~dT~~~~l~~i--~aqaqq~G~~~VVGPLlK 329 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APAT--Q-TAQVAELKIYDTSAQPLDAI--LAQAQQDGADFVVGPLLK 329 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc-Cccc--C-CccccceeeccCCcccHHHH--HHHHHhcCCcEEeccccc
Confidence 467899999999 4457778888887765 1222 1 33346788899987766553 233445599999999999
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHH
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~ 186 (930)
.....+..--. ..+|++....++..- ..+.....+-+..+.++..|+.+-.-|.+...++...+++|+...+.|.+
T Consensus 330 ~nVe~L~~~~q-~~i~vLALN~~~n~r---~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~~ 405 (604)
T COG3107 330 PNVEALLASNQ-QPIPVLALNQPENSR---NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFNQ 405 (604)
T ss_pred hhHHHHHhCcC-CCCceeeecCCcccc---CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHHHH
Confidence 88887665443 788888765444322 23444444555566689999999999999999999999999999999999
Q ss_pred HHhhcceEEEEEEecCCCC--------------CCChhHHHHHH----HHHHhCC-ceEEEEEcChhhHHHHHHHHHHcC
Q 002364 187 KLAERRCRISYKSGIPPES--------------GVNTGYVMDLL----VKVALME-SRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~--------------~~~~~~~~~~l----~~l~~~~-~~viil~~~~~~~~~~~~~a~~~g 247 (930)
.+++.|...+....+.... .....+....+ .-+.+.. .|.|++...+.++..|--...-.+
T Consensus 406 ~Wq~~gg~~v~~~~fg~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~ia~~~ 485 (604)
T COG3107 406 EWQKLGGGTVLQQKFGSTSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPMIAMAN 485 (604)
T ss_pred HHHHhcCCchhHhhcCcHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhHHHhhc
Confidence 9999887433322221100 00011111000 1112223 788999888888776644443222
Q ss_pred cccCCeEEEEeCcchhcccCCCCChhhhhccccEEEEE-Ee--cCCChhhHHHHHHHhhhcCCCCCCCchhHHHhHHHHH
Q 002364 248 MMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLR-QH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWL 324 (930)
Q Consensus 248 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~-~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~ 324 (930)
..... ..+.++-... ....++....++|+.... |+ .+..|..+.....|... |..+.+
T Consensus 486 ~~~~~-p~yaSSr~~~----gT~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~--------------~sl~RL 546 (604)
T COG3107 486 GSDSP-PLYASSRSSQ----GTNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND--------------YSLARL 546 (604)
T ss_pred CCCCc-ceeeeccccc----cCCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc--------------hHHHHH
Confidence 21111 1222221110 111234555677765432 22 23456666666655542 345666
Q ss_pred HHHHHHHHHhcCCcceecCCccccccCCCcccCCCccccCchHHHHHHHH---hCcccccccceEEccCCCcccceEEEE
Q 002364 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL---QSNLVGLTGPLKFNSDRSLIHAAYDII 401 (930)
Q Consensus 325 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~---~~~f~G~~G~v~fd~~g~~~~~~~~I~ 401 (930)
+|.+++.-.- ..-+..|+ +...+|+||.++-|++.. +.....=.
T Consensus 547 yAmGvDAwrL--------------------------------an~f~elrqV~G~~i~G~TG~Lsad~~c~-I~R~l~Wa 593 (604)
T COG3107 547 YAMGVDAWRL--------------------------------ANHFSELRQVPGYQIDGLTGTLSADPDCV-IERKLSWA 593 (604)
T ss_pred HHhcchHHHH--------------------------------HHHhHHhhcCCCcccccccceeecCCCce-EeecchHH
Confidence 6666665210 00112233 345789999999999885 44443333
Q ss_pred EeeccceEEE
Q 002364 402 NVIGTGFRMI 411 (930)
Q Consensus 402 ~~~~~~~~~v 411 (930)
+++++..++|
T Consensus 594 qy~~G~vvP~ 603 (604)
T COG3107 594 QYQQGQVVPV 603 (604)
T ss_pred HhcCCCeeeC
Confidence 4445554444
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=98.51 E-value=2.4e-05 Score=83.31 Aligned_cols=207 Identities=10% Similarity=0.057 Sum_probs=131.1
Q ss_pred EEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCChhHHH
Q 002364 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 110 (930)
+||++.|. +..+-.....+++.+.++ .|+++.+...|+..++.........+++++|.++ +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK--------LGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH--------hCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999984 343333445566666555 2677777666777777766777778888888875 5665555444
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC--ccccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (930)
+....+.+.++|+|......+ ....+ .+.+++...+..+++++... |.++++++.... .......+.+.+
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 556677789999998654321 11112 35677777788889987766 889999987432 223444678999
Q ss_pred HHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEE-EEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV-LHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii-l~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
++++. |+++..... .. .+..+....+.++.+..+++-. ++.+...+..+++++++.|+. .+...++.
T Consensus 147 ~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~ 215 (275)
T cd06320 147 AIKKASGIEVVASQP--AD--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGT 215 (275)
T ss_pred HHhhCCCcEEEEecC--CC--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEec
Confidence 99998 887654321 11 2244555566666554444433 334455666788888998874 33334443
No 119
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.44 E-value=6.1e-05 Score=77.33 Aligned_cols=204 Identities=15% Similarity=0.135 Sum_probs=142.8
Q ss_pred CCCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCC-EEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 002364 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGT-KLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC 105 (930)
Q Consensus 27 ~~~~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~-~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 105 (930)
+..++++||+....+.+.-.....+++-|+.+. |. .+++.+.+.++++..+.+.++++..++.++|++-.
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~- 96 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIA- 96 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecC-
Confidence 345567788888877554456677777777774 33 77888899999999999999999999877777643
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCC----CCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEc-Ccccc
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD-NEYGR 178 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~----~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d-~~~g~ 178 (930)
+..+..+..-.. ++|+|-.+.++|.=.. ..-|----|.-+|..-...-.+++++. +.++++++|.. .+...
T Consensus 97 tp~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 97 TPAAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred CHHHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 444444444333 3999977776654222 112334445666666566666666654 88999999964 45788
Q ss_pred chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh---hHHHHHHHHHHcCc
Q 002364 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS---LGFQVFSVAKYLGM 248 (930)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~---~~~~~~~~a~~~g~ 248 (930)
...+.++..+++.|++|... .++ +..|....++.+. .++|+|++.++.- ....+++.|.+.+.
T Consensus 175 ~l~eelk~~A~~~Gl~vve~-~v~-----~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 175 SLVEELKKEARKAGLEVVEA-AVT-----SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCCCEEEEE-ecC-----cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 89999999999999998743 222 2557777777776 5699999988763 34446777777664
No 120
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.36 E-value=3.1e-05 Score=81.93 Aligned_cols=200 Identities=12% Similarity=0.101 Sum_probs=126.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||+++|.. .++-.....+++.+.++ .|+++.+ .++..++....+...+++.+++.++|....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARA--------AGYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHH--------CCCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 378899854 33333444555555544 1455554 566667777777777888888998886333322234
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc---CccccchHHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALNDKL 188 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~~l 188 (930)
....+.+.++|+|......+ ...++ ...++...+..+++++...|.++++++..+ .+++....+.+.+.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 56777889999987654322 22343 346677888999999888899999999732 335666778899999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHH-HhC-CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKV-ALM-ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-~~~-~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
++.|+.+......+. +..+....+.++ ++. .+++|+. ++...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di 206 (266)
T cd06282 144 RAAGLAPLPPVEIPF----NTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDL 206 (266)
T ss_pred HHcCCCCCccccCCC----cHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 998876433222221 233333445544 332 3566555 556667789999999998544333
No 121
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.31 E-value=0.00023 Score=76.63 Aligned_cols=209 Identities=9% Similarity=0.101 Sum_probs=126.5
Q ss_pred CceEEEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEE-EEcCCCh
Q 002364 29 PAVVNVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVA-IIGPQCS 106 (930)
Q Consensus 29 ~~~i~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~a-iiGp~~s 106 (930)
...-+||+++|. +.++-.....+++.++++. |+++ .+.++..++.........++++++.+ |++|..+
T Consensus 24 ~~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~ 93 (295)
T PRK10653 24 MAKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTDS 93 (295)
T ss_pred ccCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCCh
Confidence 345689999984 3444445566777666662 4444 44677777777777777777777764 4566655
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc-Ccc-EEEEEEEcC--ccccchHH
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWN-AVSVIFVDN--EYGRNGVS 182 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~-~w~-~v~ii~~d~--~~g~~~~~ 182 (930)
.........+.+.++|+|.+....+ ..+.+....+++..-+..+++++... +.+ +++++..+. ...+...+
T Consensus 94 ~~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~ 168 (295)
T PRK10653 94 DAVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGE 168 (295)
T ss_pred HHHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHH
Confidence 5544556777788999998753211 11234455666666678888876654 543 566555322 23445678
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEE-EEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI-VLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi-il~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
.+++++++.|+.+.... ... .+..+....+.++.+..++.- |++.+...+..+++++++.|+ .+...++.
T Consensus 169 gf~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~ 239 (295)
T PRK10653 169 GFKQAVAAHKFNVLASQ--PAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGF 239 (295)
T ss_pred HHHHHHhhCCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEe
Confidence 89999999998764321 111 123334445556655444433 333444556668999999997 24444443
No 122
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.30 E-value=9.9e-05 Score=78.21 Aligned_cols=204 Identities=11% Similarity=0.106 Sum_probs=128.2
Q ss_pred EEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEE-EEcCCChhHHH
Q 002364 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVA-IIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~a-iiGp~~s~~~~ 110 (930)
.||+++|. +.++-.....+++.+.++. |+.+ .+.++..++....+...+++.+++.+ |++|..+....
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~ 70 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVV 70 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH
Confidence 37888884 3445556667777777762 4444 45667777777777777788878888 45665555444
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEc--CccccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (930)
.....+...++|+|.+....+ ..+.+-.+..++...+..+++++... |-+++++++.+ ..++....+.+++
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 145 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHE 145 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 455556778999998754322 11223346666666788888987776 77999999753 3356666788899
Q ss_pred HHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
++++. |+++....... .+..+....+.++.+.. +++ |++.+...+..+++++++.|. .+...++.
T Consensus 146 ~l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 146 VVDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 99884 77754321111 12334344555554433 344 334445556668899999887 34445543
No 123
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=98.24 E-value=7.5e-05 Score=79.14 Aligned_cols=200 Identities=16% Similarity=0.125 Sum_probs=127.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--cCCChhHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s~~~ 109 (930)
.||++.|.. ...-.....+++.++++. |+.+. +.|+..++.........+++++|.++| ++..+
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDHS--- 67 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC---
Confidence 489999853 333344556665555552 44444 477888888877778888888777655 33222
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc---CccccchHHHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALND 186 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l~~ 186 (930)
..+...+.+.++|+|......+. ...+ ....++...+..+++.+...|.++++++... ..++......+.+
T Consensus 68 ~~~~~~l~~~~iPvv~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06273 68 PALLDLLARRGVPYVATWNYSPD---SPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRA 141 (268)
T ss_pred HHHHHHHHhCCCCEEEEcCCCCC---CCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHH
Confidence 23345667789999987543221 1223 2446778889999998887899999999742 2345667888999
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
++++.++.+.....+... .+.++....+.++.+ ..+++|+. ++...+..+++++++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i 208 (268)
T cd06273 142 ALAEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDL 208 (268)
T ss_pred HHHHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCce
Confidence 999988654322111111 123334455566543 34676665 566667788999999998644433
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=98.23 E-value=0.00013 Score=77.62 Aligned_cols=209 Identities=13% Similarity=0.088 Sum_probs=127.2
Q ss_pred EEEEEeeC--CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHH
Q 002364 33 NVGALFTL--DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~--s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 109 (930)
.||+++|. +.++......+++.+.++. |+. +.+.++..++....+....++.++|.++|- |..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVE--VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCE--EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 37889886 3555667777888777762 444 445677778887777777888888888854 5444443
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEee-cCCchHHHHHHHHHHHhc--CccEEEEEEEcCcc--ccchHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRT-TQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY--GRNGVSAL 184 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~-~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l 184 (930)
......+...++|+|......+ ....++++.. .+++...+...++.+... |-++++++..+.++ +....+.+
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 4455667789999997654321 2233444333 345556677777776554 67899999754333 33446788
Q ss_pred HHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
++.+++.|..+......... ....+....+.++.+. ++++|++ .+...+..+++++++.|+. .+...++.
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~-~dv~v~g~ 220 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA-GGIVIVGA 220 (275)
T ss_pred HHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc-CCcEEEEe
Confidence 89998886433222212111 1223333344444322 3566664 4455677899999999975 34444443
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=98.21 E-value=0.00022 Score=75.92 Aligned_cols=208 Identities=9% Similarity=0.108 Sum_probs=126.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~~~~ 110 (930)
+||++.|.. .++-.....+++.+.++. |+++ .+.++..++........+++..++.++ ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL--------GYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc--------CCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 478888853 322233344444444431 4444 456777888777777778888888887 4666655455
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc------CccEEEEEEEc--CccccchHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVD--NEYGRNGVS 182 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~------~w~~v~ii~~d--~~~g~~~~~ 182 (930)
.....+.+.++|+|.+.... .+ ..++..+.+++..-+..+++++... |-++++++..+ ...+....+
T Consensus 71 ~~l~~~~~~~ipvV~~~~~~---~~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (277)
T cd06319 71 TLLKLAAQAKIPVVIADIGA---EG--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTK 145 (277)
T ss_pred HHHHHHHHCCCCEEEEecCC---CC--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHH
Confidence 66677888999999864321 11 1233445566666676777765443 66899998743 344666788
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE-EEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
.+++.+++.|..+.... ...+ .+..+....+.++.+..++. .|++.+...+..+++++++.|+. .+...++.+
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg~d 219 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLICFD 219 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEEcC
Confidence 99999999987654221 1111 22334445556655444543 33344555567799999999975 334444433
No 126
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.13 E-value=0.00058 Score=72.47 Aligned_cols=206 Identities=12% Similarity=0.056 Sum_probs=131.3
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEc-CCChhH
Q 002364 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIG-PQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiG-p~~s~~ 108 (930)
+||++.|.. ..+-.....+++.++++. |+.+.+ .++.. ++.........++..++.++|. |.....
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~--------g~~v~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 70 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL--------GVDVEY--RGPETFDVADMARLIEAAIAAKPDGIVVTIPDPDA 70 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh--------CCEEEE--ECCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 588888864 444456677777777762 555554 44444 7777777777788888888875 333333
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh-cCccEEEEEEEc--CccccchHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVD--NEYGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~-~~w~~v~ii~~d--~~~g~~~~~~l~ 185 (930)
.......+.+.++|+|......+... ..+.+..+..++...+..+++++.+ .|-++++++..+ ...+....+.++
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 34445556778999998754322211 1244567888888999999999888 899999998743 334556678889
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+++++.++.+.. +... .+..+....++++.+. ++++|+. .+...+..+++.+++.|+. .....++
T Consensus 149 ~~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~-~di~vvg 215 (271)
T cd06312 149 DGLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVLT-LGAPSAAPAAKALKQAGLK-GKVKLGG 215 (271)
T ss_pred HHHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEEE-eCCccchHHHHHHHhcCCC-CCeEEEE
Confidence 999888765432 1111 1233444555555433 3455444 4456677788889998875 3334444
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=98.12 E-value=0.00043 Score=73.50 Aligned_cols=209 Identities=12% Similarity=0.110 Sum_probs=128.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
+||+++|.. .++-.....+++.+.++ . .|+ .+.+.++..++..-......+++.+|.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~------~-~~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKV------L-GGV--ELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHH------c-CCc--EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589999853 33333444555555444 1 244 445567777887777777888888888885 565555445
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC--ccccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (930)
.+...+...++|+|......+.. .+.+..+..++...+..+++++... +-++++++.... .....-.+.+++
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 56666788999999865432211 1234557777788888888887655 446999987432 234455688899
Q ss_pred HHhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
++++.| ..+... .... .+.......++++.+. .+++| ++.+...+..+++.+++.|....+...++.+
T Consensus 148 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 148 VLAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 998887 443321 1111 2223333445554333 34654 4455566778999999999863355555543
No 128
>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=98.10 E-value=4.2e-05 Score=81.98 Aligned_cols=116 Identities=19% Similarity=0.306 Sum_probs=74.4
Q ss_pred CCCCChHHhhhCCCCeEEEe-CchHHH-----HHHHhhccccc---cceecC-CHHHHHHHHhcCCCCCceEEEEecchh
Q 002364 680 SPINGIESLRKSDDPIGYQE-GSFAEY-----YLSQELNISKS---RLVALR-TPEDYAKALKDGPGKGGVAAVVDERPY 749 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~-~s~~~~-----~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~~~~~ 749 (930)
.+|++++||. |+++++.. ++.... .+.+..+.... +.+.+. +..+.+++|.. |++|+++.+...
T Consensus 125 s~i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~----G~vDa~~~~~~~ 198 (288)
T TIGR03431 125 SPIKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVAN----GTVDAATTNDEN 198 (288)
T ss_pred CCCCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHc----CCCCeEeccHHH
Confidence 4689999996 88899863 332221 22222332211 223344 67889999999 999999988877
Q ss_pred HHHHHhcC-----ccEEEeCccccccceeeeeCCCC-c-chHHHHHHHHhhhhccchHH
Q 002364 750 VELFLSSQ-----CSFRIVGQEFTKSGWGFAFPRDS-P-LAVDLSSAILELAENGDLQR 801 (930)
Q Consensus 750 ~~~~~~~~-----~~l~~~~~~~~~~~~~~~~~k~s-p-l~~~i~~~i~~l~e~G~~~~ 801 (930)
+..+..+. .++.+..........+++++++- + +.+.++++|.++.+++..++
T Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~ 257 (288)
T TIGR03431 199 LDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACF 257 (288)
T ss_pred HHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHH
Confidence 76666432 12444432111223568889884 3 99999999999999965544
No 129
>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=98.09 E-value=0.00046 Score=72.58 Aligned_cols=202 Identities=9% Similarity=0.065 Sum_probs=139.3
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002364 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (930)
Q Consensus 34 IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 111 (930)
||++.|.. ..+-.....+++.+.++. |..+.+. .|...++..-.+...+++.+++.+|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKEL--------GYEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHH--------TCEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 78888876 345566788888888886 4555554 78999999989999999999988876 6777777777
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCc--cEEEEEEEcCc--cccchHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW--NAVSVIFVDNE--YGRNGVSALNDK 187 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w--~~v~ii~~d~~--~g~~~~~~l~~~ 187 (930)
...-+...+||+|.+... .....+....+.++....+..+++++....- .+++++..... ......+.+.+.
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 778888999999986554 1122345567777888889999998754422 67777754333 333457888888
Q ss_pred Hhh-cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccC
Q 002364 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (930)
Q Consensus 188 l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~ 251 (930)
+++ .++++...... .. .+.+.....+.++.+..+-..|++++...+..+++++++.|+.+.
T Consensus 148 l~~~~~~~~~~~~~~-~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 888 46666653222 12 336666666666655444333455667777779999999998433
No 130
>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=98.06 E-value=0.0006 Score=72.42 Aligned_cols=208 Identities=11% Similarity=-0.007 Sum_probs=126.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcC-CChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP-QCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~s~~~~ 110 (930)
+||++.|.. .++-.....+++-+.++. |+++. +.++..++.........++..++.++|.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL--------GGDLR--VYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 488888853 333345556666665552 45444 46777788777777778888899988874 3334344
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh--cCccEEEEEEEc-CccccchHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSALNDK 187 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~--~~w~~v~ii~~d-~~~g~~~~~~l~~~ 187 (930)
.+...+.+.++|+|.+....+. +.+..+.+++...+..+++++.. .|.++++++... ......-.+.+.+.
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 5556677889999987543221 22344667778888888888766 588999998743 22233345677778
Q ss_pred Hhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE---EEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 188 LAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV---IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 188 l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v---iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+++.+ ..+......... .+..+....++++.+..++. .|++.+...+..+++++++.|+.. +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 87776 554322111111 12334445566654444443 333445566777888999999753 34444443
No 131
>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=98.04 E-value=0.0011 Score=70.30 Aligned_cols=209 Identities=11% Similarity=0.010 Sum_probs=122.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~ 110 (930)
|||++.|.- ..+-.....+++.+.++ .|+++.+...++..++....+....++..++.++|-..+. ....
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 589998753 32222333444444433 2566666544445677776667777888888888753333 2223
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcCcc--ccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY--GRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 186 (930)
.....+...++|+|......+ + ..+ +-.+.+++...+..+++++... |.++++++....++ .....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---S-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 444555678999998743221 1 011 2234556666778888887766 89999999743332 3345678889
Q ss_pred HHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE-EEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
++++. |+.+... .... .+..+....+.++.+..+++ .|++.+...+..+++.+++.|+. .+...++.|
T Consensus 148 a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99888 7765431 1111 12233344555654433333 34445566788899999999975 445555543
No 132
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.04 E-value=0.0015 Score=71.80 Aligned_cols=200 Identities=11% Similarity=-0.009 Sum_probs=117.6
Q ss_pred CceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCh
Q 002364 29 PAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCS 106 (930)
Q Consensus 29 ~~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s 106 (930)
..+-+||++.|.. ..+-.....+++-+.++. |+++.+...+...+...-......++++++.+|| .|...
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~--------G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~ 115 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL--------GVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTP 115 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCCh
Confidence 4578999999864 333334455666665542 5555443322233444444556677777888776 45444
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc-----CccEEEEEEEcC--ccccc
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-----GWNAVSVIFVDN--EYGRN 179 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~-----~w~~v~ii~~d~--~~g~~ 179 (930)
....... .+.+.++|+|.+..... .+. .......++...+...++++... |-++++++..+. .....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 4322333 55678999997643211 111 12345677777788888876654 468999887432 23334
Q ss_pred hHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
-.+.+++.+++.|+++.... .. . .+.+.....++++.+. ++++|+ ++...+..+++.+++.|+
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~ 254 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YG-D--NDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL 254 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cC-C--CcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC
Confidence 46788889988888765421 11 1 1233333445554332 467776 345667778899999887
No 133
>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=98.01 E-value=0.00049 Score=72.98 Aligned_cols=208 Identities=13% Similarity=0.089 Sum_probs=125.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiGp~~s~~~~ 110 (930)
.||++.|.. +.+......|++.++++ .|+.+.+...|... ......+.+++ ..++.++|.........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 378999864 55566777888877764 25677665554332 22344455544 55899888754433234
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCcc--ccchHHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSALNDKL 188 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l 188 (930)
...+.+...++|+|.+....+. ...++ +..+....+..+++++...|.++++++..+..+ .......+.+.+
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 144 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDAL 144 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHH
Confidence 4556677899999987654322 12232 345667777888888888899999999855443 233467788888
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEeC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~~ 259 (930)
++.|+.+......... .+..+....+.++.+ .++++|+ +.+...+..+++++++.|...++ ...++.|
T Consensus 145 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 145 AEAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HHcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 8888664210011111 112222234444433 3467666 45567778899999999975443 3444443
No 134
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.91 E-value=0.0017 Score=68.89 Aligned_cols=210 Identities=10% Similarity=0.044 Sum_probs=125.1
Q ss_pred EEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
+||++.|. +.++-.....+++.+.++ . |+++. +.++..+...-.+....++.+++.++| .|.......
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEK----R----GFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHh----c----CCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 48999884 333323334444444443 2 44444 466666766666677778888888775 454444334
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcCc--cccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (930)
.....+.+.++|+|.+....+.. ...+++.++.+++...+..+++++... +-++++++..+.. ....-.+.+++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~~--~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 71 PVLKEAKAAGIPVILVDRGVDVK--DDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHHHCCCCEEEEecCcCCc--cCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 44566778899999876432211 112456778888888899999987776 7889999975432 22344678888
Q ss_pred HHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCcccCCe-EEEEeC
Q 002364 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY-VWIATD 259 (930)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~~~~-~~i~~~ 259 (930)
++++. +.++... .... .+..+....+.++.+. .+++| ++.+...+..+++++++.|+..++- ..++.+
T Consensus 149 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig~d 221 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGD--FTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVSID 221 (273)
T ss_pred HHHHCCCCEEeec--cCCc--ccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEecC
Confidence 88876 4544321 1111 1233444445555433 34544 3344556667889999999865444 444433
No 135
>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=97.90 E-value=0.00091 Score=70.77 Aligned_cols=207 Identities=10% Similarity=0.058 Sum_probs=124.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||+++|.. ..+-.....+++-+.++. |+.+.+. .+..++..-.+....+++.++.++|-..+. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~-~~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILS--NSDNDKEKELKVLNNLLAKQVDGIIFMGGK-ISEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhcCCEEEEeCCC-CcHH
Confidence 378888853 333234445555444441 5555544 344456555666667777788887732221 1233
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC---ccccchHHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDKL 188 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~l 188 (930)
+...+...++|+|.+....+ ....+ ...+++...+..+++++...|-++++++..+. .++......+++.+
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 45556678999998754322 11122 35667777888899988888889999997433 35667788899999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC-ceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEeC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~~ 259 (930)
++.|+++.....+... .+.......++++.+.. +++|++ ++...+..+++++++.|+..++ ..+++.|
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 9888654211111111 11233334555655444 677665 4555677899999999986443 3445543
No 136
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.83 E-value=0.0013 Score=69.48 Aligned_cols=207 Identities=11% Similarity=0.051 Sum_probs=124.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||+++|.. ..+-.....+++.+.++. |+++ .+.++..++..-......++++++.++|...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTV--FLANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 378898753 333345566777666652 4554 34455556666666667777778888877544433333
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (930)
....+...++|+|.+....+ +.. +-...+++...+..+++++...|-++++++..+. .......+.+.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAP---FDYVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCC---CCEEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 55667788999998743322 111 2235566777788888888878889999887432 345566788899998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEe
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~ 258 (930)
+.|..+.....++.. .+.......+.++... .+++|+ +.+...+..+++++++.|+..+. ...++.
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~di~iig~ 213 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRDIAVVGF 213 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 887432211111111 1122333445554433 356555 34455566789999999876443 334443
No 137
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.82 E-value=0.0044 Score=67.63 Aligned_cols=207 Identities=13% Similarity=0.124 Sum_probs=132.1
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EcCCChh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCST 107 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~s~ 107 (930)
...+||++.+.. .++-.....+++.+.++. |....+...|...++...++...+++.+++.+| |.|.++.
T Consensus 32 ~~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~--------g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~ 103 (322)
T COG1879 32 AGKTIGVVVPTLGNPFFQAVRKGAEAAAKKL--------GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPD 103 (322)
T ss_pred cCceEEEEeccCCChHHHHHHHHHHHHHHHc--------CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChh
Confidence 348899998865 333334445555444443 225567778888899988999999998898776 5899999
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh-cCc-cEEEEEEEc--CccccchHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW-NAVSVIFVD--NEYGRNGVSA 183 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~-~~w-~~v~ii~~d--~~~g~~~~~~ 183 (930)
.......-+...+||+|.+....+.- .........+....+...++++.+ ++- -+++++... ......-...
T Consensus 104 ~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G 179 (322)
T COG1879 104 ALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKG 179 (322)
T ss_pred hhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhh
Confidence 99999999999999999876543322 123344444556666666776543 332 346666533 3334455788
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHHHHHHcCccc
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMG 250 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~~a~~~g~~~ 250 (930)
+++.+.+.+..+........+ .+.+.-.+....+....|++-.+++... .+.-..+++++.|...
T Consensus 180 ~~~~l~~~~~~~~v~~~~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 180 FRDALKEHPPDIEVVDVQTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHHhCCCcEEEeeccCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 899999887432222222222 2344555566666667778766665544 4445666777777644
No 138
>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=97.80 E-value=0.0054 Score=65.13 Aligned_cols=211 Identities=9% Similarity=0.015 Sum_probs=122.5
Q ss_pred EEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002364 34 VGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (930)
Q Consensus 34 IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 111 (930)
||++.|. +.++-.....+++-+.++....+ ..+.+.+.+...++.........++.+++.+|| .|........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY-----PDVEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC-----CCeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 7888864 34444455667777766654332 234556677766665555555557777777765 3444433333
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC-ccccchHHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDKL 188 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~l 188 (930)
....+.+.+||+|.+....+ ... .......+++...+...++++... +-++++++..+. .....-.+.+.+.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 34556778999998754321 110 112335677777788888887665 788999987433 22334467888999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
++.++++... .... .+.......+.++.+. ++++|+. .+...+..+++++++.|.. .....++.+
T Consensus 153 ~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~~~~ivg~d 219 (274)
T cd06311 153 AKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT-DIKFVVGGA 219 (274)
T ss_pred hhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC-CCceEEEeC
Confidence 8888665432 2211 1223333445554333 3555544 3445567788889988864 233444433
No 139
>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=97.77 E-value=0.0027 Score=67.11 Aligned_cols=197 Identities=11% Similarity=0.008 Sum_probs=117.9
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 34 IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
||++.|.. ..+-.....+++-|+++ .|+++ .+.|+..++.........++..+|.++|......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE--------AGYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH--------cCCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888864 33333445555555554 14554 4567777776666666667777898887633222222 2
Q ss_pred HHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHHHHHHhh
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLAE 190 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~ 190 (930)
.... ..++|+|......+ . +.+.....++...+..+++++...|.++++++..+ +..+....+.|.+.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2333 35999997642211 1 22344667777888889998888899999999753 33556667889999998
Q ss_pred cceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccC
Q 002364 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (930)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~ 251 (930)
.|+++......... .+.......+.++.+. .+++|+.. +...+..+++++++.|...+
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p 203 (267)
T cd06284 144 AGLPADEELIQEGD--FSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVP 203 (267)
T ss_pred cCCCCCcceEEeCC--CChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCc
Confidence 88543211111111 1123334445555333 35666654 55557778899999987543
No 140
>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=97.77 E-value=0.005 Score=65.66 Aligned_cols=212 Identities=8% Similarity=-0.018 Sum_probs=116.7
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC--CChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~--~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
+||+++|.. .++-.....+++.+ ..+ .|+.+.+...++. .++..-......+++++|.+||=...+..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~---~~~-----~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTAR---LEE-----LNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHH---HHH-----cCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 589999863 22212222333322 222 2566666544443 24455555556777778888875333222
Q ss_pred HHHHHHhhccCCCcEEeccc-CCCCCCCCCCCceEeecCCchHHHHHHHHHHHh--cCccEEEEEEEcC-ccccchHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGV-TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVDN-EYGRNGVSAL 184 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a-~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~--~~w~~v~ii~~d~-~~g~~~~~~l 184 (930)
.......+.+.++|.|.... ..+.......+..-...+++..-+..++++|.. .|.++++++.... ..+..-.+.+
T Consensus 73 ~~~~~~~l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf 152 (280)
T cd06303 73 HRKLIERVLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTF 152 (280)
T ss_pred hHHHHHHHHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHH
Confidence 22233334446777665422 222100000122344667777778888888776 7889999996432 2234456788
Q ss_pred HHHHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 185 NDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 185 ~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
++++++. |+.+... +... .+..+....+.++.+.. +++|+ +.+...+..+++++++.|+. .+...++-
T Consensus 153 ~~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~ 223 (280)
T cd06303 153 IDCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGW 223 (280)
T ss_pred HHHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEec
Confidence 8999887 6654322 2222 22334444555554433 45444 55667777899999999984 34444543
No 141
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.75 E-value=0.0055 Score=66.18 Aligned_cols=216 Identities=8% Similarity=0.042 Sum_probs=121.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
+||++.|.. ..+-.....+++-+.++. + .|+ .+.+.+...++..-.+....++.++|.++| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~----~--~g~--~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN----G--GKV--EFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh----C--CCe--eEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589999853 333334456666666654 1 133 455567777777766677778888888765 455544445
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--Ccc---------E--EEEEEEcCc--
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWN---------A--VSVIFVDNE-- 175 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~---------~--v~ii~~d~~-- 175 (930)
.+...+...++|+|.+....+...-...+-+..+.+++...+..+++++... +-+ + ++++..+..
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 5556677789999987643221111111223456677777777777776543 211 2 344543322
Q ss_pred cccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCcccC-
Q 002364 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN- 251 (930)
Q Consensus 176 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~~- 251 (930)
....-...+++.+++.+..+......... .+.......+.++... ++++|+. .+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~ 229 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTAN--WDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKGD 229 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCC--CCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcCC
Confidence 22334677888998888665322222212 2233333445554332 2455444 455566678888888887654
Q ss_pred ---CeEEEEeC
Q 002364 252 ---GYVWIATD 259 (930)
Q Consensus 252 ---~~~~i~~~ 259 (930)
+...++.+
T Consensus 230 ~~~di~iig~d 240 (303)
T cd01539 230 KSKNIPVVGVD 240 (303)
T ss_pred CCCceEEEccC
Confidence 44445443
No 142
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.75 E-value=0.0096 Score=65.11 Aligned_cols=209 Identities=11% Similarity=0.029 Sum_probs=113.2
Q ss_pred CCceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC
Q 002364 28 RPAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC 105 (930)
Q Consensus 28 ~~~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~ 105 (930)
...+..||++.+.. .++-.....+++-+.++ .+ +. .+++.++..++....+....++.++|.++|= |..
T Consensus 21 ~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~---~g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~ 91 (330)
T PRK15395 21 AAADTRIGVTIYKYDDNFMSVVRKAIEKDAKA---AP----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLVD 91 (330)
T ss_pred hcCCceEEEEEecCcchHHHHHHHHHHHHHHh---cC----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeccC
Confidence 34578999999743 32323344445444444 22 23 3444566666655555566677778887764 333
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc------------CccEEEEEEEc
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------------GWNAVSVIFVD 173 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~------------~w~~v~ii~~d 173 (930)
+.........+...++|+|.+....+.-.-...+-...+..++..-+..+++++... |-.++++|...
T Consensus 92 ~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~ 171 (330)
T PRK15395 92 PAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGE 171 (330)
T ss_pred HHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecC
Confidence 333344445567789999988653211000111222345666666666666654332 32334545432
Q ss_pred --CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC----CceEEEEEcChhhHHHHHHHHHHcC
Q 002364 174 --NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 174 --~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
......-...+++++++.|+.+.... .... ..+..+....+.++.+. ++++|+ +++...+..+++++++.|
T Consensus 172 ~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~-~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~G 248 (330)
T PRK15395 172 PGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTA-MWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHN 248 (330)
T ss_pred CCCchHHHHHHHHHHHHHhcCCCeeeee-cccC-CcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcC
Confidence 22233456788899988887654321 2111 01223333455555432 345544 456667778999999998
Q ss_pred c
Q 002364 248 M 248 (930)
Q Consensus 248 ~ 248 (930)
+
T Consensus 249 l 249 (330)
T PRK15395 249 K 249 (330)
T ss_pred C
Confidence 7
No 143
>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=97.71 E-value=0.0067 Score=64.98 Aligned_cols=215 Identities=8% Similarity=0.033 Sum_probs=122.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
+||+++|.. .++-.....+++.+.++. |+++. +.++. ++..-......++..++.++|= |..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK--------GFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc--------CCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 488888853 333345556666666652 55554 45555 5555555666677778877764 33334445
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHH----hcCc--cEEEEEE-E--cCccccchH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS----YYGW--NAVSVIF-V--DNEYGRNGV 181 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~----~~~w--~~v~ii~-~--d~~~g~~~~ 181 (930)
.....+...++|+|.+....+.......+.+-....+....+...++++. ..|+ ++++++. . +......-.
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 56677788999999865432211100112233455666666666666543 3576 6888875 2 223455667
Q ss_pred HHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceE-EEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~v-iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
+.+.+.+++.|+........+... .+.......+.++.... ++. .|++.+...+..+++++++.|....+...++.
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~ 228 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGI 228 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEec
Confidence 889999998776532111111110 11222233445554333 343 56667777788899999999986434444443
Q ss_pred C
Q 002364 259 D 259 (930)
Q Consensus 259 ~ 259 (930)
+
T Consensus 229 d 229 (289)
T cd01540 229 N 229 (289)
T ss_pred C
Confidence 3
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=97.70 E-value=0.0038 Score=68.40 Aligned_cols=206 Identities=10% Similarity=0.044 Sum_probs=123.4
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--cCCCh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCS 106 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~s 106 (930)
.+-.||+++|.. .++-.....+++.+.++ .|+++.+ .++..++..-......+.++++.++| ++..
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i--~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~- 126 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIIL--SNSDEDPEKEVQVLNTLLSKQVDGIIFMGGTI- 126 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCC-
Confidence 457899999853 33333444555544443 2565544 34444444444455566777787776 3222
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--c-cccchHHH
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E-YGRNGVSA 183 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~-~g~~~~~~ 183 (930)
...+...+...++|+|......+ ...++ ....++..-+..++++|...|.++++++..+. . .+..-.+.
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 22344556678999997654321 11222 35567777778888888888999999996432 2 24566788
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEE
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~ 257 (930)
+++++++.|+.+......... .+..+....+.++.+..+++|++ .+...+..+++++++.|+..+. ...++
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~dvsvvg 270 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPEDLEVIT 270 (329)
T ss_pred HHHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 999999988764321111111 12333445566665556887665 4556788899999999986543 33444
No 145
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.67 E-value=0.012 Score=64.22 Aligned_cols=202 Identities=8% Similarity=-0.023 Sum_probs=119.5
Q ss_pred CceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCh
Q 002364 29 PAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCS 106 (930)
Q Consensus 29 ~~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s 106 (930)
+...+||++.|.. +.+-.....+++-++++. |+.+. +.++..++..-.+....+++++|.++|= |...
T Consensus 23 ~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~--i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~ 92 (330)
T PRK10355 23 AKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVF--VQSANGNEETQMSQIENMINRGVDVLVIIPYNG 92 (330)
T ss_pred CCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 3589999999853 444344455555555442 45444 4566667766666666777778888754 3322
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC---ccccchHHH
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSA 183 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~ 183 (930)
.........+...++|+|.+....+ +. +....+.+++...+..++++|...|-++++++.... ..+..-.+.
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~g 167 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMIN---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAG 167 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCC---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHH
Confidence 2223445666788999998744221 11 122357788888899999998877778877654322 223444667
Q ss_pred HHHHHhhc---c-eEEEEEEecCCCCCCChhHHHHHHHHHH-h--CCceEEEEEcChhhHHHHHHHHHHcCcc
Q 002364 184 LNDKLAER---R-CRISYKSGIPPESGVNTGYVMDLLVKVA-L--MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 184 l~~~l~~~---g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~-~--~~~~viil~~~~~~~~~~~~~a~~~g~~ 249 (930)
+++.+++. | +.+....... . .+..+....++++. + ..+++ |++.+...+..+++.++++|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 77777753 4 4432211111 1 12233334555543 2 23565 4445667777899999999975
No 146
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.66 E-value=0.01 Score=62.70 Aligned_cols=195 Identities=13% Similarity=0.128 Sum_probs=116.9
Q ss_pred EEEEEeeCCC-cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
.||++.|... ++-.....+++.+.++ .|+++ .+.++..++....+....++++++.++|- |..+....
T Consensus 1 ~i~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~ 70 (267)
T cd06322 1 VIGASLLTQQHPFYIELANAMKEEAKK--------QKVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIR 70 (267)
T ss_pred CeeEeecCcccHHHHHHHHHHHHHHHh--------cCCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhH
Confidence 3788888642 2223334444444443 24544 44666667777777777888888888865 44433333
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC-ccccchHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDK 187 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~ 187 (930)
.....+.+.++|+|.+....+ ..+.+....+++...+...++++... |-+++++++..+ .....-.+.++++
T Consensus 71 ~~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~ 145 (267)
T cd06322 71 AAIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEA 145 (267)
T ss_pred HHHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHH
Confidence 344556778999998753211 11223446677777788888887664 778999987432 2234456788899
Q ss_pred Hhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 188 l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
+++. |+++... ... ...+.....+.++... ++++ |++.+...+..+++++++.|.
T Consensus 146 ~~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 146 LADYPNIKIVAV---QPG--ITRAEALTAAQNILQANPDLDG-IFAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHhCCCcEEEEe---cCC--CChHHHHHHHHHHHHhCCCCCE-EEEcCCcHHHHHHHHHHHCCC
Confidence 9988 8776421 111 1123333344554332 3554 444555667778899999887
No 147
>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=97.65 E-value=0.009 Score=63.30 Aligned_cols=206 Identities=10% Similarity=0.020 Sum_probs=122.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
+||+++|.. .++-.....+++-+.++. |..+.+.+.++..++..-......++.+++.++| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999864 333345556666666664 2334455666666766655566667777777664 444333333
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC-ccccchHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDK 187 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~~~~~~l~~~ 187 (930)
.....+.+.++|+|......+ + . ...+..++...+..+++++... |.++++++.... .....-.+.+++.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~-~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G-A---DATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C-c---cceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 444555678999998755322 1 1 1345677778888888988776 999999997532 2234446788888
Q ss_pred Hhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 188 l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+++. +++.... ..... .+...-...+.++.+. ++++|++ .+...+..+++++++.|+ .+..+++.+
T Consensus 146 ~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSD-DQNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEee-ecCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 8887 5643211 11111 1122223344554333 3566444 455667778899999887 345555543
No 148
>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=97.64 E-value=0.011 Score=62.52 Aligned_cols=207 Identities=9% Similarity=0.057 Sum_probs=121.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
+||++.|.. .++-.....+++-+.++ .+ |+++. +.++..++..-.+....++..++.+||= |.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---YP----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---cC----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 488888742 33323334444433333 21 45553 4566666666666667777777776653 33333223
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcCcc--ccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY--GRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~--g~~~~~~l~~ 186 (930)
.....+.+.++|+|.+....+ +. .+...+..++...+...++++... |-++++++..+... ...-.+.+++
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 334445678999998753221 11 223456678888888888887775 88999999743322 3344678888
Q ss_pred HHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
.+++. |+++.... ... .........+.++.+ .++++| ++.+...+..+++++++.|+. .+...++.|
T Consensus 147 ~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPKIKIVAQQ--DGD--WLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCCCEEEEec--CCC--ccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 99988 87654321 111 122233334444432 235654 445667777899999999986 455555544
No 149
>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=97.63 E-value=0.0052 Score=64.61 Aligned_cols=199 Identities=14% Similarity=0.060 Sum_probs=124.5
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 34 IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
||+++|.- ++.-.....+++.++++. |+++.+ .++..++..-.....++..+++.++|...... ...+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~-~~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTI-TDEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHH
Confidence 78888743 444445666776666542 566544 45556666666677778888888888643322 2345
Q ss_pred HHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc-C--ccccchHHHHHHHHh
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSALNDKLA 189 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~~~l~ 189 (930)
...+.+.++|+|......+ .+..+.++....+..+++++...|-++++++... + ..++...+.+++.++
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 5666777999998753221 2233566777888989998888888999998632 2 233455688899998
Q ss_pred hcce-EEEEEEecCCCCCCChhHHHHHHHHHHhCC-ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 190 ERRC-RISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 190 ~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+.|. .+... .-. .+.......+.++.+.. +++|+... ...+..+++.+++.|+..++.+.+.
T Consensus 143 ~~~~~~~~~~-~~~----~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 143 EHGICPPNIV-ETD----FSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HcCCChHHee-ecc----CchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8886 21111 111 11233344555554444 56655544 5667789999999998655555554
No 150
>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=97.63 E-value=0.0038 Score=66.05 Aligned_cols=202 Identities=9% Similarity=0.027 Sum_probs=120.8
Q ss_pred EEEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
.||+++|.. ..+-.....+++.+.++. |+.+. +.++..++..-......+...++.++|-........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH--------GYLLL--VVNTGGDDELEAEAVEALLDHRVDGIIYATMYHREV 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChh
Confidence 489999874 444445556666665541 45553 445555554444555667777888777643322111
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKL 188 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l 188 (930)
.......++|+|......+. .. +..+.+++...+..+++++...|-++++++..+.. ....-.+.+.+.+
T Consensus 71 --~~~~~~~~ipvv~~~~~~~~---~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 --TLPPELLSVPTVLLNCYDAD---GA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred --HHHHHhcCCCEEEEecccCC---CC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 22334578999986543221 11 23466788888899999888779999999975432 3345578888999
Q ss_pred hhcceEEEE--EEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 189 AERRCRISY--KSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 189 ~~~g~~v~~--~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
++.|+.+.. ....+. +..+....++++.+. ++++|+. .+...+..+++++++.|+..++-+.+.
T Consensus 143 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~v~ 210 (269)
T cd06288 143 AEAGIPFDPDLVVHGDW----SADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIPQDVSVV 210 (269)
T ss_pred HHcCCCCCHHHeEeCCC----ChHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCcccceEE
Confidence 888864321 111111 122333445555443 3566644 555667788999999998654444444
No 151
>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=97.63 E-value=0.0053 Score=64.89 Aligned_cols=200 Identities=12% Similarity=0.108 Sum_probs=117.1
Q ss_pred EEEEeeCC-----CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002364 34 VGALFTLD-----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (930)
Q Consensus 34 IG~i~~~s-----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~s~ 107 (930)
||+++|.. .++-.....+++.++++ .|+.+.+...+.. ....+.+.+++.. ++.++|...+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE--------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH--------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78898852 33334445555544443 2566666554433 2333455666654 688887643332
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (930)
.. .....+.+.++|+|.+....+ +..+++ ..+++...+..+++++...|-++++++..... .+....+.++
T Consensus 71 ~~-~~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DD-PRVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CC-hHHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 22 223455678999998754322 122343 44677777888888888889999999974332 3445578889
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+.+++.|..+.....+... .+.......++++.+. .+++|+.. +...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i 211 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDV 211 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcce
Confidence 9999888654211111111 1233334445555332 35666654 45667789999999998655433
No 152
>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=97.62 E-value=0.0058 Score=64.57 Aligned_cols=205 Identities=10% Similarity=0.047 Sum_probs=120.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||++.|.. ..+-.....+++.+.++. |+++.+ .++..++..-.+....++.+++.++|--..... ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ER 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 378999854 333334445555555542 455544 444445555555666777778888764222212 23
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (930)
....+...++|+|......+ . +.......+....+..+++++...|-++++++..+. .....-.+.+++.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 34455677999997643211 1 122345567778888889998888999999998543 344455678889998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE-EEE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV-WIA 257 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~-~i~ 257 (930)
+.|............ .+.......+.++.+. ++++|+. .+...+..+++.+++.|...++.+ .++
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di~vig 211 (268)
T cd01575 144 AAGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDIAIAG 211 (268)
T ss_pred HcCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcceEEEe
Confidence 887632221111111 1233344555555433 4566554 455667788999999987544443 444
No 153
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.62 E-value=0.032 Score=60.50 Aligned_cols=212 Identities=11% Similarity=0.045 Sum_probs=122.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
.||++.|.. .++-.....+++-+.++ .|+++.+...+...+.....+....++.+++.+||- |..+....
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKT--------LGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHH--------cCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 899999863 33333444555555443 256666544454556656666667777778887764 33333322
Q ss_pred HHHHhhccCCCcEEecccCCCC--CCCCCCCceEeecCCchHHHHHHHHHHHh-cCc--cEEEEEEEcC--ccccchHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPT--LSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW--NAVSVIFVDN--EYGRNGVSA 183 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~--l~~~~~p~~~r~~p~~~~~~~ai~~~l~~-~~w--~~v~ii~~d~--~~g~~~~~~ 183 (930)
.....+...++|+|.+....+. +..........+..++...+...++++.. .|- ++++++..+. .....-.+.
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 3233445789999987643321 11011122344677778888899998754 453 7898885433 234455678
Q ss_pred HHHHHhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 184 LNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 184 l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
+++.+++.| +.+.... ... .+..+....++++.+. ++++ |++.+...+..+++++++.|.. .+...++.
T Consensus 178 f~~al~~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~ 249 (311)
T PRK09701 178 ATEAFKKASQIKLVASQ--PAD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGT 249 (311)
T ss_pred HHHHHHhCCCcEEEEec--CCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEe
Confidence 899998877 6654321 111 1233334555555433 3454 4456666777899999998874 33334443
No 154
>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=97.62 E-value=0.0092 Score=64.51 Aligned_cols=211 Identities=14% Similarity=0.090 Sum_probs=124.7
Q ss_pred EEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCChhHH
Q 002364 34 VGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIGPQCSTVA 109 (930)
Q Consensus 34 IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~aiiGp~~s~~~ 109 (930)
||+++|.. ..+-.....+++.+.++. |+.+.+ .++..+..........++++ +|.+||=-..+...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccch
Confidence 78888764 223334455555555441 555544 45556666666777788888 89887642222223
Q ss_pred HHHHHhhccCCCcEEecccCCCCCC-----C--CCC-CceEeecCCchHHHHHHHHHHHhcCccE--------EEEEEEc
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLS-----S--LQY-PFFVRTTQSDSYQMTAVAEMVSYYGWNA--------VSVIFVD 173 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~-----~--~~~-p~~~r~~p~~~~~~~ai~~~l~~~~w~~--------v~ii~~d 173 (930)
......+...++|+|.+....+... . ..+ +++-...+++...+..+++.+...|-++ ++++..+
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 3445667789999998765432211 0 011 2345567788888899999887776553 6666532
Q ss_pred --CccccchHHHHHHHHhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 174 --NEYGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 174 --~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
......-.+.+++++++.| ..+.. .+... .+.......+.++.+. ++++|+ +.+...+..+++++++.|+
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~ 226 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQ--VVYAG--WSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGR 226 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEee--eecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCC
Confidence 2233455778899999887 33322 12212 2233444455555433 356554 4566677789999999998
Q ss_pred ccCC-eEEEEeC
Q 002364 249 MGNG-YVWIATD 259 (930)
Q Consensus 249 ~~~~-~~~i~~~ 259 (930)
..++ ...++-|
T Consensus 227 ~vp~di~vig~D 238 (305)
T cd06324 227 KPGRDVLFGGVN 238 (305)
T ss_pred CcCCCEEEEecC
Confidence 6543 4444433
No 155
>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=97.59 E-value=0.0065 Score=64.26 Aligned_cols=203 Identities=6% Similarity=0.008 Sum_probs=118.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||++.|.. .++-.....+++.+.++. |+++. +.++..++..-.+....+..+++.+||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLI--LCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 388898854 344445556666665541 45554 4555556666666666777777777653222222222
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~ 189 (930)
+..+....++|+|......+ +..++ ....++...+..+++++...|-++++++... +.....-.+.+.+.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFAD---KIQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCC---eEeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333456999998754322 11223 2456667777888888888899999998743 2234445678888998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+.|+++......... .+.......++++.+. .+++|+ +.+...+..+++.+++.|...++-+
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di 208 (269)
T cd06275 145 EAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAVF-CGNDLMAMGALCAAQEAGLRVPQDL 208 (269)
T ss_pred HcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEEE-ECChHHHHHHHHHHHHcCCCCCcce
Confidence 888664311111111 1223344455565443 345544 4455667778899999887544433
No 156
>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=97.59 E-value=0.0086 Score=63.21 Aligned_cols=203 Identities=10% Similarity=0.030 Sum_probs=120.3
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||++.|.. ..+-.....+++-+.++. |+.+. +.+...++..-......++..++.+||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378888864 333345556666666542 45553 4555556666566666777777777763222222222
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc-c-c-cchHHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-Y-G-RNGVSALNDKL 188 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~-g-~~~~~~l~~~l 188 (930)
...+...++|+|.+....+ .. .+..+..++...+..+++.+...|-++++++..... . . ......+++.+
T Consensus 71 -l~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 -YQRLAKNGKPVVLVDRKIP---EL---GVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred -HHHHhcCCCCEEEEcCCCC---CC---CCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3445678999998754322 11 223355677778888999988889999999974432 1 1 24567888888
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeEE
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~ 255 (930)
++.|..+......... .+..+....+.++.++. +++|+.. +...+..+++.+++.|+..++-+-
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~ 209 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVG 209 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceE
Confidence 8887432211111111 12344455666665443 4555554 456667789999999986444333
No 157
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=97.58 E-value=0.0063 Score=64.65 Aligned_cols=209 Identities=11% Similarity=0.072 Sum_probs=114.9
Q ss_pred eEEEEEEeeCCC----cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEc-CC
Q 002364 31 VVNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIG-PQ 104 (930)
Q Consensus 31 ~i~IG~i~~~s~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiG-p~ 104 (930)
+=.||++.|... .........+..++++.-+. .|+++.+...+.. . ...+.+.+ .+++.+||- +.
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~----~g~~~~v~~~~~~--~---~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE----RGYDLLLSFVSSP--D---RDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHH----cCCEEEEEeCCch--h---HHHHHHHHHhCCCCEEEEeCC
Confidence 346899998521 11122223333333333222 2566665544332 1 12334444 457777753 22
Q ss_pred ChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHH
Q 002364 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVS 182 (930)
Q Consensus 105 ~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~ 182 (930)
... ......+...++|+|.+....+. +.+....+++...+..+++++...|.++++++..+.. .+..-.+
T Consensus 74 ~~~--~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (275)
T cd06295 74 HDQ--DPLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLE 145 (275)
T ss_pred CCC--hHHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHH
Confidence 222 12345567789999987543322 2234466777888899999988889999999875432 3445568
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEeC
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~~ 259 (930)
.+++.+++.|..+........+ .+.......+.++.+. ++++|+.. +...+..+++.+++.|...++ ...++.|
T Consensus 146 gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii~~d 222 (275)
T cd06295 146 GYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVVGFD 222 (275)
T ss_pred HHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEEeeC
Confidence 8899998887543211111111 1233334445554433 35665555 445666788889998875333 3344433
No 158
>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=97.56 E-value=0.005 Score=65.40 Aligned_cols=205 Identities=9% Similarity=0.028 Sum_probs=130.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||+++|.- .++-.....+++-++++ .|+.+-+ .++..++..- +....|.+++|+++|=.........
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~--------~Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~ 71 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEARE--------HGYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEE 71 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHH--------TTCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHH--------cCCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHH
Confidence 699999975 33333444555544444 2666544 5565655555 5556666778888875433333456
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccE-EEEEEEcCcc--ccchHHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA-VSVIFVDNEY--GRNGVSALNDKL 188 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~-v~ii~~d~~~--g~~~~~~l~~~l 188 (930)
+..+.+. ++|+|......... ...|++ ..++..-+..++++|...|-++ ++++..+... .+.-.+.+.+++
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 6677776 99999765432111 123333 3456666778888999999999 9999875543 445567899999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE-EEEEcChhhHHHHHHHHHHcC-cccCCeEEE
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLG-MMGNGYVWI 256 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~~~~~a~~~g-~~~~~~~~i 256 (930)
++.|+++......... .+.++-...++++.+..|++ .|++++...|.-+++++++.| ...+.-+-+
T Consensus 146 ~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di~~ 213 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDIVS 213 (279)
T ss_dssp HHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEEEE
T ss_pred HHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhhee
Confidence 9999855443333222 33455556677776666662 455567788888999999999 666655533
No 159
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=97.54 E-value=0.015 Score=61.50 Aligned_cols=202 Identities=11% Similarity=-0.013 Sum_probs=120.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC--CChHHHHHHHHHHHhcCcEEEEc-CCChhH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMETDIVAIIG-PQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~--~~~~~a~~~a~~li~~~v~aiiG-p~~s~~ 108 (930)
+||+++|.. .++-.....+++.++++. |+++.+ .+.. .+...-.+....+++.++.+||- |.....
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~ 70 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKL--LEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDG 70 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 589999853 333344556666666643 455544 4443 23444445666777778887763 333332
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCc-----cEEEEEEEcC--ccccchH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW-----NAVSVIFVDN--EYGRNGV 181 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w-----~~v~ii~~d~--~~g~~~~ 181 (930)
.. ....+...++|+|......+ +. ........++...+..+++++...+- ++++++.... ...+.-.
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 23446679999997643211 11 12234567777778888898776665 8999997432 2345557
Q ss_pred HHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+.+++++++.++++... .... .+.+.....++++.+. ++++|+. ....+..+++.+++.|+ ..+...++
T Consensus 145 ~g~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~-p~di~vig 215 (268)
T cd06306 145 KGFRDALAGSAIEISAI--KYGD--TGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL-TDQIKIVS 215 (268)
T ss_pred HHHHHHHhhcCcEEeee--ccCC--ccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC-CCCeEEEe
Confidence 88899999988876542 1111 1233444455555433 4677663 36677778999999886 33334443
No 160
>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=97.53 E-value=0.0078 Score=63.51 Aligned_cols=202 Identities=12% Similarity=0.040 Sum_probs=117.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||+++|.. +++-.....+++.+.++. |+.+. +.++..++..-......++..++.+||-........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~- 69 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTI--IGNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAE- 69 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChH-
Confidence 489999853 434345566666666552 45444 344555665555556667777888777432222222
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (930)
....+.+.++|+|......+ ....+++ ..++..-+..+++.+...|-++++++.... .....-.+.+.++++
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 70 QLEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred HHHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 34555668999998754322 2223432 344455556666777777889999986432 233445678899998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+.|..+......... ....+....+.++.+..+++|+. ++...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~dv 205 (265)
T cd06299 144 SLGLEVNEDLVVLGG--YSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGEDI 205 (265)
T ss_pred HCCCCCChHhEEecC--cchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcce
Confidence 888543211111111 12233344556654445776554 555667788999999998654433
No 161
>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=97.51 E-value=0.02 Score=61.52 Aligned_cols=212 Identities=11% Similarity=0.018 Sum_probs=118.0
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 111 (930)
|||++.|... ......+..++++.-++ .|+++.++ .+...++..-.+....++.+++.+|| .|........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~----~g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAK----LGIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHH----cCCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 5888887432 12233333333333222 25555432 35566776666667777877887765 3433332344
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcCc--cccchHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDK 187 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~~ 187 (930)
....+...++|+|.+....+.... .-+++..+..++..-+..+++++... +-++++++..+.+ ....-.+.+.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 455667789999987654332221 11233445666677788888887765 7799999975433 233446778888
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+++.+..+....... . .........++++.+. .+++|+. .+...+..+++.+++.|+ .+...++.+
T Consensus 152 l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 152 IKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 876653222111111 1 1012223344554333 3455544 455678889999999986 344445433
No 162
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.50 E-value=0.04 Score=60.14 Aligned_cols=199 Identities=11% Similarity=-0.012 Sum_probs=109.4
Q ss_pred EEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHH
Q 002364 32 VNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA 109 (930)
Q Consensus 32 i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~ 109 (930)
.+||++.... .++-.....+++.+.++. |+++.+. ..+..++..-.+....++.++|.+|+- |......
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al 94 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGL 94 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHH
Confidence 3799888654 344345556666666542 5555532 234445665566777888888887764 5555555
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecC-CchHHHHHHHHHHHh-c--CccEEEEEEEcCc--cccchHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMVSY-Y--GWNAVSVIFVDNE--YGRNGVSA 183 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p-~~~~~~~ai~~~l~~-~--~w~~v~ii~~d~~--~g~~~~~~ 183 (930)
.+...-+...+||+|.+.+..+. +. . .+-... ++...+..+++++.+ . +-.+++++..... ......+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 66677788889999987654221 11 1 122222 334566666666544 2 3468888864321 11222355
Q ss_pred HHHHHhhc--ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhH-HHHHHHHHHcCc
Q 002364 184 LNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG-FQVFSVAKYLGM 248 (930)
Q Consensus 184 l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~-~~~~~~a~~~g~ 248 (930)
+.+.+.+. +++++... .. . .+.......++++.++.|++=.+++....+ .-.++++++.|.
T Consensus 170 ~~~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCC
Confidence 66666443 56665322 11 1 223333445566555555543333333333 357788888775
No 163
>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=97.48 E-value=0.019 Score=61.46 Aligned_cols=199 Identities=8% Similarity=0.037 Sum_probs=116.8
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
.||+++|.. ..+-.....+++-+.++. |+. +.+.++..++..-.+...+++..++.+|| .|..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~--------g~~--~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL--------GAE--VIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc--------CCE--EEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHH
Confidence 489999853 333334455555555542 444 44466666777766777778888888776 343333334
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc------CccEEEEEEEcCc--cccchHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDNE--YGRNGVS 182 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~------~w~~v~ii~~d~~--~g~~~~~ 182 (930)
.....+...++|+|......+. ...+ ..+..++...+..+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~--~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVD--YYVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcc--eEEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 4555666789999987654321 1122 234456666677777776555 8889999874332 2334467
Q ss_pred HHHHHHhhcc----eEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCccc
Q 002364 183 ALNDKLAERR----CRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (930)
Q Consensus 183 ~l~~~l~~~g----~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~ 250 (930)
.+.+++++.+ +.+... ..... .+.......+.++.+. ++++|+. .+...+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~I~~-~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPD--WDPETAQKRMENALTANYNKVDGVLA-ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCC--CCHHHHHHHHHHHHHhCCCCccEEEe-CCcHHHHHHHHHHHHcCCCC
Confidence 7888988887 443322 11111 1222333445554333 3455444 34566777889999988754
No 164
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.48 E-value=0.011 Score=62.49 Aligned_cols=192 Identities=10% Similarity=0.028 Sum_probs=112.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||++.|.. .++-.....+++-+.++ .|+++.+...+. +. ...+...+++..+|.++|--.+.... .
T Consensus 1 ~I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~ 68 (266)
T cd06278 1 LIGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSS-E 68 (266)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCH-H
Confidence 378888864 33333344444333333 256666655443 22 23344556677788877753222222 3
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (930)
....+...++|+|.+....+ + +.+....+++...+..+++++...|-++++++..+. .+.+...+.+.+.++
T Consensus 69 ~~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 142 (266)
T cd06278 69 LAEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALA 142 (266)
T ss_pred HHHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHH
Confidence 35566778999998754322 1 223457778888899999998888999999997543 344556778899998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcC
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
+.|..+... .... .+..+....+.++.+. .+++|+.. +...+..+++.+++.+
T Consensus 143 ~~~~~~~~~-~~~~---~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 143 AAGVPVVVE-EAGD---YSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQEG 197 (266)
T ss_pred HcCCChhhh-ccCC---CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhc
Confidence 888764321 1111 1223334445554443 35655544 4455666777777653
No 165
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=97.48 E-value=0.019 Score=60.49 Aligned_cols=197 Identities=11% Similarity=0.070 Sum_probs=115.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
.||+++|.. ...-.....+++-+.++. |+.+.+...+. .++....+....++++++.++|- +..... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~ 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDA-D 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCCh-H
Confidence 388999854 333334455555555541 56665543322 23344445555666778888873 332222 2
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCcc--ccchHHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSALNDKL 188 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~l~~~l 188 (930)
.+.. ....++|+|......+ +.+-....++...+..+++++...|-++++++..+... .....+.+.+.+
T Consensus 71 ~~~~-~~~~~ipvv~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALA-AAPADVPVVFVDGSPS-------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHH-HHhcCCCEEEEeccCC-------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 3333 3568999998754321 12334667777888999999888899999998754332 234457788888
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC-ceEEEEEcChhhHHHHHHHHHHcCcccCC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~~~~~a~~~g~~~~~ 252 (930)
++.|+.+.... ... .+.......+.++.+.. +++|+. ++...+..+++++++.|...++
T Consensus 143 ~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~ 202 (264)
T cd01574 143 EAAGIAPPPVL--EGD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPD 202 (264)
T ss_pred HHCCCCcceee--ecC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCcc
Confidence 88887654321 111 12333344455554433 565444 4556777899999998874443
No 166
>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=97.47 E-value=0.024 Score=60.06 Aligned_cols=179 Identities=9% Similarity=0.050 Sum_probs=111.8
Q ss_pred CCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecC
Q 002364 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (930)
Q Consensus 68 g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p 146 (930)
|+++. +.++..++..-.+....++.++|.+||= |..+.........+.+.++|+|.+....+ ....+.+....+
T Consensus 29 G~~~~--~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVT--WYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAP 103 (272)
T ss_pred CCEEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECC
Confidence 55544 4566667777777788888888887764 44444444444556677999998754332 111122345678
Q ss_pred CchHHHHHHHHHHHhc--CccEEEEEEEcCc--cccchHHHHHHHHhhcc-eEEEEEEecCCCCCCChhHHHHHHHHHHh
Q 002364 147 SDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (930)
Q Consensus 147 ~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 221 (930)
++...+..+++++... |.++++++..+.. ....-.+.+++.+++.+ .++... .... .+.......++++.+
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~ 179 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLT 179 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHH
Confidence 8888889999987766 8899999975432 23345788899998875 554431 1111 223344455566544
Q ss_pred CC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 222 ME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 222 ~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
.. +++ |++.+...+..+++.+++.|+ .+...++-
T Consensus 180 ~~~~~~a-i~~~nd~~a~g~~~al~~~g~--~di~vvgf 215 (272)
T cd06313 180 KYPQLDG-AFCHNDSMALAAYQIMKAAGR--TKIVIGGV 215 (272)
T ss_pred hCCCCCE-EEECCCcHHHHHHHHHHHcCC--CceEEEee
Confidence 33 454 444555677778899999887 44444443
No 167
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.46 E-value=0.01 Score=65.33 Aligned_cols=206 Identities=8% Similarity=0.015 Sum_probs=118.7
Q ss_pred eEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 31 ~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+-.||+++|.. ..+-.....+++-+.++. |+++. +.++..++..-......++.+++.+||--.....
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~- 127 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTLI--LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYP- 127 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC-
Confidence 45899999864 333334445555544432 44443 4455556665555666677777887763211112
Q ss_pred HHHHHhhcc-CCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHHHH
Q 002364 110 HIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALND 186 (930)
Q Consensus 110 ~~v~~~~~~-~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (930)
......+.. .++|+|.+....+ +..++. ...+++...+..+++.+...|-+++++|..+ ...++.-.+.+.+
T Consensus 128 ~~~~~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 128 EPLLAMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHHHHHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 223344455 7999998754322 111122 2345555667888888877788999998632 3344555788899
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEE
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~ 255 (930)
.+++.|+.+......... ....+....+.++.+. .+++|+. ++...+..+++++++.|...++-+.
T Consensus 203 ~l~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~ 270 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGD--FEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDIS 270 (341)
T ss_pred HHHHcCCCCChHHeEeCC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceE
Confidence 999988765321111111 1233444555555433 3566554 4566677899999999975444443
No 168
>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=97.45 E-value=0.018 Score=60.97 Aligned_cols=205 Identities=9% Similarity=0.006 Sum_probs=119.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||++.|.. ..+-.....+++-+.++ .|+++.+. ++..++..-......+...++.++|--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~--------~gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADA--------RGLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 478998753 33333445555544443 25666443 44445555455555666668888875332222223
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (930)
+..+. ..++|+|......+. .. .....+++...+..+++.|...|-++++++..+.. ....-.+.++++++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AK---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CC---CCEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33433 357999987643321 11 22356788888999999988889999999974433 23345688999999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+.|..+......... .+.......+.++.+ ..+++|+.. +...+..+++++++.|...++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEE
Confidence 887643211111111 123333445555533 346765554 55667788999999997655444433
No 169
>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=97.44 E-value=0.0083 Score=63.50 Aligned_cols=205 Identities=11% Similarity=0.017 Sum_probs=121.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||+++|.. .++-.....+++.++++. |+.+ .+.++..++.........+...+|.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 489999853 444345566666666652 4554 44566666666666666677778888774222223345
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~ 189 (930)
+...+.+.++|+|......+ . ..+ ....++..-+..+++.+...|-++++++.... ..+..-.+.+.++++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~--~--~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG--G--GAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC--C--CCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 56667778999998764432 1 122 34455555567777877777999999986432 233445678889999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCe-EEEEe
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY-VWIAT 258 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~-~~i~~ 258 (930)
+.|+.+.....+... . .......+.++.+ ..+++|+ +.+...+..+++++++.|+..++- ..++.
T Consensus 144 ~~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv~iig~ 211 (269)
T cd06281 144 AAGLPPDPALVRLST--P-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDLSVISI 211 (269)
T ss_pred HcCCCCCHHHeecCc--H-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEEEe
Confidence 888654211111111 1 2222334445433 3467776 445566777899999999864443 34443
No 170
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.44 E-value=0.029 Score=59.78 Aligned_cols=207 Identities=12% Similarity=0.050 Sum_probs=119.4
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
+||++.|.. ..+-.....+++.+.++. |+.+ .+.++..++..-.+....++..++.+|| .+..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 588888854 333334445555555541 4544 4456666666666666777777887766 343333323
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh-cCcc--EEEEEEEc--CccccchHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWN--AVSVIFVD--NEYGRNGVSALN 185 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~-~~w~--~v~ii~~d--~~~g~~~~~~l~ 185 (930)
.....+...++|+|.+....+. ..+.+..+..++...+..+++.+-. .|-+ +++++..+ ...+..-.+.++
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 4445567789999987543211 0123445677778888899988755 6754 88888643 334556678889
Q ss_pred HHHhhcceE------EEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 186 DKLAERRCR------ISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 186 ~~l~~~g~~------v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+.+++.|.. +......... .+..+....+.++... ++++|+. .+...+..+++++++.|+. .+...++
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~dv~vvg 222 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT-DDVKVAA 222 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC-CCeEEEe
Confidence 999888642 1111101111 1223333445554333 3454444 4556677789999999974 3333443
No 171
>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=97.44 E-value=0.018 Score=60.69 Aligned_cols=205 Identities=10% Similarity=0.050 Sum_probs=117.3
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
.||+++|... ......+...+++.-+. .|+.+.+ .++..++..-.+....++.+++.++|-.........
T Consensus 1 ~igvi~~~~~---~~~~~~~~~~~~~~~~~----~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~- 70 (264)
T cd06274 1 TIGLIIPDLE---NRSFARIAKRLEALARE----RGYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDP- 70 (264)
T ss_pred CEEEEecccc---CchHHHHHHHHHHHHHH----CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH-
Confidence 3789998632 12223333333333222 2555544 455556665566666777888887764322222222
Q ss_pred HHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHHhh
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLAE 190 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 190 (930)
...+...++|+|.+....+ +...++ +..++...+..+++++...|-++++++..+. .....-.+.+++.+++
T Consensus 71 ~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 144 (264)
T cd06274 71 YYLCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALAD 144 (264)
T ss_pred HHHHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHH
Confidence 3345678999998754332 112232 4456666678888888788889999987543 2344557888999998
Q ss_pred cceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
.|..+......... .+.......+.++.+. .+++|++. +...+..+++++++.|+..++-+-+
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v 210 (264)
T cd06274 145 AGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRI 210 (264)
T ss_pred cCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEE
Confidence 87543211111111 1223333445554332 35666644 5566778999999999765444443
No 172
>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=97.42 E-value=0.02 Score=60.56 Aligned_cols=206 Identities=13% Similarity=0.002 Sum_probs=120.2
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||+++|.. .++-.....+++-+.++. |+++.+. ++..++..-......++.++|.+||--.+.... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~ 69 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIIT--AGHHSAEKEREAIEFLLERRCDALILHSKALSD-D 69 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEE--eCCCchHHHHHHHHHHHHcCCCEEEEecCCCCH-H
Confidence 388999863 333345556665555552 4555543 344455555555566777788877643222111 2
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (930)
....+...++|+|.+....+ +..+++ ...++...+..+++++...|-++++++..+.. ....-.+.+.+.++
T Consensus 70 ~~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 70 ELIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 24445678999998754322 112232 45777888899999988889999999975432 23344677888998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEe
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~ 258 (930)
+.|..+.....+... .+..+....++++.+.. +++|+ +++...+..+++.+++.|+..++ ...++-
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~v~g~ 212 (268)
T cd06270 144 EAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQDVSIIGF 212 (268)
T ss_pred HcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceeEEEe
Confidence 888654211111111 12334445566654443 45544 44456667789999998875443 334443
No 173
>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=97.41 E-value=0.013 Score=61.77 Aligned_cols=203 Identities=14% Similarity=0.081 Sum_probs=119.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
.||+++|.. .++-.....++.-+.++. |+++. +.++..++..-......+...++.++| .|... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-DDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-ChH
Confidence 479999863 333334445555554442 45553 345555665555555667777888776 44332 222
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKL 188 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l 188 (930)
....+...++|+|.+....+ ..+ .+..++..-+..++++|...|-++++++..+. ..+..-.+.+.+.+
T Consensus 70 -~~~~~~~~~iPvv~~~~~~~-----~~~---~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 -FLDELTRRGVPFVLVLRHAG-----TSP---AVTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred -HHHHHHHcCCCEEEEccCCC-----CCC---EEEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 34445678999998754321 223 24566777788888888888999999997543 23455578888999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEe
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~ 258 (930)
++.|..+.....+... .+.......+.++.+. .+++|+ +.+...+..+++.+++.|+..++ ...++-
T Consensus 141 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~di~iig~ 210 (265)
T cd06285 141 AEAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTAIF-AVNDFAAIGVMGAARDRGLRVPDDVALVGY 210 (265)
T ss_pred HHcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 9888754321111111 1223333445555433 345544 44666777899999999985443 334443
No 174
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.40 E-value=0.031 Score=61.14 Aligned_cols=203 Identities=11% Similarity=0.016 Sum_probs=118.6
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcC-CChh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP-QCST 107 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~s~ 107 (930)
.+-.||+++|.. .++-.....+++.+.++ .|+++.+. ++..++..-.+....+...++.++|-. ....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 356899999853 33323344555554443 25666543 344455444445555667788887642 2222
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 185 (930)
.. .....+.+.++|+|......+ ...++ ....++...+..++++|-..|-++++++.... ..++.-.+.+.
T Consensus 130 ~~-~~~~~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EH-PFYQRLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred Ch-HHHHHHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 22 223444567999998654321 12223 34567777788888888888999999997433 23445578899
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+++++.|+.+.... ... .+..+-...+.++.+. .+++|++. +...+..+++++.+.|+..++-+
T Consensus 203 ~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~di 268 (328)
T PRK11303 203 QALKDDPREVHYLY--ANS--FEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDL 268 (328)
T ss_pred HHHHHcCCCceEEE--eCC--CChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCce
Confidence 99999887543221 111 1223333445555433 46666654 45667778899999998655443
No 175
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.39 E-value=0.022 Score=62.65 Aligned_cols=203 Identities=6% Similarity=-0.004 Sum_probs=119.9
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
..-.||+++|.. .++-.....+++-++++ . |+.+- +.++..++.........++.+++.+||--.....
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVF--LLQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEE--EEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 456899999853 33334445555555443 2 44443 3444455555555556677777887763222222
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALND 186 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (930)
.......+...++|+|...... .....+ .+..++...+..++++|...|.++++++..+.. ....-.+.+.+
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~---~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRAS---YLDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCC---CCCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 3445566677899999864321 112223 255677778888889988889999999864332 22345678899
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccC
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~ 251 (930)
++++.|+.+.....+... .........+.++.+. .+++|+ +.+...+..+++.+.+.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 999888754321111111 1122333445554433 356655 4566777788899999997544
No 176
>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=97.37 E-value=0.056 Score=57.20 Aligned_cols=206 Identities=10% Similarity=0.086 Sum_probs=114.1
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~~ 111 (930)
+||++...+.++-.....+++.+.++ .|+++.+. .++..++..-.+....+++.+|.++| .|........
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~-~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKE--------LGVDVEFV-VPQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHH--------cCCeEEEe-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 47888765544333444555544444 14555543 23344555555666667777888876 3444333333
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC--ccccchHHHHHHH
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALNDK 187 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~--~~g~~~~~~l~~~ 187 (930)
....+.+ ++|+|......+. . +.+.-+..++..-+..+++++... +-.+++++.... .....-.+.++++
T Consensus 72 ~l~~~~~-~ipvV~~~~~~~~--~---~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~ 145 (271)
T cd06314 72 ALNKAAA-GIKLITTDSDAPD--S---GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDA 145 (271)
T ss_pred HHHHHhc-CCCEEEecCCCCc--c---ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHH
Confidence 3333455 9999987542211 1 112234566677778888887654 335666665432 2344557888999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+++.|+++.... .. . .+..+....++++.+. .+++|+. .+...+..++..+++.|.. .+...++.+
T Consensus 146 ~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 146 IKDSKIEIVDTR-GD-E--EDFAKAKSNAEDALNAHPDLKCMFG-LYAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HhcCCcEEEEEe-cC-c--cCHHHHHHHHHHHHHhCCCccEEEe-cCCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 999988765321 11 1 1233444455555433 3455544 3445555678888888875 344444433
No 177
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.35 E-value=0.023 Score=60.14 Aligned_cols=204 Identities=14% Similarity=0.073 Sum_probs=120.1
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC-hh--H
Q 002364 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC-ST--V 108 (930)
Q Consensus 34 IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~-s~--~ 108 (930)
||+++|.. ..+-.....+++.+.++ . |+.+. +.++..++..-.+....++.+++.++|= |.. .. .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ----Y----GYTVL--LCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH----C----CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 78999853 33333444555555554 1 56654 3455556666566677788888887763 221 21 1
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~ 186 (930)
.......+...++|+|.+....+. ....+ ....++...+..+++.+...|-++++++.... ...+.-.+.+.+
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 222334456789999987654322 01123 35567788888888988888999999986432 234455688888
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCCeEE
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~ 255 (930)
.+++.|+.......+... .+.......+.++....+++|++ .+...+..+++.+++.|+..++-+-
T Consensus 147 ~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~di~ 212 (273)
T cd06292 147 ALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIVA-ASDLMALGAIRAARRRGLRVPEDVS 212 (273)
T ss_pred HHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceE
Confidence 998887542111111111 11233334455554444776554 4556677788999999875444433
No 178
>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=97.30 E-value=0.022 Score=60.17 Aligned_cols=205 Identities=11% Similarity=0.081 Sum_probs=115.0
Q ss_pred EEEEEeeC------CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002364 33 NVGALFTL------DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (930)
Q Consensus 33 ~IG~i~~~------s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 105 (930)
.||+++|. +.++-.....+++-+.++. |+++.+. +... +..-.....+++.. ++.++|-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 37888884 2333334455555555542 5666543 3332 23334455566544 5777654322
Q ss_pred hhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCcc--ccchHHH
Q 002364 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSA 183 (930)
Q Consensus 106 s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~--g~~~~~~ 183 (930)
... ......+.+.++|+|.+....+ . .+.+..+..++...+..+++.+...|-++++++.....+ ...-.+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPED---D--KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCC---C--CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 111 2334556778999998754321 1 012233455667778888888877799999999744332 3344678
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCe-EEEE
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY-VWIA 257 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~-~~i~ 257 (930)
+.+.+++.|+.+......... .+.......+.++.++ ++++|+. .+...+..+++++++.|+..++- .+++
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vig 217 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLD--FSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSIIG 217 (270)
T ss_pred HHHHHHHcCCCCCcceEEecC--CchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 899999887532111111111 1223344455555433 3565555 45667888999999999864443 3444
No 179
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.29 E-value=0.042 Score=59.95 Aligned_cols=201 Identities=10% Similarity=0.032 Sum_probs=132.4
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
.+-.||+++|.- .++-.....|++.+.++ .|+.+-+ .++..++..-......+.+.+|+++|=-. ...
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l--~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~ 125 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLL--ANTDDDPEKEREYLETLLQKRVDGLILLG-ERP 125 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEec-CCC
Confidence 577899999943 32223344444444443 2455444 44444666655566667777898887533 444
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALND 186 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~ 186 (930)
.......+...++|+|......+ + +.+-....++..-+..++++|...|-++++++... ...++.-.+.+.+
T Consensus 126 ~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 199 (333)
T COG1609 126 NDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRA 199 (333)
T ss_pred CHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHH
Confidence 45556677777999998765444 2 23445667888889999999999999999999965 4455677899999
Q ss_pred HHhhcceEE--EEEEecCCCCCCChhHHHHHHHHHHhCC---ceEEEEEcChhhHHHHHHHHHHcCcccCC
Q 002364 187 KLAERRCRI--SYKSGIPPESGVNTGYVMDLLVKVALME---SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 187 ~l~~~g~~v--~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~~~~~a~~~g~~~~~ 252 (930)
++++.|+.. .....-. .+..+-...+.++.... +++|+ |++...|..+++++++.|...++
T Consensus 200 al~~~~~~~~~~~i~~~~----~~~~~g~~~~~~ll~~~~~~ptAif-~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 200 ALREAGLPINPEWIVEGD----FSEESGYEAAERLLARGEPRPTAIF-CANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHCCCCCCcceEEecC----CChHHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 999999875 2222111 12344444555554432 55654 45667888899999999987654
No 180
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.26 E-value=0.04 Score=60.17 Aligned_cols=205 Identities=8% Similarity=0.027 Sum_probs=116.7
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (930)
.+-.||+++|.. ..+-.....+++-+.++ .|+++.+ .++..++..-.+....+.+.+|.++|= |....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE--------RGYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence 456899999853 33333445555555554 2555544 445555555455556667777777763 22221
Q ss_pred HHHHHHHhhcc-CCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHH
Q 002364 108 VAHIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSAL 184 (930)
Q Consensus 108 ~~~~v~~~~~~-~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l 184 (930)
. ........ .++|+|...... ..... .....++..-+..++++|...|-++++++..+ ....+.-.+.+
T Consensus 125 ~--~~~~~l~~~~~iPvV~i~~~~---~~~~~---~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 125 Q--PSREIMQRYPSVPTVMMDWAP---FDGDS---DLIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred h--hhHHHHHhcCCCCEEEECCcc---CCCCC---CEEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 1 11222233 489999875321 11111 12444555567888888888899999998643 23345567889
Q ss_pred HHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEE
Q 002364 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~ 255 (930)
.+++++.|+.+.....+..+ .........+.++.+. .+++|++ ++...+..+++.+++.|+..+.-+-
T Consensus 197 ~~al~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvs 266 (327)
T PRK10423 197 RAAMKRAGLNIPDGYEVTGD--FEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIA 266 (327)
T ss_pred HHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceE
Confidence 99999988754321111111 1122333445555433 3565544 5566777899999999986554443
No 181
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=97.26 E-value=0.061 Score=57.78 Aligned_cols=195 Identities=11% Similarity=-0.014 Sum_probs=109.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhH-H
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV-A 109 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~-~ 109 (930)
+||+++|.. .++-.....+++-+.++ .|+.+.+...+...+..........+++++|.+||= |..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH--------LGVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH--------hCCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 589999853 22222333444444443 256665543333335555555666777788888763 332222 2
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcC-----ccEEEEEEEcC--ccccchHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-----WNAVSVIFVDN--EYGRNGVS 182 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~-----w~~v~ii~~d~--~~g~~~~~ 182 (930)
..+.. +. .++|+|.+..... .. ..+-.+..++..-+..++++|.... -++++++.... .....-.+
T Consensus 73 ~~l~~-~~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQ-LT-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHH-Hh-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 23333 33 4899987532211 11 1234456677777788888766521 24699987433 33455678
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
.+++++++.|+++... .... .+.......++++.+. ++++| +++...+..+++++++.|.
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 8999999888876532 1211 2233334455555433 35754 4566667788888888876
No 182
>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=97.26 E-value=0.023 Score=60.12 Aligned_cols=207 Identities=13% Similarity=0.055 Sum_probs=121.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
.||++.|.. ..+-.....+++-+.++ .|+++. +.++..++..-.+....++.+++.++| .|.....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-- 68 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAA--------AGYDVV--LSESGRRTSPERQWVERLSARRTDGVILVTPELTS-- 68 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEE--EecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh--
Confidence 378888853 44444555666655554 155554 445555554444555667777888775 3333222
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKL 188 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l 188 (930)
.....+...++|+|.+...... ....+ ...+++...+..+++.+...|.++++++..+. .......+.+.+.+
T Consensus 69 ~~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 69 AQRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred HHHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 2356667789999987643211 11223 36677777888888888888999999986432 23345568888899
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEeC
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIATD 259 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~~ 259 (930)
++.++.+......... .+.+.....+.++.+. .+++|+. .+...+..+++.+++.|...++ ..+++.+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 144 AEAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIFA-GNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 8877654321111111 1223333445554433 3455544 4556677789999999975433 4445443
No 183
>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=97.24 E-value=0.04 Score=60.25 Aligned_cols=206 Identities=9% Similarity=0.015 Sum_probs=119.6
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (930)
.+-.||+++|.. .++-.....+++-++++ .|+.+.+. ++..++..-......+..++|.++|- |....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCC
Confidence 357899999853 33333444454444433 25666543 44445554444555667778888763 33221
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (930)
. ......+...++|+|......+ +...+ .+.+++..-+..++++|...|.++++++..... ....-.+.++
T Consensus 129 ~-~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 E-DAYYQKLQNEGLPVVALDRSLD---DEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred C-hHHHHHHHhcCCCEEEEccccC---CCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 2 2333445567999998654322 11223 345666667777888888889999999974332 3445578889
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCcccCCe-EEEEe
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY-VWIAT 258 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~~~~-~~i~~ 258 (930)
+++++.|+.+.... ... .+.++-...+.++.+. .+++|++. +...+..+++++++.| ..++- ..++-
T Consensus 202 ~al~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dvsvigf 272 (327)
T TIGR02417 202 QALKQATLEVEWVY--GGN--YSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQLHLATF 272 (327)
T ss_pred HHHHHcCCChHhEE--eCC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcceEEEE
Confidence 99998886532111 111 1223333455555432 35766554 5566778999999999 55543 44443
No 184
>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=97.23 E-value=0.024 Score=59.56 Aligned_cols=198 Identities=11% Similarity=0.002 Sum_probs=118.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
+||++.|.. ..+-.....+++.+.++. |+.+.+ .++..++....+....+...+|.++|=..+......
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVL--LQTNYDKEKELEYLELLKTKQVDGLILCSRENDWEV 70 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCHHH
Confidence 478888863 444455666777666642 565544 455556665555666677778887763222222233
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~ 189 (930)
+..+.+ .+ |+|......+ .. .-...+++...+..+++.+...|-++++++..+ +.....-.+.+.+.++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~----~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS----KN---ISSVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC----CC---CCEEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444333 44 8886543211 12 234667777888889999888899999999743 2344455788899999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCC
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~ 252 (930)
+.|+++.....+... .+..+....+.++.+. .+++|+ +++...+..+++.+++.|+..++
T Consensus 142 ~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~ 203 (260)
T cd06286 142 EYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPE 203 (260)
T ss_pred HcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCc
Confidence 888654211111111 1233334455555443 456554 56667778899999999985443
No 185
>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=97.21 E-value=0.072 Score=56.49 Aligned_cols=210 Identities=11% Similarity=0.025 Sum_probs=114.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
+||++.|.. ..+-.....+++-+.++..-. ...+.... ....++..-.+....+.. ++.++| .|.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~-~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHF-VESFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEE-ccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 588888753 333334455555555553211 22222222 223455444455555666 788775 344433333
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc-C--ccEEEEEEEcCc--cccchHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-G--WNAVSVIFVDNE--YGRNGVSALN 185 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~-~--w~~v~ii~~d~~--~g~~~~~~l~ 185 (930)
.....+.+.++|+|.+....+. ... +..+..++...+...++++... | -++++++..... ....-.+.++
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 4446666689999986533211 111 2335566666777777776654 5 369998875332 2344467889
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh--CCceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+++++.+..+......... .+..+....++++.+ .++++|+...+. +..+++++++.|+. .+...++.|
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 9998876544322222211 223334445555533 246677766543 36789999999974 344555543
No 186
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=97.19 E-value=0.019 Score=61.61 Aligned_cols=185 Identities=13% Similarity=0.128 Sum_probs=111.4
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||++-..+.+.-.....|++-++++. |+.. ..+++.+.+.++|+....+.+.++.+.+++.|+- .++..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~----g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~-~gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL----GYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIA-IGTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT----T--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEE-ESHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc----CCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEE-eCcHHHHHH
Confidence 588888877654456677777777664 3323 5788889999999999988888888777777764 334555666
Q ss_pred HHhhccCCCcEEecccCCCCCCC----CCCC--ceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcCcc-ccchHHH
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSS----LQYP--FFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY-GRNGVSA 183 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~----~~~p--~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~~~-g~~~~~~ 183 (930)
....... +|+|-.+.++|...+ ...| ++.=+. +......-.++++++ +-++++++|+++.- +....+.
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 6555444 999877776765433 2233 443333 344455555666554 56999999976543 4566788
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 233 (930)
+++.+++.|+++... .++ +..++...+.++.. +.|++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~-~v~-----~~~~~~~~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP-----SSEDLEQALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES-----SGGGHHHHHHHHCT-T-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEE-ecC-----cHhHHHHHHHHhhc-cCCEEEEECCc
Confidence 999999999987643 222 36788888888754 57888887654
No 187
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.19 E-value=0.0037 Score=67.89 Aligned_cols=112 Identities=21% Similarity=0.270 Sum_probs=63.5
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHHHh---hccccccc-eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQE---LNISKSRL-VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~---~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 755 (930)
++|++++||. |+++++..++..+.++... .+.+...+ ..+.+..+...++.+ |++|+++...++......
T Consensus 119 s~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~----G~vDa~~~~ep~~~~~~~ 192 (314)
T PRK11553 119 SPIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQ----GNVDAWAIWDPYYSAALL 192 (314)
T ss_pred CCCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHc----CCCCEEEEcCcHHHHHHh
Confidence 3688999997 8889998887666555332 23322222 224466778899999 999999887777665554
Q ss_pred cCc-cEEEeCccccccceeeeeCCCC--cchHHHHHHHHhhhhcc
Q 002364 756 SQC-SFRIVGQEFTKSGWGFAFPRDS--PLAVDLSSAILELAENG 797 (930)
Q Consensus 756 ~~~-~l~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~i~~l~e~G 797 (930)
+.. ++....+.+......++..+.. ...+.+++.+..+.+..
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A~ 237 (314)
T PRK11553 193 QGGVRVLKDGTDLNQTGSFYLAARPYAEKNGAFIQQVLATLTEAD 237 (314)
T ss_pred cCCcEEeecCcccCcCceEEEEcHHHHHHCHHHHHHHHHHHHHHH
Confidence 432 3333233333223233333221 14444555555555443
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=97.18 E-value=0.088 Score=56.65 Aligned_cols=208 Identities=7% Similarity=-0.043 Sum_probs=116.7
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
+||++.+.. .++-.....+++-+.++ .|+++.+. .++..++....+....++.+++.+||- +.......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~--------~g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE--------LGVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH--------hCCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 488888743 33333445555555554 14554432 244456666666666777778887764 33333334
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc-Cc-cEEEEEEEcCc--cccchHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GW-NAVSVIFVDNE--YGRNGVSALND 186 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~-~w-~~v~ii~~d~~--~g~~~~~~l~~ 186 (930)
.....+...++|+|.+....+. .. ..+....+++...+..+++++... +- ++++++..+.. ....-.+.+++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~---~~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP---DN-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC---Cc-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 4445567789999987543211 00 113344567777888888887665 43 69998874332 23344678889
Q ss_pred HHhhcceE-EEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 187 KLAERRCR-ISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 187 ~l~~~g~~-v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
++++.|.. +.....+... .+.......++++.+. ++++|+ +.+...+..+++++++.|+. .....++
T Consensus 148 ~l~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~D~~A~g~~~al~~~g~~-~dv~vvG 217 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGD--DDADKSYQTAQELLKAYPDLKGII-GPTSVGIPGAARAVEEAGLK-GKVAVTG 217 (298)
T ss_pred HHhhcCCCCeEEeCcccCC--CCHHHHHHHHHHHHHhCCCceEEE-ECCCcchhHHHHHHHhcCCC-CCEEEEE
Confidence 99888621 2211111211 1223333445554333 344444 34556778899999999975 3333444
No 189
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=97.17 E-value=0.038 Score=58.20 Aligned_cols=194 Identities=13% Similarity=0.039 Sum_probs=111.7
Q ss_pred EEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
.||++.|. +..+-.....+++-+.++ .|+++. +.++..++..-.+....+...++.++|- |....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK--------KGYKLI--LCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH--------CCCeEE--EecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 37888874 333333444455444433 255554 4455555555555555666667777763 33222
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC---ccccchHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDK 187 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~---~~g~~~~~~l~~~ 187 (930)
...+...++|+|......+ ...+ ...+++...+..+++++...|.++++++.... .....-.+.+.+.
T Consensus 68 --~~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 --IEEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred --HHHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 1244567999998765432 1222 35566677788888888888999999986432 3344556788999
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~ 252 (930)
+++.|+.+... ..... .+..+....+.++.+.. +++|+. .+...+..+++.+++.|...++
T Consensus 139 l~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 139 LKENGLEVRII-EIQEN--FDDAEKKEEIKELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHHcCCCCChh-eeecc--ccchHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCc
Confidence 98888754221 11111 11222234455544333 455444 3445677888999999875443
No 190
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=97.13 E-value=0.035 Score=58.79 Aligned_cols=206 Identities=15% Similarity=0.131 Sum_probs=120.9
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChh---
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCST--- 107 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~--- 107 (930)
.||+++|.. +.+-.....+++.+.++ . |+++ .+.++..++....+....++..+|.++| .|..+.
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~----~----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (273)
T cd01541 1 NIGVITTYISDYIFPSIIRGIESVLSE----K----GYSL--LLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPN 70 (273)
T ss_pred CeEEEeCCccchhHHHHHHHHHHHHHH----c----CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEecccccccc
Confidence 378888753 33222334444433332 2 4555 4456666777777777888888888886 333221
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC-ccccchHHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALND 186 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~ 186 (930)
........+...++|+|......+. . -+..+..++...+..+++++...|.++++++...+ ..+..-.+.+.+
T Consensus 71 ~~~~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~ 144 (273)
T cd01541 71 PNIDLYLKLEKLGIPYVFINASYEE---L---NFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIK 144 (273)
T ss_pred ccHHHHHHHHHCCCCEEEEecCCCC---C---CCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHH
Confidence 1223334457789999987543221 1 12346677778888889988888999999886432 233444677888
Q ss_pred HHhhcceEEEEE--EecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 187 KLAERRCRISYK--SGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 187 ~l~~~g~~v~~~--~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
.+++.|..+... ...... .........++++.+. .+++| ++.+...+..+++++++.|+..++-+-+.
T Consensus 145 ~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 145 AYREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 888887643211 111111 1112344455555433 35655 44556677779999999998655444333
No 191
>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=97.12 E-value=0.046 Score=57.54 Aligned_cols=204 Identities=10% Similarity=0.018 Sum_probs=113.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
.||+++|.. ..+-.....+++.+.+ + .|+++.+ .++..++..-......+.++++.++|- |..... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~----~----~gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~ 69 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLN----G----SGYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPE-E 69 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHH----H----CCCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCh-H
Confidence 378888753 3332333344443333 2 2555544 444555554445555677777888763 322111 2
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc--CccccchHHHHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKL 188 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l 188 (930)
.+..+ . .++|+|......+ +...+ .+..++..-+..+++.+...|-++++++..+ ........+.+.+.+
T Consensus 70 ~~~~~-~-~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 141 (265)
T cd06290 70 EILAL-A-EEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKAL 141 (265)
T ss_pred HHHHH-h-cCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHH
Confidence 22222 3 4899998764322 11222 3556777778888888877799999998743 233345567788888
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEEe
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIAT 258 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~ 258 (930)
.+.|+.+.....+... .+.......++++.+. .+++|+ +++...+..+++.+++.|+..++ ...++-
T Consensus 142 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~di~vi~~ 211 (265)
T cd06290 142 EEAGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPEDVSLIGF 211 (265)
T ss_pred HHcCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEeee
Confidence 8877654211111111 1122233445555433 356655 45666777889999999975443 334443
No 192
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.12 E-value=0.048 Score=57.31 Aligned_cols=199 Identities=10% Similarity=-0.025 Sum_probs=107.3
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||+++|... ...+....+..++++.-++ .|+.+.+ .++. ++....+....+...+|.+||-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~----~gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKE----LGVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHh----cCceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 5899998411 1123334444444444333 2555444 4444 44444455566666688877643222 22344
Q ss_pred HHhhccC-CCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc-CccEEEEEEEcC-ccccchHHHHHHHHh
Q 002364 113 SYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (930)
Q Consensus 113 ~~~~~~~-~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~-~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 189 (930)
.....+. ++|++......+. ... +-....++..-+..++.++... |-++++++..+. .....-.+.+.++++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~---~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPN---VASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCC---eeeeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 4555544 7898876443211 011 1223344444445555555554 889999997532 223334678888999
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcC
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
+.|..+......... ..+.......++++.+..+++| ++.+...+..+++++++.|
T Consensus 147 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGS-FFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecC-ccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 887643321111111 0112233445666655567775 5666677778999999888
No 193
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=97.11 E-value=0.056 Score=57.04 Aligned_cols=195 Identities=13% Similarity=0.035 Sum_probs=106.3
Q ss_pred EEEEEeeCC----CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 33 NVGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~s----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
+||++.|.+ .+.-.....+++.+.++ .|+++.+. +.. ++..-.+....+.+.+|.+||--.. ..
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~--------~gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~-~~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE--------LGIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGF-LL 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH--------cCCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCc-ch
Confidence 589999852 22223444455544444 25555554 332 3333344455677778888885322 22
Q ss_pred HHHHHHhhccC-CCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhc-CccEEEEEEEcCccccch-HHHHH
Q 002364 109 AHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWNAVSVIFVDNEYGRNG-VSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~-~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~-~w~~v~ii~~d~~~g~~~-~~~l~ 185 (930)
.........+. ++|++......+.. +.+-....++..-+..++.++... |-++++++..+....... .+.++
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23445565555 89999865422110 112234444444455555566543 889999997432212222 36788
Q ss_pred HHHhhcc---eEEEEEEecCCCCCCC-hhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcC
Q 002364 186 DKLAERR---CRISYKSGIPPESGVN-TGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 186 ~~l~~~g---~~v~~~~~~~~~~~~~-~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
+.+++.| ..+......... .+ ..+....++++.+..+++|+. .+...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ll~~~pdaI~~-~nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGS--FNDPAKGKEIAQAMYDQGADVIFA-AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCc--ccCHHHHHHHHHHHHHCCCcEEEE-CCCCCchHHHHHHHhcC
Confidence 8888887 544322111211 11 223334556665556886544 46677778899999987
No 194
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.11 E-value=0.0033 Score=65.43 Aligned_cols=121 Identities=20% Similarity=0.310 Sum_probs=74.3
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHH-----HHHH-Hhhccccc---cceecCCHHHHHHHHhcCCCCCceEEEEecchhH
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAE-----YYLS-QELNISKS---RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 750 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~-----~~l~-~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 750 (930)
.+|++++||. |+++++...+... ..+. ++.++... +.+...+.++.+.+|.+ |++|+.+......
T Consensus 95 s~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~~~~~~~~ 168 (243)
T PF12974_consen 95 SPITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLN----GKADAAAIPSDAF 168 (243)
T ss_dssp SS--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHT----TSSSEEEEEHHHH
T ss_pred CCCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHc----CCccEEEEechhH
Confidence 4799999997 8999987644222 2222 23333321 23345688889999999 8999988887776
Q ss_pred HHHHhcC----ccEEEeCccccccceeeeeCCCCc--chHHHHHHHHhhhhccchHHHHHHh
Q 002364 751 ELFLSSQ----CSFRIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILELAENGDLQRIHDKW 806 (930)
Q Consensus 751 ~~~~~~~----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l~e~G~~~~~~~~w 806 (930)
+-+.... .+++++...-......++..++-| .++.|-.+++.+..+-.-.++.+.+
T Consensus 169 ~~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 169 ERLEAEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHHHHH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HHHHHccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 6665542 257777654333345677777755 8999999999999764444454444
No 195
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.10 E-value=0.053 Score=59.71 Aligned_cols=204 Identities=11% Similarity=0.063 Sum_probs=114.9
Q ss_pred ceEEEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 30 AVVNVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 30 ~~i~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
.+-.||+++|. +.++-.....+++.+.++ . |+.+ .+.++..++..-......++.++|.++|-......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~---~-----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH---T-----GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH---c-----CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 46789999984 233333344444444443 1 4444 34455555555555556677778877764221111
Q ss_pred HHHHHHhhccCCCc-EEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHH
Q 002364 109 AHIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP-~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (930)
...+..+.. ++| +|......+ +...++ ..+++..-+..+++.|...|.+++++|..+.. ..+.-.+.++
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 222333333 677 676543221 111222 45667777777888888889999999974332 3445578899
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+++++.|+.+......... .+...-...+.++.+. .+++|+ +.+...+..++++++++|+..++-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~di 267 (343)
T PRK10727 200 DALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEI 267 (343)
T ss_pred HHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 9999998754221111111 1122223345555433 356554 4566778889999999998655444
No 196
>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=97.10 E-value=0.034 Score=58.41 Aligned_cols=197 Identities=15% Similarity=0.104 Sum_probs=111.5
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
.||++.|.. ..+-.....+++.+.++ .|+.+.+...+ ++.. ....+...++.++|-..+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~---~~~~---~~~~l~~~~vdgii~~~~~~~~~- 65 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK--------NGYNMNVSITP---SLAE---AEDLFKENRFDGVIIFGESASDV- 65 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH--------cCCEEEEEecc---cHHH---HHHHHHHcCcCEEEEeCCCCChH-
Confidence 378898864 33333444555544443 25666665443 2222 22345555777776322222222
Q ss_pred HHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHHh
Q 002364 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (930)
Q Consensus 112 v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~ 189 (930)
....+...++|+|......+ ..++ .+..++...+..+++.+...|-++++++..... ....-...+++.++
T Consensus 66 ~~~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 66 EYLYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 23445678999997654322 1222 355677778888999888889999999974432 33444678888998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+.|+.+......... .+.......+.++.+.. +++ |++++...+..+++.+++.|+..++-+
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv 202 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDI 202 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCce
Confidence 888533211111111 11233334455554433 455 444555667789999999998644433
No 197
>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=97.09 E-value=0.058 Score=56.95 Aligned_cols=199 Identities=13% Similarity=0.049 Sum_probs=110.6
Q ss_pred EEEEEeeC----CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 33 NVGALFTL----DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 33 ~IG~i~~~----s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
.||+++|. +..+-.....+++-+.++ .|+++.+...|.. ...-......+.+.++.+||-......
T Consensus 1 ~vgv~~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~ 70 (268)
T cd06277 1 NIGLIASKRILNSPAFYSEIYRAIEEEAKK--------YGYNLILKFVSDE--DEEEFELPSFLEDGKVDGIILLGGIST 70 (268)
T ss_pred CeEEEEeccccccCCcHHHHHHHHHHHHHH--------cCCEEEEEeCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCCh
Confidence 37888886 233333444455444443 2677766655533 222222233455668888875222222
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALND 186 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~ 186 (930)
.....+...++|+|......+ +...++ +..++...+...++++...|.++++++..+.. ....-.+.+.+
T Consensus 71 --~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 --EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred --HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 235556778999998654322 112232 44566666777778888889999999975543 23345678899
Q ss_pred HHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcccCC
Q 002364 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~~~~ 252 (930)
.+++.|+.+......... ......+...+.++. ..+++|+. .+...+..+++++++.|+..++
T Consensus 143 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai~~-~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 143 ALLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAFFC-SNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEEEE-CCcHHHHHHHHHHHHcCCCCCC
Confidence 999888754321111100 011233343333322 23665444 4556667788888888875443
No 198
>PRK09526 lacI lac repressor; Reviewed
Probab=97.05 E-value=0.096 Score=57.62 Aligned_cols=202 Identities=11% Similarity=0.066 Sum_probs=115.6
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--CCCh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG--PQCS 106 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG--p~~s 106 (930)
.+-.||+++|.. ...-.....+++-+.++ .|+.+.+...+.. ++..-......+.+.+|.++|- |...
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~~-~~~~~~~~l~~l~~~~vdGiii~~~~~~ 132 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVERS-GVEACQAAVNELLAQRVSGVIINVPLED 132 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCCC-hHHHHHHHHHHHHhcCCCEEEEecCCCc
Confidence 356799999853 22223344555544443 2666665433322 2233334455677778888763 4433
Q ss_pred hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHH
Q 002364 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSAL 184 (930)
Q Consensus 107 ~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l 184 (930)
.....+. ....++|+|.+... + +.. +-.+..++..-+..++++|...|-++++++..+. ...+.-.+.+
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 2222221 12358999976532 1 111 2345667777778888988888999999997432 2334456788
Q ss_pred HHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
++++++.|+.+.... ... .+..+-...+.++... .+++|+ +.+...+..+++++++.|+..++-+
T Consensus 204 ~~al~~~gi~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~di 270 (342)
T PRK09526 204 LEYLTDYQLQPIAVR--EGD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQI 270 (342)
T ss_pred HHHHHHcCCCcceEE--eCC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCce
Confidence 999999887643221 111 1122223344554332 356555 4566777789999999998655444
No 199
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.04 E-value=0.056 Score=57.16 Aligned_cols=201 Identities=8% Similarity=-0.019 Sum_probs=115.0
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEcCCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALR-FMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~-li~~~v~aiiGp~~s~~~~ 110 (930)
.||++.|.. .++-.....+++.+.++ .|+++.+...+. + ....+...+ +...+|.+||=-..... .
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~ 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-E 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-h
Confidence 378888864 33334445555555554 256666654442 2 222233333 44557777753222212 3
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--c------cccchHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E------YGRNGVS 182 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~------~g~~~~~ 182 (930)
.....+.+.++|+|......+ ..++ +.+++..-+..+++.|... .++++++..+. . .+..-.+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~ 139 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRA 139 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHH
Confidence 344556778999998754321 1232 3467777788888887766 79999886432 2 3445578
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
.+++.+++.|+++.....+... .+..+....+.++.+. .+++|+. .+...+..+++.+++.|...++-+-+.
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVFA-SADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8999999888764321111111 1233444556665443 3455544 455677789999999997655444333
No 200
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.03 E-value=0.058 Score=56.79 Aligned_cols=199 Identities=11% Similarity=0.094 Sum_probs=116.1
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~ 110 (930)
.||+++|.. ..+-.....+++.++++ .|+++.+ .++..++..-......+...++.++|= |......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVIL--CNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 488999865 23334455666666665 2566644 444455554444445566666776653 3322221
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC-ccccchHHHHHHHHh
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~ 189 (930)
... ....++|+|......+ ...+++ ...++..-+..+++.+...|-++++++..+. .....-...+++.++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 222 3467899998754432 222343 3456777788888888888999999986432 223344678889998
Q ss_pred hcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEE
Q 002364 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (930)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i 256 (930)
+.|+..... ..... ..+....+.++... .+++| ++.+...+..+++.+++.|+..++-+.+
T Consensus 142 ~~~~~~~~~-~~~~~----~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~i 204 (263)
T cd06280 142 RHGLAPDAR-FVAPT----AEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLAL 204 (263)
T ss_pred HcCCCCChh-hcccC----HHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEE
Confidence 888654321 11111 33333344554432 45654 4466677888999999999865444433
No 201
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.02 E-value=0.042 Score=57.92 Aligned_cols=203 Identities=12% Similarity=0.055 Sum_probs=115.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||++.|.+.++-.....+++-+.++. + |+.+.+. +. +. .+....|...+|.++|-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~--~~--~~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLE--PR--GL---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEe--cc--cc---hhhhhhccccccceEEEECCCH---HH
Confidence 489999965544445555555555543 2 4555442 22 11 2233445555888887532222 22
Q ss_pred HHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc-cccchHHHHHHHHhhc
Q 002364 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAER 191 (930)
Q Consensus 113 ~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~ 191 (930)
...+...++|+|.+....+. +.+-.+..++...+..+++++...|-++++++..... ....-.+.+++++++.
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 34456679999987543221 2234577788888888899888889999999864332 2233457888999998
Q ss_pred ceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccC-CeEEEEeC
Q 002364 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN-GYVWIATD 259 (930)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~-~~~~i~~~ 259 (930)
|..+............+..+....+.++.+. .+++ |++++...+..+++.+++.|+..+ +...++-|
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 8765211111000001112223344554332 3554 444566777788899999997533 44455544
No 202
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=97.00 E-value=0.085 Score=57.74 Aligned_cols=206 Identities=9% Similarity=0.011 Sum_probs=118.1
Q ss_pred eEEEEEEeeC-CCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 31 VVNVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 31 ~i~IG~i~~~-s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
+-.||++.|. +.++-.....+++-+.++ .|+++.+ .+...++..-......++..+|.++|-......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~- 131 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT- 131 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-
Confidence 4589999984 233333444555555443 2555544 444445544444455566678888774222112
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC-ccccchHHHHHHHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKL 188 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l 188 (930)
......+.+.++|+|...... .+ .... .+.+++..-+..++++|...|-++++++.... .....-.+.+++++
T Consensus 132 ~~~~~~l~~~~iPvV~~~~~~---~~-~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 132 PRTLKMIEVAGIPVVELMDSQ---SP-CLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred HHHHHHHHhCCCCEEEEecCC---CC-CCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 233445667899999753211 11 1111 35677777788888988889999999996432 22334467888999
Q ss_pred hhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
++.|+... ...+... .+...-...++++.+. .+++|+. .+...+..+++++++.|+..|+-+-|.
T Consensus 206 ~~~g~~~~-~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 206 LDAGLVPY-SVMVEQS--SSYSSGIELIRQARREYPQLDGVFC-TNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHcCCCcc-ceeecCC--CChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 98886311 1111111 1122223345555433 3566554 566777888999999998765544433
No 203
>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=96.98 E-value=0.062 Score=57.30 Aligned_cols=200 Identities=14% Similarity=0.078 Sum_probs=114.7
Q ss_pred EEEEeeCC------CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChh
Q 002364 34 VGALFTLD------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (930)
Q Consensus 34 IG~i~~~s------~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~ 107 (930)
||++.|.. .++-.....+++-+.++ .|+++.+...+. .. +....+...++.++|--.+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~~---~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---ED---SDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---HH---HHHHHHHhcCCCEEEEeCCCC
Confidence 88999862 22223444555444443 256665544332 11 233445566888887533222
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC-------------
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN------------- 174 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~------------- 174 (930)
. ......+...++|+|......+ +.+-....++...+..++++|...|-++++++..+.
T Consensus 68 ~-~~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 68 D-DPLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred C-hHHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 2 2345556778999998754321 122346677788888899998888999999997432
Q ss_pred ------ccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHc
Q 002364 175 ------EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYL 246 (930)
Q Consensus 175 ------~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~ 246 (930)
.......+.+.+++++.|+++.....+... ..+.......+.++..+. +++|+ +++...+..+++++++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~ 217 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIP-ENDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVAREL 217 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecC-CCchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHc
Confidence 122344678888998887543211111111 012334445555654433 45544 45566777899999999
Q ss_pred CcccCC-eEEEE
Q 002364 247 GMMGNG-YVWIA 257 (930)
Q Consensus 247 g~~~~~-~~~i~ 257 (930)
|+..++ ...++
T Consensus 218 g~~ip~di~vig 229 (283)
T cd06279 218 GLRVPEDLSVVG 229 (283)
T ss_pred CCCCCCceEEee
Confidence 985443 33444
No 204
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=96.95 E-value=0.0055 Score=66.06 Aligned_cols=70 Identities=21% Similarity=0.240 Sum_probs=47.5
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHHH---hhcccccc--ceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHH
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFL 754 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~ 754 (930)
..|++++||. |++||+..++..+.++.. ..+++... ++.. +..+...++.+ |++|+++...+......
T Consensus 90 s~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~----G~vDa~~~~~p~~~~~~ 162 (300)
T TIGR01729 90 SGIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL-KPPQIVAAWQR----GDIDAAYVWPPALSELL 162 (300)
T ss_pred CCCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec-CcHHHHHHHHc----CCcCEEEEecHHHHHHH
Confidence 4789999998 999999877654443322 23333222 2223 46778999999 99999988888766554
Q ss_pred hc
Q 002364 755 SS 756 (930)
Q Consensus 755 ~~ 756 (930)
.+
T Consensus 163 ~~ 164 (300)
T TIGR01729 163 KS 164 (300)
T ss_pred hc
Confidence 44
No 205
>PRK09492 treR trehalose repressor; Provisional
Probab=96.82 E-value=0.15 Score=55.25 Aligned_cols=192 Identities=13% Similarity=0.028 Sum_probs=114.1
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
.+-+||+++|.. .++-.....+++ +++++. |+++ .+.++..++.........+...+|.++|-...+..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~---~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTML---PAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHH---HHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 356899999853 332223334443 444432 4554 44566666665555555666678888875322211
Q ss_pred HHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc-C--ccccchHHHHH
Q 002364 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d-~--~~g~~~~~~l~ 185 (930)
. .......++|++...... +.+-.+.+++..-+..++++|...|-++++++... . ..+..-.+.+.
T Consensus 131 ~---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~ 199 (315)
T PRK09492 131 T---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYL 199 (315)
T ss_pred c---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHH
Confidence 1 122334567877654311 11234556777777888888888899999999632 2 23456678899
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
+++++.|+.+... .. . .+.......++++.+.++++|++. +...+..+++++++.|+
T Consensus 200 ~al~~~g~~~~~~--~~-~--~~~~~~~~~~~~~l~~~~~ai~~~-~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA--LG-G--LSMQSGYELVAKVLTPETTALVCA-TDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee--cC-C--CCchHHHHHHHHHhhcCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 9999999865421 11 1 112222334555544568877654 45777789999999997
No 206
>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=96.64 E-value=0.3 Score=52.62 Aligned_cols=171 Identities=8% Similarity=-0.022 Sum_probs=100.1
Q ss_pred CCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecC
Q 002364 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (930)
Q Consensus 68 g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p 146 (930)
|+++ .+.++..++..-.+....++.++|.+||= |............+.+.++|+|.+....+ . .+....+..
T Consensus 28 g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~ 100 (302)
T TIGR02634 28 GAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSF 100 (302)
T ss_pred CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC---C--CCccEEEec
Confidence 4555 44567667766666777777877777653 33333334555666788999998754321 1 122334556
Q ss_pred CchHHHHHHHHHHHhcCcc-EEEEEEEcC--ccccchHHHHHHHHhhc----ceEEEEEEecCCCCCCChhHHHHHHHHH
Q 002364 147 SDSYQMTAVAEMVSYYGWN-AVSVIFVDN--EYGRNGVSALNDKLAER----RCRISYKSGIPPESGVNTGYVMDLLVKV 219 (930)
Q Consensus 147 ~~~~~~~ai~~~l~~~~w~-~v~ii~~d~--~~g~~~~~~l~~~l~~~----g~~v~~~~~~~~~~~~~~~~~~~~l~~l 219 (930)
++..-+..+++++...+-+ +++++..+. .........+++.+++. ++.+....... . ....+....++++
T Consensus 101 d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~~~l 177 (302)
T TIGR02634 101 DNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQWVD-G--WLPENALRIMENA 177 (302)
T ss_pred CHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEecCcCCC-C--CCHHHHHHHHHHH
Confidence 7777888888988766655 677776432 22333356677777753 34443211111 1 1233444556665
Q ss_pred Hh-C--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 002364 220 AL-M--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 220 ~~-~--~~~viil~~~~~~~~~~~~~a~~~g~~ 249 (930)
.. . .+++|+. .+...+..+++++++.|+.
T Consensus 178 l~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 178 LTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 43 2 3565544 4555666788999998873
No 207
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.61 E-value=0.25 Score=54.38 Aligned_cols=204 Identities=8% Similarity=-0.042 Sum_probs=113.5
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~ 108 (930)
.+-.||+++|.. ..+-.....+++-+.++. |+.+ .+.++..++..-......+..+++.++|--.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~ 127 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYV--LIGNSYHEAEKERHAIEVLIRQRCNALIVHSKALS 127 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEE--EEEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 356799999853 333334445555444432 4444 34455555554444555566667777663211111
Q ss_pred HHHHHHhhccCCCc-EEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcC--ccccchHHHHH
Q 002364 109 AHIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (930)
Q Consensus 109 ~~~v~~~~~~~~iP-~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~--~~g~~~~~~l~ 185 (930)
...+..+.. ++| ++......+. ...+ ....++..-+..++++|...|-+++++|.... ..+..-.+.++
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~~---~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 128 DDELAQFMD--QIPGMVLINRVVPG---YAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred hHHHHHHHh--cCCCEEEEecccCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 122333443 355 6665432221 1122 24456666677778888888999999996433 23455678899
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeE
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~ 254 (930)
+++++.|+.+......... .+...-...+.++.+. .+++|++ .+...+..+++++++.|+..|+-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~di 267 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVFA-YNDNMAAGALTALKDNGIAIPLHL 267 (346)
T ss_pred HHHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 9999998754321111111 1122222344554332 4666554 566777889999999998655443
No 208
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.60 E-value=0.21 Score=53.89 Aligned_cols=207 Identities=10% Similarity=0.003 Sum_probs=117.5
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (930)
.+-.||++.|.. ..+-.....+++-+.++. |+.+.+ .+...+...-......+...+|++||= |....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~ 103 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSRLP 103 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 457899999853 444445566666666652 455543 444445554445555666778887763 22211
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~ 185 (930)
. .... .......|++......+. ...+ ....++...+..+++.+...|-++++++..... ....-.+.|+
T Consensus 104 ~-~~~~-~~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 104 F-DASK-EEQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred h-HHHH-HHHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 1 1111 122223467764432221 1223 355677777888888888889999999974332 2344578889
Q ss_pred HHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcccCCeEEEE
Q 002364 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
+.+++.|+++.....+..+ .+.......+.++.+. .+++|+. ++...+..++++.++.|+..++-+.++
T Consensus 176 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 176 QALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 9999888764321111111 1233344556665443 3677665 555666678899999997544434333
No 209
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=96.58 E-value=0.63 Score=50.07 Aligned_cols=197 Identities=7% Similarity=0.003 Sum_probs=101.9
Q ss_pred EEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002364 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (930)
Q Consensus 34 IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~-~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~~ 110 (930)
||++.|.. .++-.....+++-+.++. |+. .+++ .++..++.........++++++.+|| .|..+....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~-~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~ 71 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GSV-YIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALV 71 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CCe-eEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 57777643 333234445555555543 221 1222 23455666666677777787777765 344444444
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCc-hHHHHHHHHHHH-hc-CccEEEEEEEcCc--cccchHHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSD-SYQMTAVAEMVS-YY-GWNAVSVIFVDNE--YGRNGVSALN 185 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~-~~~~~ai~~~l~-~~-~w~~v~ii~~d~~--~g~~~~~~l~ 185 (930)
.....+.+.+||+|.+....+. + +........| ...+...++.+. ++ +-.+++++..+.. ......+.++
T Consensus 72 ~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 72 PALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 4555577789999986543221 1 1233343333 333444455432 32 2368998874432 1122346677
Q ss_pred HHHhhcc---eEEEEEEecCCCCCCChhHHHHHHHHHHhCC--ceEEEEEcChhhHHHHHHHHHHcCcc
Q 002364 186 DKLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 186 ~~l~~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~~~~~a~~~g~~ 249 (930)
+.+++.| .++... .... .+.+.....++++.+.. +++|+. .....+..+++++++.|..
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 147 KELKDPKYPKVKLVAT--VYGD--DDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHHhhccCCCCEEEee--ecCC--chHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 7776643 343221 1111 12333444555554443 445554 3456667788888888864
No 210
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=96.44 E-value=0.22 Score=52.61 Aligned_cols=199 Identities=9% Similarity=0.007 Sum_probs=110.3
Q ss_pred EEEEEeeCCC--cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHH
Q 002364 33 NVGALFTLDS--TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~~~s~--~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~s~~~ 109 (930)
+||++.+.+. ..+......+..++++.-++. |+.+.+... ..+. .+..++|.++| .+..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~--~~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFR--DDDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEec--cchh--------HHhccCcCEEEEecCCCH--
Confidence 5889988552 222333344444444444332 566655433 2211 12345666665 222222
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCc-------cccchHH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-------YGRNGVS 182 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~-------~g~~~~~ 182 (930)
.....+...++|+|...... .+...+ .+..++...+..+++.+...|-++++++..... ..+.-.+
T Consensus 65 -~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~ 137 (270)
T cd01544 65 -EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRET 137 (270)
T ss_pred -HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHH
Confidence 33445566789999864322 122223 356677788888889888889999999975432 3344577
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC----CceEEEEEcChhhHHHHHHHHHHcCcccCC-eEEEE
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~~~~~a~~~g~~~~~-~~~i~ 257 (930)
.+++++.+.|.. .....+... .+..+....++++.+. .+++|+ +++...+..+++.+++.|+..++ ...++
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~v~g 213 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTAFF-IASDPMAIGALRALQEAGIKVPEDVSVIS 213 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 888899888731 100011111 1223333444454332 256544 45677788899999999986544 34444
Q ss_pred e
Q 002364 258 T 258 (930)
Q Consensus 258 ~ 258 (930)
.
T Consensus 214 ~ 214 (270)
T cd01544 214 F 214 (270)
T ss_pred E
Confidence 3
No 211
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=96.31 E-value=0.58 Score=50.64 Aligned_cols=191 Identities=12% Similarity=0.008 Sum_probs=110.2
Q ss_pred ceEEEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002364 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (930)
Q Consensus 30 ~~i~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~s~ 107 (930)
.+-.||+++|.- .++-.....++.-+.+ + .|+.+- +.++..++.........+...+|.++|- |....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~---~-----~gy~~~--i~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFY---T-----AGYDPI--IMESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHH---H-----CCCeEE--EecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 345799999852 3222223333333332 2 255544 3445455554444444556667887764 22211
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc---CccccchHHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSAL 184 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d---~~~g~~~~~~l 184 (930)
... .....++|+|...... .. +-...+++..-+..++++|...|-++++++..+ ...+..-.+.+
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~-----~~---~~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDT-----GG---FSSVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHH----HHHhcCCCEEEEecCC-----CC---ccEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 111 2234678888765321 11 223556777778888888888899999999632 22455667889
Q ss_pred HHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
++++++.|+.... .... .+.......+.++.+.++++|| +++...+..+++.+++.|.
T Consensus 196 ~~a~~~~gi~~~~---~~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIY---QTGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCcee---eeCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 9999999986321 1111 1223333445554444677665 5666778889999999885
No 212
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=96.17 E-value=0.06 Score=56.84 Aligned_cols=110 Identities=22% Similarity=0.261 Sum_probs=75.2
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHH------HHhhcccc---ccceecC-CHHHHHHHHhcCCCCCceEEEEecchh
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYL------SQELNISK---SRLVALR-TPEDYAKALKDGPGKGGVAAVVDERPY 749 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l------~~~~~~~~---~~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~~~~~ 749 (930)
++|++++||. |+++++..-+...-++ .++.+.+. -.-+.+. +.+..+.+|.+ |++|+.......
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~n----G~vDva~~~~~~ 207 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVAN----GQVDVAAVNSSA 207 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHc----CCceEEeccHHH
Confidence 7999999998 9999997544333332 22222221 1122233 48889999999 899988877766
Q ss_pred HHHHHhcC-----ccEEEeCccccccceeeeeCCCCc--chHHHHHHHHhhhh
Q 002364 750 VELFLSSQ-----CSFRIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILELAE 795 (930)
Q Consensus 750 ~~~~~~~~-----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l~e 795 (930)
........ .++.++...-...+..++++++-| +++.+..+++.+.+
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 55554432 257777655445556788888876 99999999999987
No 213
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.05 E-value=1.1 Score=47.70 Aligned_cols=203 Identities=10% Similarity=0.002 Sum_probs=105.6
Q ss_pred EEEEEeeCC-CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-hhHHH
Q 002364 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-STVAH 110 (930)
Q Consensus 33 ~IG~i~~~s-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~-s~~~~ 110 (930)
+||++.|.. .++-.....+++.+.++. |+++ .+.++..++..-.+....++.++|.+||=... .....
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 588888753 322223444444444432 4544 44566666666556666677778877764222 12222
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCC-ceEeecCCchHHHHHHHHHHHhc--CccEEEEEEEcC-cccc---chHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYP-FFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGR---NGVSA 183 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p-~~~r~~p~~~~~~~ai~~~l~~~--~w~~v~ii~~d~-~~g~---~~~~~ 183 (930)
.....+...++|+|......+. .....+ .+-....++...+..++++|... |-++++++.... .... ...+.
T Consensus 72 ~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~ 150 (280)
T cd06315 72 AELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKE 150 (280)
T ss_pred HHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHH
Confidence 3334456789999987543211 000011 13446677777788888987766 889999886332 1111 23334
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHcCcccC
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~g~~~~ 251 (930)
+.+++++.++ ......... .........++++.+. .+++ |++++...+..+++.+++.|+..+
T Consensus 151 ~~~a~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 151 IIEACKGCTV--LSIEDVPIS--RTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHhCCCCEE--EEecccCcc--hhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 4444333332 111111111 1111111334444332 2564 455566777788899999998644
No 214
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=95.98 E-value=0.41 Score=50.10 Aligned_cols=195 Identities=13% Similarity=-0.007 Sum_probs=102.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v 112 (930)
+||++++-. ............+++++.++. |.++. +.+...++........++.++++.+||+ .+.....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~--~~e~~~~~~~~~~~i~~~~~~g~dlIi~-~g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVT--YVENVPEGADAERVLRELAAQGYDLIFG-TSFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEE--EEecCCchHhHHHHHHHHHHcCCCEEEE-CchhhhHHH
Confidence 578888733 111233444455555554442 44444 4455546667777788888889999998 444555566
Q ss_pred HHhhccC-CCcEEecccCCCCCCCCCCCceEeecCCc---hHHHHHHHHHHHhcCccEEEEEEEcC-ccccchHHHHHHH
Q 002364 113 SYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSD---SYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDK 187 (930)
Q Consensus 113 ~~~~~~~-~iP~is~~a~~~~l~~~~~p~~~r~~p~~---~~~~~ai~~~l~~~~w~~v~ii~~d~-~~g~~~~~~l~~~ 187 (930)
..++.++ ++.++...+.. . .|++....... ..++..+|..+.. -.+|++|...+ +........|.+.
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---APNVGSYFARIYEGRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHH
Confidence 6666555 44444332211 1 13333222222 2344444544443 35899887432 2233445566666
Q ss_pred HhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcC
Q 002364 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
++..+-.+.....+... -.+...-......+.+.++|+|+-.+ .....+++|++.|
T Consensus 145 ~~~~~p~~~v~~~~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 145 ARSVNPDATVKVIWTGS-WFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred HHHHCCCcEEEEEEecC-CCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 65443333222222211 01123334455566678999888777 2345788888876
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=95.83 E-value=0.38 Score=46.87 Aligned_cols=70 Identities=20% Similarity=0.310 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.++++.+.++.+ ++++.+.. .....++..|.+|++|+++..... ....++ ..++....+++++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecC
Confidence 455677778877764 25566654 446789999999999999865433 222333 346677788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 55
No 216
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=95.70 E-value=0.032 Score=58.31 Aligned_cols=74 Identities=22% Similarity=0.278 Sum_probs=48.4
Q ss_pred CCCCChHHhhh-----CCCCeEE-EeCchHHHHHH---Hhhcccc---ccceecCCHHHHHHHHhcCCCCCceEEEEecc
Q 002364 680 SPINGIESLRK-----SDDPIGY-QEGSFAEYYLS---QELNISK---SRLVALRTPEDYAKALKDGPGKGGVAAVVDER 747 (930)
Q Consensus 680 ~~i~s~~dL~~-----~~~~v~~-~~~s~~~~~l~---~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~ 747 (930)
+.+++++||.+ .|+++++ ..++..+..+. ++.++.. .+++.++. .+..+++.+ |++|+++...
T Consensus 104 ~~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~----g~iDa~~~~e 178 (252)
T PF13379_consen 104 SDIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRA----GEIDAAVLWE 178 (252)
T ss_dssp STTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHT----TS-SEEEEET
T ss_pred CCccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhC----CCcCEEEecC
Confidence 57899999933 3778988 45554433332 3444444 34555555 899999999 9999999988
Q ss_pred hhHHHHHhcCc
Q 002364 748 PYVELFLSSQC 758 (930)
Q Consensus 748 ~~~~~~~~~~~ 758 (930)
++......+..
T Consensus 179 P~~~~~~~~g~ 189 (252)
T PF13379_consen 179 PFASQAEAKGI 189 (252)
T ss_dssp THHHHHHHTTS
T ss_pred CHHHHHHhccC
Confidence 88877776553
No 217
>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=95.57 E-value=0.62 Score=46.40 Aligned_cols=197 Identities=18% Similarity=0.197 Sum_probs=121.2
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
+.||||+.. .+ ...+-.+++..+.++.+ .+++.+.. ++...+++.|.+|++|+++...
T Consensus 6 ~~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 63 (209)
T PF03466_consen 6 GTLRIGASP--SF------------ASSLLPPLLAEFRERHP-NIRIEIRE-------GDSDELIEALRSGELDLAITFG 63 (209)
T ss_dssp EEEEEEEEH--HH------------HHHTHHHHHHHHHHHST-TEEEEEEE-------ESHHHHHHHHHTTSSSEEEESS
T ss_pred eEEEEEEEh--HH------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------ccchhhhHHHhcccccEEEEEe
Confidence 568888874 11 12445678888888775 25666665 5578999999999999998754
Q ss_pred eeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccch
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVI 624 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (930)
.. ....+. ..|+....+++++++..+...
T Consensus 64 ~~---~~~~~~-~~~l~~~~~~~~~~~~~pl~~----------------------------------------------- 92 (209)
T PF03466_consen 64 PP---PPPGLE-SEPLGEEPLVLVVSPDHPLAQ----------------------------------------------- 92 (209)
T ss_dssp SS---SSTTEE-EEEEEEEEEEEEEETTSGGGT-----------------------------------------------
T ss_pred ec---cccccc-cccccceeeeeeeeccccccc-----------------------------------------------
Confidence 43 222222 457778889999887652110
Q ss_pred hhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEe-CchH
Q 002364 625 TILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQE-GSFA 703 (930)
Q Consensus 625 ~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~-~s~~ 703 (930)
..++ +++||. +.++.... +...
T Consensus 93 ------------------------------------------------------~~~i-~~~dL~--~~~~i~~~~~~~~ 115 (209)
T PF03466_consen 93 ------------------------------------------------------KKPI-TLEDLA--DYPLILLSPGSPY 115 (209)
T ss_dssp ------------------------------------------------------TSSS-SGGGGT--TSEEEEESTTTSH
T ss_pred ------------------------------------------------------cccc-hhhhhh--hcccccccccccc
Confidence 0234 889997 55554433 4434
Q ss_pred HHHHHH---hhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccccccceeeeeCCCC
Q 002364 704 EYYLSQ---ELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFAFPRDS 780 (930)
Q Consensus 704 ~~~l~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s 780 (930)
...+.+ ..+.........++.+.....+.. |...+++-+.....+..........+.+.-....+.++.+++.
T Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~ 191 (209)
T PF03466_consen 116 RDQLDRWLREHGFSPNIVIEVDSFESILSLVAS----GDGIAILPDSLAQDELESGELVFLPLPDPPLPRPIYLVWRKDR 191 (209)
T ss_dssp HHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHT----TSEBEEEEHHHHHHHHHCTTEEEEEESSSTEEEEEEEEEETTG
T ss_pred ccccccccccccccccccccccchhhhcccccc----ccceeecCcccccccccCCCEEEEECCCCCCceEEEEEEECCC
Confidence 444432 223333344567889999999998 6666666554443444222223233444223377888888887
Q ss_pred cchHHHHHHHHhhhh
Q 002364 781 PLAVDLSSAILELAE 795 (930)
Q Consensus 781 pl~~~i~~~i~~l~e 795 (930)
+..+.+...+..+.+
T Consensus 192 ~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 192 PLSPAIQWFIDLLRE 206 (209)
T ss_dssp TTHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH
Confidence 776666666655544
No 218
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=95.28 E-value=0.064 Score=58.39 Aligned_cols=61 Identities=23% Similarity=0.251 Sum_probs=39.6
Q ss_pred CCCCChHHhhhCCCCeEEEe-CchHHHH---HHHhhcccccc--ceecCCHHHHHHHHhcCCCCCceEEEEec
Q 002364 680 SPINGIESLRKSDDPIGYQE-GSFAEYY---LSQELNISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDE 746 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~-~s~~~~~---l~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~ 746 (930)
.++++++||. ++++++.. ++..... +.+..+..... .+.+.+..+...+|.+ |++|+++..
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l~~~G~~~~~~~~v~~~~~~~~~~al~~----G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVLKAAGLTYDDVKKVEYLGYAEAADALKD----GKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHHHHcCCCHHHccchhcCCHHHHHHHHHC----CCccEEEEe
Confidence 4678999997 77777653 2322221 22334443222 3456788889999998 899999887
No 219
>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=95.25 E-value=0.54 Score=46.53 Aligned_cols=70 Identities=17% Similarity=0.147 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++.+++...|.+|++|+++..... ....+. +.|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEEcC
Confidence 445678888888875 24566554 456788999999999999854321 122333 467888888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 220
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=95.18 E-value=1.1 Score=48.34 Aligned_cols=83 Identities=12% Similarity=0.142 Sum_probs=56.2
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
+.++|++... . ..++-..++..+.+..+ .+++.+.. .+-++++++|.+|++|+++...
T Consensus 91 g~l~i~~~~~--~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (305)
T PRK11151 91 GPLHIGLIPT--V------------GPYLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILAL 148 (305)
T ss_pred ceEEEEecch--h------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEec
Confidence 5688888741 1 12455567777777664 25566654 4578999999999999998643
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... ...+ .+.|+....+++++++..
T Consensus 149 ~~~---~~~l-~~~~l~~~~~~~~~~~~h 173 (305)
T PRK11151 149 VKE---SEAF-IEVPLFDEPMLLAVYEDH 173 (305)
T ss_pred CCC---CCCe-EEEEeccCcEEEEecCCC
Confidence 222 1222 457888899999987655
No 221
>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=95.17 E-value=0.73 Score=45.76 Aligned_cols=73 Identities=14% Similarity=0.192 Sum_probs=49.2
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++...+++.|.+|++|+++........-...+.+ .++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeC
Confidence 456788899988874 25566664 5688999999999999998643221000123333 56777788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 65
No 222
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=95.17 E-value=2.6 Score=43.63 Aligned_cols=204 Identities=9% Similarity=0.065 Sum_probs=119.5
Q ss_pred CCCCceEEEEEEeeCC--CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-Ec
Q 002364 26 SARPAVVNVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IG 102 (930)
Q Consensus 26 ~~~~~~i~IG~i~~~s--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iG 102 (930)
++...+..||+..|-- ..+- .-..++.-+.+.+ |.+. .+.+-.++...-......++++++.++ |+
T Consensus 20 aa~~~d~~IGis~~d~~~eRW~-~D~~~~~~~~e~~--------g~k~--~~q~A~~~~~~Q~~qien~i~qg~~vlvi~ 88 (341)
T COG4213 20 AAAAKDGVIGISMPDLRSERWI-KDRDAFVKKAEAL--------GAKV--DVQSADGDEEKQLAQIENMINQGVKVLVIG 88 (341)
T ss_pred hhhccCCeEEEEcCChhHhhhh-hhhHHHHHHHHhc--------cchh--hhhhhccChhHHHHHHHHHHhcCCCEEEEE
Confidence 3455678899988853 2221 2233444344333 3443 345566677788888899999986655 69
Q ss_pred CCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCch----HHHHHHHHHHHhcC---ccEEEEEE-E-c
Q 002364 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDS----YQMTAVAEMVSYYG---WNAVSVIF-V-D 173 (930)
Q Consensus 103 p~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~----~~~~ai~~~l~~~~---w~~v~ii~-~-d 173 (930)
|..+.....+...+...+||+|+|. ....+....|+.. .+.. .|+.++.+.++... -..+.++. + +
T Consensus 89 a~d~~~l~~~i~~A~~~gikViaYD---RlI~n~dvd~Yvs--FDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~ 163 (341)
T COG4213 89 AIDGGVLSNAVEKAKSEGIKVIAYD---RLINNADVDFYVS--FDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPD 163 (341)
T ss_pred eccchhHHHHHHHHHHcCCeEEEee---cccccCCccEEEE--ecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCC
Confidence 9999999999999999999999873 3344433343333 3333 45555555554333 33444454 2 2
Q ss_pred Cc---cccc-hHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC---CceEEEEEcChhhHHHHHHHHHHc
Q 002364 174 NE---YGRN-GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYL 246 (930)
Q Consensus 174 ~~---~g~~-~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~~~~~a~~~ 246 (930)
|. +... .+..|+..+..-.+.++.....+. -..+.....+..+... +-|.|+-.. ...+.-++...+..
T Consensus 164 DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~---W~ps~Aq~~men~lta~~~~vdaVvA~n-DgtagGaI~aL~a~ 239 (341)
T COG4213 164 DNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDG---WLPSNAQQIMENLLTANYNDIDAVVAPN-DGTAGGAIAALKAQ 239 (341)
T ss_pred CcchHHHHhcHHHHHHHHhhCCceEEeeeccccc---cCHHHHHHHHHHHHhcccCceeEEEcCC-CchhHHHHHHHHhc
Confidence 22 2223 345555555555566655555543 2455566666655432 334444333 35566688888888
Q ss_pred Ccc
Q 002364 247 GMM 249 (930)
Q Consensus 247 g~~ 249 (930)
|+.
T Consensus 240 Gl~ 242 (341)
T COG4213 240 GLA 242 (341)
T ss_pred ccC
Confidence 885
No 223
>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=95.15 E-value=1.1 Score=43.73 Aligned_cols=70 Identities=16% Similarity=0.124 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++..++...+.+|++|+++... ......+ ...+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRL-EQEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCc-EEEEeecCcEEEEecC
Confidence 456788899988875 24566554 5577899999999999988532 2222222 2356677788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 54
No 224
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=95.05 E-value=0.15 Score=55.20 Aligned_cols=68 Identities=21% Similarity=0.299 Sum_probs=48.8
Q ss_pred CCChHHhhhCCCCeEEEeCchHHHHHHH---hhcccc--ccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhc
Q 002364 682 INGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISK--SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS 756 (930)
Q Consensus 682 i~s~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~ 756 (930)
|++++||. |++|++..++..+.++.+ ..+++. -+++.. ++.+...++.+ |.+||.+...++......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~----G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFIT----KDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhc----CCCcEEEEcCchHHHHHhC
Confidence 89999998 999999998866655533 233332 234444 45678899999 9999999887876655443
No 225
>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=95.00 E-value=0.29 Score=52.14 Aligned_cols=71 Identities=21% Similarity=0.300 Sum_probs=47.4
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHHH---hhccccccc-eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSRL-VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 755 (930)
++|++++||. |+++++..++.....+.. ..+.+...+ ..+.+..+..+++.+ |++|+++...++......
T Consensus 91 ~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~----g~vda~~~~~p~~~~~~~ 164 (288)
T TIGR01728 91 SPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAA----GQVDAWAIWEPWGSALVE 164 (288)
T ss_pred CCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHC----CCCCEEEeccchHhHHhh
Confidence 4789999998 888998777644444322 223333222 223456788899999 899999988777665544
Q ss_pred c
Q 002364 756 S 756 (930)
Q Consensus 756 ~ 756 (930)
+
T Consensus 165 ~ 165 (288)
T TIGR01728 165 E 165 (288)
T ss_pred c
Confidence 4
No 226
>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=94.98 E-value=1.4 Score=43.34 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++..+++.++.+|++|+++.... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPR 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCC
Confidence 345678888888764 35566554 45788999999999999885322 2223333 357778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 54
No 227
>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=94.88 E-value=1.6 Score=42.93 Aligned_cols=72 Identities=19% Similarity=0.214 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. .+...+..+|.+|++|+++...... .....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCC
Confidence 455678888888775 35566654 5578999999999999998632211 1122333 356677788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 54
No 228
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=94.83 E-value=1.5 Score=47.25 Aligned_cols=86 Identities=17% Similarity=0.201 Sum_probs=55.5
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
+++|||+... . ...+-.+++..+.+..+ .+++.+.. +....++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~--~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQT--T------------GTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCc--c------------hHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 5689988841 1 12345677788877764 24455543 4588999999999999998632
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.........+ ...++....+++++++..
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 2111111122 346788888999988765
No 229
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=94.74 E-value=2 Score=41.89 Aligned_cols=70 Identities=17% Similarity=0.229 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++..++.+.+.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEPE---ADPDLE-FEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCCC---CCCCee-EEEeecccEEEEecC
Confidence 556788888888764 35566554 457889999999999999863221 222232 356777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 230
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=94.72 E-value=1.9 Score=42.24 Aligned_cols=71 Identities=15% Similarity=0.198 Sum_probs=47.2
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ .+++.+.. ++-..++.+|.+|++|+++...... ...+. +.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~ 79 (201)
T cd08420 12 EYLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVP 79 (201)
T ss_pred hhhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEec
Confidence 3556678888888764 24455554 4467889999999999988643221 22232 35777788888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 80 ~~~ 82 (201)
T cd08420 80 PDH 82 (201)
T ss_pred CCC
Confidence 654
No 231
>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=94.67 E-value=0.87 Score=44.87 Aligned_cols=70 Identities=19% Similarity=0.214 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++...+...|.+|++|+++.... .....+ -..|+....+++++++
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecC
Confidence 455677888887764 24455543 56789999999999999986322 222233 2467888888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 232
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=94.58 E-value=2.4 Score=41.38 Aligned_cols=70 Identities=19% Similarity=0.271 Sum_probs=48.2
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+..++++.+.++.+ .+++.+.. ++..+++..|.+|++|+++..... ....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 456788899988875 35566654 457889999999999999864322 122232 346777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 233
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold. The NAC is a LysR-type transcription regulator that activates expression of operons such as hut (histidine utilization) and ure (urea utilization), allowing use of non-preferred (poor) nitrogen sources, and represses expression of operons, such as glutamate dehydrogenase (gdh), allowing assimilation of the preferred nitrogen source. The expression of the nac gene is fully dependent on the nitrogen regulatory system (NTR) and the sigma54-containing RNA polymerase (sigma54-RNAP). In response to nitrogen starvation, NTR system activates the expression of nac, and NAC activates the expression of hut, ure, and put (proline utilization). NAC is not involved in the transcription of Sigma70-RNAP operons such as glnA, which directly respond by the NTR system, but activates the transcription of sigma70-RNAP dependent operons such as hut.
Probab=94.50 E-value=2.6 Score=41.40 Aligned_cols=70 Identities=14% Similarity=0.164 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. .+-.++...|.+|++|+++... ......+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEecC
Confidence 455678888888875 35566554 3467889999999999988532 1212222 3457778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 54
No 234
>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=94.48 E-value=0.8 Score=46.87 Aligned_cols=93 Identities=9% Similarity=0.079 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCC-----CCChhHHHHHHHHHHhCCc
Q 002364 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVALMES 224 (930)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~l~~~~~ 224 (930)
.-+.++.+.++++|.+|++++. +|-.+.-+.+.+.+++.|++|.....+.... ..+...+...+.++...++
T Consensus 106 t~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~a 182 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDA 182 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCC
Confidence 3468899999999999999984 6778899999999999999998765443321 1234566666666667789
Q ss_pred eEEEEEcChhhHHHHHHHHHH
Q 002364 225 RVIVLHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 225 ~viil~~~~~~~~~~~~~a~~ 245 (930)
|.|++.|..-....++.++.+
T Consensus 183 DAifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 183 DALFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred CEEEEeCCCchhHHHHHHHHH
Confidence 999999999999999988865
No 235
>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=94.45 E-value=4 Score=43.00 Aligned_cols=155 Identities=10% Similarity=-0.001 Sum_probs=90.9
Q ss_pred HHhcCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEE
Q 002364 92 FMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF 171 (930)
Q Consensus 92 li~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~ 171 (930)
+...+|.++|-........ ....+.+.++|+|......+. ....+ ....++..-+..+++.+...|-++++++.
T Consensus 52 l~~~~vdgiIi~~~~~~~~-~~~~l~~~~iPvV~i~~~~~~--~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 52 LDALDIDGAILVEPMADDP-QVARLRQRGIPVVSIGRPPGD--RTDVP---YVDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred hhccCcCeEEEecCCCCCH-HHHHHHHcCCCEEEeCCCCCC--CCCCC---eEeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 3345777765321111112 233455679999987543210 11223 34456677778888888888999999996
Q ss_pred EcC--ccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcC
Q 002364 172 VDN--EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 172 ~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
... .....-...+++++++.|+..... ..... .+.++....++++.+. ++++|+ +.+...+..+++.+++.|
T Consensus 126 ~~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~g 201 (269)
T cd06287 126 GSARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEA--GGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELG 201 (269)
T ss_pred CCcccccHHHHHHHHHHHHHHcCCCccee-EecCC--CChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcC
Confidence 332 234455678899999888753221 11111 1233333455555433 356655 446677888999999999
Q ss_pred cccCCeEEE
Q 002364 248 MMGNGYVWI 256 (930)
Q Consensus 248 ~~~~~~~~i 256 (930)
+..+.-+=+
T Consensus 202 l~vP~dvsv 210 (269)
T cd06287 202 RAVPDQLRV 210 (269)
T ss_pred CCCCCceEE
Confidence 876554433
No 236
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=94.25 E-value=0.24 Score=50.33 Aligned_cols=60 Identities=30% Similarity=0.452 Sum_probs=38.8
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHH---HhhccccccceecC-CHHHHHHHHhcCCCCCceEEEEe
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLS---QELNISKSRLVALR-TPEDYAKALKDGPGKGGVAAVVD 745 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~---~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~ 745 (930)
+.|++++||. |++||+..++....++. +..+++...+.... +..+...+|.+ |++|+.+.
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~----g~vDa~~~ 146 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLS----GQVDAAIL 146 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHT----TSSSEEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhc----CCCCEEEE
Confidence 4699999998 99999988764443332 34455444443322 35666679999 89998883
No 237
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=94.13 E-value=1.9 Score=46.57 Aligned_cols=207 Identities=15% Similarity=0.077 Sum_probs=119.5
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.++++||+.. .. ...+-.+++..+.++.+ .+.+.+.. ++...++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTH--TQ------------ARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEech--HH------------HHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 4579999874 11 12445678888887764 24566554 557899999999999999853
Q ss_pred eeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccc
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (930)
-.... ...+ -+.|+....+++++++..+..
T Consensus 150 ~~~~~--~~~l-~~~~l~~~~~~~v~~~~~pl~----------------------------------------------- 179 (313)
T PRK12684 150 EAIAD--YKEL-VSLPCYQWNHCVVVPPDHPLL----------------------------------------------- 179 (313)
T ss_pred cCCCC--CCCc-eEEEeccceEEEEeCCCCccc-----------------------------------------------
Confidence 21111 1122 246777788888887655210
Q ss_pred hhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCC-eEEEeCch
Q 002364 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP-IGYQEGSF 702 (930)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~-v~~~~~s~ 702 (930)
....-+++||. +.+ +.+..++.
T Consensus 180 -------------------------------------------------------~~~~i~~~dL~--~~~~i~~~~~~~ 202 (313)
T PRK12684 180 -------------------------------------------------------ERKPLTLEDLA--QYPLITYDFAFA 202 (313)
T ss_pred -------------------------------------------------------cCCCcCHHHHh--cCCcEecCCCCc
Confidence 01223678887 444 44444443
Q ss_pred HHHHHH---HhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeC--ccccccceeeeeC
Q 002364 703 AEYYLS---QELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVG--QEFTKSGWGFAFP 777 (930)
Q Consensus 703 ~~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~ 777 (930)
....+. +..+.........++.+...+++.. |...+++.+. ...... ..++..+. .......+.++.+
T Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~Gv~~lp~~-~~~~~~--~~~l~~~~i~~~~~~~~~~l~~~ 275 (313)
T PRK12684 203 GRSKINKAFALRGLKPDIVLEAIDADVIKTYVEL----GLGVGIVADM-AFDPER--DRNLRAIDAGHLFGSSTTRLGLR 275 (313)
T ss_pred HHHHHHHHHHHcCCCCCeEEEeCCHHHHHHHHHh----CCceEEeehh-hccccc--cCCeEEEECCCCCcceeEEEEEE
Confidence 333332 2234333344556788888999988 5445565543 232221 12444443 2333446788889
Q ss_pred CCCcchHHHHHHHHhhhhccchHHHHHHhc
Q 002364 778 RDSPLAVDLSSAILELAENGDLQRIHDKWL 807 (930)
Q Consensus 778 k~spl~~~i~~~i~~l~e~G~~~~~~~~w~ 807 (930)
|+.++...+...+..+.+ -+..++.++-+
T Consensus 276 ~~~~~~~~~~~f~~~l~~-~~~~~~~~~~~ 304 (313)
T PRK12684 276 RGAYLRGYVYTFIELFAP-TLNRKLVEQAL 304 (313)
T ss_pred CCCcCCHHHHHHHHHHHH-HhCHHHHHHHh
Confidence 998877776666665554 33455554443
No 238
>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=94.10 E-value=2.7 Score=41.74 Aligned_cols=72 Identities=11% Similarity=0.146 Sum_probs=48.7
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ .+++++.. .++.+++++.|.+|++|+++..... ....++ ..|+.+..++++++
T Consensus 12 ~~~~~~~l~~~~~~~P-~~~v~~~~------~~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~-~~~l~~~~~~lv~~ 80 (203)
T cd08463 12 ALFLPELVARFRREAP-GARLEIHP------LGPDFDYERALASGELDLVIGNWPE---PPEHLH-LSPLFSDEIVCLMR 80 (203)
T ss_pred HHHhHHHHHHHHHHCC-CCEEEEEe------CCcchhHHHHHhcCCeeEEEecccc---CCCCcE-EeEeecCceEEEEe
Confidence 3566788999988875 24555553 1346789999999999999863221 112233 25777888888888
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 81 ~~h 83 (203)
T cd08463 81 ADH 83 (203)
T ss_pred CCC
Confidence 665
No 239
>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=94.02 E-value=2.8 Score=41.00 Aligned_cols=71 Identities=14% Similarity=0.141 Sum_probs=48.8
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ ++++.+.. ++..+++.+|.+|++|+++.... .....+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYDL---DLPEDI-AFEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcCC---CCCccc-ceeeeeccceEEEec
Confidence 3566788888888875 24565554 55788999999999999885321 112223 246777888888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 654
No 240
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=93.99 E-value=2.8 Score=44.81 Aligned_cols=83 Identities=12% Similarity=0.105 Sum_probs=56.7
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
.+++||+... . ...+-.+++..+.++.+ .+.+.+.. .....++..|.+|++|+++...
T Consensus 91 ~~i~I~~~~~--~------------~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTPT--F------------TAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEeccc--h------------hhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 4689988741 1 13456678888888764 45566654 5578899999999999998532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
+.....+ .+.++....+++++++..
T Consensus 149 ---~~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 ---PVHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred ---CCCCcce-eEEEeeeccEEEEEcCCC
Confidence 2222333 346778888888888765
No 241
>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=93.94 E-value=2.4 Score=41.64 Aligned_cols=70 Identities=13% Similarity=0.237 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++..+++..|.+|++|+++..... ....+. ..++.+..+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALPV---DEPGLE-EEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEeccC---CCCCce-EEEeeccceEEEecC
Confidence 356678888888764 24565553 557889999999999999853221 112222 346677778888776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 54
No 242
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=93.73 E-value=4.9 Score=43.47 Aligned_cols=208 Identities=12% Similarity=0.102 Sum_probs=125.3
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.+|||+.. .+ ...+-.+++..+.++.+ .+++.+.. ++...++++|.+|++|+++..
T Consensus 92 ~g~lrIg~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~ 149 (316)
T PRK12679 92 SGVLTIATTH--TQ------------ARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIAS 149 (316)
T ss_pred CceEEEEech--Hh------------hhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEec
Confidence 3579999984 11 23556678888888764 24555543 557789999999999998853
Q ss_pred eeeecCceeeeeecccccccceEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccc
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (930)
.... . ...+. +.++....+++++++..+...
T Consensus 150 ~~~~-~-~~~l~-~~~l~~~~~~~v~~~~hpl~~---------------------------------------------- 180 (316)
T PRK12679 150 ERLS-N-DPQLV-AFPWFRWHHSLLVPHDHPLTQ---------------------------------------------- 180 (316)
T ss_pred ccCC-C-CCCce-EEEccCCcEEEEecCCCcccc----------------------------------------------
Confidence 2211 1 12233 357888888888876652100
Q ss_pred hhhhHHHHHHhhhcCcCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCe-EEEeCch
Q 002364 624 ITILWFSLSTLFFAHKENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI-GYQEGSF 702 (930)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v-~~~~~s~ 702 (930)
...-+++||. +.++ ....+..
T Consensus 181 --------------------------------------------------------~~~i~~~~L~--~~~~i~~~~~~~ 202 (316)
T PRK12679 181 --------------------------------------------------------ITPLTLESIA--KWPLITYRQGIT 202 (316)
T ss_pred --------------------------------------------------------CCCCCHHHHh--CCCeEEecCCCc
Confidence 1224778887 4443 3333332
Q ss_pred H----HHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeC--ccccccceeeee
Q 002364 703 A----EYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVG--QEFTKSGWGFAF 776 (930)
Q Consensus 703 ~----~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~ 776 (930)
. ..++ ...+.........++.+...+.+.. |...+++-... ... . +..++..+. .......+.++.
T Consensus 203 ~~~~~~~~~-~~~~~~~~~~~~~~s~~~~~~~v~~----g~Gi~~lp~~~-~~~-~-~~~~L~~~~~~~~~~~~~~~l~~ 274 (316)
T PRK12679 203 GRSRIDDAF-ARKGLLADIVLSAQDSDVIKTYVAL----GLGIGLVAEQS-SGE-Q-EESNLIRLDTRHLFDANTVWLGL 274 (316)
T ss_pred HHHHHHHHH-HHcCCCceEEEEeccHHHHHHHHHc----CCcEEEecccc-ccc-c-cCCcEEEEECcccCCCceEEEEE
Confidence 2 2333 2234333344556788888888888 55556655433 332 1 233455443 233345688889
Q ss_pred CCCCcchHHHHHHHHhhhhccchHHHHHHhcc
Q 002364 777 PRDSPLAVDLSSAILELAENGDLQRIHDKWLM 808 (930)
Q Consensus 777 ~k~spl~~~i~~~i~~l~e~G~~~~~~~~w~~ 808 (930)
+++.++.+.+...+..+.+.=-++.+.++-+.
T Consensus 275 ~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 275 KRGQLQRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred eCCchhhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 99988888888888766665556677666554
No 243
>cd08466 PBP2_LeuO The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold. LeuO, a LysR-type transcriptional regulator, was originally identified as an activator of the leucine synthesis operon (leuABCD). Subsequently, LeuO was found to be not a specific regulator of the leu gene but a global regulator of unrelated various genes. LeuO activates bglGFB (utilization of beta-D-glucoside) and represses cadCBA (lysine decarboxylation) and dsrA (encoding a regulatory small RNA for translational control of rpoS and hns). LeuO also regulates the yjjQ-bglJ operon which coding for a LuxR-type transcription factor. In Salmonella enterica serovar Typhi, LeuO is a positive regulator of ompS1 (encoding an outer membrane), ompS2 (encoding a pathogenicity determinant), and assT, while LeuO represses the expression of OmpX and Tpx. Both osmS1 and osmS2 influence virulence in the mouse mo
Probab=93.70 E-value=1.7 Score=42.88 Aligned_cols=70 Identities=16% Similarity=0.118 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++++ .+++++.. ++...++.+|.+|++|+++... ......+ -+.|+....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSF-KSELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEecc---cCCCCCc-eeeeecccceEEEEeC
Confidence 455678888888774 35566654 5678899999999999998532 1112223 2457788888988886
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 65
No 244
>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=93.64 E-value=4.3 Score=39.40 Aligned_cols=70 Identities=21% Similarity=0.307 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-..++..+.++.+ .+++.... +....++.++.+|++|+++.... .....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecC
Confidence 455677888888763 24455553 45778899999999999875322 2223333 357777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 54
No 245
>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=93.64 E-value=2.4 Score=41.65 Aligned_cols=70 Identities=14% Similarity=0.078 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++...+...+.+|++|+++.... .....+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPE---YAPDGL-RSRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCc---cCCccc-eeeeeecCcEEEEEcC
Confidence 456778888888774 24455543 34567899999999999885321 112223 2567778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 246
>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold. Cbl is a member of the LysR transcriptional regulators that comprise the largest family of prokaryotic transcription factor. Cbl shows high sequence similarity to CysB, the LysR-type transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the function of Cbl is required for expression of sulfate starvation-inducible (ssi) genes, coupled with the biosynthesis of cysteine from the organic sulfur sources (sulfonates). The ssi genes include the ssuEADCB and tauABCD operons encoding uptake systems for organosulfur compounds, aliphatic sulfonates, and taurine. The genes in these operons encode an ABC-type transport system required for uptake of aliphatic sulfonates and a desulfonati
Probab=93.55 E-value=4.6 Score=39.77 Aligned_cols=72 Identities=17% Similarity=0.141 Sum_probs=49.0
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
.++-.+++..+.++.+ .+++.... ++...+++.|.+|++|+++..-.. .....+ .+.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~ 80 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVP 80 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEec
Confidence 3566788889988874 24565554 557889999999999998853211 111223 246777888888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 81 ~~h 83 (198)
T cd08444 81 VGH 83 (198)
T ss_pred CCC
Confidence 665
No 247
>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=93.47 E-value=5.1 Score=39.20 Aligned_cols=72 Identities=17% Similarity=0.228 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.+..+ ++++.+.. ++..++++++.+|++|+++.... ...+...+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~ 82 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeC
Confidence 345678888888765 35566553 45788999999999999885321 111122332 357778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 83 ~~ 84 (201)
T cd08435 83 GH 84 (201)
T ss_pred CC
Confidence 55
No 248
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=93.30 E-value=2.9 Score=45.44 Aligned_cols=85 Identities=18% Similarity=0.090 Sum_probs=55.6
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.||||+.. .+ ...+-.+++..+.++.+ .+++.+.. ++.++++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~------------~~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~ 149 (324)
T PRK12681 92 KGSLYIATTH--TQ------------ARYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIAT 149 (324)
T ss_pred CCeEEEEech--hH------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 4679999984 11 12456677888888765 35566654 568899999999999999863
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.. ......+. ..|+.....++++++..
T Consensus 150 ~~--~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 EA--LHLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred Cc--ccCCCCeE-EEEeccceeEEEeCCCC
Confidence 21 11122232 35677777787877554
No 249
>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=93.24 E-value=5 Score=39.10 Aligned_cols=71 Identities=17% Similarity=0.187 Sum_probs=49.0
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.+..+ .+++.+.. +...++..++.+|++|+++..... ....+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~ 79 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL---DHPGL-ESEPLASGRAVCVLP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC---CCCcc-eeeeecccceEEEEc
Confidence 3556788999988774 35566654 557889999999999999863221 11222 356778888888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 80 ~~~ 82 (196)
T cd08415 80 PGH 82 (196)
T ss_pred CCC
Confidence 654
No 250
>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=93.23 E-value=0.24 Score=40.91 Aligned_cols=55 Identities=25% Similarity=0.421 Sum_probs=46.6
Q ss_pred cccchhhhHHHHHHhhhcCcC--cccccchhhhHHHHHHHHHhhhhhhhhhhheeee
Q 002364 620 KRQVITILWFSLSTLFFAHKE--NTVSTLGRLVLIIWLFVVLIINSSYTASLTSILT 674 (930)
Q Consensus 620 ~~~~~~~~~~~~~~l~~~~~~--~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt 674 (930)
..+..+++|+++.++...|-. .|.+..+|++.+.+.++++.+.....+.+++.++
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 456889999999999987643 8899999999999999999999999999988764
No 251
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=93.21 E-value=2.7 Score=45.30 Aligned_cols=84 Identities=17% Similarity=0.146 Sum_probs=52.8
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
...|+||+.. ... ...+..+++..+.++.+ .+++.+.. +....+...|.+|++|+++..
T Consensus 90 ~g~l~I~~~~--~~~-----------~~~~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~ 148 (305)
T PRK11233 90 SGQVSIGLAP--GTA-----------ASSLTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIY 148 (305)
T ss_pred CceEEEEccc--chh-----------hHHHHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEc
Confidence 3568998863 111 12344567888888763 34565554 446788999999999999853
Q ss_pred eeeecCceeeeeecccccccceEEEEecc
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
-... ...+ ...|+.+..+++++++.
T Consensus 149 ~~~~---~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 149 EHSP---VAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred CCcC---CCCc-EEEEEeeeeEEEEEcCc
Confidence 2211 1223 34577788888887654
No 252
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=93.11 E-value=3.7 Score=44.31 Aligned_cols=84 Identities=15% Similarity=0.122 Sum_probs=55.4
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
..|+||+.. .+ ...+-.+++..+.+..+ .+++.+.. ++-+.++..|.+|++|+++..-
T Consensus 93 g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (309)
T PRK12682 93 GTLTIATTH--TQ------------ARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATE 150 (309)
T ss_pred CeEEEeeCc--hH------------HHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecC
Confidence 468998884 11 12456678888888764 24455543 4568899999999999998632
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.. .....++ +.|+....+++++++..
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 151 SL--ADDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred cc--cCCCcce-EEEeeeeeEEEEecCCC
Confidence 21 1122333 35788888888887765
No 253
>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=93.04 E-value=4.4 Score=39.85 Aligned_cols=71 Identities=15% Similarity=0.141 Sum_probs=48.5
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. +....+.+.|.+|++|+++..... .....+. +.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecC
Confidence 456678888888875 24566654 557889999999999999853211 1122233 367778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 55
No 254
>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=93.01 E-value=6.3 Score=38.51 Aligned_cols=70 Identities=11% Similarity=0.092 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++..+++.++.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecC
Confidence 445678888887764 34555553 456889999999999999853221 112232 467778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 54
No 255
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=93.01 E-value=6.6 Score=41.73 Aligned_cols=83 Identities=12% Similarity=0.099 Sum_probs=53.6
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
..++||+... . ...+-.+++..+.++.+ .+++.... +...+++..+.+|++|+++...
T Consensus 89 g~l~i~~~~~--~------------~~~~~~~~l~~~~~~~P-~i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~ 146 (290)
T PRK10837 89 GALRIYASST--I------------GNYILPAMIARYRRDYP-QLPLELSV-------GNSQDVINAVLDFRVDIGLIEG 146 (290)
T ss_pred CeEEEEecch--h------------HhhhhHHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHHhCCceEEEecC
Confidence 4689988841 1 12445677888888764 24555553 4578899999999999998532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... ...+ ...|+....+++++++..
T Consensus 147 ~~~---~~~~-~~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 147 PCH---SPEL-ISEPWLEDELVVFAAPDS 171 (290)
T ss_pred CCC---CCce-eEEEeecceEEEEEcCCC
Confidence 211 1222 235666778888887655
No 256
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=92.96 E-value=5.7 Score=42.82 Aligned_cols=85 Identities=18% Similarity=0.141 Sum_probs=54.8
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.++|+||+... . ...+-..++..+.++.+ .+++.+.. +++++++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~~--~------------~~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~ 149 (309)
T PRK12683 92 SGHLTVATTHT--Q------------ARYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIAT 149 (309)
T ss_pred CceEEEEeccc--h------------HHHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEec
Confidence 35699988741 1 12344567888887764 24566554 568999999999999998753
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.... ....+.+ .|+....+++++++..
T Consensus 150 ~~~~--~~~~l~~-~~l~~~~~~~v~~~~h 176 (309)
T PRK12683 150 EALD--REPDLVS-FPYYSWHHVVVVPKGH 176 (309)
T ss_pred CCCC--CCCCceE-EEcccCeEEEEecCCC
Confidence 2111 1223333 3677778888887655
No 257
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=92.96 E-value=3.9 Score=43.87 Aligned_cols=86 Identities=10% Similarity=0.143 Sum_probs=57.4
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.|+||++.. . ...+-.+++..+.++.+ .+++.+.. ++..++..+|.+|++|+++..
T Consensus 94 ~g~l~I~~~~~--~------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGAS--I------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEechH--H------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 46799999841 1 23456678888887775 35555553 457899999999999998852
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.... .....+.+ .|+....+++++++..
T Consensus 152 ~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-ccccceeE-EEeccceEEEEEcCCC
Confidence 2111 11223433 6888889999888665
No 258
>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=92.91 E-value=3.5 Score=40.21 Aligned_cols=72 Identities=17% Similarity=0.191 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.+..+ .+++.+.. ++.+.+++.+.+|++|+++...... .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPPF-PLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCCC-ccccCc-eEEEcccCcEEEEECC
Confidence 455678888888774 24566554 5578999999999999998632111 101223 2456777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 54
No 259
>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=92.85 E-value=3.9 Score=43.84 Aligned_cols=86 Identities=17% Similarity=0.245 Sum_probs=56.7
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.++||+.. .. ...+-.+++..+.++.+ .+++.+.. ++...++.++.+|++|++++.
T Consensus 92 ~~~l~I~~~~--~~------------~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (300)
T TIGR02424 92 GPTVRIGALP--TV------------AARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGR 149 (300)
T ss_pred CceEEEeccc--HH------------HHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEe
Confidence 4679998884 11 12445677888888775 35566654 557889999999999999863
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... ......+. ..|+....+++++++..
T Consensus 150 ~~~-~~~~~~~~-~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 150 LGA-PETMQGLS-FEHLYNEPVVFVVRAGH 177 (300)
T ss_pred cCC-ccccccee-eeeecCCceEEEEcCCC
Confidence 322 11222232 35778888888887654
No 260
>cd08462 PBP2_NodD The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold. The nodulation (nod) genes in soil bacteria play important roles in the development of nodules. nod genes are involved in synthesis of Nod factors that are required for bacterial entry into root hairs. Thirteen nod genes have been identified and are classified into five transcription units: nodD, nodABCIJ, nodFEL, nodMNT, and nodO. NodD is negatively auto-regulates its own expression of nodD gene, while other nod genes are inducible and positively regulated by NodD in the presence of flavonoids released by plant roots. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. T
Probab=92.85 E-value=3.1 Score=41.01 Aligned_cols=69 Identities=17% Similarity=0.214 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-..++..+.++.+ .+++.... ++. ++++.|.+|++|+++..-... ...+. +.|+....+++++++
T Consensus 13 ~~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08462 13 VLLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcC
Confidence 344567788877765 24555553 345 899999999999998632211 12232 347778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 80 ~h 81 (200)
T cd08462 80 DN 81 (200)
T ss_pred CC
Confidence 65
No 261
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=92.72 E-value=8.2 Score=37.50 Aligned_cols=70 Identities=16% Similarity=0.179 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++++.. +....++.++.+|++|+++....... ..+ ...++....+++++++
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEEEEecC
Confidence 355677888888763 24555554 45788999999999999985322111 112 3457777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 54
No 262
>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=92.52 E-value=7.7 Score=37.93 Aligned_cols=69 Identities=14% Similarity=0.148 Sum_probs=45.5
Q ss_pred eeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEecc
Q 002364 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
+-..++..+.++.+- +++.+.. ++...+...|.+|++|+++..-.. ....+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCC
Confidence 446788888888752 4555554 457789999999999999853221 112232 3466777788777765
Q ss_pred C
Q 002364 573 K 573 (930)
Q Consensus 573 ~ 573 (930)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 4
No 263
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=92.43 E-value=8.5 Score=39.83 Aligned_cols=145 Identities=7% Similarity=-0.013 Sum_probs=87.3
Q ss_pred HHHHHhcCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHh--cCccE
Q 002364 89 ALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNA 166 (930)
Q Consensus 89 a~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~--~~w~~ 166 (930)
..+.++.+|.++|=-.+..........+.+.++|++......+. ...++ ....++..-+..+++.+.. .|-++
T Consensus 45 ~~~~~~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~ 119 (247)
T cd06276 45 IISNTKGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKK 119 (247)
T ss_pred HHHHHhcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCE
Confidence 33444566776653111111122445556678999986543211 11223 3556777778888888888 89999
Q ss_pred EEEEEEcC-ccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHH
Q 002364 167 VSVIFVDN-EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 167 v~ii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~ 245 (930)
+++|.... ..++.-.+.+++++++.|+.... .. . ... .. + .++++ |++.+...+..+++.+++
T Consensus 120 Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~----~~~--~~---~--~~~~a-i~~~~d~~A~g~~~~l~~ 183 (247)
T cd06276 120 LILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D----YEN--RE---I--EKGDL-YIILSDTDLVFLIKKARE 183 (247)
T ss_pred EEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c----cch--hh---c--cCCcE-EEEeCHHHHHHHHHHHHH
Confidence 99997433 34556678899999999875431 11 1 010 00 1 12354 556677888889999999
Q ss_pred cCcccCCeE
Q 002364 246 LGMMGNGYV 254 (930)
Q Consensus 246 ~g~~~~~~~ 254 (930)
.|+..+.-+
T Consensus 184 ~g~~iP~di 192 (247)
T cd06276 184 SGLLLGKDI 192 (247)
T ss_pred cCCcCCcee
Confidence 998655443
No 264
>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=92.34 E-value=3.8 Score=40.43 Aligned_cols=70 Identities=9% Similarity=0.096 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
++-.+++..+.++.+ .+++.... ++..+++++|.+|++|+++...... ...+.. .++....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 556678888877764 35565554 5689999999999999998633211 122333 46677788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 54
No 265
>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=92.26 E-value=2.8 Score=41.29 Aligned_cols=70 Identities=23% Similarity=0.245 Sum_probs=47.4
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ .++++... ++. .+++.|.+|++|+++..... ....+. ..|+.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVR 78 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEe
Confidence 3566788888888875 35566553 445 78899999999999863221 112233 46778888888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 655
No 266
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.25 E-value=9.5 Score=41.41 Aligned_cols=151 Identities=10% Similarity=0.045 Sum_probs=86.1
Q ss_pred cCcEEEEc-CCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc
Q 002364 95 TDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD 173 (930)
Q Consensus 95 ~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d 173 (930)
.+|+++|- |..+. .....+...++|+|......+ +..++ ....++..-+..+++++...|.++++++..+
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 46776653 22221 234455667899987643221 11223 3556667777888888888899999999643
Q ss_pred Cc--cccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhC--CceEEEEEcChhhHHHHHHHHHHcCcc
Q 002364 174 NE--YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 174 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~~~~~a~~~g~~ 249 (930)
.. ....-...+.+++++.|+. .....+... .+..+....++++.+. .+++| ++++...+..++++++++|..
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~~ 259 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQVV-REEDIWRGG--FSSSSGYELAKQMLAREDYPKAL-FVASDSIAIGVLRAIHERGLN 259 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCCC-ChhheeecC--cChhHHHHHHHHHHhCCCCCCEE-EECCcHHHHHHHHHHHHcCCC
Confidence 22 3334466778888877751 110111111 1122333445554432 35654 445667788899999999986
Q ss_pred cCCe-EEEEe
Q 002364 250 GNGY-VWIAT 258 (930)
Q Consensus 250 ~~~~-~~i~~ 258 (930)
.++- ..++.
T Consensus 260 vP~di~vigf 269 (327)
T PRK10339 260 IPQDISLISV 269 (327)
T ss_pred CCCceEEEee
Confidence 5443 34443
No 267
>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=92.21 E-value=10 Score=38.75 Aligned_cols=208 Identities=10% Similarity=0.051 Sum_probs=114.9
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCC--CChHHHHHHHHHHHhc-CcEEEEcCCCh-
Q 002364 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMET-DIVAIIGPQCS- 106 (930)
Q Consensus 31 ~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~--~~~~~a~~~a~~li~~-~v~aiiGp~~s- 106 (930)
+.+||++.+..+ .+....+|++..+++.-.. .|.-+++-+. ....+.......|-++ .+.|||=.+.-
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 579999987533 2456677888777765332 5555555333 3556666677777666 67777644443
Q ss_pred hHHHHHHHhhc-cCCCcEEecccCC-CCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchH---
Q 002364 107 TVAHIVSYVSN-ELQVPLLSFGVTD-PTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV--- 181 (930)
Q Consensus 107 ~~~~~v~~~~~-~~~iP~is~~a~~-~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~--- 181 (930)
+.+.+...+=+ +-.|.+|+-.... |..-..... +-+.++....+..++...+.+|.+.++-+.-...-+....
T Consensus 74 Gt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~R 151 (275)
T PF12683_consen 74 GTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARR 151 (275)
T ss_dssp --HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHH
T ss_pred chHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHH
Confidence 34444444433 4467777532221 111111112 4444777788999999999999999998876655555554
Q ss_pred -HHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHH-----HHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 182 -SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLL-----VKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 182 -~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l-----~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
+.+++..++.|++.+....-.|.+..+..-.+..+ +.+++.+.++-+.+++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 44555666789998876655554222222222222 34666799999999999999999999998773
No 268
>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=92.00 E-value=8.4 Score=37.33 Aligned_cols=71 Identities=17% Similarity=0.145 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ ++++.+.. ++..++...+.+|++|+++..... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecC
Confidence 456778888888774 35566554 457789999999999999864322 1222232 356677778877776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 54
No 269
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=91.75 E-value=5.8 Score=42.81 Aligned_cols=85 Identities=15% Similarity=0.255 Sum_probs=56.0
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
..++||+... . ...+-.+++..+.+..+ .+++.+.. +...+++.+|.+|++|+++...
T Consensus 97 ~~l~ig~~~~--~------------~~~~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 154 (312)
T PRK10341 97 VDVSFGFPSL--I------------GFTFMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTL 154 (312)
T ss_pred eEEEEEechH--H------------hHhhHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecC
Confidence 4688888741 1 12345578888888765 35566664 5578999999999999998532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... .....+ ...|+....+++++++..
T Consensus 155 ~~~-~~~~~l-~~~~l~~~~~~lv~~~~~ 181 (312)
T PRK10341 155 SNE-MKLQDL-HVEPLFESEFVLVASKSR 181 (312)
T ss_pred Ccc-cccCCe-eEEEEecccEEEEEcCCC
Confidence 211 111222 346788888998887654
No 270
>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=91.71 E-value=13 Score=36.47 Aligned_cols=72 Identities=18% Similarity=0.152 Sum_probs=48.4
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ .+++.+.. ++...+...+.+|++|+++.... ......+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEA--LHDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEecc--ccccCCce-EeeeeeceEEEEEc
Confidence 4566788899888764 24555553 55788999999999999985321 11122332 45777888888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 655
No 271
>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=91.71 E-value=7.6 Score=37.88 Aligned_cols=70 Identities=13% Similarity=0.121 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-..++..+.++.+ .+++.+.. ....++...|.+|++|+++.... .....+. ..++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFAP---VRSPDID-AQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEecC---CCCCCcE-EEEeccccEEEEecC
Confidence 345678888888765 35566654 44678999999999999985322 2222232 356777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 55
No 272
>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=91.58 E-value=9 Score=37.67 Aligned_cols=70 Identities=10% Similarity=0.107 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. +....+++.|.+|++|+++.... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRFA---VPPDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecCC---CCCccce-eEEeeeccEEEEEcC
Confidence 455678888888765 35566654 45678999999999999885321 1122233 357778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 54
No 273
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=91.58 E-value=12 Score=40.96 Aligned_cols=205 Identities=14% Similarity=0.001 Sum_probs=99.0
Q ss_pred CceEEEEEEeeCC---CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEec-CCC-ChHHHHHHHHHHHhcCcEEEEcC
Q 002364 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNC-SGFIGMVEALRFMETDIVAIIGP 103 (930)
Q Consensus 29 ~~~i~IG~i~~~s---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D-~~~-~~~~a~~~a~~li~~~v~aiiGp 103 (930)
....+++++.+-. ..+.+....|.+.+-++. |.+++....+ ... +.....+...++.+++...|+|.
T Consensus 33 ~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~ 104 (345)
T COG1744 33 GKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL--------GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGT 104 (345)
T ss_pred ccceEEEEEecCCCCccchhHHHHHHHHHHHHHh--------CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEe
Confidence 3355555555432 223344555555444443 3344443222 222 34455555666777777777763
Q ss_pred CChhHHHHHHHhhccC-CCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEE-EcCccccchH
Q 002364 104 QCSTVAHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF-VDNEYGRNGV 181 (930)
Q Consensus 104 ~~s~~~~~v~~~~~~~-~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~-~d~~~g~~~~ 181 (930)
. -....++..++.++ ++.++-..+..+.-. ....+.||..-.. .++..+|..+.+ -.+++.|. .+-+--...+
T Consensus 105 g-f~~~d~~~~va~~~Pd~~F~iid~~~~~~~-Nv~s~~f~~~ega-yL~G~~AA~~sk--~~~vG~vgg~~~p~v~~f~ 179 (345)
T COG1744 105 G-FAFSDALEKVAAEYPDVKFVIIDGVVKKED-NVASYVFREYEGA-YLAGVAAAKMSK--SGKVGFVGGMDIPEVNRFI 179 (345)
T ss_pred c-cchhhHHHHHHHHCCCCEEEEecCccCCCC-ceEEEEeccccHH-HHHHHHHHHhhc--CCceeEEecccchhhHHHH
Confidence 3 34445556666555 344432222111110 2335667765433 344444444333 23455444 2333334455
Q ss_pred HHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
..|....+..+-.+.....+...- .+..--......+.+.+.|||+-++.+..... +.+|++.|.
T Consensus 180 ~gF~~Gak~~np~i~v~v~~~gsf-~D~~k~k~~a~~li~~GaDVI~~~ag~~~~gv-~~~A~~~~~ 244 (345)
T COG1744 180 NGFLAGAKSVNPDIKVKVVYVGSF-SDPAKGKEAANALIDQGADVIYPAAGGTGVGV-FQAAKELGA 244 (345)
T ss_pred HHHHHHHHhhCCCccEEEEEecCc-cChHHHHHHHHHHHhcCCCEEEecCCCCcchH-HHHHHHhCC
Confidence 566666665443332222222110 11222333666777899999998877655443 336777664
No 274
>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=91.54 E-value=8.8 Score=37.32 Aligned_cols=70 Identities=11% Similarity=0.052 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.+..+ .+++.... +....+++++.+|++|+++..... ....+. +.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTLH---EPPGIE-RERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCC---CCCCee-EEEeeccCeEEEecC
Confidence 456688888888874 35566654 557788999999999999853221 122222 456677788887776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 275
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=91.37 E-value=0.79 Score=47.96 Aligned_cols=102 Identities=17% Similarity=0.116 Sum_probs=62.0
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHH-HhcCc
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF-LSSQC 758 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~-~~~~~ 758 (930)
.+|++++||. |+++++..++.....+. .++. ..+ ..+..|...+|++ |.+|+.+........+ ..+..
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~-~~Ga---~~v-~~~~~e~~~aL~~----G~vDg~~~~~~~~~~~~~~ev~ 194 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFK-ALGA---NPE-PMAFSEVYTALQT----GVVDGQENPLSNVYSSKFYEVQ 194 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHH-HcCC---ccc-ccCHHHHHHHHHc----CCcccccCCHHHHhhcchhhhc
Confidence 5799999997 99999887776666763 4432 223 4577899999999 8999988764433211 11122
Q ss_pred cEEEeCccccccceeeeeCCCC--cchHHHHHHHHhh
Q 002364 759 SFRIVGQEFTKSGWGFAFPRDS--PLAVDLSSAILEL 793 (930)
Q Consensus 759 ~l~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~i~~l 793 (930)
++..... .......+.+.++. .|-+....+|...
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 195 KYLSMTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred chheecC-CcccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 3333222 22344566676652 2555555555444
No 276
>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=91.17 E-value=6.1 Score=38.65 Aligned_cols=70 Identities=13% Similarity=0.114 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
++-..++..+.++.+ .+++.+.. ++...++..|.+|++|+++.... .....+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVFG---ELPAWL-KREVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecCC---CCcccc-eeeeecccceEEEEeC
Confidence 455678888888764 25565553 44668899999999999985322 112223 2357777788777765
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 44
No 277
>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=91.11 E-value=13 Score=36.19 Aligned_cols=72 Identities=14% Similarity=0.029 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-..++..+.++.+ .+++.+.. +...+++..|.+|++|+++....... ....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 456778888888874 35566654 55788999999999999985332110 122222 356777788888776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 54
No 278
>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=91.06 E-value=12 Score=37.15 Aligned_cols=72 Identities=13% Similarity=0.169 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.+..+ .++++... ++..+++..|.+|++|+++........-...+ ...|+.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 455678888888764 35566664 67999999999999999885322111100112 2357777777777654
Q ss_pred c
Q 002364 572 R 572 (930)
Q Consensus 572 ~ 572 (930)
+
T Consensus 84 ~ 84 (204)
T cd08429 84 P 84 (204)
T ss_pred C
Confidence 3
No 279
>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=90.74 E-value=16 Score=35.66 Aligned_cols=70 Identities=11% Similarity=0.114 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .++++... ++..++...+.+|++|+++...... ...+ -+.++.+...+++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAGD---YPGL-TTEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccCC---CCCc-eEEEeccCceEEEecC
Confidence 345678888888875 35566554 4567789999999999988632211 1222 2356777788888776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 280
>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=90.45 E-value=18 Score=35.13 Aligned_cols=72 Identities=17% Similarity=0.166 Sum_probs=48.0
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ .++++... +++..++.++.+|++|+++..... .....+. ..++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~l~-~~~l~~~~~~~~~~ 80 (199)
T cd08430 12 YSFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPD--KLPARLA-FLPLATSPLVFIAP 80 (199)
T ss_pred eeeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCC--CCCcccE-EEeeccceEEEEEe
Confidence 3556778999999884 25566654 568889999999999998853211 1112232 35667777887777
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 81 ~~~ 83 (199)
T cd08430 81 NIA 83 (199)
T ss_pred CCc
Confidence 654
No 281
>cd08457 PBP2_OccR The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator OccR, which is involved in the catabolism of octopine. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, OccR protein activates the occQ operon of the Ti plasmid in response to octopine. This operon encodes proteins required for the uptake and catabolism of octopine, an arginine derivative. The occ operon also encodes the TraR protein, which is a quorum-sensing transcriptional regulator of the Ti plasmid tra regulon. This substrate-binding domain shows significant h
Probab=90.39 E-value=18 Score=35.13 Aligned_cols=71 Identities=20% Similarity=0.257 Sum_probs=46.4
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
..+-.+++..+.++.+ .+++.+.. +.-.++...+.+|++|+++..... ....+. ..++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~ 79 (196)
T cd08457 12 NGFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADGPL---EERQGF-LIETRSLPAVVAVP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEeccCC---CCCCcE-EEEeccCCeEEEee
Confidence 3456788899988875 35565554 335688899999999998853221 122232 34667777787777
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 80 ~~~ 82 (196)
T cd08457 80 MGH 82 (196)
T ss_pred CCC
Confidence 643
No 282
>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=90.39 E-value=12 Score=36.72 Aligned_cols=70 Identities=11% Similarity=0.078 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.... ++...+++.|.+|++|+++.... .....++ +.++....+++++++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~---~~~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF---PRHPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC---CCCCceE-EEEEeeccEEEEecC
Confidence 455678888888874 35566554 56899999999999999985321 1112232 456667788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 54
No 283
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=90.35 E-value=16 Score=39.81 Aligned_cols=85 Identities=13% Similarity=0.039 Sum_probs=57.4
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.+|||+... . ...+-.++++.+.++.+ .+++.+.. +..++++.+|.+|++|+++..
T Consensus 92 ~g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~ 149 (327)
T PRK12680 92 QGQLTLTTTHT--Q------------ARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVS 149 (327)
T ss_pred ceEEEEEecch--h------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEe
Confidence 35799999851 1 12456688888888886 35566654 568899999999999998853
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.... ...... ..|+....++++++...
T Consensus 150 ~~~~--~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 150 TAGG--EPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred cCCC--CCCcce-EEEeeccceEEEEeCCC
Confidence 2111 111222 46788888888887655
No 284
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=90.26 E-value=1.1 Score=48.80 Aligned_cols=68 Identities=19% Similarity=0.176 Sum_probs=44.9
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHH---HHhhccccccceec-CCHHHHHHHHhcCCCCCceEEEEecchhHHHH
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYL---SQELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVVDERPYVELF 753 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l---~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~ 753 (930)
+.|++++||. |++|++..++....++ .+..+++...+... -...+...++.+ |.+|+++...+.....
T Consensus 112 ~~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~Al~~----G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 112 KTISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAWQR----GDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEECCcHHHHHHHHc----CCcCEEEEcchHHHHH
Confidence 3699999998 9999997666443332 23444443333222 246778899998 8999988776765433
No 285
>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=90.05 E-value=18 Score=35.08 Aligned_cols=70 Identities=10% Similarity=0.048 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++++.. ++..++...+.+|++|+++.... .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHSR---RLPAGL-SARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeCC---CCCcCc-eEEEEecCcEEEEeeC
Confidence 455688888888774 35566654 56889999999999999875321 222233 2457777888887776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 286
>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=89.99 E-value=12 Score=36.30 Aligned_cols=73 Identities=15% Similarity=0.113 Sum_probs=48.0
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeee--cCceeeeeecccccccceEEEE
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIV--TNRTKIVDFSQPYAASGLVVVV 569 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t--~~r~~~vdft~p~~~~~~~~lv 569 (930)
.+-.+++..+.++.+ .+++.+.. ++...+...+.+|++|+++...... ......+ .+.++....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~ 83 (200)
T cd08423 13 ALLPPALAALRARHP-GLEVRLRE-------AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVL 83 (200)
T ss_pred HhhhHHHHHHHHhCC-CCeEEEEe-------CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEe
Confidence 455678888888875 35566654 4567899999999999988532110 1122223 35677788888888
Q ss_pred eccC
Q 002364 570 PFRK 573 (930)
Q Consensus 570 ~~~~ 573 (930)
++..
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 7654
No 287
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=89.90 E-value=11 Score=40.93 Aligned_cols=82 Identities=7% Similarity=0.087 Sum_probs=54.8
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.++++||+... . ...+-..++..+.+..+ ++++... .+++++..|.+|++|+++..
T Consensus 116 ~~~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~ 171 (317)
T PRK11482 116 QRTITIATTPS--V------------GALVMPVIYQAIKTHYP-QLLLRNI---------PISDAENQLSQFQTDLIIDT 171 (317)
T ss_pred CceEEEEecHH--H------------HHHHHHHHHHHHHHHCC-CCEEEEe---------cchhHHHHHHCCCcCEEEec
Confidence 35799998841 1 12356677888888775 3444432 25688999999999999864
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... ....+. +.|+....++++++...
T Consensus 172 ~~~---~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 172 HSC---SNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred cCC---CCCceE-EEEEecCcEEEEEeCCC
Confidence 322 223343 35778888888887765
No 288
>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=89.88 E-value=9.8 Score=39.58 Aligned_cols=121 Identities=13% Similarity=0.064 Sum_probs=65.8
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHH---HHHhhccc------------------cc--cceecCCHHHHHHHHhcCCC
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYY---LSQELNIS------------------KS--RLVALRTPEDYAKALKDGPG 736 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~---l~~~~~~~------------------~~--~~~~~~~~~~~~~~l~~~~~ 736 (930)
..+++++||. .|.+|++..+...... +.+..++. +. +++.+ ...+...++.+
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~--- 180 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLLQKQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDD--- 180 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHHHHcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhc---
Confidence 6899999995 3788999865432222 11332321 11 22333 44567788888
Q ss_pred CCceEEEEecchhHHHHHhcCc-cEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhccchHHHHHHh
Q 002364 737 KGGVAAVVDERPYVELFLSSQC-SFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKW 806 (930)
Q Consensus 737 ~g~~~a~i~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~~~~~w 806 (930)
|.+|+.+...+++.-...+.. .-......-.++-..++++++..=.+.+...+..+++..+-+.|.++|
T Consensus 181 -g~vDaa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 181 -PKVDLAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred -ccccEEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 889998887776654322211 111121111122245556655334566666666666666555555554
No 289
>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=89.73 E-value=21 Score=34.70 Aligned_cols=70 Identities=13% Similarity=0.218 Sum_probs=47.5
Q ss_pred eeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEecc
Q 002364 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
+-.++++.+.++.+ .+++++.. ++..++...+.+|++|+++...... ....+ .+.++....+++++++.
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCC
Confidence 56678888888875 24565554 5578899999999999998532211 11222 34677788888888765
Q ss_pred C
Q 002364 573 K 573 (930)
Q Consensus 573 ~ 573 (930)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 290
>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=89.69 E-value=20 Score=34.61 Aligned_cols=70 Identities=16% Similarity=0.198 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.+..+ .+++.+.. ++...+...+.+|++|+++..... ....+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPP---DPPGLA-SRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCC---CCCCee-EEEEeeccEEEEecC
Confidence 345677888887764 34555553 457889999999999999863222 122232 357778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 291
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=89.67 E-value=15 Score=39.78 Aligned_cols=83 Identities=12% Similarity=0.101 Sum_probs=53.6
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
++++||+... .. ..+-.+++..+.++.+ .+++++.. +.-.++...|.+|++|+++..-
T Consensus 89 g~l~Ig~~~~--~~------------~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~ 146 (317)
T PRK15421 89 TRLRIAIECH--SC------------IQWLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSD 146 (317)
T ss_pred eeEEEEeccc--ch------------HHHHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecC
Confidence 4689988731 10 1234667788877764 34555553 3456789999999999998532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
....+.+.+ .++....+++++++..
T Consensus 147 ---~~~~~~~~~-~~l~~~~~~lv~~~~h 171 (317)
T PRK15421 147 ---ILPRSGLHY-SPMFDYEVRLVLAPDH 171 (317)
T ss_pred ---cccCCCceE-EEeccceEEEEEcCCC
Confidence 122233433 6777888888887665
No 292
>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=89.53 E-value=16 Score=35.57 Aligned_cols=73 Identities=12% Similarity=0.113 Sum_probs=47.5
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEe
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~ 570 (930)
.++-.+++..+.++.+ .+++.+.. +....+...+.+|++|+++..... ......+ -+.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~v~~ 81 (199)
T cd08416 12 VNTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFLAVP 81 (199)
T ss_pred HhhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEEEEC
Confidence 3556788888888874 24555554 446788999999999999863221 0011222 245677778888887
Q ss_pred ccC
Q 002364 571 FRK 573 (930)
Q Consensus 571 ~~~ 573 (930)
+..
T Consensus 82 ~~h 84 (199)
T cd08416 82 ATS 84 (199)
T ss_pred CCC
Confidence 654
No 293
>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=89.46 E-value=1.6 Score=45.63 Aligned_cols=87 Identities=14% Similarity=0.024 Sum_probs=69.1
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002364 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (930)
Q Consensus 32 i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~ 111 (930)
=+||++.+...+.-.....|+...++.+| |+.++...+..+-.|+.++.+.+..|+++++.+|++.. ....
T Consensus 121 ~kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g 191 (258)
T cd06353 121 NKVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT---DSPG 191 (258)
T ss_pred CcEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC---CChH
Confidence 37999988876555667789999999888 45677777777788999999999999999999888766 2245
Q ss_pred HHHhhccCCCcEEecc
Q 002364 112 VSYVSNELQVPLLSFG 127 (930)
Q Consensus 112 v~~~~~~~~iP~is~~ 127 (930)
+...+.+.++..|.+.
T Consensus 192 ~~~aa~~~g~~~IG~d 207 (258)
T cd06353 192 VIQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHHhCCEEEeec
Confidence 6677778899999764
No 294
>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=89.38 E-value=11 Score=37.78 Aligned_cols=70 Identities=11% Similarity=0.092 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+..+++..+.++.+ .+++.+.. .+...+.+.+.+|++|+++.... .....+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRK 80 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeC
Confidence 445677888888765 34555554 45778999999999999986322 2223343 457778888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (221)
T cd08469 81 DH 82 (221)
T ss_pred CC
Confidence 55
No 295
>cd08445 PBP2_BenM_CatM_CatR The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold. This CD includes the C-terminal of LysR-type transcription regulators, BenM, CatM, and CatR, which are involved in the benzoate catabolism. The BenM and CatM are paralogs with overlapping functions. BenM responds synergistically to two effectors, benzoate and cis,cis-muconate, to activate expression of the benABCDE operon which is involved in benzoate catabolism, while CatM responses only to muconate. BenM and CatM share high protein sequence identity and bind to the operator-promoter regions that have similar DNA sequences. In Pseudomonas species, phenolic compounds are converted by different enzymes to central intermediates, such as protocatechuate and catechols. Generally, unsubstituted compounds, such as benzoate, are metabolized by an ortho-cleavage pathway. The catBCA operon encodes three enzymes
Probab=89.33 E-value=20 Score=35.10 Aligned_cols=70 Identities=17% Similarity=0.282 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++++.. ++..+++..+.+|++|++++..... ...+. +.|+....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeC
Confidence 566778888888775 34565554 4578999999999999998532211 12232 446777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 54
No 296
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=89.24 E-value=13 Score=39.82 Aligned_cols=86 Identities=13% Similarity=0.064 Sum_probs=54.4
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.++||+.. .+ ...+..+++..+.++.+ .+++.... ++..+++..|.+|++|++++.
T Consensus 91 ~g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~ 148 (300)
T PRK11074 91 RGQLSIAVDN--IV------------RPDRTRQLIVDFYRHFD-DVELIIRQ-------EVFNGVWDALADGRVDIAIGA 148 (300)
T ss_pred CceEEEEEcC--cc------------chhHHHHHHHHHHHhCC-CceEEEEe-------hhhhHHHHHHHCCCCCEEEec
Confidence 3579999874 11 12344577888887776 24455553 456789999999999999863
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... ......+ -+.++....+++++++..
T Consensus 149 ~~~-~~~~~~l-~~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 149 TRA-IPVGGRF-AFRDMGMLSWACVVSSDH 176 (300)
T ss_pred Ccc-CCccccc-ceeecccceEEEEEcCCC
Confidence 211 1111122 234677778888887655
No 297
>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=88.93 E-value=0.76 Score=48.98 Aligned_cols=101 Identities=17% Similarity=0.159 Sum_probs=59.9
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHH-HhcCc
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF-LSSQC 758 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~-~~~~~ 758 (930)
.+|++++||. |.++.+..+.....++ +.++.. .+.. ...|...+|++ |.+|+........... ..+.+
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~-~~lGa~---pv~i-p~~evy~aLq~----G~vDg~~~~~~~~~~~~~~ev~ 194 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFF-EALGAS---PVPI-PWSEVYQALQQ----GVVDGAENSASSIYSLGLYEVA 194 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHH-HHCTSE---EEE--TGGGHHHHHHT----TSSSEEEEEHHHHHHTTGGGTS
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHH-HHcCCe---eecC-cHHHHHHHHhc----CCcCeEecCHHHHHhcChhhhC
Confidence 6899999997 8888887555556666 455543 2222 45688999999 8999998876655322 22335
Q ss_pred cEEEeCccccccceeeeeCCCCc--chHHHHHHHHh
Q 002364 759 SFRIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILE 792 (930)
Q Consensus 759 ~l~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~ 792 (930)
++.+... ....++.+++.++.- |-+....+|.+
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~w~~L~~e~q~~l~~ 229 (286)
T PF03480_consen 195 KYFTDTN-HGWSPYAVIMNKDWWDSLPDEDQEALDD 229 (286)
T ss_dssp SEEEEEE-EEEEEEEEEEEHHHHHHS-HHHHHHHHH
T ss_pred CeeEeec-ccCcceEEEEcHHHHhcCCHHHHHHHHH
Confidence 5555433 344556666765532 44444444433
No 298
>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=88.88 E-value=1.7 Score=41.36 Aligned_cols=98 Identities=10% Similarity=0.125 Sum_probs=64.0
Q ss_pred HHHHHhcCccEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHH-HHHhCCceEEEEEcC
Q 002364 156 AEMVSYYGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV-KVALMESRVIVLHVS 232 (930)
Q Consensus 156 ~~~l~~~~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~-~l~~~~~~viil~~~ 232 (930)
+++|...|-++++++.. +..+.....+.+++++++.|+........... ...+...... .+++..+++||+ .+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii~-~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAIIC-SN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEEE-SS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEEE-cC
Confidence 46778889999999993 23455566788999999999886544333322 2333333222 344346776555 77
Q ss_pred hhhHHHHHHHHHHcCcccCC-eEEEE
Q 002364 233 PSLGFQVFSVAKYLGMMGNG-YVWIA 257 (930)
Q Consensus 233 ~~~~~~~~~~a~~~g~~~~~-~~~i~ 257 (930)
...+..+++.+.+.|+..+. ...+.
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv~ 102 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVVS 102 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEEE
Confidence 78889999999999985443 33343
No 299
>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=88.69 E-value=24 Score=34.22 Aligned_cols=70 Identities=13% Similarity=0.128 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. +.+..+...+.+|++|+++..... ....+ -+.++....+++++++
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeC
Confidence 355678888888775 35566554 568889999999999999853221 11222 2456777788888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 54
No 300
>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=88.68 E-value=24 Score=34.31 Aligned_cols=72 Identities=7% Similarity=0.068 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++++.. .+...+++.|.+|++|+++.... .......++ ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~~~~~ 82 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGSL-TPLENSALH-SKIIKTQHFMIIVSK 82 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecCC-CCCCcccce-EEEeecceEEEEecC
Confidence 345678888888875 35566654 55788999999999999985321 111223343 357777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 54
No 301
>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=88.57 E-value=5.9 Score=40.49 Aligned_cols=194 Identities=18% Similarity=0.107 Sum_probs=114.0
Q ss_pred EeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcC-cccEEEeeeeeecCce---eeee--ecccccccc
Q 002364 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTG-VFDAVVGDITIVTNRT---KIVD--FSQPYAASG 564 (930)
Q Consensus 491 ~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g-~~D~~~~~~~~t~~r~---~~vd--ft~p~~~~~ 564 (930)
.+..-++.+.+.++-++++++.+. .-..+...|..| ++|+.+..-....++. ..+. -..|+..+.
T Consensus 10 ~~~~~~l~~~f~~~~g~~v~v~~~---------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~ 80 (230)
T PF13531_consen 10 APALEELAEAFEKQPGIKVEVSFG---------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSP 80 (230)
T ss_dssp HHHHHHHHHHHHHHHCEEEEEEEE---------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEE
T ss_pred HHHHHHHHHHHHhccCCeEEEEEC---------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCc
Confidence 345567888888888866555544 357788888877 7898876432211111 2333 567888889
Q ss_pred eEEEEeccCCCCCcceeeccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccchhhhHHHHHHhhhcCcCcccc
Q 002364 565 LVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHKENTVS 644 (930)
Q Consensus 565 ~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s 644 (930)
+++++++..+
T Consensus 81 ~vl~~~~~~~---------------------------------------------------------------------- 90 (230)
T PF13531_consen 81 LVLAVPKGNP---------------------------------------------------------------------- 90 (230)
T ss_dssp EEEEEETTST----------------------------------------------------------------------
T ss_pred eEEEeccCcc----------------------------------------------------------------------
Confidence 9999988761
Q ss_pred cchhhhHHHHHHHHHhhhhhhhhhhheeeecccccCCCCChHHhhhCCCCeEEEeCc------hHHHHHHHhhc---cc-
Q 002364 645 TLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQEGS------FAEYYLSQELN---IS- 714 (930)
Q Consensus 645 ~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~v~~~~~s------~~~~~l~~~~~---~~- 714 (930)
..+.+++||.+.+.++++.... .....+. ..+ .-
T Consensus 91 -----------------------------------~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~-~~g~~~~~~ 134 (230)
T PF13531_consen 91 -----------------------------------KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLA-AAGGQELLD 134 (230)
T ss_dssp -----------------------------------TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHH-HHTHCHHHH
T ss_pred -----------------------------------cccCCHHHHhhccCEEEecCcccChhhHHHHHHHH-HcccHHHHH
Confidence 3678889998777678887531 1222222 111 00
Q ss_pred --cccce-ecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccE--EEeCcccc--ccceeeeeCCCCcchHHHH
Q 002364 715 --KSRLV-ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSF--RIVGQEFT--KSGWGFAFPRDSPLAVDLS 787 (930)
Q Consensus 715 --~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l--~~~~~~~~--~~~~~~~~~k~spl~~~i~ 787 (930)
..++. ...+..+....+.+ |+.++.+.......+. ....++ ...++... ...+.+++.++++-.+.-.
T Consensus 135 ~l~~~~~~~~~~~~~~~~~v~~----g~~d~~~~~~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 209 (230)
T PF13531_consen 135 ALQKNIVQYVPSTSQVLSAVAS----GEADAGIVYESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAAR 209 (230)
T ss_dssp HHHHTEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHH
T ss_pred HHHHhCcccccchHHHHHHHHc----CCCcceeeHHHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHH
Confidence 12333 35677888888888 8888888765544322 222233 33444444 2457788888887666666
Q ss_pred HHHHhhhhccchHHHHHH
Q 002364 788 SAILELAENGDLQRIHDK 805 (930)
Q Consensus 788 ~~i~~l~e~G~~~~~~~~ 805 (930)
..+..|.... -+++..+
T Consensus 210 ~f~~~L~s~~-~q~~l~~ 226 (230)
T PF13531_consen 210 AFIDFLLSPE-GQQILAK 226 (230)
T ss_dssp HHHHHHTSHH-HHHHHHH
T ss_pred HHHHHHCCHH-HHHHHHH
Confidence 6666665443 4444443
No 302
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein. The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains.
Probab=88.19 E-value=4.8 Score=40.69 Aligned_cols=81 Identities=11% Similarity=-0.022 Sum_probs=43.9
Q ss_pred eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccc-cccceeeeeCCCCcchHHHHHHHHhhhhcc
Q 002364 719 VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEF-TKSGWGFAFPRDSPLAVDLSSAILELAENG 797 (930)
Q Consensus 719 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~k~spl~~~i~~~i~~l~e~G 797 (930)
....+..+..+.+.+ |++++.+......... ........+++.. ....+++++.|+++-.+.-.+.|..+....
T Consensus 133 ~~~~~~~~~~~~~~~----Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s~e 207 (216)
T TIGR01256 133 VYGEDVRQALQFVET----GNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKSPE 207 (216)
T ss_pred eecCcHHHHHHHHHc----CCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHcCHH
Confidence 334466778888888 8988877644322111 1222333444432 233568888898876555555555544433
Q ss_pred chHHHHHH
Q 002364 798 DLQRIHDK 805 (930)
Q Consensus 798 ~~~~~~~~ 805 (930)
.+++..+
T Consensus 208 -~q~~~~~ 214 (216)
T TIGR01256 208 -AKEILRK 214 (216)
T ss_pred -HHHHHHH
Confidence 3444433
No 303
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=88.14 E-value=23 Score=38.11 Aligned_cols=83 Identities=13% Similarity=0.067 Sum_probs=51.3
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
+.++||+.. .. ...+-.+++..+.+..+ .+++.... .+-..+...|.+|++|+++...
T Consensus 94 g~l~I~~~~---~~-----------~~~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~ 151 (309)
T PRK11013 94 GQLSIACLP---VF-----------SQSLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTET 151 (309)
T ss_pred CcEEEEEcH---HH-----------HHhhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcC
Confidence 468888773 11 12456778888888764 25566654 3466788999999999988532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.. ....+. ..++.....++++++..
T Consensus 152 ~~---~~~~~~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK11013 152 LH---TPAGTE-RTELLTLDEVCVLPAGH 176 (309)
T ss_pred CC---CCCCce-eeeecceeEEEEEcCCC
Confidence 21 111222 33555666677776554
No 304
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=88.06 E-value=8.6 Score=37.24 Aligned_cols=100 Identities=10% Similarity=0.019 Sum_probs=67.6
Q ss_pred hHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE
Q 002364 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (930)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (930)
.+....+.+.+...+ .+++++..+.. ..+.+.+.+++. |+.|+... ++. .+..+...+++.|.++++|+
T Consensus 34 ~dl~~~l~~~~~~~~-~~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~--~g~--f~~~~~~~i~~~I~~~~pdi 104 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRG-KRIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYH--HGY--FDEEEEEAIINRINASGPDI 104 (172)
T ss_pred HHHHHHHHHHHHHcC-CeEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEec--CCC--CChhhHHHHHHHHHHcCCCE
Confidence 345566666666666 48888876554 455566666665 56666543 222 23678889999999999999
Q ss_pred EEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCc
Q 002364 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (930)
Q Consensus 227 iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 260 (930)
|++.+..+....++...++.. ... +|+..++
T Consensus 105 v~vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~ 135 (172)
T PF03808_consen 105 VFVGLGAPKQERWIARHRQRL--PAG-VIIGVGG 135 (172)
T ss_pred EEEECCCCHHHHHHHHHHHHC--CCC-EEEEECc
Confidence 999988888778777776543 223 6776654
No 305
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=87.78 E-value=16 Score=35.67 Aligned_cols=90 Identities=18% Similarity=0.117 Sum_probs=65.3
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCC-----CCChhHHHHHHHHHHhCCceEE
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVALMESRVI 227 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~l~~~~~~vi 227 (930)
.|+++-|+.++.+++.++. +|-.+.-+.-.+.++++|.+|+....+-..+ .......-+.-+++..-++|.|
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 5778889999999999985 5667777888899999999988654332221 1122334445566667789999
Q ss_pred EEEcChhhHHHHHHHHHH
Q 002364 228 VLHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 228 il~~~~~~~~~~~~~a~~ 245 (930)
++.|..-....++....+
T Consensus 184 FiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 184 FISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEeeccccHHHHHHHHH
Confidence 999888777777776654
No 306
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=87.65 E-value=11 Score=39.71 Aligned_cols=120 Identities=11% Similarity=0.139 Sum_probs=62.3
Q ss_pred CCCCChHHhhhCCCCeEEEeCc-hHHHHH--HHhhcc------------------c--cccceecCCHHHHHHHHhcCCC
Q 002364 680 SPINGIESLRKSDDPIGYQEGS-FAEYYL--SQELNI------------------S--KSRLVALRTPEDYAKALKDGPG 736 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s-~~~~~l--~~~~~~------------------~--~~~~~~~~~~~~~~~~l~~~~~ 736 (930)
..|+|++||. .|++|++.... .....+ .++.++ . .-++++. ...+...++.+
T Consensus 119 ~~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~--- 193 (271)
T PRK11063 119 KKIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDD--- 193 (271)
T ss_pred cCCCCHHHhc-CCCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccc---
Confidence 5799999995 47889988532 222222 122111 0 1123333 45567778887
Q ss_pred CCceEEEEecchhHHHHHhcC--ccEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhccchHHHHHHh
Q 002364 737 KGGVAAVVDERPYVELFLSSQ--CSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKW 806 (930)
Q Consensus 737 ~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~~~~~w 806 (930)
|++|+++...++......+. ..+..-... ..+--.+++++...=.+.+...+.-++....-+.|.++|
T Consensus 194 -g~vDaa~i~~~~a~~a~~~~~~~~l~~e~~~-~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 194 -AQIALAVINTTYASQIGLTPAKDGIFVEDKD-SPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred -ccccEEEEChHHHHHcCCCCCCCeeEECCCC-CCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 89999998877776532222 123221211 122235556655443344555555445444444455543
No 307
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=87.08 E-value=8.8 Score=41.44 Aligned_cols=84 Identities=8% Similarity=0.110 Sum_probs=56.2
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
++.++|++.. +. ..++-.+++..+.++.+ .+++.+.. ++...++.+|.+|++|+++..
T Consensus 111 ~~~i~i~~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~ 168 (314)
T PRK09508 111 ERVFNLCICS--PL------------DIRLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISY 168 (314)
T ss_pred ccEEEEEech--hH------------HHHHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEec
Confidence 4568888763 10 12466788889988874 24566554 457889999999999999864
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
... ....+.+ .++....+++++++..
T Consensus 169 ~~~---~~~~l~~-~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 169 EEF---DRPEFTS-VPLFKDELVLVASKNH 194 (314)
T ss_pred CCC---Cccccce-eeeecCceEEEEcCCC
Confidence 321 1223333 4677788888887655
No 308
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=86.41 E-value=2.2 Score=46.18 Aligned_cols=104 Identities=13% Similarity=0.163 Sum_probs=62.4
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCc-
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC- 758 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~- 758 (930)
.||.+.+||. |.++.+.........+ +.++-.+..+ ...|...+|+. |-+|+.-... ..+...+..
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~-~a~GA~P~pm----~f~Evy~aLqt----GvVDGqEnp~--~~i~~~k~~E 223 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMF-KALGANPTPM----PFAEVYTALQT----GVVDGQENPL--SNIYSAKLYE 223 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHH-HHcCCCCCCC----CHHHHHHHHHc----CCcccccCCH--HHHhhccHHH
Confidence 4999999998 9999998887777777 4555432222 56788999999 7888774443 333333211
Q ss_pred --cEEEeCccccccceeeeeCCCC--cchHHHHHHHHhhhhcc
Q 002364 759 --SFRIVGQEFTKSGWGFAFPRDS--PLAVDLSSAILELAENG 797 (930)
Q Consensus 759 --~l~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~i~~l~e~G 797 (930)
++...... ...++.+.+.+.. .|-+...++|++..+..
T Consensus 224 Vqky~t~tnH-~~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 224 VQKYLTLTNH-IYLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred HhHHhhhccc-cccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 22222111 1223455555543 26666667766655544
No 309
>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=86.18 E-value=21 Score=34.74 Aligned_cols=66 Identities=6% Similarity=0.053 Sum_probs=41.4
Q ss_pred eHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEecc
Q 002364 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
...++..+.++. .+++.... ++...+..++.+|++|+++..- ......+ .+.++.....++++++.
T Consensus 15 l~~~l~~f~~~~--~v~l~l~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~~ 80 (195)
T cd08428 15 FLPALAPVLKRE--RILLDLIV-------DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASPD 80 (195)
T ss_pred hHHHHHHHHhCc--CeEEEEEe-------CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECCc
Confidence 445677777763 46676664 4577899999999999876421 1112222 24566666777776543
No 310
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=85.48 E-value=31 Score=37.04 Aligned_cols=70 Identities=11% Similarity=0.179 Sum_probs=46.5
Q ss_pred eHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEeccC
Q 002364 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
-.+++..+.++.+. +++.+.. ++-.++.+.|.+|++|++++... .......+. ..++....+++++++..
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~-~~~l~~~~~~~v~~~~h 177 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGVTG-TEALANTFS-LDPLGSVQWRFVMAADH 177 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEeccc-CccccCCee-EEEecceeEEEEECCCC
Confidence 45788888888764 5566654 45678899999999999886211 111122232 34777788888887654
No 311
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=85.37 E-value=19 Score=38.35 Aligned_cols=86 Identities=14% Similarity=0.245 Sum_probs=52.9
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
..||||+.. .. ..++-.+++..+.++.+ .+++.... ++...+..+|.+|++|+++...
T Consensus 93 g~l~i~~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (296)
T PRK11062 93 LLFDVGVAD--AL------------SKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDC 150 (296)
T ss_pred eEEEEEecc--hh------------hHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 468998874 11 23566778888877653 34555543 4588999999999999988532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.........+ ...|+....++++++++.
T Consensus 151 ~~~~~~~~~l-~~~~l~~~~~~~~~~~~~ 178 (296)
T PRK11062 151 PVDSTQQEGL-FSKKLGECGVSFFCTNPL 178 (296)
T ss_pred CCccccccch-hhhhhhccCcceEecCCC
Confidence 2111111222 235667777776665543
No 312
>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=85.35 E-value=57 Score=35.00 Aligned_cols=202 Identities=13% Similarity=0.014 Sum_probs=100.0
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 32 i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
.++++++|-.- .......++..+++++.++. +|. ++...+... ++........++.+++...||++. .....
T Consensus 2 ~~v~~~~~g~~-~D~g~n~~~~~G~~~~~~~~---~~i--~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g-~~~~~ 74 (306)
T PF02608_consen 2 KKVALLDPGGI-NDKGFNQSAYEGLKRAEKEL---DGI--EIIYVENVPETDADYEEAIRQLADQGYDLIIGHG-FEYSD 74 (306)
T ss_dssp EEEEEESSS-C-CCSSHHHHHHHHHHHHHHHC---TTE--EEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEES-GGGHH
T ss_pred eEEEEEECCCC-CCccHHHHHHHHHHHHHHHc---CCc--eEEEEecCCccHHHHHHHHHHHHHcCCCEEEEcc-HHHHH
Confidence 46777777541 11223344444444444432 233 444444443 455556667778788888888743 44446
Q ss_pred HHHHhhccC-CCcEEecccCCCCCCCCCCCceEeecCCc---hHHHHHHHHHHHhcCccEEEEEE----EcCccccchHH
Q 002364 111 IVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSD---SYQMTAVAEMVSYYGWNAVSVIF----VDNEYGRNGVS 182 (930)
Q Consensus 111 ~v~~~~~~~-~iP~is~~a~~~~l~~~~~p~~~r~~p~~---~~~~~ai~~~l~~~~w~~v~ii~----~d~~~g~~~~~ 182 (930)
++..++.++ ++-++...+...... |++....... ..++..+|.++.+- .+++++. .+.+.-.....
T Consensus 75 ~~~~vA~~yPd~~F~~~d~~~~~~~----~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~ 148 (306)
T PF02608_consen 75 ALQEVAKEYPDTKFIIIDGYIDAPE----PNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFIN 148 (306)
T ss_dssp HHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHH
T ss_pred HHHHHHHHCCCCEEEEEecCcCCCC----CcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHH
Confidence 667777766 555554433322211 3443333332 33445555555443 4777776 33343444566
Q ss_pred HHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
.|...++..+-.+.....+... -.+...-...-..+-..++|+|+-.+. .....++++|++.|.
T Consensus 149 gF~~Ga~~~np~i~v~~~~~gs-~~D~~~~~~~a~~li~~GaDvI~~~ag-~~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 149 GFIAGAKYVNPDIKVNVSYTGS-FNDPAKAKEAAEALIDQGADVIFPVAG-GSGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHTTTT-EEEEEE-SS-SS-HHHHHHHHHHHHHTT-SEEEEE-C-CCHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCceEEEEEcCC-cCchHHHHHHHHHHhhcCCeEEEECCC-CCchHHHHHHHHcCC
Confidence 6776666544333322232222 012333444445566689999998655 444557888888774
No 313
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=85.08 E-value=29 Score=36.18 Aligned_cols=83 Identities=13% Similarity=0.086 Sum_probs=53.4
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
+.++||+... . ...+..+++..+.++.+ .+++.+.. ++-.+++..|.+|++|+++...
T Consensus 67 ~~l~I~~~~~--~------------~~~~~~~~l~~~~~~~p-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~ 124 (269)
T PRK11716 67 GELSLFCSVT--A------------AYSHLPPILDRFRAEHP-LVEIKLTT-------GDAADAVEKVQSGEADLAIAAK 124 (269)
T ss_pred ceEEEEecch--H------------HHHHHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHHCCCccEEEEec
Confidence 5688888741 1 12456678888888875 25566554 5577899999999999998532
Q ss_pred eeecCceeeeeecccccccceEEEEecc
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
.. .....+. ..++....+++++++.
T Consensus 125 ~~--~~~~~~~-~~~l~~~~~~~v~~~~ 149 (269)
T PRK11716 125 PE--TLPASVA-FSPIDEIPLVLIAPAL 149 (269)
T ss_pred CC--CCCcceE-EEEcccceEEEEEcCC
Confidence 21 1111232 3566777778777654
No 314
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=85.04 E-value=3.5 Score=41.47 Aligned_cols=88 Identities=13% Similarity=0.109 Sum_probs=42.7
Q ss_pred CCCeEEEeCchHHHHHHHhhccccccceec-CCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEe--Cc--c
Q 002364 692 DDPIGYQEGSFAEYYLSQELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIV--GQ--E 766 (930)
Q Consensus 692 ~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~--~~--~ 766 (930)
|.+||+-..|.-+..+.+.. ....++... -+..++++.+.+ |.+||.|.+.. ...... .++... .. .
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 GMRVGIDPSSIDQKILTEAE-FEGKNVEFVEIPYNQLLELLRS----GEIDAAIWNYD--EIEDKN-FGLKYVPLKDDPM 185 (232)
T ss_dssp --EEEE-TT-HHHHHHHHHH-HTTS--EEEE--HHHHHHHHHH----TS--EEEEE----HHCCHH-CTEEEEE--SSCH
T ss_pred eeEeecCCCCccHHHHHHHH-hCCCceEEEEecHHHHHHHHHC----CCccEEEECCc--cccccc-CCeeEEeCCchHH
Confidence 77899988887777664432 333333222 257789999999 99999999866 211111 233332 22 1
Q ss_pred -ccccceeeeeCCCCc-chHHHH
Q 002364 767 -FTKSGWGFAFPRDSP-LAVDLS 787 (930)
Q Consensus 767 -~~~~~~~~~~~k~sp-l~~~i~ 787 (930)
.....-.++++|+.+ +...+.
T Consensus 186 ~~~~seAVivi~~~~~~i~~ll~ 208 (232)
T PF14503_consen 186 SKDASEAVIVIRKDNEPIKALLR 208 (232)
T ss_dssp HHHTT-EEEEEETT-HHHHHHHH
T ss_pred HHhcCeeEEEEeCCCHHHHHHHH
Confidence 123346778888886 444444
No 315
>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=84.31 E-value=56 Score=34.19 Aligned_cols=69 Identities=13% Similarity=0.180 Sum_probs=46.3
Q ss_pred eeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEecc
Q 002364 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
+-.+++..+.++.+ .+++.... ++..+++..|.+|++|+++..-... ...+. ..|+....+++++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECCC
Confidence 45677788887765 24555554 4578899999999999998532222 12222 3577778888888765
Q ss_pred C
Q 002364 573 K 573 (930)
Q Consensus 573 ~ 573 (930)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 5
No 316
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=84.21 E-value=47 Score=35.28 Aligned_cols=81 Identities=21% Similarity=0.167 Sum_probs=55.7
Q ss_pred eEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeee
Q 002364 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (930)
Q Consensus 467 lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~ 546 (930)
++||+.. .. ...+..+++..+.++.+ .+++.+.. .+..+++..+.+|++|+++.....
T Consensus 92 l~Ig~~~--~~------------~~~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~ 149 (296)
T PRK09906 92 LTIGFVP--SA------------EVNLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHPV 149 (296)
T ss_pred EEEEEec--ch------------hhhHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCCC
Confidence 8988874 11 12445677888888764 35566554 457889999999999999864322
Q ss_pred ecCceeeeeecccccccceEEEEeccC
Q 002364 547 VTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 547 t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
....+. +.|+....+++++++..
T Consensus 150 ---~~~~l~-~~~l~~~~~~~v~~~~~ 172 (296)
T PRK09906 150 ---YSDEID-YLELLDEPLVVVLPVDH 172 (296)
T ss_pred ---CCCCce-EEEEecccEEEEecCCC
Confidence 233344 36888889999988665
No 317
>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=83.89 E-value=44 Score=32.54 Aligned_cols=70 Identities=10% Similarity=0.092 Sum_probs=44.8
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++-++++.+|.+|++|+++...... ...+. +.++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCC
Confidence 455677888877764 35565553 4577899999999999988632211 12232 346667777776655
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 43
No 318
>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=83.85 E-value=12 Score=37.00 Aligned_cols=103 Identities=18% Similarity=0.161 Sum_probs=63.3
Q ss_pred CCCCChHHhhhCCCCeE-EEeCchHHHHHHHhh---cccccccee----cCCHHHHHHHHhcCCCCCceEEEEecchhHH
Q 002364 680 SPINGIESLRKSDDPIG-YQEGSFAEYYLSQEL---NISKSRLVA----LRTPEDYAKALKDGPGKGGVAAVVDERPYVE 751 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~-~~~~s~~~~~l~~~~---~~~~~~~~~----~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~ 751 (930)
..|.+++||.+.+.++. -..||-...+|...+ +++...+.- ..+..+...+|.. |..|+-+.......
T Consensus 81 ~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~----G~AD~G~g~~~~A~ 156 (193)
T PF12727_consen 81 KGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVAS----GKADAGIGIRAAAE 156 (193)
T ss_pred ccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHc----CCCCEEeehHHHHH
Confidence 47999999986666533 346787777775443 233333333 3567788888888 89998887655443
Q ss_pred HHHhcCccEEEeCccccccceeeeeCCCCcchHHHHHHHHh
Q 002364 752 LFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILE 792 (930)
Q Consensus 752 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~ 792 (930)
-+. .-++.- +....|-++++|..-..+.+...|.-
T Consensus 157 ~~~--gL~Fvp----l~~E~~dlv~~~~~~~~~~vq~ll~~ 191 (193)
T PF12727_consen 157 EFY--GLDFVP----LAEERYDLVIRREDLEDPAVQALLDF 191 (193)
T ss_pred hhc--CCCcEE----ccccceEEEEEhhHcCCHHHHHHHHH
Confidence 210 112222 23346788888876666666655543
No 319
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=82.91 E-value=14 Score=35.67 Aligned_cols=99 Identities=13% Similarity=0.004 Sum_probs=63.6
Q ss_pred hHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE
Q 002364 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (930)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (930)
.+....+.+.+...+ .+++++....+ ..+.+.+.+++. |+.|+....-+. ...+-...+++|.+++||+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~----~~~~~~~i~~~I~~~~pdi 102 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYF----GPEEEEEIIERINASGADI 102 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCC----ChhhHHHHHHHHHHcCCCE
Confidence 445666666666555 78888875554 344444455544 677776433222 2445555899999999999
Q ss_pred EEEEcChhhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 227 iil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
|++.+..+....++.+.++.. +.-+++..+
T Consensus 103 v~vglG~PkQE~~~~~~~~~l---~~~v~~~vG 132 (171)
T cd06533 103 LFVGLGAPKQELWIARHKDRL---PVPVAIGVG 132 (171)
T ss_pred EEEECCCCHHHHHHHHHHHHC---CCCEEEEec
Confidence 999998888888887776643 223455543
No 320
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=82.58 E-value=7.1 Score=38.36 Aligned_cols=106 Identities=21% Similarity=0.210 Sum_probs=63.4
Q ss_pred CCCCChHHhhhCCCCeEE-EeCchHHHHHHHh---hccccccceec----CCHHHHHHHHhcCCCCCceEEEEecchhHH
Q 002364 680 SPINGIESLRKSDDPIGY-QEGSFAEYYLSQE---LNISKSRLVAL----RTPEDYAKALKDGPGKGGVAAVVDERPYVE 751 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~-~~~s~~~~~l~~~---~~~~~~~~~~~----~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~ 751 (930)
..|++++||.+.+.++.- .+||-+..+|... .+.....+.=| .+......++.+ |+.|+-+.-...+
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~----G~AD~GvGlr~~A- 161 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVAS----GRADAGVGLRHAA- 161 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHc----CCCCccccHHHHH-
Confidence 458999999955544222 3677666666443 33333344434 345566777887 9999998854444
Q ss_pred HHHhcCc-cEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhcc
Q 002364 752 LFLSSQC-SFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENG 797 (930)
Q Consensus 752 ~~~~~~~-~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G 797 (930)
.++. +|.- +....|-|+.+|+.-=.+.+...+..|...+
T Consensus 162 ---~~~gL~Fip----l~~E~YD~virke~~~~~~vr~fi~~L~s~~ 201 (223)
T COG1910 162 ---EKYGLDFIP----LGDEEYDFVIRKERLDKPVVRAFIKALKSEG 201 (223)
T ss_pred ---HHcCCceEE----cccceEEEEEehhHccCHHHHHHHHHhcccc
Confidence 3332 3333 3445688888887655555555565555544
No 321
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=82.51 E-value=6.2 Score=43.92 Aligned_cols=89 Identities=13% Similarity=0.078 Sum_probs=64.9
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.+|.+++.+++.......+..+.+.+.|++.|+.+..-..+.++ .+.+++...++.+++.++|+||-.+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~n--p~~~~v~~~~~~~~~~~~D~IiaiG 96 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPN--PTTENVAAGLKLLKENNCDSVISLG 96 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 35567778899999999887543333456889999999999876543345545 4578888999999999999999765
Q ss_pred Ch--hhHHHHHHH
Q 002364 232 SP--SLGFQVFSV 242 (930)
Q Consensus 232 ~~--~~~~~~~~~ 242 (930)
.+ -++++.+..
T Consensus 97 GGS~iD~AK~ia~ 109 (383)
T PRK09860 97 GGSPHDCAKGIAL 109 (383)
T ss_pred CchHHHHHHHHHH
Confidence 44 456655544
No 322
>cd08453 PBP2_IlvR The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold. The IlvR is an activator of the upstream and divergently transcribed ilvD gene, which encodes dihydroxy acid dehydratase that participates in isoleucine, leucine, and valine biosynthesis. As in the case of other members of the LysR family, the expression of ilvR gene is repressed in the presence of its own gene product. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport
Probab=82.46 E-value=50 Score=32.05 Aligned_cols=73 Identities=15% Similarity=0.134 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. +....+...|.+|++|+++............+ -+.|.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEEC
Confidence 455678888888764 24566654 45778999999999999885321111011222 2456777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 323
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=82.00 E-value=7.8 Score=42.39 Aligned_cols=92 Identities=10% Similarity=-0.026 Sum_probs=71.8
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.+|++++-+|.+..-...+..+.+.+.|++.|+.+..-..+.++ .+.+.....+..+++.++|.||-.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 46667778889999999998666666678899999999999777655566666 5678888889999999999999875
Q ss_pred Ch--hhHHHHHHHHHH
Q 002364 232 SP--SLGFQVFSVAKY 245 (930)
Q Consensus 232 ~~--~~~~~~~~~a~~ 245 (930)
.+ -+++..+....+
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 54 466665555444
No 324
>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=81.27 E-value=53 Score=31.61 Aligned_cols=70 Identities=17% Similarity=0.176 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. ++..+++..+.+|++|+++...... ...+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEIQ---SDGI-DYQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCCC---CCCc-EEEEEEccceEEEecC
Confidence 455678888888875 24566554 4577899999999999988532211 1223 2456777888888876
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 325
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=80.94 E-value=78 Score=33.28 Aligned_cols=161 Identities=14% Similarity=0.132 Sum_probs=94.7
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 31 ~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
.=.||.||.-++ .+.+.+++.|+.+. +|..+-+-.-|.+-.-...+....+.+.+=+++|.-=.. .-.
T Consensus 44 gk~laliFeK~S---TRTR~SFeva~~ql-------Gg~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~--~~~ 111 (310)
T COG0078 44 GKNLALIFEKTS---TRTRVSFEVAATQL-------GGHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGF--SHE 111 (310)
T ss_pred CceEEEEecCCC---chhhhhHHHHHHHc-------CCCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEecc--cHH
Confidence 567999999876 36788999999886 234444444444433333344445555554555543222 223
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH---HhcC---ccEEEEEEEcCccccchHHHH
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV---SYYG---WNAVSVIFVDNEYGRNGVSAL 184 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l---~~~~---w~~v~ii~~d~~~g~~~~~~l 184 (930)
.+..+++...||+|. .|++...| .+++|+++ .++| -.+++.+. |. .+....+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vG--Dg--NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVG--DG--NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEc--Cc--chHHHHH
Confidence 678899999999995 25543333 47777774 4554 34555544 43 6788888
Q ss_pred HHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHH-HhCCceEEE
Q 002364 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKV-ALMESRVIV 228 (930)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~vii 228 (930)
.......|..+.... |.+ .....++....+++ ++++..+.+
T Consensus 170 ~~~~a~~G~dv~ia~--Pk~-~~p~~~~~~~a~~~a~~~g~~i~~ 211 (310)
T COG0078 170 LLAAAKLGMDVRIAT--PKG-YEPDPEVVEKAKENAKESGGKITL 211 (310)
T ss_pred HHHHHHhCCeEEEEC--CCc-CCcCHHHHHHHHHHHHhcCCeEEE
Confidence 888888998876432 222 11244555555554 334334433
No 326
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=80.09 E-value=8.4 Score=43.05 Aligned_cols=89 Identities=9% Similarity=-0.025 Sum_probs=63.6
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.+|.+++.++....-...+..+.+.+.|++.|+.+..-..+.++ .+.+++...++..++.++|+||-.+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--P~~~~v~~~~~~~r~~~~D~IiavG 114 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGE--PCITDVCAAVAQLRESGCDGVIAFG 114 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 35566778888988888776444334456888999999999886544344544 4567788889999999999999876
Q ss_pred Chh--hHHHHHHH
Q 002364 232 SPS--LGFQVFSV 242 (930)
Q Consensus 232 ~~~--~~~~~~~~ 242 (930)
.++ ++++.+..
T Consensus 115 GGS~iD~AKaia~ 127 (395)
T PRK15454 115 GGSVLDAAKAVAL 127 (395)
T ss_pred ChHHHHHHHHHHH
Confidence 653 55554433
No 327
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=79.72 E-value=36 Score=36.19 Aligned_cols=82 Identities=12% Similarity=0.079 Sum_probs=52.7
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
++++||+.. ... ..+-..++..+.++. .+++++.. +.-..++..+.+|++|+++..-
T Consensus 90 g~l~I~~~~--~~~------------~~~l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~ 146 (294)
T PRK03635 90 LTLSIAVNA--DSL------------ATWFLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTE 146 (294)
T ss_pred eEEEEeecc--hhH------------HHHHHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEecc
Confidence 569999873 111 123345667777664 46666664 4456889999999999987532
Q ss_pred eeecCceeeeeecccccccceEEEEeccC
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
. .....+ .+.|+....++++++...
T Consensus 147 ~---~~~~~l-~~~~l~~~~~~lv~~~~~ 171 (294)
T PRK03635 147 P---QPVQGC-RVDPLGAMRYLAVASPAF 171 (294)
T ss_pred C---CCCCCc-eeeecccceEEEEEcchH
Confidence 2 222223 457888889998887643
No 328
>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=79.17 E-value=50 Score=31.86 Aligned_cols=71 Identities=15% Similarity=0.098 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++++.. ++.+.++.++.+|++|+++..... .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNK-ATRIRLSE-------EVLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCC-CCceEEEE-------eccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEEcC
Confidence 556788899988875 24566554 446688999999999998853211 111122 2456667777877776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 82 ~h 83 (195)
T cd08431 82 NH 83 (195)
T ss_pred CC
Confidence 54
No 329
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=78.73 E-value=15 Score=38.63 Aligned_cols=96 Identities=16% Similarity=0.020 Sum_probs=72.9
Q ss_pred CCCCceEeecCCchHHHHHHH----HHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhH
Q 002364 136 LQYPFFVRTTQSDSYQMTAVA----EMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGY 211 (930)
Q Consensus 136 ~~~p~~~r~~p~~~~~~~ai~----~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~ 211 (930)
+..+|-|-+.|+....+..+. .-++..|.+++.++.+.+.--.......++.|+++|+.+..-..+.++ .+..+
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s 115 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGS 115 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--Cchhh
Confidence 445677778887766654443 347889999999998766666667889999999999988754444444 45788
Q ss_pred HHHHHHHHHhCCceEEEEEcCh
Q 002364 212 VMDLLVKVALMESRVIVLHVSP 233 (930)
Q Consensus 212 ~~~~l~~l~~~~~~viil~~~~ 233 (930)
+...++-.++.+.|.+|-.+.+
T Consensus 116 ~~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 116 VTAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHHhcccceEEEEcCc
Confidence 9999999999999999887654
No 330
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=78.54 E-value=10 Score=42.68 Aligned_cols=88 Identities=11% Similarity=-0.045 Sum_probs=64.2
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.++++.++.+++.++++...+.....+.+.+.+++.|+++..-..+.++ .+.+.+...++..++.++|+||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35566778889999999998655554456789999999988876543344444 4577888888888999999999876
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -+++.++.
T Consensus 89 GGSviD~AKaia 100 (414)
T cd08190 89 GGSVIDTAKAAN 100 (414)
T ss_pred CccHHHHHHHHH
Confidence 55 35555443
No 331
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=78.20 E-value=15 Score=40.12 Aligned_cols=73 Identities=21% Similarity=0.239 Sum_probs=49.6
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHH----Hhhccccccce-ecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHH
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLS----QELNISKSRLV-ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFL 754 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~----~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~ 754 (930)
.+|++++||. |+++|+..++...+++. ...++...++. ..-.+.+...++.. |.+|+++.-.++.....
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~----g~vda~~~~ep~~~~~~ 199 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAA----GQVDAFVVWEPWNAAAE 199 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhc----CCcceEEecCCchhhhh
Confidence 5888999997 99999998774333322 23444443332 23345588888988 89999888888777666
Q ss_pred hcCc
Q 002364 755 SSQC 758 (930)
Q Consensus 755 ~~~~ 758 (930)
.+..
T Consensus 200 ~~~~ 203 (335)
T COG0715 200 GEGG 203 (335)
T ss_pred ccCC
Confidence 6543
No 332
>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=78.04 E-value=84 Score=33.26 Aligned_cols=64 Identities=11% Similarity=0.073 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEecc
Q 002364 496 DVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 496 dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
.++..+.++. .+++.... ++-..+++.|.+|++|+++..... ....+. +.++.+..++++++++
T Consensus 107 ~~l~~~~~~~--~i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQE--GVLLDLVV-------EDQDHTAELLRSGEVLGAVTTQAK---PVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCC--CceEEEEe-------CcchhHHHHHhCCCceEEEecCCC---CCCCce-EEecCCceEEEEECch
Confidence 4566666654 35566554 445678999999999998854222 122333 4678888888887654
No 333
>PRK10200 putative racemase; Provisional
Probab=77.98 E-value=23 Score=36.15 Aligned_cols=86 Identities=12% Similarity=0.059 Sum_probs=51.7
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH
Q 002364 81 SGFIGMVEALRFMET-DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (930)
Q Consensus 81 ~~~~a~~~a~~li~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l 159 (930)
++...+....+.+.+ ++.+++=|-.+..+. .-.+-+..++|+|+. .+++++.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~ 112 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAI 112 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHH
Confidence 466666555555554 899998877776665 455666778998862 22333444
Q ss_pred HhcCccEEEEEEEcCccccchHHHHHHHHhhc-ceEE
Q 002364 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRI 195 (930)
Q Consensus 160 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v 195 (930)
+..+-++|+++.+....- ...+++.+.+. |+++
T Consensus 113 ~~~~~~~VglLaT~~Ti~---s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYTME---QDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHHHH---HhHHHHHHHHhcCCeE
Confidence 445667888887554321 23344555544 6655
No 334
>TIGR00035 asp_race aspartate racemase.
Probab=77.77 E-value=8.2 Score=39.44 Aligned_cols=86 Identities=13% Similarity=0.135 Sum_probs=48.0
Q ss_pred hHHHHHHHHHHH-hcCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHH
Q 002364 82 GFIGMVEALRFM-ETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS 160 (930)
Q Consensus 82 ~~~a~~~a~~li-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~ 160 (930)
+...+..+.+.+ +.++.+++=|-.+.... +..+-+..++|+|+. .++.++.++
T Consensus 60 ~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~~ 113 (229)
T TIGR00035 60 PRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAVK 113 (229)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHHH
Confidence 444444444444 44888888766665443 445556678998862 233334445
Q ss_pred hcCccEEEEEEEcCccccchHHHHHHHHhhcceEEE
Q 002364 161 YYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (930)
Q Consensus 161 ~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (930)
..+.++|+++.+....- ...+++.+++.|+++.
T Consensus 114 ~~~~~~VgvLaT~~T~~---s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 114 EDGVKKAGLLGTKGTMK---DGVYEREMKKHGIEIV 146 (229)
T ss_pred HcCCCEEEEEecHHHHH---hHHHHHHHHHCCCEEE
Confidence 55667777775443211 1335666666665543
No 335
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=77.69 E-value=11 Score=41.92 Aligned_cols=88 Identities=10% Similarity=0.069 Sum_probs=63.1
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.+|.+++.+++....+-.+..+.+.+.+++.|+++..-..+.++ .+.++....++.+++.++|+||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 45577788888999999887554443446888999999999876543345444 4567888888888889999999765
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -+.++++.
T Consensus 96 GGS~iD~aK~ia 107 (382)
T PRK10624 96 GGSPQDTCKAIG 107 (382)
T ss_pred ChHHHHHHHHHH
Confidence 54 45555443
No 336
>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=77.41 E-value=11 Score=41.68 Aligned_cols=90 Identities=8% Similarity=-0.036 Sum_probs=64.6
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.++++.++.+++.+++....+.....+.+.+.+++.|+++..-..+.++ .+.+++...+...++.++|.||-.+
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 89 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPN--PTEAAVEAGLAAYRAGGCDGVIAFG 89 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778888989999887544443346788999999988876543345544 5577888889999989999999765
Q ss_pred Ch--hhHHHHHHHH
Q 002364 232 SP--SLGFQVFSVA 243 (930)
Q Consensus 232 ~~--~~~~~~~~~a 243 (930)
.+ -+++.++...
T Consensus 90 GGSviD~aK~ia~~ 103 (370)
T cd08192 90 GGSALDLAKAVALM 103 (370)
T ss_pred CchHHHHHHHHHHH
Confidence 44 4566655443
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=76.68 E-value=76 Score=30.74 Aligned_cols=70 Identities=14% Similarity=0.147 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .++++... ++..++...|.+|++|+++..- ......+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 80 (197)
T cd08452 13 EFLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLHP---PIQHTALH-IETVQSSPCVLALPK 80 (197)
T ss_pred hHHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEeeC---CCCCCCee-EEEeeeccEEEEEeC
Confidence 345678888888775 35566554 5678899999999999988522 22222333 356677777777776
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 54
No 338
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=76.64 E-value=12 Score=41.58 Aligned_cols=88 Identities=9% Similarity=0.017 Sum_probs=63.9
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.++++.++.+++.+++.......+..+.+.+.+++.|+++..-..+.++ .+.+++...++.+++.++|.||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEAD--PPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888889999887554334446788999999998876543344444 56788989999999999999998765
Q ss_pred h--hhHHHHHHH
Q 002364 233 P--SLGFQVFSV 242 (930)
Q Consensus 233 ~--~~~~~~~~~ 242 (930)
+ -+++.++..
T Consensus 93 Gs~iD~aK~ia~ 104 (376)
T cd08193 93 GSSMDVAKLVAV 104 (376)
T ss_pred chHHHHHHHHHH
Confidence 5 455555544
No 339
>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=76.47 E-value=13 Score=41.22 Aligned_cols=90 Identities=11% Similarity=0.047 Sum_probs=64.9
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.++-+++.+++....+.....+.+.+.+++.|+.+..-..+.++ .+.+++...++.+++.++|+||-.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778888888999887554444446788999999999876544455555 5577888989999999999999765
Q ss_pred Ch--hhHHHHHHHH
Q 002364 232 SP--SLGFQVFSVA 243 (930)
Q Consensus 232 ~~--~~~~~~~~~a 243 (930)
.+ -+++.++...
T Consensus 92 GGS~~D~aK~ia~~ 105 (374)
T cd08189 92 GGSVIDCAKAIAAR 105 (374)
T ss_pred CccHHHHHHHHHHH
Confidence 44 4566655443
No 340
>PLN02245 ATP phosphoribosyl transferase
Probab=75.93 E-value=26 Score=38.41 Aligned_cols=106 Identities=9% Similarity=0.010 Sum_probs=59.9
Q ss_pred CCCCChHHhhh-------CCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHH
Q 002364 680 SPINGIESLRK-------SDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL 752 (930)
Q Consensus 680 ~~i~s~~dL~~-------~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~ 752 (930)
..+++++||.. ..++|+..-......||. +.++...+++.....-|.. -.- |-.|++++-.....-
T Consensus 177 ~~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~-~~Gv~~v~Iv~l~GAvE~A--P~l----GlADaIvDIVsTGtT 249 (403)
T PLN02245 177 ENINSLKELAQMPQWTEERPLRVVTGFTYLGPKFMK-DNGFKHVTFSTADGALEAA--PAM----GIADAILDLVSSGTT 249 (403)
T ss_pred cccCCHHHhcccccccccCceEEEeCCHHHHHHHHH-HcCCCeEEEEECcCceecc--ccc----CchhhhcchhccHHH
Confidence 35788888872 115677777777888884 4565444566555444432 222 566677665444333
Q ss_pred HHhcCccEEEeC-ccccccceeeeeCCCCc-----chHHHHHHHHhhh
Q 002364 753 FLSSQCSFRIVG-QEFTKSGWGFAFPRDSP-----LAVDLSSAILELA 794 (930)
Q Consensus 753 ~~~~~~~l~~~~-~~~~~~~~~~~~~k~sp-----l~~~i~~~i~~l~ 794 (930)
+.. .+|.+++ +.+....-.+...|++. -++.++..+.++.
T Consensus 250 Lra--NgLk~i~~~~Il~S~A~LIan~~sl~~~~~~~~~i~~ll~rl~ 295 (403)
T PLN02245 250 LRE--NNLKEIEGGVVLESQAVLVASRRALLERKGALEVVHEILERLE 295 (403)
T ss_pred HHH--CCCEEccCceEEEEEEEEEEecchhhcchhHHHHHHHHHHHHH
Confidence 322 3678885 45555555666666643 2235555555553
No 341
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=75.89 E-value=1.1e+02 Score=32.28 Aligned_cols=86 Identities=14% Similarity=0.108 Sum_probs=54.6
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
.+.++||+... + ...+-.+++..+.++.+ .+++.... .+-++++.+|.+|++|+++..
T Consensus 96 ~~~l~I~~~~~--~------------~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~ 153 (294)
T PRK09986 96 AGRIEIGIVGT--A------------LWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWR 153 (294)
T ss_pred cceEEEEEehH--H------------hHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 35699988741 1 12344667788877765 24455543 346788999999999998742
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.. .......+.+ .|+....+++++++..
T Consensus 154 ~~-~~~~~~~l~~-~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 154 MA-DLEPNPGFTS-RRLHESAFAVAVPEEH 181 (294)
T ss_pred CC-ccCCCCCeEE-EEeecccEEEEEcCCC
Confidence 11 0112233433 6777788888887765
No 342
>PRK10537 voltage-gated potassium channel; Provisional
Probab=75.88 E-value=7.2 Score=43.29 Aligned_cols=56 Identities=20% Similarity=0.271 Sum_probs=43.4
Q ss_pred CccccchhhhHHHHHHhhhcC--cCcccccchhhhHHHHHHHHHhhhhhhhhhhheee
Q 002364 618 PPKRQVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSSYTASLTSIL 673 (930)
Q Consensus 618 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~L 673 (930)
+...++.+++||++.++...| .-.|.+..+|++.+++.++++.+..+..+.++..+
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 345578999999999888665 34788999999999999999877666555555433
No 343
>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=75.67 E-value=15 Score=40.85 Aligned_cols=90 Identities=9% Similarity=0.029 Sum_probs=64.7
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.++.+++.+++....+.....+.+.+.+++.|+++..-..+..+ .+.+++...++.++..++|.||-.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35666778888889999988554433366788999999888876533345444 4578899999999988999999765
Q ss_pred Ch--hhHHHHHHHH
Q 002364 232 SP--SLGFQVFSVA 243 (930)
Q Consensus 232 ~~--~~~~~~~~~a 243 (930)
.+ -+.+.++...
T Consensus 89 GGs~~D~AK~va~~ 102 (370)
T cd08551 89 GGSVLDTAKAIALL 102 (370)
T ss_pred CchHHHHHHHHHHH
Confidence 54 4566555443
No 344
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=75.66 E-value=8.9 Score=39.82 Aligned_cols=78 Identities=14% Similarity=0.175 Sum_probs=59.0
Q ss_pred EEEEE--EcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEE-cChhhHHHHHHHH
Q 002364 167 VSVIF--VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~--~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~-~~~~~~~~~~~~a 243 (930)
|+++. .++.|.......+++++++.|..+... .+.. .+.......++++.+.++|.||+. .++.....+++.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 45555 356688888999999999999988765 2222 335666777888888899999987 4555677899999
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99886
No 345
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=75.40 E-value=4.2 Score=45.31 Aligned_cols=88 Identities=16% Similarity=0.232 Sum_probs=71.8
Q ss_pred hHHHHHHHHHHHHHHHhhhhhcccCCCCCCCccccchhhhHHHHHHhhhc--CcCcccccchhhhHHHHHHHHHhhhhhh
Q 002364 588 LMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFA--HKENTVSTLGRLVLIIWLFVVLIINSSY 665 (930)
Q Consensus 588 ~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~s~s~R~~~~~w~~~~lil~~~Y 665 (930)
..|..-++.+++.++++++.|.-...+-.+....+...++|+...+++.. |...|..+.+|++..++.++++-+.+.=
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 56888888999999999999987554444444567889999999999866 4669999999999999999998888877
Q ss_pred hhhhheeeec
Q 002364 666 TASLTSILTV 675 (930)
Q Consensus 666 ta~L~s~Lt~ 675 (930)
-+-|-|=++.
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 7777776665
No 346
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=75.22 E-value=52 Score=34.59 Aligned_cols=121 Identities=9% Similarity=0.091 Sum_probs=62.4
Q ss_pred CCCCChHHhhhCCCCeEEEeC--chHHH-HHHHhh---------ccc---------cc--cceecCCHHHHHHHHhcCCC
Q 002364 680 SPINGIESLRKSDDPIGYQEG--SFAEY-YLSQEL---------NIS---------KS--RLVALRTPEDYAKALKDGPG 736 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~--s~~~~-~l~~~~---------~~~---------~~--~~~~~~~~~~~~~~l~~~~~ 736 (930)
..|+|++||. .|.+|++..+ ...+. .+.+.- +.. +. ++++. ...+...++.+
T Consensus 120 ~~iksl~DL~-~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve~-~~~q~~~al~d--- 194 (272)
T PRK09861 120 KKIKTVAQIK-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMEL-EGAQLPRVLDD--- 194 (272)
T ss_pred cCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEc-CHHHhHhhccC---
Confidence 6799999996 5788999862 22222 221221 111 01 22222 45567778877
Q ss_pred CCceEEEEecchhHHHHHhcC-ccEEEeCccccccceeeeeCCCCcchHHHHHHHHhhhhccchHHHHHHh
Q 002364 737 KGGVAAVVDERPYVELFLSSQ-CSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKW 806 (930)
Q Consensus 737 ~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~e~G~~~~~~~~w 806 (930)
|.+|+++...++..-.-.+. .+-........++-..++++.+..-.+.+...+..++...+-+.|.++|
T Consensus 195 -g~vD~a~i~~~~~~~ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 195 -PKVDVAIISTTYIQQTGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred -cccCEEEEchhHHHHcCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 78998888776664311111 1111222111112234555555445566666666666656555555554
No 347
>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=75.16 E-value=12 Score=40.13 Aligned_cols=89 Identities=16% Similarity=0.049 Sum_probs=64.7
Q ss_pred EEEEEe---eCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002364 33 NVGALF---TLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (930)
Q Consensus 33 ~IG~i~---~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~ 109 (930)
++|.+. ....+.-.....|+...++.+| |+.++...+..+-.|+.++.+.+..|+++++.+|.. ......
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~-~ag~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFP-VAGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEE-E-CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEE-CCCCCc
Confidence 566666 6665555678899999999999 577888888888889999999999999999998887 334555
Q ss_pred HHHHHhhccCCCc--EEeccc
Q 002364 110 HIVSYVSNELQVP--LLSFGV 128 (930)
Q Consensus 110 ~~v~~~~~~~~iP--~is~~a 128 (930)
..+...+.+.+.. .|....
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d~ 221 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVDS 221 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEES
T ss_pred hHHHHHHHHcCCceEEEEecc
Confidence 6677778888877 776543
No 348
>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=74.83 E-value=14 Score=41.08 Aligned_cols=88 Identities=9% Similarity=0.027 Sum_probs=62.8
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.+|.+++.+++.....-.+..+.+.+.+++.|+++..-..+.++ .+.+++....+.+++.++|.||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778888989999888544333346788999999989876543344444 4577888888888889999999765
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -++++.+.
T Consensus 95 GGSviD~aKaia 106 (379)
T TIGR02638 95 GGSPIDTAKAIG 106 (379)
T ss_pred ChHHHHHHHHHH
Confidence 54 35555443
No 349
>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=74.74 E-value=11 Score=41.75 Aligned_cols=89 Identities=15% Similarity=0.071 Sum_probs=66.9
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.+.++.+| ++.+|+..........+.+.+.|++.|+++..-..+... .+..++...++.+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPN--PTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS---BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCC--CcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 45666777787 999998663333347899999999999988665556655 56889999999999999999998876
Q ss_pred hh--hHHHHHHHHHH
Q 002364 233 PS--LGFQVFSVAKY 245 (930)
Q Consensus 233 ~~--~~~~~~~~a~~ 245 (930)
+. ++++++.....
T Consensus 88 GS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 88 GSVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred CCcCcHHHHHHhhcc
Confidence 63 56666655554
No 350
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=74.68 E-value=83 Score=30.25 Aligned_cols=70 Identities=20% Similarity=0.205 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.+..+ .+++.+.. ++...+...+.+|++|+++... ......+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (198)
T cd08447 13 SFLPRLLAAARAALP-DVDLVLRE-------MVTTDQIEALESGRIDLGLLRP---PFARPGL-ETRPLVREPLVAAVPA 80 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCceEEEecC---CCCCCCe-eEEEeecCceEEEecC
Confidence 456778888888775 24555543 5688999999999999988532 1112222 2356677777777765
Q ss_pred cC
Q 002364 572 RK 573 (930)
Q Consensus 572 ~~ 573 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08447 81 GH 82 (198)
T ss_pred CC
Confidence 43
No 351
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=74.54 E-value=15 Score=40.69 Aligned_cols=87 Identities=10% Similarity=-0.031 Sum_probs=63.4
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.++++.++.+++.+|+....+..+..+.+.+.|++.|+++..-..+.++ .+.+++...+..++..++|.||-.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSE--PTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4556667777889999998555553446788999999999887644445555 55778889999999999999997655
Q ss_pred h--hhHHHHHH
Q 002364 233 P--SLGFQVFS 241 (930)
Q Consensus 233 ~--~~~~~~~~ 241 (930)
+ -++++++.
T Consensus 90 GS~~D~AKaia 100 (375)
T cd08194 90 GSPIDTAKAIA 100 (375)
T ss_pred chHHHHHHHHH
Confidence 4 45555544
No 352
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=73.60 E-value=67 Score=33.73 Aligned_cols=84 Identities=12% Similarity=0.068 Sum_probs=57.2
Q ss_pred CceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 464 g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
++.++||+... ....+-.+++..+.+..+ .+++.+.. +...++++.|.+|++|+++..
T Consensus 88 ~~~l~Ig~~~~--------------~~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~ 145 (275)
T PRK03601 88 HNELSIGASAS--------------LWECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITT 145 (275)
T ss_pred CceEEEeccHH--------------HHHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEc
Confidence 35689888841 123566778888887764 24566554 557889999999999999864
Q ss_pred eeeecCceeeeeecccccccceEEEEeccC
Q 002364 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 544 ~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.... . ..+ ...|+....+++++++..
T Consensus 146 ~~~~--~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 146 EAPK--M-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCCc--c-CCc-cEEEecceeEEEEecCch
Confidence 3222 1 223 345888888999987654
No 353
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=73.05 E-value=13 Score=40.27 Aligned_cols=63 Identities=21% Similarity=0.213 Sum_probs=43.5
Q ss_pred cCCCceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcc-cEEEEecCCCCCCCCHHHHHHHHHcCcccE
Q 002364 461 PNNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAV-PYQFVAFGDGHKNPSYTQLVDSITTGVFDA 539 (930)
Q Consensus 461 ~~~g~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~-~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~ 539 (930)
|.+|++++++.. +|.. .-+.-.+++.+.+.+|+++ ++... +-.-+...|.+|++|+
T Consensus 25 ~~~~~~V~~~~~---~W~~-----------~~~~t~v~~~iLe~~GY~V~e~~~~---------~~~~~~~ala~GdiDv 81 (331)
T PRK11119 25 PGKGITVQPAQS---TIAE-----------ETFQTLLVSRALEKLGYDVNKPKEV---------DYNVFYTSIANGDATF 81 (331)
T ss_pred CCCCeEEEEeec---CccH-----------HHHHHHHHHHHHHHcCCceeeeccc---------CcHHHHHHHHcCCCeE
Confidence 457889999888 4421 1244567888888899775 44432 2367788999999999
Q ss_pred EEeeeee
Q 002364 540 VVGDITI 546 (930)
Q Consensus 540 ~~~~~~~ 546 (930)
.+.....
T Consensus 82 ~~~~W~P 88 (331)
T PRK11119 82 TAVNWFP 88 (331)
T ss_pred ehhhccc
Confidence 8765443
No 354
>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=73.03 E-value=32 Score=33.06 Aligned_cols=66 Identities=9% Similarity=-0.008 Sum_probs=40.2
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-..++..+.++.+ .+++.... + + .+..+.+|++|+++.... .....+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~--~-~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 77 (194)
T cd08432 13 RWLIPRLARFQARHP-DIDLRLST-------S--D-RLVDFAREGIDLAIRYGD---GDWPGL-EAERLMDEELVPVCSP 77 (194)
T ss_pred HHHHHHhHHHHHHCC-CeEEEEEe-------c--C-CccccccccccEEEEecC---CCCCCc-ceEEccCCcEEEecCH
Confidence 344566777777765 35566553 1 1 456789999999885321 112222 2456777888888765
Q ss_pred c
Q 002364 572 R 572 (930)
Q Consensus 572 ~ 572 (930)
.
T Consensus 78 ~ 78 (194)
T cd08432 78 A 78 (194)
T ss_pred H
Confidence 3
No 355
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=72.86 E-value=62 Score=35.34 Aligned_cols=75 Identities=16% Similarity=0.042 Sum_probs=61.8
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 31 ~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
.-+||.+..+..+.-.....|+++.++.+|. ..++...+..+=.|+..+.+.+..|++++|++|.....+....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np------~i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g 234 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNP------DIKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCC------CccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 5678888888766667788999999999995 4677787888888999999999999999999999766655544
Q ss_pred H
Q 002364 111 I 111 (930)
Q Consensus 111 ~ 111 (930)
.
T Consensus 235 v 235 (345)
T COG1744 235 V 235 (345)
T ss_pred H
Confidence 4
No 356
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=72.52 E-value=76 Score=33.01 Aligned_cols=69 Identities=17% Similarity=0.158 Sum_probs=43.9
Q ss_pred HHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCc-ccEEEeeeeeecC---cee--eeeecccccccceEEEE
Q 002364 496 DVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGV-FDAVVGDITIVTN---RTK--IVDFSQPYAASGLVVVV 569 (930)
Q Consensus 496 dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-~D~~~~~~~~t~~---r~~--~vdft~p~~~~~~~~lv 569 (930)
+|...+.+..|-++++.+- .-..+..++.+|. +|+.+..-..... ... .-+...+|....+++++
T Consensus 46 ~i~~~F~~~~~~~V~~~f~---------gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~ 116 (258)
T COG0725 46 EIAKQFEKETGVKVEVEFG---------GSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAV 116 (258)
T ss_pred HHHHHHHHHHCCeEEEEec---------chHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEE
Confidence 6777777777766555553 3567788888875 8876653221111 111 22356788888999999
Q ss_pred eccC
Q 002364 570 PFRK 573 (930)
Q Consensus 570 ~~~~ 573 (930)
|+..
T Consensus 117 ~~~~ 120 (258)
T COG0725 117 PKGS 120 (258)
T ss_pred eCCC
Confidence 8865
No 357
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=72.48 E-value=31 Score=33.13 Aligned_cols=122 Identities=13% Similarity=0.173 Sum_probs=71.3
Q ss_pred HHHHHhc--CcEEEEcCCChh---HHHHHHHhhccCCCcEEecccCCCCCCCCC-CCceEeecCCchHHHHHHHHHHHhc
Q 002364 89 ALRFMET--DIVAIIGPQCST---VAHIVSYVSNELQVPLLSFGVTDPTLSSLQ-YPFFVRTTQSDSYQMTAVAEMVSYY 162 (930)
Q Consensus 89 a~~li~~--~v~aiiGp~~s~---~~~~v~~~~~~~~iP~is~~a~~~~l~~~~-~p~~~r~~p~~~~~~~ai~~~l~~~ 162 (930)
+.+++.+ +++.++|..... ....+.++++..++|+++...+...+.++. .|. ......+..++..-
T Consensus 27 aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~~--------~~~lg~lg~~~~~p 98 (171)
T PRK00945 27 AAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDAK--------YINLHELTNYLKDP 98 (171)
T ss_pred HHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCccCC--------cccHHHHHhhccCc
Confidence 3444544 899999987754 677799999999999997555444555422 122 22345666666655
Q ss_pred CccEE---------EEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCC-----CChhHHHHHHHHHH
Q 002364 163 GWNAV---------SVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESG-----VNTGYVMDLLVKVA 220 (930)
Q Consensus 163 ~w~~v---------~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~-----~~~~~~~~~l~~l~ 220 (930)
+|.-+ .++..+..|....+..++.... --.|+....+.++.+ .+.+++...|+++.
T Consensus 99 ~~e~~~g~~~~DlvlfvG~~~~~~~~~l~~lk~f~~--~~~~~~~~~y~~~a~~s~~~~~~~~~~~~l~~li 168 (171)
T PRK00945 99 NWKGLDGNGNYDLVIFIGVTYYYASQGLSALKHFSP--LKTITIDRYYHPNADMSFPNLSKEEYLEYLDELI 168 (171)
T ss_pred hhhhhcCCCCcCEEEEecCCchhHHHHHHHHhhcCC--ceEEEecCCcCCCCceecCCCCHHHHHHHHHHHH
Confidence 55443 4455666666666665554433 122333344444411 34566777777654
No 358
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=72.27 E-value=4.9 Score=49.93 Aligned_cols=54 Identities=15% Similarity=0.356 Sum_probs=46.9
Q ss_pred cchhhhHHHHHHhhhcC--cCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeec
Q 002364 622 QVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTV 675 (930)
Q Consensus 622 ~~~~~~~~~~~~l~~~~--~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~ 675 (930)
+...++||++.+|...| .-.|.+...|++.++|+++++++.++..+++++++..
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 35568999999998765 3389999999999999999999999999999998754
No 359
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=72.06 E-value=62 Score=32.35 Aligned_cols=86 Identities=16% Similarity=0.162 Sum_probs=55.7
Q ss_pred ChHHHHHHH-HHHHhcCcEEEEcCCChhHHHHHHHhh-ccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHH
Q 002364 81 SGFIGMVEA-LRFMETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM 158 (930)
Q Consensus 81 ~~~~a~~~a-~~li~~~v~aiiGp~~s~~~~~v~~~~-~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~ 158 (930)
++...+..+ ..|-..|+..++=|.. +++.+++-. +..+||+|+ ..++.++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~N--T~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPTN--TMHKVADDIQKAVGIPLLH-------------------------IIDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeCC--cHHHHHHHHHHhcCCCeeh-------------------------HHHHHHHH
Confidence 344444333 3343448888886554 455556654 477999996 35677777
Q ss_pred HHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEE
Q 002364 159 VSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (930)
Q Consensus 159 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (930)
+++.|.++|+++.+...- ...-.++.+.++|++++
T Consensus 112 ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe
Confidence 888899999999765432 12345788888887765
No 360
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=71.60 E-value=49 Score=33.41 Aligned_cols=93 Identities=16% Similarity=0.161 Sum_probs=51.3
Q ss_pred CCCCChHHhhh--------CC--CCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchh
Q 002364 680 SPINGIESLRK--------SD--DPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPY 749 (930)
Q Consensus 680 ~~i~s~~dL~~--------~~--~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~ 749 (930)
..+++++||.. .+ .+|+..-......||. +.+....+++.....-|..-.+ |-.|++++-...
T Consensus 109 ~~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~-~~Gv~~~~Iv~l~GsvElaP~~------GlAD~IvDivsT 181 (228)
T PRK13583 109 IDVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLS-QKGVQDYRIVESLGATEGAPAN------GSAEIIVDITST 181 (228)
T ss_pred cccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHH-HcCCceeEEEECCCceeccccc------Ccchhhhhhhch
Confidence 35677777751 12 4577776677888884 4455423566554444432211 556666665444
Q ss_pred HHHHHhcCccEEEeC-ccccccceeeeeCCCCc
Q 002364 750 VELFLSSQCSFRIVG-QEFTKSGWGFAFPRDSP 781 (930)
Q Consensus 750 ~~~~~~~~~~l~~~~-~~~~~~~~~~~~~k~sp 781 (930)
..-+.. .+|.+++ +.+......+...+.|.
T Consensus 182 G~TLr~--NgL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 182 GETLRA--NHLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred hHHHHH--CCCEEecCceEEEEEEEEEEecccc
Confidence 333222 3678886 35555556666677763
No 361
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=71.51 E-value=48 Score=34.05 Aligned_cols=87 Identities=9% Similarity=0.046 Sum_probs=57.1
Q ss_pred HHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc-ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEE
Q 002364 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (930)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 228 (930)
+....+.+.....+ .+|+++..+..- ++.+.+.+++. |+.|+.... .- .+.++....+++|.++++|+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~v----~~~a~~~l~~~y~l~i~g~~~--Gy--f~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPEV----LAQTEAKLRTQWNVNIVGSQD--GY--FTPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHHH----HHHHHHHHHHHhCCEEEEEeC--CC--CCHHHHHHHHHHHHhcCCCEEE
Confidence 45666666666666 788888755543 44444444332 666664332 11 2245667789999999999999
Q ss_pred EEcChhhHHHHHHHHHH
Q 002364 229 LHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 229 l~~~~~~~~~~~~~a~~ 245 (930)
+.+..+....++...++
T Consensus 163 VglG~PkQE~~~~~~~~ 179 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRL 179 (243)
T ss_pred EECCCcHHHHHHHHHHH
Confidence 99888777777766554
No 362
>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=71.25 E-value=55 Score=31.81 Aligned_cols=87 Identities=9% Similarity=-0.031 Sum_probs=58.7
Q ss_pred hHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceE
Q 002364 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (930)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 226 (930)
.+.+..+.+.....+ .+++++..... .++.+.+.+++. |++|+.. ... .+..+-...+++|.++++|+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~---~g~--f~~~~~~~i~~~I~~s~~di 103 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGA---FGP--LEPEERKAALAKIARSGAGI 103 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEE---CCC--CChHHHHHHHHHHHHcCCCE
Confidence 455666666666666 58888875544 445555555554 6777764 222 23455677899999999999
Q ss_pred EEEEcChhhHHHHHHHHHH
Q 002364 227 IVLHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 227 iil~~~~~~~~~~~~~a~~ 245 (930)
+++.+..+....++.+.+.
T Consensus 104 l~VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 104 VFVGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEEEcCCcHhHHHHHHhHH
Confidence 9999888777777766543
No 363
>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=70.73 E-value=38 Score=32.26 Aligned_cols=123 Identities=12% Similarity=0.202 Sum_probs=68.9
Q ss_pred HHHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCc
Q 002364 89 ALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW 164 (930)
Q Consensus 89 a~~li~~--~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w 164 (930)
+.+++.+ +++.++|.... .....+..+++..++|+++.......+.++. +. ..| .....+..++..-+|
T Consensus 20 aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kg---v~-~~~---~~lg~~g~~~~~p~~ 92 (162)
T TIGR00315 20 VAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAG---IE-SEE---MNLHEITQFLADPSW 92 (162)
T ss_pred HHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCC---ee-cCC---CCHHHHHHhccCchh
Confidence 3444444 89999998775 7788899999999999997443333343322 11 112 223466666666555
Q ss_pred cEE---------EEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCC-----CChhHHHHHHHHHH
Q 002364 165 NAV---------SVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESG-----VNTGYVMDLLVKVA 220 (930)
Q Consensus 165 ~~v---------~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~-----~~~~~~~~~l~~l~ 220 (930)
.-+ .++..+..++..++..++... .=-.|+....+.|+.+ .+.+++...|+++.
T Consensus 93 e~~~g~g~~DlvlfvG~~~y~~~~~ls~lk~f~--~~~~i~l~~~y~pnA~~Sf~n~~~~~~~~~l~~~~ 160 (162)
T TIGR00315 93 EGFDGEGNYDLVLFLGIIYYYLSQMLSSLKHFS--HIVTIAIDKYYQPNADYSFPNLSKDEYLDYLRKLL 160 (162)
T ss_pred hhccCCCCcCEEEEeCCcchHHHHHHHHHHhhc--CcEEEEecCCCCCCCceeccccCHHHHHHHHHHHh
Confidence 544 344455555555555555433 1123333344444411 23556666676653
No 364
>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=70.40 E-value=23 Score=39.30 Aligned_cols=88 Identities=13% Similarity=-0.030 Sum_probs=61.8
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.++++.++.+++.+|+.....-....+.+.+.+++.|+.+..-..+.++ .+..+....+..+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 45566778888889999887544333345788999999888876543334444 4567788888888889999999875
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -++++.+.
T Consensus 94 GGsviD~AK~ia 105 (377)
T cd08188 94 GGSPIDCAKGIG 105 (377)
T ss_pred CchHHHHHHHHH
Confidence 54 45554443
No 365
>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=69.75 E-value=24 Score=39.24 Aligned_cols=87 Identities=9% Similarity=-0.005 Sum_probs=62.2
Q ss_pred HHHHHHHHhcCccEEEEEEEcCcc-ccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEY-GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
..+.++++.++ +++.+|+....+ .....+.+.+.+++.|+++..-..+.++ .+.+++...+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPN--PTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 44566777777 899888854432 4566788999999999877543345555 5578888888889999999999765
Q ss_pred Ch--hhHHHHHHH
Q 002364 232 SP--SLGFQVFSV 242 (930)
Q Consensus 232 ~~--~~~~~~~~~ 242 (930)
.+ -+++.++..
T Consensus 92 GGS~iD~aK~ia~ 104 (380)
T cd08185 92 GGSSMDTAKAIAF 104 (380)
T ss_pred CccHHHHHHHHHH
Confidence 44 456655544
No 366
>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=68.50 E-value=23 Score=39.41 Aligned_cols=88 Identities=13% Similarity=0.085 Sum_probs=62.1
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.++-+++.+++....+-....+.+.+.+++.|+++..-..+.++ .+.+.+...++.+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778888888888887443333356788999999888876543344444 4577888888889889999999766
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -++++++.
T Consensus 94 GGS~iD~aK~ia 105 (377)
T cd08176 94 GGSPHDCAKAIG 105 (377)
T ss_pred CcHHHHHHHHHH
Confidence 54 35555543
No 367
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=67.71 E-value=1.7e+02 Score=30.92 Aligned_cols=65 Identities=8% Similarity=0.013 Sum_probs=41.6
Q ss_pred HHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEeccC
Q 002364 496 DVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 496 dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
+.+..+.++-+ +.++... ++.++++.+|.+|++|+++..... ....+. +.|+....+++++++..
T Consensus 107 ~~l~~~~~~~~--i~i~~~~-------~~~~~~~~~L~~~~~d~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~ 171 (294)
T PRK13348 107 PALAAVLAGER--ILLELIV-------DDQDHTFALLERGEVVGCVSTQPK---PMRGCL-AEPLGTMRYRCVASPAF 171 (294)
T ss_pred HHHHHHHhCCC--eEEEEEE-------cchHHHHHHHhcCCeEEEEecCCc---ccCCcc-cccccccceEEEEccch
Confidence 34555544433 5555544 457889999999999988753221 223444 57788888888887553
No 368
>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=67.53 E-value=30 Score=38.15 Aligned_cols=86 Identities=6% Similarity=0.032 Sum_probs=61.0
Q ss_pred HHHHHHHHhcCccEEEEEEEcCcccc-chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGR-NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~-~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
..+.++++.+| +++.+|+....+-. +..+.+.+.+++.|+++..-..+.++ .+.+++...++.+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEEN--PSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34556777788 88888875544333 35688999999999876543345545 5578888999999999999999876
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -+++.++.
T Consensus 92 GGSviD~aK~ia 103 (357)
T cd08181 92 GGSPLDAAKAIA 103 (357)
T ss_pred CchHHHHHHHHH
Confidence 65 34555443
No 369
>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=67.18 E-value=30 Score=33.32 Aligned_cols=66 Identities=14% Similarity=0.085 Sum_probs=39.1
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
++-.+++..+.++.+ .+++.+.. .+.+. .+.+|++|+++... +.....+. +.++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~---------~~~~~-~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 78 (197)
T cd08422 14 LHLAPLLAEFLARYP-DVRLELVL---------SDRLV-DLVEEGFDLAIRIG---ELPDSSLV-ARRLGPVRRVLVASP 78 (197)
T ss_pred HHHHHHHHHHHHhCC-ceEEEEec---------Ccccc-chhhcCccEEEEeC---CCCCcchh-hhhhhccCcEEEECH
Confidence 556678888888875 34455543 12333 45678899998532 11222232 356777778877765
Q ss_pred c
Q 002364 572 R 572 (930)
Q Consensus 572 ~ 572 (930)
.
T Consensus 79 ~ 79 (197)
T cd08422 79 A 79 (197)
T ss_pred H
Confidence 3
No 370
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=67.03 E-value=1.6e+02 Score=33.79 Aligned_cols=141 Identities=12% Similarity=0.116 Sum_probs=78.7
Q ss_pred EEcCCChhHHHHHHHhhc-cCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc-Cccc
Q 002364 100 IIGPQCSTVAHIVSYVSN-ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-NEYG 177 (930)
Q Consensus 100 iiGp~~s~~~~~v~~~~~-~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d-~~~g 177 (930)
|++|.+.....++..+.+ ...+=+|.++. .-++|- +.....+...+......-+++.|+|.. ....
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnT 265 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 778887776666666654 33455565433 123552 222333333444444345789999943 3344
Q ss_pred cchHHHHHHHHhhc--ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh------hhHHHHHHHHHHcCcc
Q 002364 178 RNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMM 249 (930)
Q Consensus 178 ~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~~~~~a~~~g~~ 249 (930)
+...+.+.+.+++. |+++... .+. ..+...++..+. +++.|++.+.. +....++.......+.
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~-~v~------~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~ 336 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIF-NVA------RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFR 336 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEE-ECC------CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcC
Confidence 56788999999876 4554432 222 334445555553 56788887643 2455566666666554
Q ss_pred cCCeEEEEeCcc
Q 002364 250 GNGYVWIATDWL 261 (930)
Q Consensus 250 ~~~~~~i~~~~~ 261 (930)
+.....+++.+|
T Consensus 337 gK~~~vFGSygw 348 (479)
T PRK05452 337 NKRASAFGSHGW 348 (479)
T ss_pred CCEEEEEECCCc
Confidence 444444555444
No 371
>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=66.71 E-value=23 Score=38.87 Aligned_cols=85 Identities=9% Similarity=-0.015 Sum_probs=60.5
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.+.++.++ +++.+|+....+. ...+.+.+.+++.|+.+.+. .+.++ .+.+++...++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGE--CTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCc--CCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 44566677776 8988888444443 67888999999999887644 34444 45778888888888899999998765
Q ss_pred h--hhHHHHHHH
Q 002364 233 P--SLGFQVFSV 242 (930)
Q Consensus 233 ~--~~~~~~~~~ 242 (930)
+ -+++.++..
T Consensus 87 GS~iD~aK~ia~ 98 (351)
T cd08170 87 GKTLDTAKAVAD 98 (351)
T ss_pred chhhHHHHHHHH
Confidence 5 345555443
No 372
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=65.97 E-value=99 Score=28.85 Aligned_cols=123 Identities=12% Similarity=0.165 Sum_probs=76.7
Q ss_pred HHHHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcC
Q 002364 88 EALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG 163 (930)
Q Consensus 88 ~a~~li~~--~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~ 163 (930)
.+..++.+ +...|+||... +.-+-+..+.+++++|++..+++...+.+..- -+......++..+++.-+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~i-------~~~~~~lh~it~~l~Dp~ 99 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRGI-------GSEYINLHAITQYLTDPN 99 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhccc-------ccchhHHHHHHHHhcCCC
Confidence 34445554 89999999877 45556788999999999976555555555331 144556788889998866
Q ss_pred cc---------EEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCC-----CCChhHHHHHHHHH
Q 002364 164 WN---------AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKV 219 (930)
Q Consensus 164 w~---------~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~~~~~~l~~l 219 (930)
|. -|.++..-..|....+..++.... =..|+....+.++. ..+.+++-+.|+++
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs~--i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~el 167 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFSN--IKTIAIDRYYQPNADYSFPNLSKDEYLAYLDEL 167 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhhc--ceEEEeccccCcCccccCCCcCHHHHHHHHHHH
Confidence 64 455565556666666666655442 12344444554442 13345566666655
No 373
>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=65.23 E-value=36 Score=37.96 Aligned_cols=87 Identities=13% Similarity=0.109 Sum_probs=59.1
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.++++.+| +++.+|+....+.....+.+.+.+++.|+++..-..+.++ .+..+....+...++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPD--LPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44666788888 8888888444333467788999999998876533333322 24566777777788889999998765
Q ss_pred h--hhHHHHHHH
Q 002364 233 P--SLGFQVFSV 242 (930)
Q Consensus 233 ~--~~~~~~~~~ 242 (930)
+ -+++.++..
T Consensus 89 GS~iD~aK~ia~ 100 (386)
T cd08191 89 GSCIDLAKIAGL 100 (386)
T ss_pred chHHHHHHHHHH
Confidence 4 455655544
No 374
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=64.35 E-value=1.1e+02 Score=32.41 Aligned_cols=103 Identities=6% Similarity=-0.051 Sum_probs=50.1
Q ss_pred CCChHHhhhCCCCeEE-EeCchHHHHHHHhhccc---cccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC
Q 002364 682 INGIESLRKSDDPIGY-QEGSFAEYYLSQELNIS---KSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ 757 (930)
Q Consensus 682 i~s~~dL~~~~~~v~~-~~~s~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~ 757 (930)
.-+++||. +.++.. ..+.....++. ..+.. ......+++.+...+.+.. |...+++.+.. ........
T Consensus 180 ~i~~~dL~--~~p~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~lp~~~-~~~~~~~~ 251 (297)
T PRK11139 180 LKTPEDLA--RHTLLHDDSREDWRAWFR-AAGLDDLNVQQGPIFSHSSMALQAAIH----GQGVALGNRVL-AQPEIEAG 251 (297)
T ss_pred CCCHHHhh--cCceEeecCcccHHHHHH-HhCCCCcCcccceeeCCHHHHHHHHHh----CCCeEecchhh-hHHHHHCC
Confidence 34778887 455433 22233444553 23331 1112346777777788887 55445554433 33222222
Q ss_pred ccEEEeCccc-cccceeeeeCCCCcchHHHHHHHHh
Q 002364 758 CSFRIVGQEF-TKSGWGFAFPRDSPLAVDLSSAILE 792 (930)
Q Consensus 758 ~~l~~~~~~~-~~~~~~~~~~k~spl~~~i~~~i~~ 792 (930)
.-...+.+.. ....+.++.+|+.+....+...+..
T Consensus 252 ~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~ 287 (297)
T PRK11139 252 RLVCPFDTVLPSPNAFYLVCPDSQAELPKVAAFRQW 287 (297)
T ss_pred ceecccccCcCCCccEEEEeccccccChhHHHHHHH
Confidence 1111222222 2346778888876655555444443
No 375
>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=63.72 E-value=33 Score=35.80 Aligned_cols=77 Identities=6% Similarity=0.048 Sum_probs=54.1
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC-hhhHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~~~~a 243 (930)
++++.. ++.|.......+.+++++.|+++.... . . .+.......++.+...+.|.||+... .......++.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~-~--~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~ 76 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYD--A-G--GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRA 76 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEEC--C-C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHH
Confidence 566654 577888889999999999999877532 1 1 22444556777777778999999753 33445677888
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
++.|+
T Consensus 77 ~~~~i 81 (273)
T cd06305 77 LDAGI 81 (273)
T ss_pred HHcCC
Confidence 88775
No 376
>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=63.06 E-value=1.4e+02 Score=29.93 Aligned_cols=123 Identities=11% Similarity=0.116 Sum_probs=71.6
Q ss_pred HHhcCcEEEEcCCChhHHHHHHHhh-ccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEE
Q 002364 92 FMETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVI 170 (930)
Q Consensus 92 li~~~v~aiiGp~~s~~~~~v~~~~-~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii 170 (930)
+...++.+|+-+-++. ...+..+- ...++|+++. .++.++-+.. +-++|+++
T Consensus 61 l~~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~vl 113 (216)
T PF01177_consen 61 LEKAGVDAIVIACNSA-HPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGVL 113 (216)
T ss_dssp HHHTTESEEEESSHHH-HHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEEE
T ss_pred HHhCCCCEEEEcCCch-hhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEEE
Confidence 3344888888644333 23334444 5669998863 1223444555 88999999
Q ss_pred EEcCccccchHHHHHHHHhhc-ce--EEEEEE--ecC----CCCCCChh---HHHHHHHHH-HhCCceEEEEEcChhhHH
Q 002364 171 FVDNEYGRNGVSALNDKLAER-RC--RISYKS--GIP----PESGVNTG---YVMDLLVKV-ALMESRVIVLHVSPSLGF 237 (930)
Q Consensus 171 ~~d~~~g~~~~~~l~~~l~~~-g~--~v~~~~--~~~----~~~~~~~~---~~~~~l~~l-~~~~~~viil~~~~~~~~ 237 (930)
.+ ++......+.+.+++. |+ ++.... .+. .+ ..+.. .+...++++ +..++|+|++.|..-...
T Consensus 114 ~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~-~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~ 189 (216)
T PF01177_consen 114 TT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELG-DIPPEQIEILAEAARELIKEDGADAIILGCTHLPLL 189 (216)
T ss_dssp ES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTT-CTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGG
T ss_pred ec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhh-cCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHH
Confidence 85 3444566777777887 76 444321 111 12 01222 344444444 378999999998876544
Q ss_pred -HHHHHHHH
Q 002364 238 -QVFSVAKY 245 (930)
Q Consensus 238 -~~~~~a~~ 245 (930)
...+.+.+
T Consensus 190 ~~~~~~l~~ 198 (216)
T PF01177_consen 190 LGAIEALEE 198 (216)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHhhcc
Confidence 56666554
No 377
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=63.03 E-value=50 Score=34.12 Aligned_cols=99 Identities=15% Similarity=0.216 Sum_probs=56.5
Q ss_pred HHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh
Q 002364 154 AVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (930)
Q Consensus 154 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 233 (930)
.+.+++++++.+++.+|...+.| ...-+.+.+.++..|+++......... .+..+......+++..+.|+||-.+.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 35667888888999999866654 334577888999999888743322222 235566666667766788888877775
Q ss_pred hhHHHHHH-HHHHcCcccCCeEEEEeC
Q 002364 234 SLGFQVFS-VAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 234 ~~~~~~~~-~a~~~g~~~~~~~~i~~~ 259 (930)
.. ..+.+ .|.++| ..|+-+-|.
T Consensus 86 ~i-~D~~K~~A~~~~---~p~isVPTa 108 (250)
T PF13685_consen 86 TI-IDIAKYAAFELG---IPFISVPTA 108 (250)
T ss_dssp HH-HHHHHHHHHHHT-----EEEEES-
T ss_pred HH-HHHHHHHHHhcC---CCEEEeccc
Confidence 43 33333 455555 356666654
No 378
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=62.89 E-value=37 Score=37.57 Aligned_cols=86 Identities=8% Similarity=-0.006 Sum_probs=60.2
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.+.++.++.+++.+|+....+ ..+.+.+.+++.|+.+..-..+.++ .+.+.....++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPN--PDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 456677888888999999755444 4566778888888766543345444 45677888888888889999997655
Q ss_pred h--hhHHHHHHHH
Q 002364 233 P--SLGFQVFSVA 243 (930)
Q Consensus 233 ~--~~~~~~~~~a 243 (930)
+ -+++.++...
T Consensus 87 Gs~~D~aK~ia~~ 99 (367)
T cd08182 87 GSVLDTAKALAAL 99 (367)
T ss_pred cHHHHHHHHHHHH
Confidence 4 4566655443
No 379
>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=62.21 E-value=1.6e+02 Score=28.59 Aligned_cols=128 Identities=19% Similarity=0.173 Sum_probs=75.4
Q ss_pred CChHHHHHHHHHH-HhcCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHH
Q 002364 80 CSGFIGMVEALRF-METDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM 158 (930)
Q Consensus 80 ~~~~~a~~~a~~l-i~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~ 158 (930)
++-..++..+.++ +.+++.+||.-. .++.. +-+..++|+|... ++..+..+++.+.
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG--~ta~~---lr~~~~iPVV~I~------------------~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRG--GTAEL---LRKHVSIPVVEIP------------------ISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEH--HHHHH---HHCC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECC--HHHHH---HHHhCCCCEEEEC------------------CCHhHHHHHHHHH
Confidence 3456788889999 677999999632 22222 2334489998631 3334445555553
Q ss_pred HHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHH
Q 002364 159 VSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQ 238 (930)
Q Consensus 159 l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~ 238 (930)
. .++ ++++++...+.. .....+.+.+ |.++.... + .+..++...+.+++..+.++||-.. .
T Consensus 74 ~-~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~-----~~~~e~~~~i~~~~~~G~~viVGg~------~ 134 (176)
T PF06506_consen 74 K-KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y-----DSEEEIEAAIKQAKAEGVDVIVGGG------V 134 (176)
T ss_dssp C-CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E-----SSHHHHHHHHHHHHHTT--EEEESH------H
T ss_pred H-hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E-----CCHHHHHHHHHHHHHcCCcEEECCH------H
Confidence 3 344 899998765543 2356666666 45554332 2 2378999999999999999888643 2
Q ss_pred HHHHHHHcCcc
Q 002364 239 VFSVAKYLGMM 249 (930)
Q Consensus 239 ~~~~a~~~g~~ 249 (930)
..+.|++.|+.
T Consensus 135 ~~~~A~~~gl~ 145 (176)
T PF06506_consen 135 VCRLARKLGLP 145 (176)
T ss_dssp HHHHHHHTTSE
T ss_pred HHHHHHHcCCc
Confidence 35677888873
No 380
>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=61.80 E-value=40 Score=37.57 Aligned_cols=88 Identities=9% Similarity=0.078 Sum_probs=60.9
Q ss_pred HHHHHHHHhc---CccEEEEEEEcCccc-cchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEE
Q 002364 153 TAVAEMVSYY---GWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (930)
Q Consensus 153 ~ai~~~l~~~---~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 228 (930)
..+.++++.+ |.+++.+|+....+. .+..+.+.+.+++.|+++..-..+.++ .+.+++...++.+++.++|+||
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPN--PTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCEEE
Confidence 4455667666 778999887544333 234688999999998876543345544 5578888999999999999999
Q ss_pred EEcCh--hhHHHHHHH
Q 002364 229 LHVSP--SLGFQVFSV 242 (930)
Q Consensus 229 l~~~~--~~~~~~~~~ 242 (930)
-.+.+ -+.+.++..
T Consensus 90 aiGGGS~iD~aK~ia~ 105 (383)
T cd08186 90 AIGGGSPIDSAKSAAI 105 (383)
T ss_pred EeCCccHHHHHHHHHH
Confidence 76544 455555543
No 381
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=61.24 E-value=39 Score=37.04 Aligned_cols=87 Identities=17% Similarity=0.082 Sum_probs=59.5
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
.-+.+.++.++ +++.+|+....+ ....+.+.+.+++.|+.+..-..+.++ .+.++.....+..++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGE--STYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCC--CCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 44566677777 888888754444 345778888998888876543445444 45777888888888889999997765
Q ss_pred h--hhHHHHHHHH
Q 002364 233 P--SLGFQVFSVA 243 (930)
Q Consensus 233 ~--~~~~~~~~~a 243 (930)
+ -++..++...
T Consensus 88 Gs~~D~aK~ia~~ 100 (345)
T cd08171 88 GKAIDTVKVLADK 100 (345)
T ss_pred cHHHHHHHHHHHH
Confidence 4 4555555443
No 382
>PRK07475 hypothetical protein; Provisional
Probab=60.81 E-value=29 Score=35.80 Aligned_cols=122 Identities=15% Similarity=0.093 Sum_probs=65.2
Q ss_pred ChHHHHHHH-HHHHhcCcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH
Q 002364 81 SGFIGMVEA-LRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (930)
Q Consensus 81 ~~~~a~~~a-~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l 159 (930)
++......+ .+|...++.+|+.+- .........+.+..++|+++. +.+....+
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~l 115 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVATS-------------------------SLLQVPLI 115 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHHH
Confidence 454444444 444455899999854 334445555667789999851 12222233
Q ss_pred Hhc--CccEEEEEEEcCccccchHHHHHHHHhhcceEE-E---EEEecCC----------CCCC-C----hhHHHHHHHH
Q 002364 160 SYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRI-S---YKSGIPP----------ESGV-N----TGYVMDLLVK 218 (930)
Q Consensus 160 ~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v-~---~~~~~~~----------~~~~-~----~~~~~~~l~~ 218 (930)
+.. +-++|+++..+... -..+.+++.|++. . ....... +... + ..++...+++
T Consensus 116 ~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~~~~~~~~~~g~e~~~~~~~~I~~~~~~~d~~~~~~~l~~~~~~ 189 (245)
T PRK07475 116 QALLPAGQKVGILTADASS------LTPAHLLAVGVPPDTSSLPIAGLEEGGEFRRNILENRGELDNEAAEQEVVAAARA 189 (245)
T ss_pred HHhccCCCeEEEEeCCchh------hhHHHHHhCCCCCCCccccccCcccchHHHHHHhcccccccHHHHHHHHHHHHHH
Confidence 332 35889998865542 2246677777641 1 0000000 0000 1 2355556666
Q ss_pred HHh--CCceEEEEEcChh
Q 002364 219 VAL--MESRVIVLHVSPS 234 (930)
Q Consensus 219 l~~--~~~~viil~~~~~ 234 (930)
+.+ .++++||+.|..-
T Consensus 190 l~~~~~~~daIvL~CTeL 207 (245)
T PRK07475 190 LLERHPDIGAIVLECTNM 207 (245)
T ss_pred HHhhCCCCCEEEEcCcCh
Confidence 653 3788888877754
No 383
>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=60.68 E-value=41 Score=37.48 Aligned_cols=86 Identities=10% Similarity=0.083 Sum_probs=59.5
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccc-cchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
..+.+.++.++ +++.+|.....+- .+..+.+.+.+++.|+++..-..+.++ .+.++....+..+++.++|+||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPN--PRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 44566677775 8888887543332 345788999999989876544444444 4577888888999999999999765
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -++++++.
T Consensus 95 GGS~iD~aK~ia 106 (382)
T cd08187 95 GGSVIDSAKAIA 106 (382)
T ss_pred ChHHHHHHHHHH
Confidence 54 35555443
No 384
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=59.98 E-value=44 Score=36.45 Aligned_cols=82 Identities=12% Similarity=0.101 Sum_probs=58.2
Q ss_pred CccEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh-hhHHHH
Q 002364 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQV 239 (930)
Q Consensus 163 ~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~ 239 (930)
.-.+++++.. +++|.....+.+.+++++.|+++.... +.. .+...-...++.+.+.++|.|++.... ......
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 4468888874 567888888999999999998887532 222 123333466777778899999997543 334668
Q ss_pred HHHHHHcCc
Q 002364 240 FSVAKYLGM 248 (930)
Q Consensus 240 ~~~a~~~g~ 248 (930)
+++|.+.|.
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 899998875
No 385
>cd08471 PBP2_CrgA_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 2. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene a
Probab=59.93 E-value=75 Score=30.70 Aligned_cols=65 Identities=12% Similarity=0.101 Sum_probs=36.7
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
++-..++..+.++.+ .+++.+.. . +.+. .+.+|++|+++..... . ...+. +.++....++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~--~~~~-~~~~~~~Dl~i~~~~~--~-~~~~~-~~~l~~~~~~~v~~~ 78 (201)
T cd08471 14 LHVLPIITDFLDAYP-EVSVRLLL-------L--DRVV-NLLEEGVDVAVRIGHL--P-DSSLV-ATRVGSVRRVVCASP 78 (201)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEE-------c--Cccc-hhhcccccEEEEecCC--C-CCCeE-EEEccccceEEEECH
Confidence 455678888888875 34555543 1 1222 3557899998742211 1 12232 346666777777654
No 386
>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=59.58 E-value=44 Score=36.37 Aligned_cols=100 Identities=11% Similarity=0.073 Sum_probs=64.7
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.+.++.++.+++.+|+....+- ...+.+.+.+++. +++.......++ .+.+++...+..+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPN--PTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 3456677788889999998544333 6678888888876 554433333333 45778888888998889999997655
Q ss_pred h--hhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 233 P--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 233 ~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+ -+.+.++......| ..++-|-|.
T Consensus 88 Gs~~D~aK~ia~~~~~~---~p~i~iPTt 113 (332)
T cd07766 88 GSTLDTAKAVAALLNRG---LPIIIVPTT 113 (332)
T ss_pred chHHHHHHHHHHHhcCC---CCEEEEeCC
Confidence 4 45565555443323 234444443
No 387
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=59.22 E-value=91 Score=32.46 Aligned_cols=71 Identities=18% Similarity=0.149 Sum_probs=41.0
Q ss_pred eHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCc-ccEEEeeeeeecCce---eee-eec-ccccccceEE
Q 002364 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGV-FDAVVGDITIVTNRT---KIV-DFS-QPYAASGLVV 567 (930)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-~D~~~~~~~~t~~r~---~~v-dft-~p~~~~~~~~ 567 (930)
.-+|.+.+.++.|.++++.+- + -..+..++.+|. +|+.+.+-....++. ..+ ..+ .+|....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~~--------~-Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSFA--------S-SSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEec--------c-cHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 345666666766755444432 2 236777888877 999876532211111 122 121 3577788888
Q ss_pred EEeccC
Q 002364 568 VVPFRK 573 (930)
Q Consensus 568 lv~~~~ 573 (930)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888764
No 388
>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=58.45 E-value=42 Score=32.47 Aligned_cols=69 Identities=14% Similarity=0.021 Sum_probs=37.9
Q ss_pred eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeC--ccccccceeeeeCCCCcchHHHHHHHHhh
Q 002364 719 VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSAILEL 793 (930)
Q Consensus 719 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~i~~l 793 (930)
...++.....+.+.. |...+++-+.. ....... ..+..+. .......++++.+++......+...+..+
T Consensus 123 ~~~~~~~~~~~~v~~----g~Gi~~lp~~~-~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 193 (197)
T cd08470 123 WRCNSGVALLDAALK----GMGLAQLPDYY-VDEHLAA-GRLVPVLEDYRPPDEGIWALYPHNRHLSPKVRLLVDYL 193 (197)
T ss_pred EEECCHHHHHHHHHc----CCcEEEechHH-hHHHHHc-CCcEEccccccCCCCcEEEEeCCchhccHHHHHHHHHH
Confidence 446788888899988 55555555433 3322222 2233322 12234567778888766555555554443
No 389
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=58.14 E-value=88 Score=31.90 Aligned_cols=117 Identities=15% Similarity=0.156 Sum_probs=66.2
Q ss_pred CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHHHHHHhhccCC
Q 002364 42 STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAHIVSYVSNELQ 120 (930)
Q Consensus 42 ~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~~v~~~~~~~~ 120 (930)
+..|+.-..++.-.+.++| |..+++... ..-++ ....+++..+...||....+ ..-..+...|.+.+
T Consensus 60 ~diG~~Kae~~~~~l~~in------P~~~V~~~~--~~i~~----~~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ 127 (231)
T cd00755 60 STVGKPKVEVMAERIRDIN------PECEVDAVE--EFLTP----DNSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRK 127 (231)
T ss_pred hhCCCcHHHHHHHHHHHHC------CCcEEEEee--eecCH----hHHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhC
Confidence 4456666677777788887 445555433 22222 12345665567778776555 44455788899999
Q ss_pred CcEEecccCCCCCCCCCCCceEeecCCchH----HHHHHHHHHHhcCcc-EEEEEEEcC
Q 002364 121 VPLLSFGVTDPTLSSLQYPFFVRTTQSDSY----QMTAVAEMVSYYGWN-AVSVIFVDN 174 (930)
Q Consensus 121 iP~is~~a~~~~l~~~~~p~~~r~~p~~~~----~~~ai~~~l~~~~w~-~v~ii~~d~ 174 (930)
+|+|+..+....+ .|.-+|...=... .++.+-+-|++.+.. .+-+||+..
T Consensus 128 ip~I~s~g~g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 128 IPVISSMGAGGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred CCEEEEeCCcCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 9999865444333 2555555432222 233333334444543 466666544
No 390
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=57.94 E-value=1.8e+02 Score=29.23 Aligned_cols=92 Identities=14% Similarity=0.100 Sum_probs=54.4
Q ss_pred CCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCccccccc
Q 002364 692 DDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSG 771 (930)
Q Consensus 692 ~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~ 771 (930)
+.+|+..-......||.+ .+.+ .+++.....-|..-.+ |-.|++++-.....-+..+ +|.++.+.+ ...
T Consensus 115 ~~rIATkYp~it~~yf~~-~gv~-~~iv~l~GsvE~aP~~------GlAD~IvDivsTG~TLr~N--gL~~ie~Il-~s~ 183 (215)
T PRK01686 115 RLRVATKYPNIARRYFAE-KGEQ-VEIIKLYGSVELAPLV------GLADAIVDIVETGNTLRAN--GLVEVEEIM-DIS 183 (215)
T ss_pred CCEEEeCCHHHHHHHHHH-cCCe-EEEEECcCceeecccc------CCccEEEEeecChHHHHHC--cCEEeeEEE-eeE
Confidence 667888777778888844 4553 5566655444432222 6778888866555444333 466665444 444
Q ss_pred eeeeeCCCCc--chHHHHHHHHhhh
Q 002364 772 WGFAFPRDSP--LAVDLSSAILELA 794 (930)
Q Consensus 772 ~~~~~~k~sp--l~~~i~~~i~~l~ 794 (930)
-.+...+.|. -.+.++..+.++.
T Consensus 184 A~LI~n~~s~~~k~~~i~~l~~~l~ 208 (215)
T PRK01686 184 ARLIVNRASLKLKREEIRPLIEKLR 208 (215)
T ss_pred EEEEEecccchhhHHHHHHHHHHHH
Confidence 5566667665 3355666666554
No 391
>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=57.89 E-value=41 Score=35.05 Aligned_cols=78 Identities=6% Similarity=0.107 Sum_probs=55.0
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhh-cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHH
Q 002364 166 AVSVIFVD--NEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (930)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~ 241 (930)
+|+++..+ ++|.....+.+.+++++ .|+++..... . .+.......++++.+.+.|.+|+..... ....++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA-K----NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC-C----CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 46777743 67888888999999999 8988876422 1 2245666778888888899999865443 3456777
Q ss_pred HHHHcCc
Q 002364 242 VAKYLGM 248 (930)
Q Consensus 242 ~a~~~g~ 248 (930)
++.+.|.
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 392
>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=57.44 E-value=42 Score=35.03 Aligned_cols=80 Identities=10% Similarity=0.043 Sum_probs=53.0
Q ss_pred EEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHH
Q 002364 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (930)
Q Consensus 166 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a 243 (930)
+++++.. ++.|.......+.+++++.|..+.....-. . .+...-...++.+.+.++|.||+.....+....+..+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 3667764 366777888899999999998876542211 1 1134455677777788999999876544332256777
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77664
No 393
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=57.36 E-value=94 Score=32.49 Aligned_cols=116 Identities=12% Similarity=0.212 Sum_probs=65.4
Q ss_pred cchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHHHHHHhhccCCC
Q 002364 43 TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAHIVSYVSNELQV 121 (930)
Q Consensus 43 ~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s-~~~~~v~~~~~~~~i 121 (930)
..|..-..++.-.+.++| |..+++.+ +..-++. ...+++..+.+.||-...+ ..-..+...+.+.++
T Consensus 80 ~vG~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~i 147 (268)
T PRK15116 80 NVGLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKI 147 (268)
T ss_pred hcChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCC
Confidence 345544556666777776 44555543 3322222 2344555567788877666 555668889999999
Q ss_pred cEEecccCCCCCCCCCCCceEeecCCch----HHHHHHHHHHHh-cCcc-------EEEEEEEcC
Q 002364 122 PLLSFGVTDPTLSSLQYPFFVRTTQSDS----YQMTAVAEMVSY-YGWN-------AVSVIFVDN 174 (930)
Q Consensus 122 P~is~~a~~~~l~~~~~p~~~r~~p~~~----~~~~ai~~~l~~-~~w~-------~v~ii~~d~ 174 (930)
|+|+.++....+. |.-++..-=.. -+++.+-+.|++ +|.+ .+-+||++.
T Consensus 148 p~I~~gGag~k~d----p~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 148 PLVTTGGAGGQID----PTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred CEEEECCcccCCC----CCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCC
Confidence 9998655544332 55555543222 234444444555 5543 255565443
No 394
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=57.26 E-value=48 Score=36.64 Aligned_cols=85 Identities=11% Similarity=0.015 Sum_probs=59.6
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+++.+. .++.+ .+.+.+...++.+++.++|+||-.+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~e--p~~~~v~~~~~~~~~~~~d~IIavG 92 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGE--CSDNEIDRLVAIAEENGCDVVIGIG 92 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCC--CCHHHHHHHHHHHHhcCCCEEEEec
Confidence 344566778888 898888744444 346788888999888876543 34444 4567788888888888999999876
Q ss_pred Ch--hhHHHHHH
Q 002364 232 SP--SLGFQVFS 241 (930)
Q Consensus 232 ~~--~~~~~~~~ 241 (930)
.+ -++..++.
T Consensus 93 GGsv~D~aK~iA 104 (366)
T PRK09423 93 GGKTLDTAKAVA 104 (366)
T ss_pred ChHHHHHHHHHH
Confidence 55 35555554
No 395
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=57.08 E-value=36 Score=35.00 Aligned_cols=78 Identities=10% Similarity=0.152 Sum_probs=53.4
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHH
Q 002364 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (930)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a 243 (930)
+++++... ..|.......+++++++.|+++..... . .+.+.....++++.+.+++.+|+..........+..+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---Q--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 36677743 668888899999999999988764422 2 2245566777777777899998876544443356666
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66554
No 396
>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=56.06 E-value=73 Score=31.00 Aligned_cols=75 Identities=20% Similarity=0.262 Sum_probs=46.4
Q ss_pred CCCChHHhhhCCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccE
Q 002364 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSF 760 (930)
Q Consensus 681 ~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l 760 (930)
++++.+||. +++|+..-....+.||. +.+. +.++++....-|..-. . |-.|++++-.....-+..+ +|
T Consensus 100 ~~~~~~~l~--~~rIATkyp~i~~~~f~-~~Gi-~v~ii~l~GsvE~aP~--~----GlaD~IvDiv~TG~TL~~N--gL 167 (182)
T TIGR00070 100 DISSVEDLK--GKRIATKYPNLARRYFE-KKGI-DVEIIKLNGSVELAPL--L----GLADAIVDIVSTGTTLREN--GL 167 (182)
T ss_pred CCCChHHhC--CCEEEECCHHHHHHHHH-HcCC-eEEEEECcceeecccC--C----CceeEEEEEeCCHHHHHHC--CC
Confidence 567888986 88899877778888884 4555 3455555444333211 2 7788888866655544443 35
Q ss_pred EEeCccc
Q 002364 761 RIVGQEF 767 (930)
Q Consensus 761 ~~~~~~~ 767 (930)
.++.+.+
T Consensus 168 ~~ie~i~ 174 (182)
T TIGR00070 168 RIIEVIL 174 (182)
T ss_pred EEeeEEE
Confidence 5554433
No 397
>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=55.74 E-value=2e+02 Score=30.76 Aligned_cols=41 Identities=24% Similarity=0.179 Sum_probs=21.7
Q ss_pred CchhhHHHHHHHHhhccccccccccCCCCceEEEEEEeeCC
Q 002364 1 MKTIWFLPLVFLYFGLFSFGYCKSVSARPAVVNVGALFTLD 41 (930)
Q Consensus 1 Mk~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~s 41 (930)
||+..+++++.++++...+++|......++.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDGGEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCCCCCceEEEEeCCCCC
Confidence 76654333333332222334454434566789999876543
No 398
>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=55.55 E-value=43 Score=34.45 Aligned_cols=76 Identities=13% Similarity=0.058 Sum_probs=54.1
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
++++.. ++.|.......+++++++.|+.+... ..+ .+.......++++.+.+++.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLC---NSD--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEE---cCC--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 566664 47788888999999999999887643 222 22445566777787789999998776655555 77777
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7775
No 399
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=54.86 E-value=50 Score=34.46 Aligned_cols=79 Identities=9% Similarity=0.093 Sum_probs=53.8
Q ss_pred EEEEEEE---cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHH
Q 002364 166 AVSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (930)
Q Consensus 166 ~v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~ 241 (930)
+|+++.. +++|.....+.+.+++++.|..+..... .. .+.......++++...+.|.+|+..... .....++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~-~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP-ET---FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC-CC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 4666664 3578888899999999999988765422 11 1244556677787778899998865433 3345677
Q ss_pred HHHHcCc
Q 002364 242 VAKYLGM 248 (930)
Q Consensus 242 ~a~~~g~ 248 (930)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 400
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=54.84 E-value=83 Score=37.81 Aligned_cols=67 Identities=18% Similarity=0.176 Sum_probs=46.2
Q ss_pred cCccEEEEEEEcCcc---------cc---chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEE
Q 002364 162 YGWNAVSVIFVDNEY---------GR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (930)
Q Consensus 162 ~~w~~v~ii~~d~~~---------g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 229 (930)
|...+|+++.+.++- |+ .....+.+.+++.|.++.....++.+ ...+...+++..+ ++|+||+
T Consensus 184 ~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~Dd----~~~i~~~l~~~~~-~~D~iIt 258 (633)
T PRK14498 184 YKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVPDD----EEELEAALRKALK-ECDLVLL 258 (633)
T ss_pred ecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeCCC----HHHHHHHHHHHHh-cCCEEEE
Confidence 455688888765431 22 23557888899999988776666533 6778888877754 7899998
Q ss_pred EcCh
Q 002364 230 HVSP 233 (930)
Q Consensus 230 ~~~~ 233 (930)
.+..
T Consensus 259 tGG~ 262 (633)
T PRK14498 259 SGGT 262 (633)
T ss_pred CCCC
Confidence 6543
No 401
>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=53.73 E-value=1.1e+02 Score=27.62 Aligned_cols=66 Identities=15% Similarity=0.141 Sum_probs=42.0
Q ss_pred ccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh----hhHHHHHHHHHHcCc
Q 002364 175 EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVFSVAKYLGM 248 (930)
Q Consensus 175 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~----~~~~~~~~~a~~~g~ 248 (930)
+.-.-+..-+...++..|.++.+..... .....+..+.+.++++|.+++.. ..+..+++++++.|.
T Consensus 10 d~H~lG~~~~~~~l~~~G~~vi~lG~~v--------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 10 DGHDRGAKVIARALRDAGFEVIYTGLRQ--------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred ChhHHHHHHHHHHHHHCCCEEEECCCCC--------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 3333445667778888898887643321 22345666667789999998654 345556777777664
No 402
>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=53.32 E-value=69 Score=35.54 Aligned_cols=83 Identities=8% Similarity=0.033 Sum_probs=58.1
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.+.++.++ +++.+|+..... ..+.+.+.+++.|+++.... +.++ .+.+++...++.+++.++|+||-.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGE--PSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCC--cCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 34566677775 889888754433 67788889999988765332 3334 45678888888888899999998765
Q ss_pred h--hhHHHHHHH
Q 002364 233 P--SLGFQVFSV 242 (930)
Q Consensus 233 ~--~~~~~~~~~ 242 (930)
+ -+++.++..
T Consensus 85 GS~~D~aK~ia~ 96 (374)
T cd08183 85 GSVIDAGKAIAA 96 (374)
T ss_pred chHHHHHHHHHH
Confidence 5 455555543
No 403
>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=52.59 E-value=1e+02 Score=32.84 Aligned_cols=41 Identities=15% Similarity=0.175 Sum_probs=30.4
Q ss_pred eHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEee
Q 002364 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (930)
Q Consensus 494 ~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 543 (930)
...|++.+.+.+|+++++. . .+-.-+...|.+|++|+.+..
T Consensus 23 ~~~i~~~iLE~~Gy~Ve~~--~-------~~~~~~~~al~~GdiD~~~e~ 63 (290)
T TIGR03414 23 TTALASVLLEGLGYQPKVT--L-------LSVPVTYAGLKDGDLDVFLGN 63 (290)
T ss_pred HHHHHHHHHHHcCCcceeE--E-------ccHHHHHHHHHcCCceEeccc
Confidence 3467777778889887664 2 335677888999999998754
No 404
>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=52.38 E-value=1.7e+02 Score=28.50 Aligned_cols=130 Identities=15% Similarity=0.162 Sum_probs=65.2
Q ss_pred CcEEEEcCCChhHHHHHHHhhccCC--CcEEecccCCC-CCCC-CCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEE
Q 002364 96 DIVAIIGPQCSTVAHIVSYVSNELQ--VPLLSFGVTDP-TLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF 171 (930)
Q Consensus 96 ~v~aiiGp~~s~~~~~v~~~~~~~~--iP~is~~a~~~-~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~ 171 (930)
++.+++||.+++-..-...+++... +..+-...|-+ ...+ .+-.|.|-. .. .+-+.++.-..=...- |
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs----~~---~f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS----KE---EFERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------HH---HHHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe----ec---hhhhhhccccEEEEee-e
Confidence 6889999999998887777877653 43332233333 2223 334555542 11 1222222211111111 3
Q ss_pred EcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcC
Q 002364 172 VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (930)
Q Consensus 172 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g 247 (930)
.++.||.. ...+.+.+++...++... .+ .-+..+++...+.++++..++....+-+..+..|
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il~~---~~----------~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~r~ 136 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCILDV---DP----------EGVKQLKKAGFNPIVIFIKPPSPEVLKRRLRRRG 136 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEEEE---TH----------HHHHHHHHCTTTEEEEEEEESSHHHHHHHHHTTT
T ss_pred cchhhhhc-cchhhHhhhcCCcEEEEc---cH----------HHHHHHHhcccCceEEEEEccchHHHHHHHhccc
Confidence 45567754 577788887777765532 11 1245555555666666554444444444444433
No 405
>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=51.97 E-value=1.5e+02 Score=28.37 Aligned_cols=67 Identities=18% Similarity=0.043 Sum_probs=37.3
Q ss_pred ceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeCc--cccccceeeeeCCCCcchHHHHHHH
Q 002364 718 LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQ--EFTKSGWGFAFPRDSPLAVDLSSAI 790 (930)
Q Consensus 718 ~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~k~spl~~~i~~~i 790 (930)
....++.....+.+.. |...+++-+ ..+...... ..+..+.. ......+.++.+|+......+...+
T Consensus 128 ~~~~~~~~~~~~~v~~----g~gi~~~p~-~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (199)
T cd08475 128 RLQFDDGEAIADAALA----GLGIAQLPT-WLVADHLQR-GELVEVLPELAPEGLPIHAVWPRTRHLPPKVRAAV 196 (199)
T ss_pred cEEECCHHHHHHHHHh----CCCEEeeeH-HHHHhHhhc-CcEEEecCCCcCCCccEEEEeCCcccCCHHHHHHH
Confidence 4456788888999988 555455544 333332222 23443322 2334567778888766555544443
No 406
>PRK00865 glutamate racemase; Provisional
Probab=51.89 E-value=1.5e+02 Score=31.03 Aligned_cols=39 Identities=8% Similarity=0.112 Sum_probs=27.5
Q ss_pred HHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCCcEEe
Q 002364 87 VEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (930)
Q Consensus 87 ~~a~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (930)
+.+..|.+.++.+++=+-.+..+.++..+-+..++|+|+
T Consensus 58 ~~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 58 EIVEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 333444455899988777777666666677778999996
No 407
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=51.25 E-value=51 Score=33.94 Aligned_cols=47 Identities=17% Similarity=0.244 Sum_probs=31.6
Q ss_pred ceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHH
Q 002364 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (930)
Q Consensus 30 ~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~ 87 (930)
.+|+||+.--.+ +..++..++-+.++ .|++|+++..++-..|..|+.
T Consensus 29 ~~I~vg~~~~p~---a~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGATPGPH---AEILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeecCCch---HHHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 589999853322 23344455555554 389999999988888887753
No 408
>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=51.09 E-value=92 Score=29.96 Aligned_cols=65 Identities=8% Similarity=-0.025 Sum_probs=38.6
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-..++..+.++.+ .+++.+... . ....+.+|++|+++.. .......+. +.++.....+++++.
T Consensus 14 ~~l~~~l~~f~~~~P-~i~i~~~~~------~----~~~~l~~g~~Dl~i~~---~~~~~~~l~-~~~l~~~~~~~~~~~ 78 (198)
T cd08479 14 RHIAPALSDFAKRYP-ELEVQLELT------D----RPVDLVEEGFDLDIRV---GDLPDSSLI-ARKLAPNRRILCASP 78 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEec------C----ccccccccCccEEEEc---CCCCCccce-eeeccCCceEEEECH
Confidence 556778888888876 355555431 1 2357889999998742 112222332 346666666666644
No 409
>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=50.86 E-value=70 Score=35.07 Aligned_cols=84 Identities=17% Similarity=0.126 Sum_probs=55.9
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
..+.++++.+| +++.+|+....+ +...+.+.+.+++.|+.+.... +..+ .+.+.+...++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44566788888 888777643333 3556888888988887653332 3333 34667888888888889999987655
Q ss_pred h--hhHHHHHH
Q 002364 233 P--SLGFQVFS 241 (930)
Q Consensus 233 ~--~~~~~~~~ 241 (930)
+ -+...++.
T Consensus 87 Gs~~D~aK~ia 97 (349)
T cd08550 87 GKTLDTAKAVA 97 (349)
T ss_pred cHHHHHHHHHH
Confidence 4 34555443
No 410
>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=50.23 E-value=67 Score=33.45 Aligned_cols=80 Identities=10% Similarity=0.130 Sum_probs=52.4
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhh-HHHHHHH
Q 002364 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSV 242 (930)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~~~~ 242 (930)
||+++..+ ++|.......+.+++++.|..+.....-.. .+.......++++...+.|.+|+...... ....++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46776643 667778888999999999988765422111 12345556677777788999998654333 2456677
Q ss_pred HHHcCc
Q 002364 243 AKYLGM 248 (930)
Q Consensus 243 a~~~g~ 248 (930)
+.+.|+
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 766553
No 411
>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=49.76 E-value=2.2e+02 Score=31.17 Aligned_cols=172 Identities=10% Similarity=0.059 Sum_probs=87.3
Q ss_pred CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCC
Q 002364 42 STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQV 121 (930)
Q Consensus 42 ~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~v~~~~~~~~i 121 (930)
..+|.....+.+++ +.+ .+.+++.|.-.+...+.....++-+. -.+ .-|.-...-..+.+.+.+.+|
T Consensus 6 Gf~gD~~~a~~~l~-----~~g------~~d~l~~d~LaE~tma~~~~~~~~~p-~~g-Y~~~~~~~L~~~L~~~~~~gI 72 (362)
T PF07287_consen 6 GFWGDRPDAAVRLA-----RGG------DVDYLVGDYLAERTMAILARAKRKDP-TKG-YAPDFVRDLRPLLPAAAEKGI 72 (362)
T ss_pred ccccCcHHHHHHHH-----hcC------CCCEEEEecHHHHHHHHHHHHHhhCC-CCC-chHHHHHHHHHHHHHHHhCCC
Confidence 44566666666665 233 34688888776555555443333221 111 112222344566777888999
Q ss_pred cEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCc-cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEe
Q 002364 122 PLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSG 200 (930)
Q Consensus 122 P~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~ 200 (930)
|+|+-++.. +....++.+.++++..|. -||++|+.|+. .+.+.+.+. .|..+..-..
T Consensus 73 kvI~NaGg~----------------np~~~a~~v~eia~e~Gl~lkvA~V~gDd~-----~~~v~~~~~-~g~~~~~l~~ 130 (362)
T PF07287_consen 73 KVITNAGGL----------------NPAGCADIVREIARELGLSLKVAVVYGDDL-----KDEVKELLA-EGETIRPLDT 130 (362)
T ss_pred CEEEeCCCC----------------CHHHHHHHHHHHHHhcCCCeeEEEEECccc-----hHhHHHHHh-CCCCCccCCC
Confidence 999743221 122367888888888776 58888886664 444444444 2211110000
Q ss_pred cCCCC----CCC----hhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCcc
Q 002364 201 IPPES----GVN----TGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 201 ~~~~~----~~~----~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~~ 249 (930)
-++-. ... .--..++++.|+ .++||||..=..+.+.-+--.+.+.|+.
T Consensus 131 ~~~l~~~~~~~~~a~aylGa~pI~~AL~-~GADIVI~GR~~D~Al~~a~~~~~~GW~ 186 (362)
T PF07287_consen 131 GPPLSEWDDRIVSANAYLGAEPIVEALE-AGADIVITGRVADPALFAAPAIHEFGWS 186 (362)
T ss_pred CCCcchhccccceEEEecChHHHHHHHH-cCCCEEEeCcccchHHHHhHHHHHcCCC
Confidence 00000 000 001344455554 4789887753333333333455566754
No 412
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=49.59 E-value=33 Score=36.03 Aligned_cols=57 Identities=18% Similarity=0.159 Sum_probs=31.9
Q ss_pred CCceEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE
Q 002364 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII 101 (930)
Q Consensus 28 ~~~~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii 101 (930)
...+|+||..-..+. ....++.+.+-+. .|++++++..++...+..| |.+.++++..
T Consensus 29 ~~~~I~IG~~~~~~~-------~~~~~~~~~l~~~----~G~~Vel~~f~~~~~~~~A------La~GdID~~~ 85 (271)
T PRK11063 29 DPNHIKVGVIVGAEQ-------QVAEVAQKVAKEK----YGLDVELVTFNDYVLPNEA------LSKGDIDANA 85 (271)
T ss_pred CCCcEEEEeCCCChH-------HHHHHHHHHHHHh----cCCeEEEEEecCcHHHHHH------HHcCCcceec
Confidence 345699999742111 1233444444333 2788999988865444333 3345677744
No 413
>cd08483 PBP2_HvrB The C-terminal substrate-binding domain of LysR-type transcriptional regulator HvrB, an activator of S-adenosyl-L-homocysteine hydrolase expression, contains the type 2 periplasmic binding fold. The transcriptional regulator HvrB of the LysR family is required for the light-dependent activation of both ahcY, which encoding the enzyme S-adenosyl-L-homocysteine hydrolase (AdoHcyase) that responsible for the reversible hydrolysis of AdoHcy to adenosine and homocysteine, and orf5, a gene of unknown. The topology of this C-terminal domain of HvrB is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transp
Probab=48.89 E-value=2.2e+02 Score=26.95 Aligned_cols=64 Identities=13% Similarity=0.129 Sum_probs=37.3
Q ss_pred eeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 493 ~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
+-..++..+.++.+ .+++.+.. . ..+.++.+|++|+++... ......+. ..++.+..+++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~l~~~~-------~---~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 77 (190)
T cd08483 14 WLMPRLGSFWAKHP-EIELSLLP-------S---ADLVDLRPDGIDVAIRYG---NGDWPGLE-SEPLTAAPFVVVAAP 77 (190)
T ss_pred hHHhhHHHHHHHCC-CceEEEEe-------c---CCcCCCCCCCcCEEEEec---CCCCCCcE-EEeecccceEeeeCH
Confidence 34466777777765 34454432 1 124678899999988532 11122233 356777777777764
No 414
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=48.80 E-value=3.4e+02 Score=28.46 Aligned_cols=121 Identities=21% Similarity=0.277 Sum_probs=71.7
Q ss_pred CCCCChHHhhh----CCC--CeEEEe-Cch---HHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchh
Q 002364 680 SPINGIESLRK----SDD--PIGYQE-GSF---AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPY 749 (930)
Q Consensus 680 ~~i~s~~dL~~----~~~--~v~~~~-~s~---~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~ 749 (930)
.+++|++||.+ +.. ++|... |+. ....+.+..+.. .+.++|....+.+.+|.. |++|+.+.....
T Consensus 88 sp~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G~~~~~~allg----G~vd~~~~~~~~ 162 (274)
T PF03401_consen 88 SPYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDGGAEALTALLG----GHVDAAFGSPGE 162 (274)
T ss_dssp SS-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHT----TSSSEEEEEHHH
T ss_pred CccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCCccHHHHHHhC----CeeeEEeecHHH
Confidence 57889999853 222 344432 332 223344555553 467889999999999999 999998877544
Q ss_pred H-HHHHhcCcc-EEEeC--------------cc-c----cccceeeeeCCCCc--chHHHHHHHHhhhhccchHHHHHH
Q 002364 750 V-ELFLSSQCS-FRIVG--------------QE-F----TKSGWGFAFPRDSP--LAVDLSSAILELAENGDLQRIHDK 805 (930)
Q Consensus 750 ~-~~~~~~~~~-l~~~~--------------~~-~----~~~~~~~~~~k~sp--l~~~i~~~i~~l~e~G~~~~~~~~ 805 (930)
. .+..+..-+ |-+.. +. + .....+++.|||-| .++.+..++.+..++-.+++..++
T Consensus 163 ~~~~~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 163 ALPYVEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp HHHHHHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred HHHHHhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 4 444332111 11111 11 0 11125788899988 999999999999999877666555
No 415
>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=48.56 E-value=76 Score=32.69 Aligned_cols=77 Identities=8% Similarity=0.031 Sum_probs=52.0
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHHH
Q 002364 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (930)
Q Consensus 166 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~~ 242 (930)
+|++|..+ +.|.....+.+.+++++.|+++..... . .+.......++++...+.|.||+..... .....+..
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDA---Q--NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777753 668888899999999999988765322 1 1244555677777777899998875433 33346666
Q ss_pred HHHcC
Q 002364 243 AKYLG 247 (930)
Q Consensus 243 a~~~g 247 (930)
+.+.+
T Consensus 76 l~~~~ 80 (267)
T cd01536 76 ANAAG 80 (267)
T ss_pred HHHCC
Confidence 66655
No 416
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=48.52 E-value=81 Score=33.69 Aligned_cols=79 Identities=22% Similarity=0.207 Sum_probs=44.5
Q ss_pred CCCCChHHhhhCCCCeEEEe-CchHH---HHHHHhhcccccccee--cCCHHHHHHHHhcCCCCCceEEEEecch---hH
Q 002364 680 SPINGIESLRKSDDPIGYQE-GSFAE---YYLSQELNISKSRLVA--LRTPEDYAKALKDGPGKGGVAAVVDERP---YV 750 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~-~s~~~---~~l~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~g~~~a~i~~~~---~~ 750 (930)
..|++++||. |++|.+.. ||-.+ ..+.+.+++....+.. .-...+..+++++ |.+||++.-.. ..
T Consensus 127 ~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~----g~iDA~~~~~G~p~~a 200 (321)
T COG2358 127 AGIKTIADLK--GKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKN----GTIDAAFYVAGVPNPA 200 (321)
T ss_pred CCcceehhcC--CCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhC----CcccEEEEecCCCCcc
Confidence 4699999998 99988752 33222 2222445554332221 1233445777887 89998876432 12
Q ss_pred HHHHhcCccEEEeC
Q 002364 751 ELFLSSQCSFRIVG 764 (930)
Q Consensus 751 ~~~~~~~~~l~~~~ 764 (930)
-..+...|++.+++
T Consensus 201 i~el~~~~~i~lv~ 214 (321)
T COG2358 201 ISELATTCDIVLVP 214 (321)
T ss_pred HHHHHhhCCeEEEe
Confidence 23344456666654
No 417
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=48.10 E-value=3.2e+02 Score=30.12 Aligned_cols=142 Identities=9% Similarity=0.044 Sum_probs=0.0
Q ss_pred EEcCCChhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEE-EcCcccc
Q 002364 100 IIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF-VDNEYGR 178 (930)
Q Consensus 100 iiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~-~d~~~g~ 178 (930)
+++|.......++..+-. .+|=+|.|+... ++|- +......+..++.+...-++|.++| +...+..
T Consensus 195 lm~p~~~~v~~~l~~~~~-l~i~~IaP~HG~----------i~~~--~~~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~ 261 (388)
T COG0426 195 LMAPNARLVLWALKKIKL-LKIEMIAPSHGP----------IWRG--NPKEIVEAYRDWAEGQPKGKVDLIYDSMYGNTE 261 (388)
T ss_pred hhcccHHHHHHHHhhhcc-cCccEEEcCCCc----------eeeC--CHHHHHHHHHHHHccCCcceEEEEEecccCCHH
Q ss_pred chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh------hhHHHHHHHHHHcCcccCC
Q 002364 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMMGNG 252 (930)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~~~~~a~~~g~~~~~ 252 (930)
..++.+.+.+.+.|+.|. .+... ..+.+.+++.+ -+++.+++.+.. .....++-....+......
T Consensus 262 ~ma~aiaegl~~~gv~v~---~~~~~----~~~~~eI~~~i--~~a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~ 332 (388)
T COG0426 262 KMAQAIAEGLMKEGVDVE---VINLE----DADPSEIVEEI--LDAKGLVVGSPTINGGAHPPIQTALGYVLALAPKNKL 332 (388)
T ss_pred HHHHHHHHHhhhcCCceE---EEEcc----cCCHHHHHHHH--hhcceEEEecCcccCCCCchHHHHHHHHHhccCcCce
Q ss_pred eEEEEeCcchh
Q 002364 253 YVWIATDWLAY 263 (930)
Q Consensus 253 ~~~i~~~~~~~ 263 (930)
-..+++-+|..
T Consensus 333 ~~vfgS~GW~g 343 (388)
T COG0426 333 AGVFGSYGWSG 343 (388)
T ss_pred EEEEeccCCCC
No 418
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=48.01 E-value=81 Score=32.53 Aligned_cols=77 Identities=9% Similarity=0.080 Sum_probs=51.9
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
|+++.. +++|.......+.+++++.|..+..... . .+.......++++...+.|.||+..........++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---D--YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---C--CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 455553 4567777889999999999988775422 1 22445556777777788999998643333334677887
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.|.
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7774
No 419
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=47.58 E-value=71 Score=32.12 Aligned_cols=94 Identities=21% Similarity=0.120 Sum_probs=53.6
Q ss_pred CCCCChHHhhhCCCCeEEEeCchHHHHHH---Hhhccccccceec-CCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002364 680 SPINGIESLRKSDDPIGYQEGSFAEYYLS---QELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 755 (930)
Q Consensus 680 ~~i~s~~dL~~~~~~v~~~~~s~~~~~l~---~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 755 (930)
..|...+||. |+++++.--|+.+.-|. ++.+++..++.-+ -.+.+...+.++ |.+|+...-.+.+.-+..
T Consensus 120 sgI~kpeDL~--GK~iavPFvSTtHysLLaaLkhw~idp~~V~IlNl~Pp~IaAAwqR----GDIDgAyVW~PAl~el~k 193 (334)
T COG4521 120 SGIEKPEDLI--GKRIAVPFVSTTHYSLLAALKHWGIDPGQVEILNLQPPAIAAAWQR----GDIDGAYVWAPALSELKK 193 (334)
T ss_pred CCcCChHHhc--cCeeccceeehhHHHHHHHHHHcCCCccceeEeccCCHHHHHHHHc----CCCCceeeccHhHHHHhh
Confidence 4789999999 99998865544333222 3344444433222 256677888888 888876666666654433
Q ss_pred cCccEEE----eCccccccceeeeeCCCC
Q 002364 756 SQCSFRI----VGQEFTKSGWGFAFPRDS 780 (930)
Q Consensus 756 ~~~~l~~----~~~~~~~~~~~~~~~k~s 780 (930)
. .+... ++..-.+..-+++++|+.
T Consensus 194 s-GkVltDs~qvgqwgaPTfdvwVvrkdf 221 (334)
T COG4521 194 S-GKVLTDSEQVGQWGAPTFDVWVVRKDF 221 (334)
T ss_pred c-CcEeccHHHhhccCCCceeeEEeehHh
Confidence 2 22221 222222333467777764
No 420
>cd08473 PBP2_CrgA_like_4 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 4. 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=47.43 E-value=1e+02 Score=29.70 Aligned_cols=68 Identities=12% Similarity=0.036 Sum_probs=38.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+... . ... .+.+|++|+++.... .......+ .+.|+....++++++.
T Consensus 16 ~~l~~~l~~~~~~~P-~i~i~~~~~-------~--~~~-~~~~~~~D~~i~~~~-~~~~~~~~-~~~~l~~~~~~~v~~~ 82 (202)
T cd08473 16 ELLAPLLPRFMAAYP-QVRLQLEAT-------N--RRV-DLIEEGIDVALRVRF-PPLEDSSL-VMRVLGQSRQRLVASP 82 (202)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEEc-------C--Ccc-cccccCccEEEEeCC-CCCCCcce-eEEeccCcceEEEECH
Confidence 345577888888775 355555431 1 122 345789999885211 11111223 3467777888888765
Q ss_pred c
Q 002364 572 R 572 (930)
Q Consensus 572 ~ 572 (930)
.
T Consensus 83 ~ 83 (202)
T cd08473 83 A 83 (202)
T ss_pred H
Confidence 3
No 421
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=47.32 E-value=27 Score=31.19 Aligned_cols=86 Identities=16% Similarity=0.232 Sum_probs=45.2
Q ss_pred cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCC--CCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHH
Q 002364 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES--GVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (930)
Q Consensus 165 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~--~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~ 242 (930)
|+++++...+.-+.-+ ..+.+.+.+.|.+|.. +.+.. .....-+.+ +.++ -...|.++++..+.....++++
T Consensus 1 ksiAVvGaS~~~~~~g-~~v~~~l~~~G~~v~~---Vnp~~~~i~G~~~y~s-l~e~-p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGKFG-YRVLRNLKAAGYEVYP---VNPKGGEILGIKCYPS-LAEI-PEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTSHH-HHHHHHHHHTT-EEEE---ESTTCSEETTEE-BSS-GGGC-SST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCChH-HHHHHHHHhCCCEEEE---ECCCceEECcEEeecc-ccCC-CCCCCEEEEEcCHHHHHHHHHH
Confidence 5678877443323222 3344444447766653 23331 011111222 2221 3578999999999999999999
Q ss_pred HHHcCcccCCeEEEEeC
Q 002364 243 AKYLGMMGNGYVWIATD 259 (930)
Q Consensus 243 a~~~g~~~~~~~~i~~~ 259 (930)
+.++| ...+|+.++
T Consensus 75 ~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 75 AAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcC---CCEEEEEcc
Confidence 99988 467899876
No 422
>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=47.22 E-value=81 Score=32.59 Aligned_cols=77 Identities=12% Similarity=0.094 Sum_probs=51.7
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
++++.. .+.|.......+.+++++.|.++... ... .+...-...++++.+.++|.+++..........++++.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLA---NSG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEe---cCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 455553 45677778889999999999887532 211 12344556777787888999988765444445777787
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7664
No 423
>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=47.18 E-value=1.6e+02 Score=27.96 Aligned_cols=65 Identities=12% Similarity=0.056 Sum_probs=35.2
Q ss_pred eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEEeC--ccccccceeeeeCCCCcchHHHHHH
Q 002364 719 VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSA 789 (930)
Q Consensus 719 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~ 789 (930)
...++.+...+.+.. |...+++-+.....+ ... ..+.... +......++++.+|+.+....+...
T Consensus 124 ~~~~~~~~~~~~v~~----g~Gi~~~p~~~~~~~-~~~-~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 190 (194)
T cd08481 124 MRFEQFSMLAQAAVA----GLGVALLPRFLIEEE-LAR-GRLVVPFNLPLTSDKAYYLVYPEDKAESPPVQAF 190 (194)
T ss_pred eEeccHHHHHHHHHh----CCCeEEecHHHHHHH-HHC-CCEEeecCccccCCCeEEEEeCcccccCHHHHHH
Confidence 345677888888888 555566655433333 222 2333222 2223456778888876655544443
No 424
>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=46.55 E-value=90 Score=32.45 Aligned_cols=80 Identities=8% Similarity=0.040 Sum_probs=52.2
Q ss_pred EEEEEEE--cCccccchHHHHHHHHhhc---ceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhh-HHHH
Q 002364 166 AVSVIFV--DNEYGRNGVSALNDKLAER---RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQV 239 (930)
Q Consensus 166 ~v~ii~~--d~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~ 239 (930)
||+++.. ++.|-....+.+.+++++. |.++..... +.. .+.+.....++++...+.|.||+...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 3566553 4567777888999999998 874432221 212 23455667888888889999999765433 3446
Q ss_pred HHHHHHcCc
Q 002364 240 FSVAKYLGM 248 (930)
Q Consensus 240 ~~~a~~~g~ 248 (930)
+..+++.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 777777664
No 425
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=46.31 E-value=90 Score=32.31 Aligned_cols=78 Identities=6% Similarity=0.043 Sum_probs=50.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
|+++.. ++.|.....+.+.+++++.|..+..... ..+ ........++.+...+.|.+|+..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPC-DSG---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeC-CCC---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 455553 4678888899999999999988765422 111 1224455566677778998888643322345666776
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.|.
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 6664
No 426
>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=45.90 E-value=2.5e+02 Score=26.02 Aligned_cols=68 Identities=18% Similarity=-0.020 Sum_probs=46.7
Q ss_pred chHHHHHHHHhhcceEEEEEEecC--CCCCCChhHH---HHHHHHHHhCCceEEEEEcChhhHHHHHHHHHHcCc
Q 002364 179 NGVSALNDKLAERRCRISYKSGIP--PESGVNTGYV---MDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (930)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~--~~~~~~~~~~---~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~~~g~ 248 (930)
.....+.++++..|.++....... .. ....|. ...++.+.....+.|++.+...+-..+++++++.|.
T Consensus 52 ~~~~~~~~~L~~~g~~~~~~~~~~~~~~--~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 52 ERQRGFLDALRRLGFEPIQKPLRTRGSG--KKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGK 124 (149)
T ss_pred hhHHHHHHHHHHCCcEEEEEcceecCCc--ccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCC
Confidence 456788999999999887654321 11 112332 233444444578999999999999999999999874
No 427
>cd08478 PBP2_CrgA The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain. This CD represents the substrate binding domain of LysR-type transcriptional regulator (LTTR) CrgA. 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 gene and activates the expression of the mdaB gene wh
Probab=45.83 E-value=60 Score=31.40 Aligned_cols=66 Identities=9% Similarity=0.097 Sum_probs=40.4
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.... ...+ .++.+|++|+++... +.....+ .+.|+....+++++++
T Consensus 16 ~~l~~~l~~f~~~~P-~v~i~~~~---------~~~~-~~l~~~~~D~~i~~~---~~~~~~l-~~~~l~~~~~~~v~~~ 80 (199)
T cd08478 16 HLLAPLIAKFRERYP-DIELELVS---------NEGI-IDLIERKTDVAIRIG---ELTDSTL-HARPLGKSRLRILASP 80 (199)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe---------cccc-ccchhccccEEEEec---CCCCCCc-eEEEcccccEEEEECH
Confidence 455678888888875 34455432 1223 346789999998532 2222233 3457778888888875
Q ss_pred c
Q 002364 572 R 572 (930)
Q Consensus 572 ~ 572 (930)
.
T Consensus 81 ~ 81 (199)
T cd08478 81 D 81 (199)
T ss_pred H
Confidence 4
No 428
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=45.79 E-value=88 Score=33.27 Aligned_cols=78 Identities=9% Similarity=0.037 Sum_probs=52.6
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh-hhHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~~~~a 243 (930)
++++.. ++.|.......+.+++++.|+.+....... .+.......++.+...++|.||+.... .....+++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~----~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT----ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC----CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 455553 466777888999999999998876431111 124455677777777889999987543 3345677888
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
++.|+
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77664
No 429
>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=45.70 E-value=84 Score=31.96 Aligned_cols=78 Identities=14% Similarity=0.172 Sum_probs=53.7
Q ss_pred EEEEEEEc---CccccchHHHHHHHHhh--cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHH
Q 002364 166 AVSVIFVD---NEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (930)
Q Consensus 166 ~v~ii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~ 240 (930)
+|+++..+ +.|+......+.+++++ .++++..... . .+..+....++++...+.+.|++.........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---Q--SDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 35666643 56778888899999999 6776654322 2 2244677777888777899999887765555567
Q ss_pred HHHHHcCc
Q 002364 241 SVAKYLGM 248 (930)
Q Consensus 241 ~~a~~~g~ 248 (930)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77777664
No 430
>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=45.67 E-value=93 Score=34.09 Aligned_cols=87 Identities=11% Similarity=0.085 Sum_probs=55.7
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
.-+.++++.++.+++.+|++...+ ....+.+.+.+++.|+.+.......+....+.+.+...++.+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~-~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY-AAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH-HHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 446677888888898888743333 22357888999988886543222222111346677777777777 8999997655
Q ss_pred h--hhHHHHHH
Q 002364 233 P--SLGFQVFS 241 (930)
Q Consensus 233 ~--~~~~~~~~ 241 (930)
+ -+.+.++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 4 45555554
No 431
>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=45.64 E-value=44 Score=31.86 Aligned_cols=102 Identities=16% Similarity=0.203 Sum_probs=58.4
Q ss_pred CCCChHHhhhCCCCeEEEeCchHHHHHHHhhccccccceecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccE
Q 002364 681 PINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSF 760 (930)
Q Consensus 681 ~i~s~~dL~~~~~~v~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l 760 (930)
.+++++||.+ +.+|+..-......||.+ .+. +.+++.....-|..-.+ |-.|++++-.....-+..+ +|
T Consensus 57 ~~~~~~~l~~-~~rIATkyp~l~~~yf~~-~g~-~~~ii~l~GsvE~ap~~------glAD~IvDiv~TG~TLr~N--gL 125 (163)
T PF01634_consen 57 PYKSVEDLKA-GLRIATKYPNLTRRYFAE-KGI-NVEIIKLSGSVELAPPL------GLADAIVDIVETGTTLRAN--GL 125 (163)
T ss_dssp CGCCGGGGSS-TEEEEES-HHHHHHHHHH-CT--EEEEEE-SS-TTHHHHT------TSSSEEEEEESSSHHHHHT--TE
T ss_pred CCCCHHHhcc-CCEEEECCHHHHHHHHHH-cCC-cEEEEEccCCccccCCC------CCCCEEEEeccCcHHHHHC--CC
Confidence 4778888864 566877777778888843 433 35566655555554443 6678888866655444333 56
Q ss_pred EEeCccccccceeeeeCCCCc--chHHHHHHHHhhh
Q 002364 761 RIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILELA 794 (930)
Q Consensus 761 ~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~i~~l~ 794 (930)
..++..+. ....+...+.+. -.+.++..+.+|.
T Consensus 126 ~~i~~i~~-s~a~LI~n~~~~~~k~~~i~~l~~~l~ 160 (163)
T PF01634_consen 126 KEIETILE-SSARLIANKASLKEKEEKIDELVTRLR 160 (163)
T ss_dssp EEEEEEEE-EEEEEEEEHHHHHHCHHHHHHHHHHHH
T ss_pred EEeEEEEE-EEEEEEEcCccchhhHHHHHHHHHHHH
Confidence 77754443 444555555543 3344666665554
No 432
>PRK09801 transcriptional activator TtdR; Provisional
Probab=45.52 E-value=92 Score=33.41 Aligned_cols=70 Identities=14% Similarity=0.013 Sum_probs=42.9
Q ss_pred eecCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCccEEE-eCccccccceeeeeCCCCcchHHHHHHHHhhh
Q 002364 719 VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRI-VGQEFTKSGWGFAFPRDSPLAVDLSSAILELA 794 (930)
Q Consensus 719 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~k~spl~~~i~~~i~~l~ 794 (930)
...++.+...+++.. |...+++-+.. +...... .++.. ..+......++++.+++.+........+..+.
T Consensus 223 ~~~~~~~~i~~~v~~----g~Gia~lp~~~-~~~~~~~-~~l~~~~~~~~~~~~~~lv~~~~~~~~~~~~~~i~~l~ 293 (310)
T PRK09801 223 LSSNSGEIVLQWALE----GKGIMLRSEWD-VLPFLES-GKLVQVLPEYAQSANIWAVYREPLYRSMKLRVCVEFLA 293 (310)
T ss_pred EEECCHHHHHHHHHc----CCCEEecchhh-HHHHHhC-CCeEEeCCCCCCCCcEEEEEcCCCcCCHHHHHHHHHHH
Confidence 445778888889988 55555555433 3322222 23332 23333345788899999888777777776654
No 433
>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=45.32 E-value=1.1e+02 Score=34.24 Aligned_cols=79 Identities=13% Similarity=0.012 Sum_probs=55.7
Q ss_pred cCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh--hhHHHH
Q 002364 162 YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQV 239 (930)
Q Consensus 162 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~~~ 239 (930)
.+.+++.+|+..........+.+.+.+++.|+++..-..+.++ .+.+.+...+..+++.++|+||-.+.+ -+.+.+
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~ 96 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPD--PSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKI 96 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 3568888887443333346788999999999877644445555 457788888889999999999976544 456655
Q ss_pred HHH
Q 002364 240 FSV 242 (930)
Q Consensus 240 ~~~ 242 (930)
+..
T Consensus 97 iA~ 99 (398)
T cd08178 97 MWL 99 (398)
T ss_pred HHH
Confidence 543
No 434
>cd08472 PBP2_CrgA_like_3 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 3. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene a
Probab=45.05 E-value=1.5e+02 Score=28.49 Aligned_cols=66 Identities=12% Similarity=0.049 Sum_probs=37.3
Q ss_pred eeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEec
Q 002364 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (930)
Q Consensus 492 G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~ 571 (930)
.+-.+++..+.++.+ .+++.+.. .+.+...+ ++++|+++..- +.....+. +.++....++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~v~~~~---------~~~~~~~l-~~~~D~~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~ 78 (202)
T cd08472 14 LLLIPALPDFLARYP-DIELDLGV---------SDRPVDLI-REGVDCVIRVG---ELADSSLV-ARRLGELRMVTCASP 78 (202)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEE---------CCCcchhh-cccccEEEEcC---CCCCccEE-EEEccceeEEEEECH
Confidence 455678888888875 24455432 12344444 56799988521 11222232 456677777777764
Q ss_pred c
Q 002364 572 R 572 (930)
Q Consensus 572 ~ 572 (930)
.
T Consensus 79 ~ 79 (202)
T cd08472 79 A 79 (202)
T ss_pred H
Confidence 3
No 435
>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=45.02 E-value=1.2e+02 Score=31.31 Aligned_cols=75 Identities=15% Similarity=0.082 Sum_probs=49.2
Q ss_pred EEEEEEc-----CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHH
Q 002364 167 VSVIFVD-----NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (930)
Q Consensus 167 v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~ 241 (930)
|+++..+ +.|.......+.+++++.|..+.... .... .......+..+.+.+.|.||+....... .++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~-~~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKF-VSDE----DEEEFELPSFLEDGKVDGIILLGGISTE--YIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEe-CCCC----hHHHHHHHHHHHHCCCCEEEEeCCCChH--HHH
Confidence 5665544 77888888999999999998876543 2211 3334445566667789999987644332 366
Q ss_pred HHHHcCc
Q 002364 242 VAKYLGM 248 (930)
Q Consensus 242 ~a~~~g~ 248 (930)
.+.+.|.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 6766664
No 436
>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=44.59 E-value=99 Score=31.91 Aligned_cols=76 Identities=13% Similarity=0.064 Sum_probs=52.9
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
|+++.. +++|-....+.+.+++++.|+.+..... . .+.+.....++.+.+.+.|.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---D--ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 566664 4667778889999999999988775422 1 224455677888888899999987544333 3578887
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7664
No 437
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=44.58 E-value=23 Score=25.88 Aligned_cols=29 Identities=21% Similarity=0.491 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhcccCCCC
Q 002364 587 PLMWTVTACFFVVVGIVVWILEHRINDEF 615 (930)
Q Consensus 587 ~~vW~~~~~~~~~~~~~~~~~~~~~~~~~ 615 (930)
.++|.++..+++++++++|.+..+..+.+
T Consensus 11 a~~~~l~~~~~~Figiv~wa~~p~~k~~f 39 (48)
T cd01324 11 ADSWGLLYLALFFLGVVVWAFRPGRKKAF 39 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcchhH
Confidence 36899999999999999999876555443
No 438
>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=44.36 E-value=22 Score=32.78 Aligned_cols=56 Identities=16% Similarity=0.274 Sum_probs=40.2
Q ss_pred HHHHHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEe
Q 002364 87 VEALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVR 143 (930)
Q Consensus 87 ~~a~~li~~--~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r 143 (930)
+.+.+++.+ +++.++|.... .....+..++++.++|+++....-..+. ..+|+++-
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~kg~i~-~~hp~~~G 61 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMGKGVIP-EDHPLFLG 61 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGTTSST-TTSTTEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCccccccC-CCCchhcc
Confidence 345566655 89999998877 8899999999999999987544433333 44576655
No 439
>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=44.30 E-value=88 Score=32.71 Aligned_cols=77 Identities=6% Similarity=-0.010 Sum_probs=52.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhh-HHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSVA 243 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~~~~a 243 (930)
|+++.. .++|.......+.+++++.|..+..... . .+.......++.+...++|.||+...... ....++.+
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~ 76 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---Q--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA 76 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH
Confidence 555553 4667778889999999999988764321 1 12444556788888889999998754332 24567777
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|.
T Consensus 77 ~~~~i 81 (282)
T cd06318 77 KAAGV 81 (282)
T ss_pred HHCCC
Confidence 77664
No 440
>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=44.10 E-value=83 Score=33.27 Aligned_cols=79 Identities=6% Similarity=0.137 Sum_probs=51.6
Q ss_pred EEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhh-HHHHHHH
Q 002364 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSV 242 (930)
Q Consensus 166 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~~~~ 242 (930)
||++|.. ++.|.......+.+++++.|..+.... ... .+.......+..+...++|.||+...... ...++++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 3566653 345666778888999999998876321 111 22444556677777788999988644332 3567788
Q ss_pred HHHcCc
Q 002364 243 AKYLGM 248 (930)
Q Consensus 243 a~~~g~ 248 (930)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 888774
No 441
>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=44.10 E-value=1e+02 Score=31.84 Aligned_cols=77 Identities=9% Similarity=0.071 Sum_probs=52.0
Q ss_pred EEEEEEc--CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh-hhHHHHHHHH
Q 002364 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~~~~a 243 (930)
|+++..+ +.|.....+.+.+++++.|+.+.... .. .+.......++++...++|.+|+.... ......++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~---~~--~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSI---AN--QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4555533 66777888999999999998876432 11 124445667777777889999996543 3335567777
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77664
No 442
>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=44.06 E-value=76 Score=33.38 Aligned_cols=76 Identities=13% Similarity=0.135 Sum_probs=52.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh-hhHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~~~~a 243 (930)
|++|.. .++|.....+.+.+++++.|..+.....- + .......++++...++|.||+.... .....+++++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~ 75 (289)
T cd01540 2 IGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDVP--D----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKA 75 (289)
T ss_pred eeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccCC--C----HHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHH
Confidence 566664 35677788899999999999887643211 2 3344456777778889999987543 3445678888
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|.
T Consensus 76 ~~~~i 80 (289)
T cd01540 76 KAYNM 80 (289)
T ss_pred HhCCC
Confidence 87764
No 443
>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=43.87 E-value=3.3e+02 Score=28.25 Aligned_cols=98 Identities=12% Similarity=0.274 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHh---hcceEEE-EEEecCCCCCCChhHHHHHHHHHHhCCce
Q 002364 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA---ERRCRIS-YKSGIPPESGVNTGYVMDLLVKVALMESR 225 (930)
Q Consensus 150 ~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~---~~g~~v~-~~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 225 (930)
...++.-++++.||-..+.-++--|.|..+.-..+.+.+. ...++.. ....+| -..+.++++++..+|
T Consensus 17 d~~r~Ae~l~~~Yg~~~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp--------Gt~~af~kIkekRpD 88 (275)
T PF12683_consen 17 DEYRGAEELIKKYGDVMIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP--------GTAEAFRKIKEKRPD 88 (275)
T ss_dssp HHHHHHHHHHHHHHHHEEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-----------HHHHHHHHHH-TT
T ss_pred HHHHHHHHHHHHhCcceEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc--------chHHHHHHHHhcCCC
Confidence 4455555667777764555444455576666555555555 4555533 333333 346778889988899
Q ss_pred EEEEEcCh--------------------hhHHHHHHHHHHcCcccCCeEEEE
Q 002364 226 VIVLHVSP--------------------SLGFQVFSVAKYLGMMGNGYVWIA 257 (930)
Q Consensus 226 viil~~~~--------------------~~~~~~~~~a~~~g~~~~~~~~i~ 257 (930)
++.+.+.+ ..+..+...|+++| ...++.+.
T Consensus 89 Il~ia~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mG--AktFVh~s 138 (275)
T PF12683_consen 89 ILLIAGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMG--AKTFVHYS 138 (275)
T ss_dssp SEEEESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT---S-EEEEE
T ss_pred eEEEcCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcC--CceEEEEe
Confidence 98887764 25677888999988 45667664
No 444
>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=43.81 E-value=2.8e+02 Score=28.55 Aligned_cols=127 Identities=12% Similarity=0.037 Sum_probs=70.6
Q ss_pred eEEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002364 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (930)
Q Consensus 31 ~i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~ 110 (930)
.-+||.+.+........-..|+.-++++.+. ..+.......+..+...+.+.+.++++.+..+|+... ...+.
T Consensus 120 ~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~-d~~A~ 192 (260)
T cd06304 120 TGKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAA-GGTGP 192 (260)
T ss_pred CCceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcC-CCCch
Confidence 3456776542222223335677777765431 2333233333333345666777888876667887744 44455
Q ss_pred HHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccE
Q 002364 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA 166 (930)
Q Consensus 111 ~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~ 166 (930)
.+...+.+.++-++++..+ .......|-+-....+....+...++.+..-.|+.
T Consensus 193 gv~~al~~~gv~vigfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~ 246 (260)
T cd06304 193 GVIQAAKEAGVYAIGVDSD--QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKG 246 (260)
T ss_pred HHHHHHHHcCCEEEeecCc--hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCC
Confidence 5566666667766765443 22222346666666677777777777766656643
No 445
>PRK10216 DNA-binding transcriptional regulator YidZ; Provisional
Probab=43.52 E-value=4.4e+02 Score=28.19 Aligned_cols=84 Identities=10% Similarity=-0.005 Sum_probs=50.0
Q ss_pred eeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeeee
Q 002364 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDIT 545 (930)
Q Consensus 466 ~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~ 545 (930)
.++|++.. .+ ...+-.+++..+.+..+ .+++.+.. ++- ...+.|.+|++|+++..-.
T Consensus 98 ~l~I~~~~--~~------------~~~~~~~~l~~f~~~~P-~v~v~i~~-------~~~-~~~~~l~~g~~D~~i~~~~ 154 (319)
T PRK10216 98 KFELAAES--PL------------MMIMLNALSKRIYQRYP-QATIKLRN-------WDY-DSLDAITRGEVDIGFTGRE 154 (319)
T ss_pred EEEEEecc--hh------------HHHHHHHHHHHHHHHCC-CCEEEEEe-------CCc-chHHHHhcCCccEEEecCC
Confidence 68888874 11 12456678888887764 24555543 222 3689999999999885321
Q ss_pred eecC-------ceeeeeecccccccceEEEEeccC
Q 002364 546 IVTN-------RTKIVDFSQPYAASGLVVVVPFRK 573 (930)
Q Consensus 546 ~t~~-------r~~~vdft~p~~~~~~~~lv~~~~ 573 (930)
.... ....+ -+.|+.....++++++..
T Consensus 155 ~~~~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~h 188 (319)
T PRK10216 155 SHPRSRELLSLLPLAI-DFEVLFSDLPCVWLRKDH 188 (319)
T ss_pred CCcccccccccccccc-ceeeeeecceEEEEeCCC
Confidence 1100 01112 234556677788887655
No 446
>PRK07377 hypothetical protein; Provisional
Probab=43.27 E-value=59 Score=31.19 Aligned_cols=61 Identities=13% Similarity=0.223 Sum_probs=43.6
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 542 (930)
..+|+|+... . ++ .+...+-.++.++.+.++++.+ ++++++ .+-..+.+.+.+|++|++.+
T Consensus 75 ~~~Rlgv~~~--~------~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEI--E------TE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEec--c------cc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEec
Confidence 4589998752 0 11 2223445678889999999955 566664 45889999999999998765
No 447
>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=43.24 E-value=67 Score=35.04 Aligned_cols=98 Identities=12% Similarity=0.040 Sum_probs=62.9
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...+.+.++.++.+++.+++....+-. ..+.+.+.+++.+..+ + ..+.++ .+.+.+...++.+++.++|.||-.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMH--TPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677888999999998875444433 6677888887765432 2 233333 4467788888888888999999775
Q ss_pred Ch--hhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 232 SP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 232 ~~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
.+ -+.+.++.... + ..++-|-|.
T Consensus 86 GGs~iD~aK~ia~~~--~---~p~i~IPTt 110 (337)
T cd08177 86 GGSTIDLAKAIALRT--G---LPIIAIPTT 110 (337)
T ss_pred CcHHHHHHHHHHHHh--c---CCEEEEcCC
Confidence 54 45555554332 2 345555544
No 448
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=43.22 E-value=1.6e+02 Score=27.99 Aligned_cols=80 Identities=14% Similarity=0.071 Sum_probs=56.1
Q ss_pred HHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHh-hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEE
Q 002364 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA-ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (930)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~-~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 229 (930)
.++.+..+.++++.+++.++- |..-.......+.+... -.|+++... +.++....+.+ ...+.+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~---------sv~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFF---------TIEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEE---------EHHHHHHHHHh-ccCCceEEEE
Confidence 467788889999999998873 33333345555555544 567776632 25566666776 5566789999
Q ss_pred EcChhhHHHHHH
Q 002364 230 HVSPSLGFQVFS 241 (930)
Q Consensus 230 ~~~~~~~~~~~~ 241 (930)
+-++.++..+++
T Consensus 86 ~~~~~da~~l~~ 97 (158)
T PRK09756 86 CRTPQTVRKLVE 97 (158)
T ss_pred ECCHHHHHHHHH
Confidence 999999998876
No 449
>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=43.04 E-value=1.2e+02 Score=31.89 Aligned_cols=77 Identities=9% Similarity=0.047 Sum_probs=54.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC-hhhHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~~~~~a 243 (930)
|+++.. ++.|.....+.+.+++++.|..+..... . .+.......++.+.+.++|.||+... .......++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNA---N--GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 566664 4667778889999999999998775432 1 12445567777777889999998754 33446678888
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 87664
No 450
>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=42.98 E-value=84 Score=32.98 Aligned_cols=80 Identities=10% Similarity=0.157 Sum_probs=50.2
Q ss_pred EEEEEEc---CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHH
Q 002364 167 VSVIFVD---NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a 243 (930)
+++|..+ ++|.......+.+++++.|..+......... ..+.......++.+.+.+.|.||+..........++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 6777754 4577777889999999999776643211110 01234445667777788999999875433334556666
Q ss_pred HHcC
Q 002364 244 KYLG 247 (930)
Q Consensus 244 ~~~g 247 (930)
.+.+
T Consensus 81 ~~~~ 84 (280)
T cd06303 81 LASG 84 (280)
T ss_pred HhCC
Confidence 6654
No 451
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=42.87 E-value=2.5e+02 Score=29.42 Aligned_cols=115 Identities=15% Similarity=0.085 Sum_probs=63.1
Q ss_pred CCCcEEeccc-CCCCCCCCCCCceEeecCCchHHHHHHHHH-HHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEE
Q 002364 119 LQVPLLSFGV-TDPTLSSLQYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (930)
Q Consensus 119 ~~iP~is~~a-~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~-l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (930)
.++|++..+. |...+.+.++. --..|. ...++.++++ +....-++|.++-. ..+.+.+.+.|.+.|..|.
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-RMDSEGLLALPLAQAPLQAVGLITA-----PGGRGLLAPTLQQRGARIL 165 (266)
T ss_pred cCCeEEEECHHHHHHHHHcCCC--ceeCCC-CCCcHHHHhChhhhCCCCEEEEEeC-----CCcHHHHHHHHHHCCCEEe
Confidence 4667766543 33334332221 122343 3457777776 55445577777653 3345788999999998887
Q ss_pred EEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 197 YKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 197 ~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
....|......... ..+..+.......++++.++.....+++.+.
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 65555322000011 2334443334455666777777777776654
No 452
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=42.53 E-value=4.5e+02 Score=27.97 Aligned_cols=174 Identities=10% Similarity=0.099 Sum_probs=90.8
Q ss_pred EEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEc--CC--Chh
Q 002364 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIG--PQ--CST 107 (930)
Q Consensus 33 ~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiG--p~--~s~ 107 (930)
+++++.--+.+....+.+.-.-+.+++ |.+.++...+...+.........++-++ .|.+|+= |. .-.
T Consensus 33 ~Laii~vg~d~as~~Yv~~k~k~~~~~--------Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id 104 (295)
T PRK14174 33 GLTVIIVGEDPASQVYVRNKAKSCKEI--------GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQID 104 (295)
T ss_pred eEEEEEeCCChHHHHHHHHHHHHHHHc--------CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCC
Confidence 555555444332233444444444443 6777777777666655555555455444 5777762 32 222
Q ss_pred HHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcC----ccEEEEEEEcCccccchHHH
Q 002364 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG----WNAVSVIFVDNEYGRNGVSA 183 (930)
Q Consensus 108 ~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~----w~~v~ii~~d~~~g~~~~~~ 183 (930)
.......+.-...|==+++........+...+.| .|- -+.++.+++++|+ -+++++|.-...-|+....-
T Consensus 105 ~~~i~~~I~p~KDVDGl~~~n~g~l~~~~~~~~~---~Pc---Tp~ail~ll~~y~i~l~Gk~vvViGrS~iVG~Pla~l 178 (295)
T PRK14174 105 EFAVTLAIDPAKDVDGFHPENLGRLVMGHLDKCF---VSC---TPYGILELLGRYNIETKGKHCVVVGRSNIVGKPMANL 178 (295)
T ss_pred HHHHHhcCCccccccccChhhHHHHhcCCCCCCc---CCC---CHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHH
Confidence 2222233333334333332211111111101221 232 2468899999875 58999999888888888777
Q ss_pred HHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC
Q 002364 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (930)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 232 (930)
|.+.++..+..|..... .+.++...+ .++|++|....
T Consensus 179 L~~~~~~~~atVt~~hs-------~t~~l~~~~-----~~ADIvI~Avg 215 (295)
T PRK14174 179 MLQKLKESNCTVTICHS-------ATKDIPSYT-----RQADILIAAIG 215 (295)
T ss_pred HHhccccCCCEEEEEeC-------CchhHHHHH-----HhCCEEEEecC
Confidence 76655556665553221 133333222 35899998873
No 453
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=42.32 E-value=23 Score=39.41 Aligned_cols=62 Identities=15% Similarity=0.284 Sum_probs=46.6
Q ss_pred HHHHHhhhhhcccCCCCCCCccccchhhhHHHHHHhhhcC--cCcccccchhhhHHHHHHHHHhhhhh
Q 002364 599 VVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSS 664 (930)
Q Consensus 599 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~s~R~~~~~w~~~~lil~~~ 664 (930)
+.+.+++++|+-.+ .+....+--++|++..+|..-| .-.|++.++|++...-.+.++++.+.
T Consensus 358 iFStlvY~~Ek~~~----~~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 358 IFSTLVYFAEKDEP----DTKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHhhhcCC----CCCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 33455666665543 3336678899999999998765 44999999999999999998877653
No 454
>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=41.77 E-value=2.5e+02 Score=24.81 Aligned_cols=85 Identities=11% Similarity=0.062 Sum_probs=45.4
Q ss_pred HHHhcCccEEEEEEEcCc-cccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhH
Q 002364 158 MVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG 236 (930)
Q Consensus 158 ~l~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~ 236 (930)
-+...|.+.|.-+-.|.+ .++.....+.++.++.|+...+. .+..+ ..+.+++....+.+.....-|.+.|.++..+
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~i-Pv~~~-~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHI-PVDGG-AITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE-----TT-T--HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEe-ecCCC-CCCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 345589999988886644 45566778889999999987643 22222 1446666666556665544455555566666
Q ss_pred HHHHHHHH
Q 002364 237 FQVFSVAK 244 (930)
Q Consensus 237 ~~~~~~a~ 244 (930)
..+...++
T Consensus 100 ~~l~~l~~ 107 (110)
T PF04273_consen 100 SALWALAQ 107 (110)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 55554443
No 455
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=41.18 E-value=3.6e+02 Score=30.14 Aligned_cols=141 Identities=15% Similarity=0.155 Sum_probs=74.4
Q ss_pred EEcCCChhHHHHHHHhhc-cCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHHHhcCccEEEEEEEc-Cccc
Q 002364 100 IIGPQCSTVAHIVSYVSN-ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-NEYG 177 (930)
Q Consensus 100 iiGp~~s~~~~~v~~~~~-~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d-~~~g 177 (930)
+++|.+.....++..+.. ...+=+|.|+. .-++|- +.........++.+...-+++.|+|.. ....
T Consensus 194 i~~p~~~~v~~~l~~l~~~~l~~~~i~p~H----------G~i~~~--~~~~~~~~Y~~~~~~~~~~kv~IvY~S~~GnT 261 (394)
T PRK11921 194 ILTPFSPLVIKKIEEILSLNLPVDMICPSH----------GVIWRD--NPLQIVEKYLEWAANYQENQVTILYDTMWNST 261 (394)
T ss_pred HHhhhHHHHHHHHHHHHhcCCCCCEEEcCC----------ccEEeC--CHHHHHHHHHHHhhcCCcCcEEEEEECCchHH
Confidence 456665555444444443 22344554432 123453 222333444444555556889999943 3344
Q ss_pred cchHHHHHHHHh--hcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh------hhHHHHHHHHHHcCcc
Q 002364 178 RNGVSALNDKLA--ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMM 249 (930)
Q Consensus 178 ~~~~~~l~~~l~--~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~~~~~a~~~g~~ 249 (930)
+..++.+.+.+. +.|+++... .+. ..+....+..+. ++|.+++.+.. +....++......++.
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~-~~~------~~~~~~i~~~~~--~~d~ii~GspT~~~~~~~~~~~~l~~l~~~~~~ 332 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLY-NSA------KSDKNDIITEVF--KSKAILVGSSTINRGILSSTAAILEEIKGLGFK 332 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEE-ECC------CCCHHHHHHHHH--hCCEEEEECCCcCccccHHHHHHHHHhhccCcC
Confidence 566788888887 567766432 222 233444455554 47888887654 2345566666665554
Q ss_pred cCCeEEEEeCcc
Q 002364 250 GNGYVWIATDWL 261 (930)
Q Consensus 250 ~~~~~~i~~~~~ 261 (930)
+.....+++-+|
T Consensus 333 ~K~~a~FGsygw 344 (394)
T PRK11921 333 NKKAAAFGSYGW 344 (394)
T ss_pred CCEEEEEecCCC
Confidence 433344444333
No 456
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=40.96 E-value=1.4e+02 Score=30.39 Aligned_cols=89 Identities=15% Similarity=0.175 Sum_probs=61.8
Q ss_pred CcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH-HHHhhccCC
Q 002364 42 STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI-VSYVSNELQ 120 (930)
Q Consensus 42 ~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~~-v~~~~~~~~ 120 (930)
+.+|++-..+++-.+.+|| |..++. ..|.- -..+...+++..+...||-...+-.+.. +...|...+
T Consensus 79 ~~iGk~Kv~vm~eri~~In------P~c~V~--~~~~f----~t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~k 146 (263)
T COG1179 79 GDIGKPKVEVMKERIKQIN------PECEVT--AINDF----ITEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNK 146 (263)
T ss_pred hhcccHHHHHHHHHHHhhC------CCceEe--ehHhh----hCHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcC
Confidence 3557788888999999998 434433 34433 3334456777778999998877755554 677899999
Q ss_pred CcEEecccCCCCCCCCCCCceEeecC
Q 002364 121 VPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (930)
Q Consensus 121 iP~is~~a~~~~l~~~~~p~~~r~~p 146 (930)
+|+||..++...+. |.-+++.-
T Consensus 147 i~vIss~Gag~k~D----PTri~v~D 168 (263)
T COG1179 147 IPVISSMGAGGKLD----PTRIQVAD 168 (263)
T ss_pred CCEEeeccccCCCC----CceEEeee
Confidence 99999776655443 66677654
No 457
>PF14981 FAM165: FAM165 family
Probab=40.93 E-value=65 Score=22.80 Aligned_cols=33 Identities=18% Similarity=0.046 Sum_probs=27.9
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 002364 826 LSSFWGLFLICGVACFIALVIYFLQIMQQLCKS 858 (930)
Q Consensus 826 l~~l~g~f~il~~g~~ls~~vf~~E~~~~~~~~ 858 (930)
++++--++|||+.-.++-++.|..--+|+++|.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 467778899999999999999999888887765
No 458
>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=40.67 E-value=1.2e+02 Score=31.62 Aligned_cols=79 Identities=9% Similarity=0.063 Sum_probs=51.0
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh-hhHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~~~~a 243 (930)
++++.. +++|.....+.+.+++++.|..+.....-..+ +...-...++++...+.+.+|+.... ......++.+
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~ 78 (275)
T cd06320 2 YGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSEG---DQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERA 78 (275)
T ss_pred eeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCCC---CHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHH
Confidence 566553 46677788889999999999887653221111 23344566777777789998876543 3334566777
Q ss_pred HHcCc
Q 002364 244 KYLGM 248 (930)
Q Consensus 244 ~~~g~ 248 (930)
.+.|.
T Consensus 79 ~~~~i 83 (275)
T cd06320 79 KKKGI 83 (275)
T ss_pred HHCCC
Confidence 77664
No 459
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=40.32 E-value=1.5e+02 Score=27.84 Aligned_cols=99 Identities=14% Similarity=0.050 Sum_probs=58.8
Q ss_pred ecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCC
Q 002364 144 TTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME 223 (930)
Q Consensus 144 ~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 223 (930)
+.+.-..++..+++.+...+..--.++.+.-.-.+..++.+.+.+.. ...+.....+.+. .+..++...+.++...+
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~--~~~~~~~~~l~~~~~~~ 99 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPC--GDIGLVSDYLEALTNEG 99 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCC--CCHHHHHHHHHHHHhcC
Confidence 34445678999999988765433344444444444555555444321 1233333344433 34566777777776545
Q ss_pred ceEEEEEcChhhHHHHHHHHHH
Q 002364 224 SRVIVLHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 224 ~~viil~~~~~~~~~~~~~a~~ 245 (930)
.+.+++++..+....++..+-.
T Consensus 100 ~~~vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 100 VASVLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred CCEEEEEeCCCCHHHHHHHHhC
Confidence 6677778888888888877743
No 460
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=40.04 E-value=1.7e+02 Score=30.21 Aligned_cols=98 Identities=10% Similarity=-0.017 Sum_probs=59.2
Q ss_pred hHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEE--ecCCCCCCChhHHHHHHHHHHhCCc
Q 002364 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKS--GIPPESGVNTGYVMDLLVKVALMES 224 (930)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~--~~~~~~~~~~~~~~~~l~~l~~~~~ 224 (930)
.+...++.+.+..-+ ++|.++....+ ..+...+.+++. +..|+... .+.+ .++ ..++++|.+++|
T Consensus 94 ~Dl~~~Ll~~a~~~~-~~vfllGgkp~----V~~~a~~~l~~~~p~l~ivg~h~GYf~~-----~e~-~~i~~~I~~s~p 162 (253)
T COG1922 94 TDLVEALLKRAAEEG-KRVFLLGGKPG----VAEQAAAKLRAKYPGLKIVGSHDGYFDP-----EEE-EAIVERIAASGP 162 (253)
T ss_pred HHHHHHHHHHhCccC-ceEEEecCCHH----HHHHHHHHHHHHCCCceEEEecCCCCCh-----hhH-HHHHHHHHhcCC
Confidence 345666666665553 67777764443 334444444443 34555443 2222 333 689999999999
Q ss_pred eEEEEEcChhhHHHHHHHHHHcCcccCCeEEEEeCc
Q 002364 225 RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (930)
Q Consensus 225 ~viil~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 260 (930)
|++++.+..+....++.+-.+.- +.-++++.++
T Consensus 163 dil~VgmG~P~QE~wi~~~~~~~---~~~v~igVGg 195 (253)
T COG1922 163 DILLVGMGVPRQEIWIARNRQQL---PVAVAIGVGG 195 (253)
T ss_pred CEEEEeCCCchhHHHHHHhHHhc---CCceEEeccc
Confidence 99999988887777776665432 2335666544
No 461
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=39.99 E-value=1.3e+02 Score=32.73 Aligned_cols=81 Identities=7% Similarity=-0.029 Sum_probs=53.9
Q ss_pred ccEEEEEEEc--CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhH-HHHH
Q 002364 164 WNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG-FQVF 240 (930)
Q Consensus 164 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~-~~~~ 240 (930)
-+.|+++..+ ++|.....+.+.+++++.|..+.....-.. .+.......++.+.+.+.|.||+....... ...+
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 3788888744 567777788999999999988775432111 123444566777778889999987644333 3455
Q ss_pred HHHHHcCc
Q 002364 241 SVAKYLGM 248 (930)
Q Consensus 241 ~~a~~~g~ 248 (930)
++.+.|.
T Consensus 123 -~~~~~gi 129 (343)
T PRK10936 123 -ELQAANI 129 (343)
T ss_pred -HHHHCCC
Confidence 6776664
No 462
>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=39.97 E-value=1.6e+02 Score=27.74 Aligned_cols=81 Identities=12% Similarity=0.142 Sum_probs=56.8
Q ss_pred HHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEE
Q 002364 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (930)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 230 (930)
.++.+..+.++++.+++.++- |..-.......+.....-.|+++... +.++....+.+-...+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~---------sve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFV---------SLEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEE---------EHHHHHHHHhCcCCCCceEEEEE
Confidence 367777789999999998874 33334445566666666678777643 24555556665455667999999
Q ss_pred cChhhHHHHHH
Q 002364 231 VSPSLGFQVFS 241 (930)
Q Consensus 231 ~~~~~~~~~~~ 241 (930)
-++.++..+++
T Consensus 83 k~~~da~~l~~ 93 (151)
T TIGR00854 83 RNPQDVLTLVE 93 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999998875
No 463
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=39.41 E-value=26 Score=41.81 Aligned_cols=67 Identities=15% Similarity=0.217 Sum_probs=52.6
Q ss_pred chhhhHHHHHHhhhcC--cCcccccchhhhHHHHHHHHHhhhhhhhhhhheeeec-----ccccCCCCChHHhh
Q 002364 623 VITILWFSLSTLFFAH--KENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTV-----QQLYSPINGIESLR 689 (930)
Q Consensus 623 ~~~~~~~~~~~l~~~~--~~~~~s~s~R~~~~~w~~~~lil~~~Yta~L~s~Lt~-----~~~~~~i~s~~dL~ 689 (930)
...++|+++.+|..-| ...+.+....++.++.+++++++.++--+|++++|.. ..+...+.+.++-.
T Consensus 295 Y~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs~tsR~~~~r~k~rd~e~~m 368 (727)
T KOG0498|consen 295 YVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQSLTSRTEEMRDKMRDAEQWM 368 (727)
T ss_pred HHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHHHhHHHHHHHHHHHHHHHHH
Confidence 5789999999998554 5588899999999999999999999999999999854 23333444444443
No 464
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=39.15 E-value=1.8e+02 Score=31.49 Aligned_cols=79 Identities=9% Similarity=0.073 Sum_probs=53.9
Q ss_pred cEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHH
Q 002364 165 NAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (930)
Q Consensus 165 ~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~ 242 (930)
+.++++.. +++|.......+.+++.+.|..+..... . .+.......++.+...+.|.||+..........+..
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 139 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREM 139 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHH
Confidence 57888875 3667778888999999999987654211 1 124455677778888889999987544333456677
Q ss_pred HHHcCc
Q 002364 243 AKYLGM 248 (930)
Q Consensus 243 a~~~g~ 248 (930)
+.+.|.
T Consensus 140 l~~~~i 145 (342)
T PRK10014 140 AEEKGI 145 (342)
T ss_pred HhhcCC
Confidence 776654
No 465
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=39.08 E-value=2.5e+02 Score=30.95 Aligned_cols=112 Identities=5% Similarity=-0.020 Sum_probs=67.6
Q ss_pred CceEeecCCchHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEE--EecCCCCCCChhHHHHHH
Q 002364 139 PFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYK--SGIPPESGVNTGYVMDLL 216 (930)
Q Consensus 139 p~~~r~~p~~~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~--~~~~~~~~~~~~~~~~~l 216 (930)
|+-+...... ...+.+.++.++.+++.+|++... .....+.+.+.+++.|+.+... ....++ .+.+.+...+
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~--~~~~~v~~~~ 82 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQY--KSLETLEKIY 82 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCC--CCHHHHHHHH
Confidence 4444554442 344566677778899998885443 3456788888998888765421 122222 3467788888
Q ss_pred HHHHhCCc---eEEEEEcCh--hhHHHHHHHHHHcCcccCCeEEEEeC
Q 002364 217 VKVALMES---RVIVLHVSP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 217 ~~l~~~~~---~viil~~~~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 259 (930)
+.+++.+. |.||..+.+ -+++.++......| ..++-|-|.
T Consensus 83 ~~~~~~~~~r~d~IIavGGGsv~D~aK~iA~~~~~g---ip~i~IPTT 127 (358)
T PRK00002 83 DALLEAGLDRSDTLIALGGGVIGDLAGFAAATYMRG---IRFIQVPTT 127 (358)
T ss_pred HHHHHcCCCCCCEEEEEcCcHHHHHHHHHHHHhcCC---CCEEEcCch
Confidence 88877654 888876554 45555555434444 234444443
No 466
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=39.04 E-value=1.8e+02 Score=31.20 Aligned_cols=80 Identities=9% Similarity=0.074 Sum_probs=51.6
Q ss_pred ccEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHH
Q 002364 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (930)
Q Consensus 164 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~ 241 (930)
-+.|+++.. ++.|.......+.+++++.|..+...... . ....-...++.+...+.|.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~--~---~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD--D---QPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC--C---CHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 357888774 35566777889999999999887653221 1 1333445667777778999998654322234566
Q ss_pred HHHHcCc
Q 002364 242 VAKYLGM 248 (930)
Q Consensus 242 ~a~~~g~ 248 (930)
++.+.|.
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 6666553
No 467
>PRK09701 D-allose transporter subunit; Provisional
Probab=38.63 E-value=1.7e+02 Score=31.29 Aligned_cols=85 Identities=12% Similarity=0.074 Sum_probs=57.6
Q ss_pred hcCccEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHH
Q 002364 161 YYGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGF 237 (930)
Q Consensus 161 ~~~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~ 237 (930)
.+.-..++++.. +++|.....+.+.+++++.|+.+..... +.. .+.......++.+...++|.||+..... ...
T Consensus 21 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSE--GDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred hccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 455678999884 4678888899999999999988764321 111 1234455667778778899999875443 333
Q ss_pred HHHHHHHHcCc
Q 002364 238 QVFSVAKYLGM 248 (930)
Q Consensus 238 ~~~~~a~~~g~ 248 (930)
..+.++.+.|+
T Consensus 98 ~~l~~~~~~gi 108 (311)
T PRK09701 98 MPVARAWKKGI 108 (311)
T ss_pred HHHHHHHHCCC
Confidence 45666777664
No 468
>cd00423 Pterin_binding Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=38.61 E-value=2.8e+02 Score=28.86 Aligned_cols=18 Identities=22% Similarity=0.420 Sum_probs=10.4
Q ss_pred HHHHHHHHhcCccEEEEEE
Q 002364 153 TAVAEMVSYYGWNAVSVIF 171 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~ 171 (930)
..+++++++++. .+.++.
T Consensus 110 ~~~~~l~~~~~~-~vV~m~ 127 (258)
T cd00423 110 PEMAPLAAEYGA-PVVLMH 127 (258)
T ss_pred hHHHHHHHHcCC-CEEEEC
Confidence 456667777775 344444
No 469
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=38.09 E-value=2e+02 Score=27.34 Aligned_cols=80 Identities=14% Similarity=0.123 Sum_probs=56.7
Q ss_pred HHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEE
Q 002364 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (930)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 230 (930)
.++.+..+.++++.+++.++- |..-.......+.....-.|+++... +.++....+.+ ...+.++++++
T Consensus 15 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sv~~a~~~l~~-~~~~~~v~il~ 83 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVAN-DEVAEDPVQQNLMEMVLAEGIAVRFW---------TLQKVIDNIHR-AADRQKILLVC 83 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEc-chhcCCHHHHHHHHhhCCCCCeEEEE---------EHHHHHHHHhc-cCCCceEEEEE
Confidence 367788889999999988763 33334445566666666677776643 25566667776 55667899999
Q ss_pred cChhhHHHHHH
Q 002364 231 VSPSLGFQVFS 241 (930)
Q Consensus 231 ~~~~~~~~~~~ 241 (930)
-++.++..+++
T Consensus 84 k~~~d~~~l~~ 94 (157)
T PRK11425 84 KTPADFLTLVK 94 (157)
T ss_pred CCHHHHHHHHH
Confidence 99999988865
No 470
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=37.80 E-value=1.3e+02 Score=31.87 Aligned_cols=72 Identities=11% Similarity=0.128 Sum_probs=47.3
Q ss_pred cCccccchHHHHHHHHhhcce-EEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh-hhHHHHHHHHHHcCc
Q 002364 173 DNEYGRNGVSALNDKLAERRC-RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVAKYLGM 248 (930)
Q Consensus 173 d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~~~~~a~~~g~ 248 (930)
++.|.....+.+.+++++.|. .+.... +.. .+.......++.+.+.++|.||+.... ......++++++.|.
T Consensus 9 ~~~f~~~~~~gi~~~a~~~g~~~~i~~~--~~~--~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 9 GNPFFEAANKGAEEAAKELGSVYIIYTG--PTG--TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CCHHHHHHHHHHHHHHHHhCCeeEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 456777778889999999984 443221 111 124445567788877889999886543 334567788887774
No 471
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=37.77 E-value=5.3e+02 Score=29.40 Aligned_cols=145 Identities=12% Similarity=0.037 Sum_probs=85.2
Q ss_pred hHHHHHHHHHHHhcCcEEEE--c----CCC---hhHHHHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHH
Q 002364 82 GFIGMVEALRFMETDIVAII--G----PQC---STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQM 152 (930)
Q Consensus 82 ~~~a~~~a~~li~~~v~aii--G----p~~---s~~~~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~ 152 (930)
+........++.+.++.+++ . ... ......+...+.+.++.++.|.+..-.-.... ......+..
T Consensus 74 ~~~~~~~l~e~~~~gv~~~vi~s~gf~e~g~~g~~~~~~l~~~a~~~girvlGPnc~G~~~~~~~--l~~~~~~~~---- 147 (447)
T TIGR02717 74 AKYVPQVVEECGEKGVKGAVVITAGFKEVGEEGAELEQELVEIARKYGMRLLGPNCLGIINTHIK--LNATFAPTM---- 147 (447)
T ss_pred HHHHHHHHHHHHhcCCCEEEEECCCccccCcchHHHHHHHHHHHHHcCCEEEecCeeeEecCCCC--eeeecCCCC----
Confidence 44455566677766654443 1 111 12346788889999999998765431111111 011111110
Q ss_pred HHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh-CCceEEEEEc
Q 002364 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (930)
Q Consensus 153 ~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~ 231 (930)
..--.|++|.+....+ ..+.+.+.++|+-++....+-.. -+.++...|+.+.+ .++++|+++.
T Consensus 148 ---------~~~G~valvsqSG~~~----~~~~~~~~~~g~g~s~~vs~Gn~---~d~~~~d~l~~l~~D~~t~~I~ly~ 211 (447)
T TIGR02717 148 ---------PKKGGIAFISQSGALL----TALLDWAEKNGVGFSYFVSLGNK---ADIDESDLLEYLADDPDTKVILLYL 211 (447)
T ss_pred ---------CCCCCEEEEechHHHH----HHHHHHHHhcCCCcceEEECCch---hhCCHHHHHHHHhhCCCCCEEEEEe
Confidence 1224699998766543 44556667777776665554433 13466677777654 6789999988
Q ss_pred Ch-hhHHHHHHHHHHcCc
Q 002364 232 SP-SLGFQVFSVAKYLGM 248 (930)
Q Consensus 232 ~~-~~~~~~~~~a~~~g~ 248 (930)
.. .+...|++.+++...
T Consensus 212 E~~~~~~~f~~aa~~a~~ 229 (447)
T TIGR02717 212 EGIKDGRKFLKTAREISK 229 (447)
T ss_pred cCCCCHHHHHHHHHHHcC
Confidence 76 567889988887653
No 472
>PRK10086 DNA-binding transcriptional regulator DsdC; Provisional
Probab=37.67 E-value=4.2e+02 Score=28.23 Aligned_cols=79 Identities=6% Similarity=-0.012 Sum_probs=47.9
Q ss_pred ceeEEEecCCccccceeeeccCCcceEeeeHHHHHHHHHhCCCcccEEEEecCCCCCCCCHHHHHHHHHcCcccEEEeee
Q 002364 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (930)
Q Consensus 465 ~~lrv~~~~~~~~~p~~~~~~~~~~~~G~~~dl~~~l~~~l~f~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 544 (930)
+.+|||+... . ...+...++..+.++.+ .++++... +++. ..+.+|++|+++..-
T Consensus 102 g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~~~~-------~~~~---~~l~~~~~Di~i~~~ 156 (311)
T PRK10086 102 GTLTVYSRPS--I------------AQCWLVPRLADFTRRYP-SISLTILT-------GNEN---VNFQRAGIDLAIYFD 156 (311)
T ss_pred ceEEEEecch--H------------HHHHHHHHHHHHHHHCC-CeEEEEEe-------CCcc---cCCccCCccEEEEeC
Confidence 4699998841 1 13556677888888875 35555543 1121 157889999998532
Q ss_pred eeecCceeeeeecccccccceEEEEecc
Q 002364 545 TIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 545 ~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
. .....+ -..|+....+++++++.
T Consensus 157 ~---~~~~~l-~~~~l~~~~~~lv~~~~ 180 (311)
T PRK10086 157 D---APSAQL-THHFLMDEEILPVCSPE 180 (311)
T ss_pred C---CCCCCc-eEEEeecccEEEecCHH
Confidence 2 122223 24577777888887653
No 473
>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=37.50 E-value=87 Score=34.05 Aligned_cols=78 Identities=9% Similarity=0.012 Sum_probs=51.1
Q ss_pred HhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh--hhHH
Q 002364 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGF 237 (930)
Q Consensus 160 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~ 237 (930)
..++.+++.+|+....+..+..+.+.+.+++. +.+..-..+.++ .+.+.+...++.+++.++|.||-.+.+ -+++
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~a 94 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAA 94 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 44556898888754333334677888888876 554333334444 457778888888888999999976554 4555
Q ss_pred HHH
Q 002364 238 QVF 240 (930)
Q Consensus 238 ~~~ 240 (930)
.++
T Consensus 95 Ka~ 97 (332)
T cd08180 95 KAI 97 (332)
T ss_pred HHH
Confidence 544
No 474
>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=37.41 E-value=87 Score=34.77 Aligned_cols=78 Identities=9% Similarity=-0.005 Sum_probs=53.9
Q ss_pred cCccEEEEEEEcCccc-cchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh--hhHHH
Q 002364 162 YGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQ 238 (930)
Q Consensus 162 ~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~~ 238 (930)
++.+++.+|+....+- .+..+.+.+.+++.|+++..-..+.++ .+.+.+...++.+++.++|.||-.+.+ -++++
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK 98 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGGSPIDAAK 98 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHH
Confidence 3448888887444333 245678899999888876543344444 457788888999999999999987655 45555
Q ss_pred HHH
Q 002364 239 VFS 241 (930)
Q Consensus 239 ~~~ 241 (930)
.+.
T Consensus 99 ~ia 101 (375)
T cd08179 99 AMW 101 (375)
T ss_pred HHH
Confidence 544
No 475
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=37.35 E-value=74 Score=30.96 Aligned_cols=28 Identities=21% Similarity=0.484 Sum_probs=26.1
Q ss_pred EEEEcCCChhHHHHHHHhhccCCCcEEe
Q 002364 98 VAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (930)
Q Consensus 98 ~aiiGp~~s~~~~~v~~~~~~~~iP~is 125 (930)
+.|+||.+++-+.....+++.+++|+|+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hls 30 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLD 30 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence 5789999999999999999999999997
No 476
>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=37.19 E-value=77 Score=29.88 Aligned_cols=82 Identities=15% Similarity=0.108 Sum_probs=60.6
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
++.+..++++++.+++.++- |..........+.+...-.|+++... +.++....+.+....+.++++++-
T Consensus 14 GQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sv~~a~~~l~~~~~~~~~v~ii~k 83 (151)
T PF03830_consen 14 GQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIF---------SVEEAIEKLKKPEYSKKRVLIIVK 83 (151)
T ss_dssp TTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE----------HHHHHHHHCGGGGTTEEEEEEES
T ss_pred eeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEE---------EHHHHHHHHHhcccCCceEEEEEC
Confidence 56778889999999999874 44445556666777666778887643 256677777777667789999999
Q ss_pred ChhhHHHHHHHH
Q 002364 232 SPSLGFQVFSVA 243 (930)
Q Consensus 232 ~~~~~~~~~~~a 243 (930)
++.++..++++-
T Consensus 84 ~~~d~~~l~~~g 95 (151)
T PF03830_consen 84 SPEDALRLVEAG 95 (151)
T ss_dssp SHHHHHHHHHTT
T ss_pred CHHHHHHHHhcC
Confidence 999998877644
No 477
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=37.15 E-value=2.5e+02 Score=27.84 Aligned_cols=86 Identities=8% Similarity=-0.082 Sum_probs=46.3
Q ss_pred EEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcC----hhhHHHHHH
Q 002364 166 AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS----PSLGFQVFS 241 (930)
Q Consensus 166 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~----~~~~~~~~~ 241 (930)
+|.+....++.-.-+..-+...++..|+++.+-.. +......++.+++.++|+|-+.+. ......+++
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG~--------~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~ 157 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLGR--------DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIND 157 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECCC--------CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHH
Confidence 44444334444444455666667777777664321 112334455555667777776543 244566677
Q ss_pred HHHHcCcccCCeEEEEeC
Q 002364 242 VAKYLGMMGNGYVWIATD 259 (930)
Q Consensus 242 ~a~~~g~~~~~~~~i~~~ 259 (930)
+.++.|....-.+|+++.
T Consensus 158 ~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 158 KLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHHcCCCCCCEEEEECh
Confidence 777766543344555543
No 478
>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=37.07 E-value=2.1e+02 Score=27.39 Aligned_cols=65 Identities=11% Similarity=0.100 Sum_probs=44.3
Q ss_pred ccEEEEEEEcCcccc---chHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHh-CCceEEEEEcC
Q 002364 164 WNAVSVIFVDNEYGR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVS 232 (930)
Q Consensus 164 w~~v~ii~~d~~~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~ 232 (930)
..++++|...|.-+. .....+...+++.|.++.....++.+ ...+...+++..+ .+.|+||+.+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd----~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD----IYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 457888765543222 12456777888899988877777644 7778888877643 56899988644
No 479
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=36.90 E-value=5.8e+02 Score=27.72 Aligned_cols=132 Identities=16% Similarity=0.129 Sum_probs=74.6
Q ss_pred EEEEEEeeCCCcchhhHHHHHHHHHHHHhcCCCCCCCCEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCChhHH
Q 002364 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIGPQCSTVA 109 (930)
Q Consensus 32 i~IG~i~~~s~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~aiiGp~~s~~~ 109 (930)
-+++.+|...+ ...+..|+.|+.++ +|.-+.+-..++.-.-...+....+.++. .++++=.|. .
T Consensus 46 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R~~~----~ 111 (336)
T PRK03515 46 KNIALIFEKDS---TRTRCSFEVAAYDQ-------GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGYG----Q 111 (336)
T ss_pred CEEEEEecCCC---hhHHHHHHHHHHHc-------CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEEeCC----h
Confidence 44778888765 47889999999886 34444432222222222334444445544 344444443 2
Q ss_pred HHHHHhhccCCCcEEecccCCCCCCCCCCCceEeecCCchHHHHHHHHHH---HhcC---cc--EEEEEEEcCccccchH
Q 002364 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV---SYYG---WN--AVSVIFVDNEYGRNGV 181 (930)
Q Consensus 110 ~~v~~~~~~~~iP~is~~a~~~~l~~~~~p~~~r~~p~~~~~~~ai~~~l---~~~~---w~--~v~ii~~d~~~g~~~~ 181 (930)
..+..+++...+|+|.- .+ +...| .+++++++ +++| ++ +|+++. |. ..+..
T Consensus 112 ~~~~~~a~~~~vPVINa--~~----~~~HP------------tQaLaDl~Ti~e~~g~~~l~g~~ia~vG--D~-~~~v~ 170 (336)
T PRK03515 112 EIVETLAEYAGVPVWNG--LT----NEFHP------------TQLLADLLTMQEHLPGKAFNEMTLAYAG--DA-RNNMG 170 (336)
T ss_pred HHHHHHHHhCCCCEEEC--CC----CCCCh------------HHHHHHHHHHHHHhCCCCcCCCEEEEeC--CC-cCcHH
Confidence 34566677788999963 22 12223 46677763 4554 33 555553 32 12467
Q ss_pred HHHHHHHhhcceEEEEE
Q 002364 182 SALNDKLAERRCRISYK 198 (930)
Q Consensus 182 ~~l~~~l~~~g~~v~~~ 198 (930)
..+...+...|.++...
T Consensus 171 ~Sl~~~~~~~g~~v~~~ 187 (336)
T PRK03515 171 NSLLEAAALTGLDLRLV 187 (336)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 77777888888877654
No 480
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=36.74 E-value=1.8e+02 Score=28.74 Aligned_cols=65 Identities=12% Similarity=0.067 Sum_probs=42.1
Q ss_pred ccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh
Q 002364 164 WNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (930)
Q Consensus 164 w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 233 (930)
-++|+++..|. |-.+..++++...+..|+.+.... ... .........+++.+..+.|+|++...+
T Consensus 29 ~~~v~lis~D~-~R~ga~eQL~~~a~~l~vp~~~~~--~~~--~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISADT-YRIGAVEQLKTYAEILGVPFYVAR--TES--DPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEEST-SSTHHHHHHHHHHHHHTEEEEESS--TTS--CHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCCC-CCccHHHHHHHHHHHhccccchhh--cch--hhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 47888887654 666778999999998897765311 111 112335566777777789999998775
No 481
>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=36.70 E-value=1.7e+02 Score=30.33 Aligned_cols=77 Identities=9% Similarity=0.072 Sum_probs=51.3
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
|+++.. ++.|-......+.+.+++.|..+..... . .+.......++.+.+.+.+.||+.........+++.++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---L--NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---C--CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 556663 4667778889999999999988765422 1 12444556777787788999888654333345666766
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.+.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 6553
No 482
>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=36.69 E-value=2e+02 Score=27.04 Aligned_cols=82 Identities=11% Similarity=0.048 Sum_probs=57.3
Q ss_pred HHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEE
Q 002364 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (930)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 230 (930)
.++.+..+.++++.+++.++- |..-.......+.....-.|+++... +.++....+.+-+..+.++++++
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sve~a~~~l~~~~~~~~~v~il~ 81 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN-DEVANDELRKTLLKLAAPPGVKLRIF---------TVEKAIEAINSPKYDKQRVFLLF 81 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCeEEEE---------EHHHHHHHHhCcCCCCceEEEEE
Confidence 367788889999999998873 33334445566666666677776643 24556566665455667999999
Q ss_pred cChhhHHHHHHH
Q 002364 231 VSPSLGFQVFSV 242 (930)
Q Consensus 231 ~~~~~~~~~~~~ 242 (930)
-++.++..+++.
T Consensus 82 k~~~~~~~l~~~ 93 (151)
T cd00001 82 KNPQDVLRLVEG 93 (151)
T ss_pred CCHHHHHHHHHc
Confidence 999999988763
No 483
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=36.64 E-value=3.5e+02 Score=27.05 Aligned_cols=87 Identities=14% Similarity=0.106 Sum_probs=52.3
Q ss_pred HHHHHHHHHHhcCccEEEEEEEcCc--cccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEE
Q 002364 151 QMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (930)
Q Consensus 151 ~~~ai~~~l~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 228 (930)
.-.-+++.++.. -++|+.|=.-.. --....+..++++++.|..+.......+. ..++.+.|. +.|+|+
T Consensus 20 ~~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~~~----~~~Ie~~l~-----~~d~Iy 89 (224)
T COG3340 20 FLPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSKPP----LAAIENKLM-----KADIIY 89 (224)
T ss_pred hhHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccCCC----HHHHHHhhh-----hccEEE
Confidence 334455555555 468887742211 11336789999999999988754433322 444444332 467877
Q ss_pred EEcChhhHHHHHHHHHHcCcc
Q 002364 229 LHVSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 229 l~~~~~~~~~~~~~a~~~g~~ 249 (930)
+. +.....++++.++.|+.
T Consensus 90 Vg--GGNTF~LL~~lke~gld 108 (224)
T COG3340 90 VG--GGNTFNLLQELKETGLD 108 (224)
T ss_pred EC--CchHHHHHHHHHHhCcH
Confidence 75 34667777777777754
No 484
>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=36.58 E-value=1.8e+02 Score=30.03 Aligned_cols=76 Identities=7% Similarity=0.022 Sum_probs=50.7
Q ss_pred EEEEE--EcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIF--VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~--~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
++++. .+++|.....+.+.+++++.|..+..... . ...+.-...++.+.+.+.|.||+....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---H--HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---C--CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 44544 25678888889999999999988765322 1 123445567777778899999987643222 2377777
Q ss_pred HcCc
Q 002364 245 YLGM 248 (930)
Q Consensus 245 ~~g~ 248 (930)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 7664
No 485
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=36.26 E-value=36 Score=31.43 Aligned_cols=32 Identities=16% Similarity=0.293 Sum_probs=27.2
Q ss_pred cEEEEcCCChhHHHHHHHhhccCCCcEEeccc
Q 002364 97 IVAIIGPQCSTVAHIVSYVSNELQVPLLSFGV 128 (930)
Q Consensus 97 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a 128 (930)
|+.++||.+|+=+..+..++...+.++|+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~D~ 32 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQDE 32 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEEEHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEEeHHH
Confidence 57889999999999999999888888887544
No 486
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=36.23 E-value=2.6e+02 Score=28.99 Aligned_cols=88 Identities=14% Similarity=0.087 Sum_probs=57.5
Q ss_pred HHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc
Q 002364 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (930)
Q Consensus 152 ~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 231 (930)
...++......|-.-+.+++ |..|..+..+.++..-+..++.+-.+..+- +. -++.+.+..++|.|++..
T Consensus 70 ~~~~a~~y~~~GA~aiSVlT-e~~~F~Gs~~dL~~v~~~~~~PvL~KDFIi-------d~--~QI~eA~~~GADaVLLI~ 139 (254)
T PF00218_consen 70 PAEIAKAYEEAGAAAISVLT-EPKFFGGSLEDLRAVRKAVDLPVLRKDFII-------DP--YQIYEARAAGADAVLLIA 139 (254)
T ss_dssp HHHHHHHHHHTT-SEEEEE---SCCCHHHHHHHHHHHHHSSS-EEEES----------SH--HHHHHHHHTT-SEEEEEG
T ss_pred HHHHHHHHHhcCCCEEEEEC-CCCCCCCCHHHHHHHHHHhCCCcccccCCC-------CH--HHHHHHHHcCCCEeehhH
Confidence 46667777788888888886 556777778888887777777766543322 12 256666778999999865
Q ss_pred C---hhhHHHHHHHHHHcCcc
Q 002364 232 S---PSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 232 ~---~~~~~~~~~~a~~~g~~ 249 (930)
. ......++..|.++||.
T Consensus 140 ~~L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 140 AILSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp GGSGHHHHHHHHHHHHHTT-E
T ss_pred HhCCHHHHHHHHHHHHHcCCC
Confidence 4 34457899999999984
No 487
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=35.96 E-value=7.1e+02 Score=28.40 Aligned_cols=56 Identities=18% Similarity=0.148 Sum_probs=32.4
Q ss_pred EEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhH
Q 002364 166 AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG 236 (930)
Q Consensus 166 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~ 236 (930)
.+.++.+ -+. .....++..|++.|++|.. .++ . .+ ..++......++++..+|-..
T Consensus 195 ~vnl~G~-~~~--~~~~~i~~lL~~lGI~v~~--~lp-~--~~-------~~eL~~~~~~~~~c~~~P~ls 250 (457)
T CHL00073 195 PLVLFGS-LPS--TVASQLTLELKRQGIKVSG--WLP-S--QR-------YTDLPSLGEGVYVCGVNPFLS 250 (457)
T ss_pred cEEEEEe-cCc--ccHHHHHHHHHHcCCeEeE--EeC-C--CC-------HHHHHhhCcccEEEEcCcchH
Confidence 3555543 223 3478899999999999884 334 2 12 333444445566665665433
No 488
>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=35.93 E-value=1.6e+02 Score=30.56 Aligned_cols=77 Identities=10% Similarity=0.041 Sum_probs=52.0
Q ss_pred EEEEEE---cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChh-hHHHHHHH
Q 002364 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (930)
Q Consensus 167 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~~~~~ 242 (930)
|++|.. +++|.....+.+.+++++.|+.+..... . .........++.+...++|.||+..... .....++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---N--GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---C--cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 455553 4578888889999999999988765321 1 2244455667777778899998865433 33456777
Q ss_pred HHHcCc
Q 002364 243 AKYLGM 248 (930)
Q Consensus 243 a~~~g~ 248 (930)
+.+.|.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777664
No 489
>PRK14737 gmk guanylate kinase; Provisional
Probab=35.93 E-value=3.4e+02 Score=26.56 Aligned_cols=89 Identities=19% Similarity=0.234 Sum_probs=46.7
Q ss_pred CcEEEEcCCChhHHHHHHHhhccCCCcEEecccCCC--CCCC-CCCCceEeecCCchHHHHHHHHHHHh---cCccEEEE
Q 002364 96 DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDP--TLSS-LQYPFFVRTTQSDSYQMTAVAEMVSY---YGWNAVSV 169 (930)
Q Consensus 96 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~a~~~--~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~---~~w~~v~i 169 (930)
.+++++||.+++-..-+..+++...-...+...|+. ...+ .+-.|+|-+. .+. .+.+.. ..|..
T Consensus 5 ~~ivl~GpsG~GK~tl~~~l~~~~~~~~~~v~~TTR~~r~gE~~G~dY~fvs~----~~F---~~~i~~~~f~e~~~--- 74 (186)
T PRK14737 5 KLFIISSVAGGGKSTIIQALLEEHPDFLFSISCTTRAPRPGDEEGKTYFFLTI----EEF---KKGIADGEFLEWAE--- 74 (186)
T ss_pred eEEEEECCCCCCHHHHHHHHHhcCCccccccCccCCCCCCCCCCCceeEeCCH----HHH---HHHHHcCCeEEEEE---
Confidence 578899999999888888887765211222233332 2222 3445666632 222 222221 12222
Q ss_pred EEEcCccccchHHHHHHHHhhcceEEE
Q 002364 170 IFVDNEYGRNGVSALNDKLAERRCRIS 196 (930)
Q Consensus 170 i~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (930)
|.++-||... +.+.+.+.+..++|.
T Consensus 75 -~~g~~YGt~~-~~i~~~~~~g~~~i~ 99 (186)
T PRK14737 75 -VHDNYYGTPK-AFIEDAFKEGRSAIM 99 (186)
T ss_pred -ECCeeecCcH-HHHHHHHHcCCeEEE
Confidence 3355566543 556677766656554
No 490
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=35.82 E-value=95 Score=31.90 Aligned_cols=86 Identities=19% Similarity=0.116 Sum_probs=64.2
Q ss_pred HHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEE---
Q 002364 154 AVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH--- 230 (930)
Q Consensus 154 ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~--- 230 (930)
.+++..+++|-.-+.+++ |..|.++-.+.++..-+...+.|--...+. . . -++...+..++|+|.+.
T Consensus 70 ~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFii-D------~--yQI~~Ar~~GADavLLI~~~ 139 (254)
T COG0134 70 EIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFII-D------P--YQIYEARAAGADAVLLIVAA 139 (254)
T ss_pred HHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCC-C------H--HHHHHHHHcCcccHHHHHHh
Confidence 377778888888888876 777889999999888777777765443332 1 1 25666677899998874
Q ss_pred cChhhHHHHHHHHHHcCcc
Q 002364 231 VSPSLGFQVFSVAKYLGMM 249 (930)
Q Consensus 231 ~~~~~~~~~~~~a~~~g~~ 249 (930)
.+......++..|.++||.
T Consensus 140 L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 140 LDDEQLEELVDRAHELGME 158 (254)
T ss_pred cCHHHHHHHHHHHHHcCCe
Confidence 4456688899999999985
No 491
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=35.54 E-value=1.6e+02 Score=31.93 Aligned_cols=85 Identities=9% Similarity=0.071 Sum_probs=54.3
Q ss_pred HHHHHHHHhcCc-cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEE-ecCCCCCCChhHHHHHHHHHHhCCceEEEEE
Q 002364 153 TAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS-GIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (930)
Q Consensus 153 ~ai~~~l~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~-~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 230 (930)
..+.++++.++. +++.+|++...+... .+.+.+.+++.|+++.... ...++ .+.+.+...+..+++ ++|+||-.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~~-~~~i~~~L~~~~~~~~i~~~~~~~~--p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKVA-GKEIIERLESNNFTKEVLERDSLLI--PDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHHH-HHHHHHHHHHcCCeEEEEecCCCCC--CCHHHHHHHHHHhhc-CCCEEEEE
Confidence 345566777775 788888755443332 4788889988887554211 22222 346777888888877 88999877
Q ss_pred cCh--hhHHHHHH
Q 002364 231 VSP--SLGFQVFS 241 (930)
Q Consensus 231 ~~~--~~~~~~~~ 241 (930)
+.+ -+.+.++.
T Consensus 88 GGGsv~D~aK~iA 100 (332)
T cd08549 88 GSGTIIDLVKFVS 100 (332)
T ss_pred CCcHHHHHHHHHH
Confidence 654 45555554
No 492
>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=35.36 E-value=1.7e+02 Score=31.12 Aligned_cols=78 Identities=13% Similarity=0.180 Sum_probs=51.6
Q ss_pred EEEEEEE--cCccccchHHHHHHHHhh--cceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEc-ChhhHHHHH
Q 002364 166 AVSVIFV--DNEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVF 240 (930)
Q Consensus 166 ~v~ii~~--d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~~~ 240 (930)
+|+++.. ++.|-......+.+++++ .|+.+.... .. .+...-...++.+...++|.||+.. ++......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AK--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 3566664 355666778889999998 777765432 22 2244455677888888999988864 333345677
Q ss_pred HHHHHcCc
Q 002364 241 SVAKYLGM 248 (930)
Q Consensus 241 ~~a~~~g~ 248 (930)
+++.+.|.
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 88877775
No 493
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=35.27 E-value=3e+02 Score=30.80 Aligned_cols=108 Identities=11% Similarity=0.069 Sum_probs=70.5
Q ss_pred hHHHHHHHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEE
Q 002364 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (930)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 228 (930)
+.-+.-+|.+++. .-+++.++..|. |=-...++++...++.|+.+-.. ..+ ....+-....+++.+....|+||
T Consensus 114 TTt~~KLA~~lkk-~~~kvllVaaD~-~RpAA~eQL~~La~q~~v~~f~~---~~~-~~Pv~Iak~al~~ak~~~~DvvI 187 (451)
T COG0541 114 TTTAGKLAKYLKK-KGKKVLLVAADT-YRPAAIEQLKQLAEQVGVPFFGS---GTE-KDPVEIAKAALEKAKEEGYDVVI 187 (451)
T ss_pred HhHHHHHHHHHHH-cCCceEEEeccc-CChHHHHHHHHHHHHcCCceecC---CCC-CCHHHHHHHHHHHHHHcCCCEEE
Confidence 4557788888888 448888887554 66667788888888888765432 111 01233457788888888899999
Q ss_pred EEcChhhH--HHHHHHHHHcC-cccCCeEEEEeCcch
Q 002364 229 LHVSPSLG--FQVFSVAKYLG-MMGNGYVWIATDWLA 262 (930)
Q Consensus 229 l~~~~~~~--~~~~~~a~~~g-~~~~~~~~i~~~~~~ 262 (930)
+.+.+... ..++.++.+.. ...|..+.+..|...
T Consensus 188 vDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~ 224 (451)
T COG0541 188 VDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMI 224 (451)
T ss_pred EeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEeccc
Confidence 98887432 33555555432 335677777766543
No 494
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=35.25 E-value=1.6e+02 Score=30.59 Aligned_cols=129 Identities=8% Similarity=-0.016 Sum_probs=68.0
Q ss_pred HHHHHHH-hcCcEEEEcCCChhHHHHHHHhhccCCCcEEecc-cCCCCCCC-CCCCceEeecCCchHHHHHHHHHHHhcC
Q 002364 87 VEALRFM-ETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFG-VTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG 163 (930)
Q Consensus 87 ~~a~~li-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~-a~~~~l~~-~~~p~~~r~~p~~~~~~~ai~~~l~~~~ 163 (930)
+.+..|. +.++.+++=|-.+..+.+...+-+..++|+|+.- .+...... ....-+-=++.+.+......-+.++.++
T Consensus 51 ~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~ 130 (251)
T TIGR00067 51 ELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIA 130 (251)
T ss_pred HHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhC
Confidence 4444555 5589999888888877778888888899999732 11111100 1111233333444455555666666665
Q ss_pred ccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcCh
Q 002364 164 WNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (930)
Q Consensus 164 w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 233 (930)
.+-. +.+. ....+.... +.|. .... .....+...+..+.+.+.|.+|+.|..
T Consensus 131 ~~~~--v~~~------~~~~lv~~I-e~g~-------~~~~--~~~~~l~~~l~~l~~~~~d~lILGCTh 182 (251)
T TIGR00067 131 NDLL--VEML------ACPELVPLA-EAGL-------LGED--YALECLKRYLRPLLDTLPDTVVLGCTH 182 (251)
T ss_pred CCCE--EEec------CCHHHHHHH-HcCC-------cCCH--HHHHHHHHHHHHHhcCCCCEEEECcCC
Confidence 5422 1111 011122222 2221 0000 113457777777777788999997765
No 495
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=35.11 E-value=1.6e+02 Score=30.17 Aligned_cols=88 Identities=14% Similarity=0.019 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHhc--CccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEE
Q 002364 150 YQMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI 227 (930)
Q Consensus 150 ~~~~ai~~~l~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 227 (930)
..+..+++++... .-++|.++. |....+.+.+.|.+.|..|.....|... ....+.......+++.+.|+|
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~r-----g~~~r~~l~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~l~~~~~d~i 174 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLA-----GRPRAPVFEDRLAAAGIPFRVAECYDML--PVMYSPATLSAILGGAPFDAV 174 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEec-----cCcccchhHHHHHhCCCeeEEEEEEEee--cCCCChHHHHHHHhcCCCCEE
Confidence 3467777776432 446777765 3334577889999999887665555322 111222333445555566766
Q ss_pred EEEcChhhHHHHHHHHHH
Q 002364 228 VLHVSPSLGFQVFSVAKY 245 (930)
Q Consensus 228 il~~~~~~~~~~~~~a~~ 245 (930)
++. ++..+..+++....
T Consensus 175 ~f~-S~~~~~~f~~~~~~ 191 (240)
T PRK09189 175 LLY-SRVAARRFFALMRL 191 (240)
T ss_pred EEe-CHHHHHHHHHHHhh
Confidence 655 56677778877653
No 496
>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=34.74 E-value=2e+02 Score=29.54 Aligned_cols=76 Identities=7% Similarity=-0.007 Sum_probs=48.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhhHHHHHHHHH
Q 002364 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (930)
Q Consensus 167 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~~~~~a~ 244 (930)
|++|.. ++.|.......+.+++++.|+.+..... .. .........++.+.+.+.|.+++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSML--AE--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeC--CC--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 455553 4567777889999999999988765422 11 1134556677778788899999865443333 334455
Q ss_pred HcC
Q 002364 245 YLG 247 (930)
Q Consensus 245 ~~g 247 (930)
+.|
T Consensus 77 ~~~ 79 (264)
T cd01574 77 PAD 79 (264)
T ss_pred hcC
Confidence 555
No 497
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=34.55 E-value=2.1e+02 Score=30.43 Aligned_cols=54 Identities=15% Similarity=0.143 Sum_probs=36.3
Q ss_pred CCEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH---HHHHhhccCCCcEEe
Q 002364 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH---IVSYVSNELQVPLLS 125 (930)
Q Consensus 68 g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~s~~~~---~v~~~~~~~~iP~is 125 (930)
|.++.-....+..+...+ .+.+..++++|++|.+..... .+...+.+.++|+|.
T Consensus 188 Gl~vve~~v~~~ndi~~a----~~~l~g~~d~i~~p~dn~i~s~~~~l~~~a~~~kiPli~ 244 (322)
T COG2984 188 GLEVVEAAVTSVNDIPRA----VQALLGKVDVIYIPTDNLIVSAIESLLQVANKAKIPLIA 244 (322)
T ss_pred CCEEEEEecCcccccHHH----HHHhcCCCcEEEEecchHHHHHHHHHHHHHHHhCCCeec
Confidence 566555555444444443 334447899999999885544 456677889999995
No 498
>PRK10082 cell density-dependent motility repressor; Provisional
Probab=34.52 E-value=5.8e+02 Score=26.97 Aligned_cols=48 Identities=15% Similarity=-0.035 Sum_probs=29.7
Q ss_pred CCHHHHHHHHHcCcccEEEeeeeeecCceeeeeecccccccceEEEEecc
Q 002364 523 PSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (930)
Q Consensus 523 ~~~~~~~~~l~~g~~D~~~~~~~~t~~r~~~vdft~p~~~~~~~~lv~~~ 572 (930)
.+..++++++.+|++|+++....... -...+ ...|+......++++..
T Consensus 134 ~~~~~~~~~l~~g~~Dlai~~~~~~~-~~~~~-~~~~l~~~~~~~v~~~~ 181 (303)
T PRK10082 134 IDVDEAVDKLREGQSDCIFSFHDEDL-LEAPF-DHIRLFESQLFPVCASD 181 (303)
T ss_pred CCHHHHHHHHHCCCCCEEEEecCccc-cccCe-eEEEecceeEEEEecCC
Confidence 45789999999999999986321100 01122 23455566677776654
No 499
>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=34.38 E-value=2.2e+02 Score=29.77 Aligned_cols=79 Identities=11% Similarity=0.008 Sum_probs=53.1
Q ss_pred cEEEEEEEc--CccccchHHHHHHHHhhcceEEEEEEecCCCCCCChhHHHHHHHHHHhCCceEEEEEcChhh-HHHHHH
Q 002364 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFS 241 (930)
Q Consensus 165 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~~~~ 241 (930)
+.++++..+ ++|.......+.+++++.|..+..... . .+.+.....++.+...+.|.||+...... ....++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---R--GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 457777643 567777888999999999988765321 1 22455567788888889999999754322 234556
Q ss_pred HHHHcCc
Q 002364 242 VAKYLGM 248 (930)
Q Consensus 242 ~a~~~g~ 248 (930)
.+.+.|.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666554
No 500
>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=34.34 E-value=3.6e+02 Score=29.60 Aligned_cols=101 Identities=13% Similarity=0.039 Sum_probs=0.0
Q ss_pred HHHHHHhcCccEEEEEEEcCccccchHHHHHHHHhhcceEEEEEE--ecCCCCCCChhHHHHHHHHHHhCCce--EEEEE
Q 002364 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS--GIPPESGVNTGYVMDLLVKVALMESR--VIVLH 230 (930)
Q Consensus 155 i~~~l~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~~~~~~l~~l~~~~~~--viil~ 230 (930)
+.++++.++-+++.++++...+.. ..+.+.+.+++.|+.+.... ...++ .+.+.+...+..+++.+.| -+|+.
T Consensus 14 l~~~l~~~g~~rvlvVtd~~v~~~-~~~~l~~~L~~~g~~~~~~~~~~~e~~--k~~~~v~~~~~~~~~~~~dr~~~IIA 90 (355)
T cd08197 14 VLGYLPELNADKYLLVTDSNVEDL-YGHRLLEYLREAGAPVELLSVPSGEEH--KTLSTLSDLVERALALGATRRSVIVA 90 (355)
T ss_pred HHHHHHhcCCCeEEEEECccHHHH-HHHHHHHHHHhcCCceEEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCcEEEE
Q ss_pred cChhhHHHHHHHHHHcCcccCCeEEEEe
Q 002364 231 VSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (930)
Q Consensus 231 ~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 258 (930)
..+.....+-+.+...-+.+..++.|-|
T Consensus 91 vGGGsv~D~ak~~A~~~~rgip~I~IPT 118 (355)
T cd08197 91 LGGGVVGNIAGLLAALLFRGIRLVHIPT 118 (355)
T ss_pred ECCcHHHHHHHHHHHHhccCCCEEEecC
Done!