Query 006683
Match_columns 635
No_of_seqs 358 out of 3958
Neff 10.1
Searched_HMMs 46136
Date Thu Mar 28 12:59:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006683.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006683hhsearch_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 2.8E-61 6.1E-66 471.6 38.9 545 32-635 24-617 (897)
2 KOG4440 NMDA selective glutama 100.0 2.4E-60 5.2E-65 467.3 38.0 524 32-635 33-636 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 3E-48 6.4E-53 396.1 46.4 480 78-629 81-625 (1258)
4 cd06364 PBP1_CaSR Ligand-bindi 100.0 9.4E-45 2E-49 386.5 40.4 362 31-406 9-496 (510)
5 cd06365 PBP1_Pheromone_recepto 100.0 3.8E-45 8.3E-50 387.2 36.0 360 33-405 1-454 (469)
6 cd06361 PBP1_GPC6A_like Ligand 100.0 3.9E-44 8.5E-49 371.6 38.1 330 47-405 33-395 (403)
7 cd06375 PBP1_mGluR_groupII Lig 100.0 1.9E-43 4.2E-48 372.7 37.2 355 33-403 1-454 (458)
8 cd06362 PBP1_mGluR Ligand bind 100.0 1.9E-43 4.2E-48 375.8 36.7 360 33-406 1-449 (452)
9 cd06374 PBP1_mGluR_groupI Liga 100.0 6.7E-43 1.4E-47 371.9 38.0 358 32-403 7-464 (472)
10 cd06376 PBP1_mGluR_groupIII Li 100.0 2.7E-42 6E-47 366.6 39.2 358 33-403 1-452 (463)
11 cd06366 PBP1_GABAb_receptor Li 100.0 2.9E-42 6.2E-47 355.1 38.1 338 36-408 1-347 (350)
12 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 1.5E-41 3.3E-46 352.4 37.9 318 32-404 17-364 (377)
13 cd06367 PBP1_iGluR_NMDA N-term 100.0 6.1E-42 1.3E-46 353.8 34.2 321 34-403 2-351 (362)
14 cd06393 PBP1_iGluR_Kainate_Glu 100.0 2E-41 4.3E-46 351.7 38.1 354 34-408 2-382 (384)
15 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1.9E-41 4.1E-46 345.4 36.4 342 36-407 1-363 (364)
16 cd06386 PBP1_NPR_C_like Ligand 100.0 3.4E-41 7.4E-46 349.7 38.3 347 37-403 2-378 (387)
17 cd06370 PBP1_Speract_GC_like L 100.0 3.2E-41 7E-46 352.6 37.4 348 35-395 1-386 (404)
18 cd06363 PBP1_Taste_receptor Li 100.0 4E-41 8.6E-46 352.6 37.3 340 32-404 4-396 (410)
19 cd06380 PBP1_iGluR_AMPA N-term 100.0 7.4E-41 1.6E-45 348.3 37.8 350 36-407 1-381 (382)
20 cd06372 PBP1_GC_G_like Ligand- 100.0 1.3E-40 2.8E-45 347.4 39.2 355 36-404 1-386 (391)
21 cd06352 PBP1_NPR_GC_like Ligan 100.0 1.3E-40 2.7E-45 348.0 37.9 357 36-405 1-383 (389)
22 cd06373 PBP1_NPR_like Ligand b 100.0 8.2E-41 1.8E-45 349.6 35.7 357 36-404 1-389 (396)
23 cd06385 PBP1_NPR_A Ligand-bind 100.0 4.2E-40 9E-45 345.1 38.4 354 36-404 1-391 (405)
24 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 4E-40 8.6E-45 338.4 36.6 347 36-407 1-368 (370)
25 cd06392 PBP1_iGluR_delta_1 N-t 100.0 7.1E-40 1.5E-44 333.5 37.0 351 36-407 1-398 (400)
26 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 2.2E-39 4.8E-44 331.9 38.1 344 36-407 1-369 (371)
27 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 2.4E-39 5.3E-44 328.8 38.0 345 37-407 2-371 (372)
28 cd06371 PBP1_sensory_GC_DEF_li 100.0 7.1E-39 1.5E-43 331.5 35.7 340 36-398 1-366 (382)
29 PRK15404 leucine ABC transport 100.0 2.4E-38 5.1E-43 326.0 38.3 335 32-394 23-363 (369)
30 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2.9E-38 6.4E-43 325.4 37.9 354 36-407 1-398 (400)
31 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.5E-38 5.4E-43 330.5 37.8 354 36-404 1-392 (399)
32 cd06394 PBP1_iGluR_Kainate_KA1 100.0 4.6E-39 1E-43 321.7 27.7 327 36-408 1-332 (333)
33 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.5E-38 3.2E-43 324.1 31.2 319 36-407 1-326 (327)
34 KOG1056 Glutamate-gated metabo 100.0 2E-37 4.4E-42 328.0 35.1 381 32-447 29-494 (878)
35 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 4.2E-37 9.2E-42 315.0 34.7 327 36-390 1-334 (334)
36 cd06338 PBP1_ABC_ligand_bindin 100.0 1.3E-36 2.9E-41 312.5 33.8 327 36-390 1-345 (345)
37 cd06345 PBP1_ABC_ligand_bindin 100.0 6.8E-36 1.5E-40 306.8 33.7 320 36-381 1-337 (344)
38 PF01094 ANF_receptor: Recepto 100.0 2.2E-36 4.8E-41 311.8 29.3 329 51-391 2-348 (348)
39 cd06346 PBP1_ABC_ligand_bindin 100.0 3.9E-36 8.5E-41 303.8 30.0 303 36-387 1-310 (312)
40 cd06368 PBP1_iGluR_non_NMDA_li 100.0 1.6E-35 3.4E-40 301.8 32.7 319 36-407 1-323 (324)
41 cd06355 PBP1_FmdD_like Peripla 100.0 4.4E-35 9.5E-40 300.4 34.8 337 36-398 1-345 (348)
42 cd06348 PBP1_ABC_ligand_bindin 100.0 9.5E-35 2.1E-39 298.4 35.0 325 36-386 1-342 (344)
43 cd06381 PBP1_iGluR_delta_like 100.0 2.1E-34 4.5E-39 293.6 36.8 337 36-407 1-362 (363)
44 cd06340 PBP1_ABC_ligand_bindin 100.0 2.6E-35 5.7E-40 302.3 30.2 322 36-383 1-342 (347)
45 cd06343 PBP1_ABC_ligand_bindin 100.0 2.3E-34 5E-39 297.7 35.4 343 31-395 3-362 (362)
46 TIGR03669 urea_ABC_arch urea A 100.0 2.2E-34 4.8E-39 295.6 34.5 341 35-402 1-349 (374)
47 COG0683 LivK ABC-type branched 100.0 2.3E-34 5E-39 295.8 34.0 337 32-392 8-354 (366)
48 TIGR03407 urea_ABC_UrtA urea A 100.0 7.7E-34 1.7E-38 292.3 34.9 336 35-396 1-344 (359)
49 cd06350 PBP1_GPCR_family_C_lik 100.0 4.4E-34 9.5E-39 294.3 30.7 306 36-404 1-340 (348)
50 cd06347 PBP1_ABC_ligand_bindin 100.0 2.1E-33 4.6E-38 287.7 35.5 318 36-381 1-327 (334)
51 cd06344 PBP1_ABC_ligand_bindin 100.0 6.4E-34 1.4E-38 290.5 31.2 318 36-382 1-326 (332)
52 cd06331 PBP1_AmiC_like Type I 100.0 1.1E-33 2.5E-38 288.9 32.5 320 36-381 1-326 (333)
53 cd06327 PBP1_SBP_like_1 Peripl 100.0 6.3E-34 1.4E-38 290.9 30.0 319 36-381 1-328 (334)
54 cd06349 PBP1_ABC_ligand_bindin 100.0 4.4E-33 9.6E-38 285.5 35.6 330 36-394 1-339 (340)
55 PF13458 Peripla_BP_6: Peripla 100.0 1.1E-33 2.3E-38 291.0 30.1 334 34-393 1-342 (343)
56 KOG1052 Glutamate-gated kainat 100.0 3.2E-33 6.9E-38 309.7 34.6 369 223-634 5-402 (656)
57 cd06357 PBP1_AmiC Periplasmic 100.0 1.4E-32 3.1E-37 283.0 36.5 340 36-399 1-347 (360)
58 cd06329 PBP1_SBP_like_3 Peripl 100.0 4.5E-33 9.6E-38 285.4 32.0 315 36-378 1-332 (342)
59 cd06336 PBP1_ABC_ligand_bindin 100.0 3.2E-33 6.9E-38 286.9 30.5 321 36-383 1-342 (347)
60 cd06359 PBP1_Nba_like Type I p 100.0 9.6E-33 2.1E-37 281.9 33.6 327 36-389 1-332 (333)
61 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 4.4E-33 9.6E-38 283.4 30.3 326 34-404 2-351 (362)
62 cd06330 PBP1_Arsenic_SBP_like 100.0 7.4E-33 1.6E-37 284.7 30.4 322 36-380 1-336 (346)
63 cd06360 PBP1_alkylbenzenes_lik 100.0 2.7E-32 5.7E-37 279.7 34.2 325 36-383 1-330 (336)
64 cd06328 PBP1_SBP_like_2 Peripl 100.0 2.3E-32 5E-37 278.7 32.0 316 36-379 1-324 (333)
65 cd06358 PBP1_NHase Type I peri 100.0 8E-32 1.7E-36 275.2 33.7 316 36-380 1-325 (333)
66 cd06356 PBP1_Amide_Urea_BP_lik 100.0 9.6E-32 2.1E-36 274.2 33.0 317 36-380 1-326 (334)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 1.2E-31 2.6E-36 275.2 31.9 324 36-380 1-338 (347)
68 cd06332 PBP1_aromatic_compound 100.0 6.4E-31 1.4E-35 269.2 33.8 326 36-388 1-331 (333)
69 cd06383 PBP1_iGluR_AMPA_Like N 100.0 6.9E-32 1.5E-36 275.6 25.2 315 45-385 8-355 (368)
70 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 3.3E-30 7.1E-35 257.6 35.4 320 32-405 16-372 (382)
71 cd06334 PBP1_ABC_ligand_bindin 100.0 2E-31 4.2E-36 272.7 27.3 325 36-380 1-348 (351)
72 cd06337 PBP1_ABC_ligand_bindin 100.0 1.4E-30 3.1E-35 268.0 30.1 328 36-394 1-356 (357)
73 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 4.6E-30 9.9E-35 262.3 32.8 315 36-403 1-322 (328)
74 PF13433 Peripla_BP_5: Peripla 100.0 5.8E-30 1.2E-34 249.6 27.7 337 35-398 1-346 (363)
75 cd06326 PBP1_STKc_like Type I 100.0 1.1E-28 2.4E-33 252.9 32.2 320 35-379 1-329 (336)
76 KOG1055 GABA-B ion channel rec 100.0 4.1E-30 8.8E-35 263.5 19.6 354 31-405 38-431 (865)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 9.5E-29 2.1E-33 251.9 23.5 303 36-381 1-330 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 8E-28 1.7E-32 243.5 25.8 300 48-391 10-316 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 3.7E-27 8.1E-32 241.9 30.2 328 36-389 1-340 (341)
80 cd06269 PBP1_glutamate_recepto 100.0 9.9E-27 2.1E-31 234.1 28.1 224 36-272 1-234 (298)
81 cd04509 PBP1_ABC_transporter_G 99.9 9.6E-26 2.1E-30 226.9 27.0 284 36-338 1-290 (299)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.9 3.8E-25 8.2E-30 224.0 29.4 279 36-340 1-293 (312)
83 cd06268 PBP1_ABC_transporter_L 99.9 2.8E-23 6.1E-28 208.9 28.5 279 36-340 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.6E-22 3.5E-27 196.8 26.3 322 48-404 17-365 (380)
85 cd01391 Periplasmic_Binding_Pr 99.6 7.5E-14 1.6E-18 137.5 23.5 216 36-271 1-220 (269)
86 PRK10797 glutamate and asparta 99.4 3.8E-13 8.2E-18 134.3 9.4 110 450-573 37-151 (302)
87 PF04348 LppC: LppC putative l 99.4 2E-11 4.3E-16 130.0 20.2 312 33-392 218-535 (536)
88 PRK11917 bifunctional adhesin/ 99.4 1.4E-12 3E-17 127.6 9.7 108 449-570 34-143 (259)
89 PRK15010 ABC transporter lysin 99.4 1.8E-12 3.9E-17 127.3 10.1 101 451-567 24-124 (260)
90 PRK15437 histidine ABC transpo 99.3 2.8E-12 6E-17 125.9 9.7 102 450-567 23-124 (259)
91 PRK09495 glnH glutamine ABC tr 99.3 3.1E-12 6.8E-17 124.6 9.5 99 451-566 23-121 (247)
92 PF00497 SBP_bac_3: Bacterial 99.3 4.1E-12 8.9E-17 121.8 8.0 94 455-564 1-94 (225)
93 PRK15007 putative ABC transpor 99.3 1E-11 2.2E-16 120.8 9.5 97 452-564 20-116 (243)
94 TIGR02995 ectoine_ehuB ectoine 99.3 1.1E-11 2.3E-16 122.8 8.7 101 449-566 29-130 (275)
95 PRK11260 cystine transporter s 99.2 2.5E-11 5.5E-16 119.5 9.4 101 449-565 37-137 (266)
96 TIGR01096 3A0103s03R lysine-ar 99.2 2.3E-11 5E-16 118.8 8.9 105 445-566 17-121 (250)
97 TIGR03870 ABC_MoxJ methanol ox 99.2 2.6E-11 5.7E-16 117.7 8.5 89 454-566 1-92 (246)
98 PF10613 Lig_chan-Glu_bd: Liga 99.2 1.4E-11 3E-16 89.0 2.7 57 467-526 1-65 (65)
99 PRK10859 membrane-bound lytic 99.2 8.6E-11 1.9E-15 125.1 9.2 105 444-565 34-138 (482)
100 TIGR02285 conserved hypothetic 99.0 1.5E-09 3.3E-14 107.0 8.4 96 452-565 17-114 (268)
101 PRK09959 hybrid sensory histid 99.0 1.7E-09 3.7E-14 129.7 9.8 98 452-565 301-398 (1197)
102 cd01537 PBP1_Repressors_Sugar_ 98.9 1E-07 2.3E-12 93.6 19.5 198 36-258 1-203 (264)
103 PRK09959 hybrid sensory histid 98.9 2.9E-09 6.3E-14 127.7 9.4 103 450-567 53-156 (1197)
104 TIGR03871 ABC_peri_MoxJ_2 quin 98.9 5.9E-09 1.3E-13 100.6 9.3 90 454-565 1-90 (232)
105 cd01536 PBP1_ABC_sugar_binding 98.9 3.1E-07 6.7E-12 90.5 21.7 206 36-268 1-215 (267)
106 COG0834 HisJ ABC-type amino ac 98.9 6.3E-09 1.4E-13 103.2 8.8 116 451-580 32-151 (275)
107 cd00134 PBPb Bacterial peripla 98.8 1.9E-08 4.1E-13 95.3 9.2 98 455-568 1-98 (218)
108 cd06267 PBP1_LacI_sugar_bindin 98.8 7.8E-07 1.7E-11 87.3 19.8 197 36-258 1-202 (264)
109 smart00062 PBPb Bacterial peri 98.7 4.5E-08 9.7E-13 92.6 9.0 99 454-568 1-99 (219)
110 COG3107 LppC Putative lipoprot 98.7 7.6E-07 1.7E-11 89.7 17.3 320 33-398 256-603 (604)
111 cd06325 PBP1_ABC_uncharacteriz 98.7 2E-06 4.4E-11 85.4 20.0 201 36-257 1-208 (281)
112 cd06300 PBP1_ABC_sugar_binding 98.7 2.9E-06 6.2E-11 83.9 20.9 202 36-259 1-210 (272)
113 cd06320 PBP1_allose_binding Pe 98.6 1E-05 2.2E-10 80.2 22.6 210 36-269 1-217 (275)
114 COG2984 ABC-type uncharacteriz 98.6 2.9E-05 6.3E-10 74.6 23.9 203 32-257 28-240 (322)
115 cd06282 PBP1_GntR_like_2 Ligan 98.6 6.8E-06 1.5E-10 80.9 19.9 195 36-258 1-201 (266)
116 cd06323 PBP1_ribose_binding Pe 98.5 2.8E-05 6.1E-10 76.6 21.7 206 36-269 1-215 (268)
117 PRK10653 D-ribose transporter 98.4 0.0001 2.2E-09 73.8 24.2 208 34-269 26-241 (295)
118 COG4623 Predicted soluble lyti 98.4 2.7E-07 5.8E-12 88.9 4.9 103 448-567 18-120 (473)
119 cd06319 PBP1_ABC_sugar_binding 98.3 8.5E-05 1.8E-09 73.6 20.9 207 36-268 1-219 (277)
120 cd06312 PBP1_ABC_sugar_binding 98.3 0.00013 2.8E-09 72.0 21.3 208 36-268 1-217 (271)
121 cd06273 PBP1_GntR_like_1 This 98.3 8.8E-05 1.9E-09 73.0 19.9 207 36-268 1-214 (268)
122 cd06317 PBP1_ABC_sugar_binding 98.2 0.00014 3.1E-09 71.8 20.4 212 36-268 1-221 (275)
123 cd06301 PBP1_rhizopine_binding 98.2 0.00023 5E-09 70.3 21.7 211 36-269 1-219 (272)
124 cd06310 PBP1_ABC_sugar_binding 98.2 0.00038 8.1E-09 68.8 22.5 211 36-269 1-218 (273)
125 PF13407 Peripla_BP_4: Peripla 98.2 0.00018 4E-09 70.3 19.2 204 37-260 1-209 (257)
126 cd06309 PBP1_YtfQ_like Peripla 98.2 0.0004 8.6E-09 68.6 21.4 214 36-269 1-222 (273)
127 cd01545 PBP1_SalR Ligand-bindi 98.1 0.00022 4.7E-09 70.3 19.2 212 36-269 1-216 (270)
128 cd06305 PBP1_methylthioribose_ 98.1 0.00043 9.3E-09 68.3 20.7 209 36-269 1-218 (273)
129 PRK15395 methyl-galactoside AB 98.1 0.0018 3.9E-08 65.9 24.7 208 32-257 22-249 (330)
130 PRK10936 TMAO reductase system 98.1 0.0031 6.6E-08 64.6 26.2 203 32-258 44-255 (343)
131 PF00532 Peripla_BP_1: Peripla 98.0 0.0006 1.3E-08 67.4 19.8 201 36-261 3-209 (279)
132 cd06289 PBP1_MalI_like Ligand- 98.0 0.00046 9.9E-09 67.9 19.0 208 36-268 1-214 (268)
133 cd06322 PBP1_ABC_sugar_binding 98.0 0.0016 3.5E-08 63.9 22.9 203 36-267 1-211 (267)
134 cd06298 PBP1_CcpA_like Ligand- 98.0 0.00061 1.3E-08 67.0 19.5 208 36-269 1-214 (268)
135 cd06311 PBP1_ABC_sugar_binding 98.0 0.0023 5E-08 63.2 23.0 205 36-259 1-211 (274)
136 cd01542 PBP1_TreR_like Ligand- 97.9 0.001 2.2E-08 65.1 19.7 193 37-259 2-199 (259)
137 PRK10355 xylF D-xylose transpo 97.9 0.0035 7.6E-08 63.7 24.0 202 33-258 24-236 (330)
138 cd01540 PBP1_arabinose_binding 97.9 0.0022 4.9E-08 63.8 22.0 216 36-269 1-230 (289)
139 TIGR01481 ccpA catabolite cont 97.9 0.0019 4E-08 65.8 21.1 210 33-268 58-272 (329)
140 PRK09701 D-allose transporter 97.9 0.013 2.7E-07 59.2 26.5 217 36-269 26-251 (311)
141 COG1609 PurR Transcriptional r 97.9 0.0042 9.1E-08 63.0 22.6 209 33-268 57-273 (333)
142 cd01574 PBP1_LacI Ligand-bindi 97.9 0.0029 6.3E-08 62.0 21.1 207 36-268 1-210 (264)
143 cd06303 PBP1_LuxPQ_Quorum_Sens 97.8 0.004 8.6E-08 61.7 22.1 215 36-269 1-225 (280)
144 cd06271 PBP1_AglR_RafR_like Li 97.8 0.0026 5.6E-08 62.5 20.7 206 37-268 2-217 (268)
145 cd06284 PBP1_LacI_like_6 Ligan 97.8 0.002 4.4E-08 63.2 19.8 195 37-258 2-201 (267)
146 cd06308 PBP1_sensor_kinase_lik 97.8 0.0045 9.8E-08 60.9 22.3 210 36-269 1-217 (270)
147 cd06321 PBP1_ABC_sugar_binding 97.8 0.0046 1E-07 60.9 22.0 207 36-269 1-215 (271)
148 cd06281 PBP1_LacI_like_5 Ligan 97.8 0.0019 4.2E-08 63.5 19.1 208 36-268 1-212 (269)
149 COG1879 RbsB ABC-type sugar tr 97.8 0.019 4.1E-07 58.2 26.3 209 34-259 33-245 (322)
150 cd01575 PBP1_GntR Ligand-bindi 97.8 0.0029 6.3E-08 62.1 19.9 207 36-268 1-213 (268)
151 cd06295 PBP1_CelR Ligand bindi 97.8 0.0026 5.6E-08 62.8 19.5 206 35-268 4-222 (275)
152 cd06288 PBP1_sucrose_transcrip 97.8 0.0018 4E-08 63.6 18.2 198 36-258 1-202 (269)
153 cd06283 PBP1_RegR_EndR_KdgR_li 97.8 0.0051 1.1E-07 60.3 21.3 200 36-259 1-204 (267)
154 cd06296 PBP1_CatR_like Ligand- 97.8 0.0036 7.7E-08 61.6 20.1 207 36-268 1-214 (270)
155 cd06270 PBP1_GalS_like Ligand 97.8 0.0053 1.1E-07 60.3 21.2 209 36-268 1-213 (268)
156 cd06275 PBP1_PurR Ligand-bindi 97.8 0.0028 6.1E-08 62.3 19.2 198 36-258 1-203 (269)
157 PRK11303 DNA-binding transcrip 97.7 0.0081 1.8E-07 61.1 22.8 207 33-267 60-273 (328)
158 PRK15408 autoinducer 2-binding 97.7 0.018 3.9E-07 58.5 24.9 201 35-258 24-234 (336)
159 cd06278 PBP1_LacI_like_2 Ligan 97.7 0.0041 8.8E-08 61.0 19.8 191 37-256 2-197 (266)
160 TIGR02417 fruct_sucro_rep D-fr 97.7 0.0061 1.3E-07 61.9 21.7 208 33-268 59-273 (327)
161 cd01539 PBP1_GGBP Periplasmic 97.7 0.013 2.9E-07 58.7 23.7 219 36-269 1-241 (303)
162 cd06324 PBP1_ABC_sugar_binding 97.7 0.0068 1.5E-07 61.0 21.6 213 37-269 2-239 (305)
163 cd06299 PBP1_LacI_like_13 Liga 97.7 0.0058 1.3E-07 59.9 20.8 197 36-258 1-200 (265)
164 cd06293 PBP1_LacI_like_11 Liga 97.7 0.0069 1.5E-07 59.6 21.1 200 36-259 1-203 (269)
165 cd06274 PBP1_FruR Ligand bindi 97.7 0.011 2.3E-07 58.0 22.1 197 36-258 1-203 (264)
166 cd06306 PBP1_TorT-like TorT-li 97.7 0.007 1.5E-07 59.5 20.8 202 36-266 1-215 (268)
167 cd06277 PBP1_LacI_like_1 Ligan 97.7 0.0066 1.4E-07 59.7 20.5 207 37-268 2-213 (268)
168 cd06313 PBP1_ABC_sugar_binding 97.6 0.012 2.6E-07 58.1 21.7 183 71-269 30-217 (272)
169 PF04392 ABC_sub_bind: ABC tra 97.6 0.0037 8E-08 62.4 17.9 185 36-242 1-194 (294)
170 cd06285 PBP1_LacI_like_7 Ligan 97.6 0.0063 1.4E-07 59.7 19.1 205 36-268 1-211 (265)
171 cd06316 PBP1_ABC_sugar_binding 97.6 0.017 3.8E-07 57.6 22.5 214 36-269 1-220 (294)
172 PRK10014 DNA-binding transcrip 97.6 0.011 2.4E-07 60.5 21.5 205 32-259 62-269 (342)
173 cd01538 PBP1_ABC_xylose_bindin 97.6 0.023 5.1E-07 56.5 23.0 209 36-267 1-223 (288)
174 cd06292 PBP1_LacI_like_10 Liga 97.6 0.013 2.7E-07 57.8 20.9 201 36-258 1-206 (273)
175 cd06291 PBP1_Qymf_like Ligand 97.6 0.011 2.3E-07 58.1 19.9 192 36-258 1-198 (265)
176 cd06294 PBP1_ycjW_transcriptio 97.5 0.01 2.2E-07 58.4 19.7 210 36-268 1-219 (270)
177 cd06314 PBP1_tmGBP Periplasmic 97.5 0.028 6E-07 55.3 22.6 207 36-269 1-214 (271)
178 PRK10703 DNA-binding transcrip 97.5 0.011 2.4E-07 60.5 20.0 201 33-258 58-264 (341)
179 cd06286 PBP1_CcpB_like Ligand- 97.5 0.02 4.4E-07 55.8 20.8 195 36-258 1-200 (260)
180 cd06318 PBP1_ABC_sugar_binding 97.5 0.035 7.7E-07 54.9 22.7 210 36-268 1-224 (282)
181 PRK09492 treR trehalose repres 97.5 0.02 4.3E-07 57.8 21.0 192 33-257 61-256 (315)
182 cd06280 PBP1_LacI_like_4 Ligan 97.4 0.02 4.4E-07 56.0 20.1 203 36-268 1-208 (263)
183 PF00060 Lig_chan: Ligand-gate 97.4 3E-05 6.4E-10 68.7 -0.3 58 577-634 1-65 (148)
184 cd06290 PBP1_LacI_like_9 Ligan 97.4 0.023 5E-07 55.6 20.0 208 36-268 1-212 (265)
185 PRK10727 DNA-binding transcrip 97.4 0.031 6.6E-07 57.3 21.6 208 33-267 58-272 (343)
186 PRK10423 transcriptional repre 97.4 0.039 8.5E-07 56.0 22.0 209 33-268 55-271 (327)
187 cd06304 PBP1_BmpA_like Peripla 97.4 0.027 6E-07 55.0 19.9 199 36-256 1-202 (260)
188 cd01541 PBP1_AraR Ligand-bindi 97.3 0.017 3.6E-07 56.9 18.3 200 36-260 1-210 (273)
189 TIGR01098 3A0109s03R phosphate 97.3 0.00057 1.2E-08 66.7 7.3 98 452-571 31-137 (254)
190 cd06302 PBP1_LsrB_Quorum_Sensi 97.3 0.1 2.2E-06 52.2 23.5 212 36-268 1-219 (298)
191 cd06297 PBP1_LacI_like_12 Liga 97.2 0.033 7.2E-07 54.7 19.1 203 36-267 1-215 (269)
192 cd06354 PBP1_BmpA_PnrA_like Pe 97.2 0.036 7.9E-07 54.4 19.3 196 36-256 1-206 (265)
193 cd01543 PBP1_XylR Ligand-bindi 97.2 0.028 6.1E-07 55.1 18.5 204 36-268 1-207 (265)
194 PRK14987 gluconate operon tran 97.2 0.064 1.4E-06 54.6 21.5 208 33-267 62-274 (331)
195 TIGR02955 TMAO_TorT TMAO reduc 97.2 0.1 2.2E-06 52.1 22.0 203 36-266 1-215 (295)
196 PRK09526 lacI lac repressor; R 97.2 0.091 2E-06 53.7 22.2 208 33-267 62-275 (342)
197 cd06272 PBP1_hexuronate_repres 97.2 0.037 8E-07 54.1 18.5 204 36-268 1-208 (261)
198 TIGR02634 xylF D-xylose ABC tr 97.2 0.066 1.4E-06 53.7 20.5 197 37-258 1-209 (302)
199 PRK10401 DNA-binding transcrip 97.2 0.1 2.2E-06 53.4 22.5 209 33-268 58-273 (346)
200 cd06279 PBP1_LacI_like_3 Ligan 97.1 0.048 1E-06 54.0 18.8 201 37-267 2-230 (283)
201 cd06307 PBP1_uncharacterized_s 97.1 0.21 4.5E-06 49.2 23.1 213 36-269 1-220 (275)
202 TIGR02405 trehalos_R_Ecol treh 97.1 0.089 1.9E-06 53.0 20.7 199 33-267 58-261 (311)
203 PRK11041 DNA-binding transcrip 97.0 0.12 2.6E-06 51.9 20.7 202 33-258 34-238 (309)
204 cd06315 PBP1_ABC_sugar_binding 96.7 0.32 6.9E-06 48.0 20.7 204 36-259 2-215 (280)
205 cd01544 PBP1_GalR Ligand-bindi 96.6 0.18 4E-06 49.4 18.2 196 36-268 1-215 (270)
206 cd06353 PBP1_BmpA_Med_like Per 96.3 0.51 1.1E-05 45.9 18.9 193 36-257 1-201 (258)
207 TIGR02637 RhaS rhamnose ABC tr 96.1 1.7 3.6E-05 43.4 23.0 202 37-259 1-211 (302)
208 COG1744 Med Uncharacterized AB 96.0 1.6 3.4E-05 44.4 21.3 207 32-259 33-246 (345)
209 PRK00489 hisG ATP phosphoribos 95.8 0.011 2.4E-07 58.6 4.9 68 503-574 43-112 (287)
210 COG4213 XylF ABC-type xylose t 94.8 4.2 9.1E-05 39.5 19.1 205 32-260 23-244 (341)
211 TIGR03431 PhnD phosphonate ABC 94.8 0.061 1.3E-06 53.5 6.3 75 493-573 48-133 (288)
212 PF12683 DUF3798: Protein of u 94.6 4.3 9.3E-05 38.7 17.3 210 34-257 2-224 (275)
213 TIGR02990 ectoine_eutA ectoine 94.3 0.34 7.3E-06 46.3 9.8 97 154-257 107-207 (239)
214 PF02608 Bmp: Basic membrane p 93.8 8 0.00017 38.7 19.8 200 35-258 2-213 (306)
215 COG3473 Maleate cis-trans isom 93.8 1.5 3.3E-05 39.7 12.0 94 156-257 107-205 (238)
216 cd06287 PBP1_LacI_like_8 Ligan 93.4 8.4 0.00018 37.6 20.0 148 95-260 54-205 (269)
217 TIGR00035 asp_race aspartate r 92.6 1.2 2.7E-05 42.4 10.7 89 80-202 58-146 (229)
218 PRK10339 DNA-binding transcrip 92.1 15 0.00032 37.1 18.9 154 96-268 113-270 (327)
219 PRK10200 putative racemase; Pr 91.7 5.4 0.00012 38.0 13.8 90 78-201 56-146 (230)
220 cd06353 PBP1_BmpA_Med_like Per 91.4 3 6.5E-05 40.6 12.1 88 36-130 122-209 (258)
221 COG1794 RacX Aspartate racemas 90.4 9.5 0.00021 35.4 13.2 131 80-258 58-190 (230)
222 cd06276 PBP1_FucR_like Ligand- 90.4 17 0.00038 34.9 19.4 193 37-268 2-198 (247)
223 COG0426 FpaA Uncharacterized f 89.3 24 0.00052 36.1 16.3 151 34-204 212-363 (388)
224 PF13377 Peripla_BP_3: Peripla 88.6 3.1 6.8E-05 36.7 9.0 102 159-268 1-104 (160)
225 PF03808 Glyco_tran_WecB: Glyc 88.4 7.8 0.00017 35.0 11.4 99 154-270 36-136 (172)
226 TIGR01098 3A0109s03R phosphate 85.9 4.1 8.9E-05 39.4 8.8 93 1-105 1-93 (254)
227 PF01177 Asp_Glu_race: Asp/Glu 85.1 14 0.00031 34.6 11.8 125 94-254 62-198 (216)
228 PF02608 Bmp: Basic membrane p 84.2 4.5 9.8E-05 40.5 8.4 90 36-130 128-222 (306)
229 TIGR02122 TRAP_TAXI TRAP trans 83.6 2.8 6.2E-05 42.1 6.8 81 492-575 48-141 (320)
230 TIGR02122 TRAP_TAXI TRAP trans 82.9 26 0.00057 35.1 13.5 41 1-44 1-41 (320)
231 cd06533 Glyco_transf_WecG_TagA 82.4 14 0.00029 33.4 9.9 99 153-269 33-133 (171)
232 TIGR01729 taurine_ABC_bnd taur 82.3 1.2 2.6E-05 44.5 3.3 76 497-575 20-100 (300)
233 PF13685 Fe-ADH_2: Iron-contai 82.1 7.1 0.00015 37.5 8.3 91 157-257 9-100 (250)
234 COG1454 EutG Alcohol dehydroge 80.4 11 0.00023 38.7 9.2 80 155-242 17-96 (377)
235 PRK09860 putative alcohol dehy 80.4 8.8 0.00019 39.8 8.9 76 155-237 19-94 (383)
236 cd06354 PBP1_BmpA_PnrA_like Pe 80.4 45 0.00098 32.3 13.7 124 33-162 120-243 (265)
237 COG1744 Med Uncharacterized AB 77.4 45 0.00097 34.0 12.7 92 34-130 161-252 (345)
238 PRK15454 ethanol dehydrogenase 76.8 13 0.00029 38.6 9.0 80 155-242 37-116 (395)
239 PF06506 PrpR_N: Propionate ca 76.5 59 0.0013 29.4 12.5 129 81-259 18-146 (176)
240 PRK10624 L-1,2-propanediol oxi 76.1 15 0.00031 38.2 9.1 76 155-237 18-93 (382)
241 cd08190 HOT Hydroxyacid-oxoaci 76.1 14 0.0003 38.8 9.0 80 155-242 11-90 (414)
242 PF13407 Peripla_BP_4: Peripla 75.3 8.7 0.00019 37.0 6.9 79 170-257 1-81 (257)
243 cd08189 Fe-ADH5 Iron-containin 74.8 25 0.00054 36.3 10.4 76 155-237 14-89 (374)
244 cd08192 Fe-ADH7 Iron-containin 74.7 16 0.00035 37.7 9.0 76 155-237 12-87 (370)
245 cd08551 Fe-ADH iron-containing 74.2 18 0.0004 37.3 9.3 76 155-237 11-86 (370)
246 PRK15116 sulfur acceptor prote 73.9 75 0.0016 31.0 12.7 115 48-178 82-209 (268)
247 cd08193 HVD 5-hydroxyvalerate 73.7 17 0.00038 37.5 9.0 79 156-242 15-93 (376)
248 cd06304 PBP1_BmpA_like Peripla 73.4 52 0.0011 31.7 11.9 127 34-169 120-246 (260)
249 PRK15408 autoinducer 2-binding 73.1 14 0.0003 37.6 7.9 83 166-257 22-106 (336)
250 TIGR02638 lactal_redase lactal 73.0 18 0.00039 37.4 8.9 79 155-241 17-95 (379)
251 KOG3857 Alcohol dehydrogenase, 72.9 20 0.00044 35.4 8.3 96 139-242 38-137 (465)
252 cd08194 Fe-ADH6 Iron-containin 72.9 20 0.00043 37.1 9.1 79 155-241 11-89 (375)
253 PF12974 Phosphonate-bd: ABC t 72.3 5.3 0.00011 38.4 4.5 73 492-567 17-97 (243)
254 cd00755 YgdL_like Family of ac 72.0 36 0.00079 32.3 9.9 116 47-178 62-183 (231)
255 cd06305 PBP1_methylthioribose_ 71.6 17 0.00036 35.3 8.0 79 169-257 1-81 (273)
256 PRK11553 alkanesulfonate trans 71.5 5.3 0.00012 40.1 4.5 77 493-573 44-127 (314)
257 PF00465 Fe-ADH: Iron-containi 70.7 14 0.0003 38.1 7.5 78 155-242 11-88 (366)
258 COG1464 NlpA ABC-type metal io 70.7 22 0.00048 34.1 7.9 47 33-87 29-75 (268)
259 TIGR00696 wecB_tagA_cpsF bacte 70.1 82 0.0018 28.5 11.3 85 153-253 35-121 (177)
260 PF07287 DUF1446: Protein of u 69.8 93 0.002 31.8 12.7 175 45-260 6-188 (362)
261 PRK00865 glutamate racemase; P 69.3 57 0.0012 31.7 10.9 34 93-126 63-96 (261)
262 cd06312 PBP1_ABC_sugar_binding 68.9 18 0.00038 35.2 7.5 80 169-257 1-83 (271)
263 PF13379 NMT1_2: NMT1-like fam 67.9 4.8 0.0001 38.9 3.2 65 496-564 27-99 (252)
264 cd08185 Fe-ADH1 Iron-containin 67.2 31 0.00068 35.7 9.2 74 156-237 15-89 (380)
265 PRK03692 putative UDP-N-acetyl 67.1 56 0.0012 31.3 10.1 87 153-254 92-179 (243)
266 cd06301 PBP1_rhizopine_binding 66.9 20 0.00043 34.8 7.4 79 169-257 1-82 (272)
267 cd08188 Fe-ADH4 Iron-containin 65.8 34 0.00075 35.4 9.1 80 155-242 16-95 (377)
268 PRK15424 propionate catabolism 65.5 1.3E+02 0.0027 32.9 13.4 134 81-267 48-181 (538)
269 cd08191 HHD 6-hydroxyhexanoate 65.0 39 0.00084 35.1 9.4 78 156-242 12-89 (386)
270 PRK00945 acetyl-CoA decarbonyl 64.9 50 0.0011 29.6 8.6 43 95-139 34-79 (171)
271 PRK07475 hypothetical protein; 64.9 71 0.0015 30.7 10.5 47 79-126 60-106 (245)
272 TIGR02329 propionate_PrpR prop 64.8 1.5E+02 0.0032 32.3 13.8 135 80-267 37-171 (526)
273 cd05466 PBP2_LTTR_substrate Th 63.5 25 0.00055 31.1 7.0 70 489-566 13-83 (197)
274 cd08176 LPO Lactadehyde:propan 63.3 34 0.00073 35.4 8.5 79 155-241 16-94 (377)
275 cd08181 PPD-like 1,3-propanedi 63.1 41 0.00088 34.5 9.0 79 156-242 15-93 (357)
276 cd06310 PBP1_ABC_sugar_binding 62.6 27 0.00058 33.9 7.4 81 169-257 1-83 (273)
277 COG1179 Dinucleotide-utilizing 62.6 51 0.0011 31.2 8.4 92 46-153 80-172 (263)
278 cd06302 PBP1_LsrB_Quorum_Sensi 62.5 28 0.0006 34.5 7.6 79 170-257 2-82 (298)
279 PRK11063 metQ DL-methionine tr 62.1 23 0.0005 34.6 6.7 56 32-102 30-85 (271)
280 PF03466 LysR_substrate: LysR 60.9 34 0.00075 31.0 7.5 68 490-565 20-88 (209)
281 cd01538 PBP1_ABC_xylose_bindin 60.8 36 0.00077 33.5 8.0 78 170-257 2-81 (288)
282 PRK15395 methyl-galactoside AB 59.5 1.3E+02 0.0027 30.4 11.9 123 32-164 160-293 (330)
283 cd06303 PBP1_LuxPQ_Quorum_Sens 59.4 1.2E+02 0.0027 29.4 11.6 122 33-163 130-258 (280)
284 PRK07377 hypothetical protein; 59.2 25 0.00053 31.5 5.5 45 489-536 93-137 (184)
285 cd08170 GlyDH Glycerol dehydro 58.9 42 0.0009 34.3 8.2 84 156-251 12-95 (351)
286 cd08468 PBP2_Pa0477 The C-term 58.8 35 0.00075 31.0 7.1 73 489-566 13-86 (202)
287 PF09084 NMT1: NMT1/THI5 like; 58.4 21 0.00045 33.4 5.6 84 490-576 7-94 (216)
288 cd06267 PBP1_LacI_sugar_bindin 58.3 30 0.00064 33.1 6.9 77 170-258 2-80 (264)
289 cd01539 PBP1_GGBP Periplasmic 58.3 40 0.00087 33.5 7.9 79 169-257 1-83 (303)
290 COG2247 LytB Putative cell wal 57.5 2.1E+02 0.0045 28.5 12.9 80 95-203 75-159 (337)
291 cd01536 PBP1_ABC_sugar_binding 57.4 41 0.0009 32.2 7.7 79 169-257 1-81 (267)
292 TIGR00315 cdhB CO dehydrogenas 57.1 1.1E+02 0.0024 27.1 9.4 42 95-138 27-70 (162)
293 cd06318 PBP1_ABC_sugar_binding 57.0 35 0.00075 33.3 7.2 78 170-257 2-81 (282)
294 cd06322 PBP1_ABC_sugar_binding 56.8 44 0.00095 32.2 7.8 78 170-257 2-81 (267)
295 cd01537 PBP1_Repressors_Sugar_ 56.8 30 0.00066 33.0 6.6 78 169-257 1-80 (264)
296 cd06316 PBP1_ABC_sugar_binding 56.7 33 0.00071 33.8 6.9 80 169-257 1-82 (294)
297 PRK09423 gldA glycerol dehydro 56.6 54 0.0012 33.8 8.6 77 155-242 18-94 (366)
298 cd01540 PBP1_arabinose_binding 55.9 32 0.00069 33.7 6.7 77 169-257 1-80 (289)
299 cd08171 GlyDH-like2 Glycerol d 55.6 54 0.0012 33.4 8.4 76 156-241 12-87 (345)
300 cd02071 MM_CoA_mut_B12_BD meth 55.3 91 0.002 26.1 8.4 63 184-258 14-80 (122)
301 cd08187 BDH Butanol dehydrogen 54.6 64 0.0014 33.5 8.8 77 156-241 18-95 (382)
302 TIGR03850 bind_CPR_0540 carboh 53.9 49 0.0011 34.9 8.1 24 53-76 48-71 (437)
303 PF13377 Peripla_BP_3: Peripla 53.8 1.2E+02 0.0027 26.2 9.6 118 36-163 11-135 (160)
304 PRK10936 TMAO reductase system 53.7 53 0.0012 33.4 8.0 82 167-257 46-129 (343)
305 PF00205 TPP_enzyme_M: Thiamin 53.1 15 0.00033 31.5 3.3 56 88-146 3-61 (137)
306 cd06306 PBP1_TorT-like TorT-li 53.1 41 0.00088 32.6 6.9 80 169-257 1-82 (268)
307 cd06277 PBP1_LacI_like_1 Ligan 52.8 69 0.0015 30.8 8.5 75 170-257 2-81 (268)
308 cd08415 PBP2_LysR_opines_like 52.6 49 0.0011 29.5 7.0 69 489-565 13-82 (196)
309 cd06289 PBP1_MalI_like Ligand- 52.4 53 0.0011 31.6 7.6 77 170-257 2-80 (268)
310 cd01545 PBP1_SalR Ligand-bindi 52.1 54 0.0012 31.6 7.6 78 170-257 2-81 (270)
311 cd08182 HEPD Hydroxyethylphosp 52.1 71 0.0015 32.9 8.7 75 156-241 12-86 (367)
312 COG1707 ACT domain-containing 51.9 91 0.002 27.4 7.5 105 48-161 92-200 (218)
313 cd06300 PBP1_ABC_sugar_binding 51.7 60 0.0013 31.4 7.8 81 169-257 1-86 (272)
314 cd00578 L-fuc_L-ara-isomerases 51.5 2.5E+02 0.0054 29.9 12.9 90 36-130 2-97 (452)
315 PF02601 Exonuc_VII_L: Exonucl 51.3 1.4E+02 0.0029 30.1 10.4 88 33-130 13-116 (319)
316 cd06282 PBP1_GntR_like_2 Ligan 51.1 57 0.0012 31.3 7.5 78 170-258 2-81 (266)
317 cd06320 PBP1_allose_binding Pe 51.1 57 0.0012 31.6 7.6 80 169-257 1-83 (275)
318 TIGR01256 modA molybdenum ABC 50.9 31 0.00067 32.2 5.4 80 490-573 7-92 (216)
319 cd08186 Fe-ADH8 Iron-containin 50.5 76 0.0016 32.9 8.6 76 156-237 12-90 (383)
320 PRK09701 D-allose transporter 50.1 69 0.0015 31.9 8.1 86 164-257 21-108 (311)
321 TIGR00854 pts-sorbose PTS syst 49.9 1.3E+02 0.0027 26.5 8.5 81 154-250 13-93 (151)
322 TIGR02667 moaB_proteo molybden 49.9 1.1E+02 0.0023 27.4 8.2 67 167-241 4-72 (163)
323 TIGR03431 PhnD phosphonate ABC 49.9 85 0.0018 30.9 8.6 87 1-104 1-87 (288)
324 COG0563 Adk Adenylate kinase a 49.2 34 0.00073 31.0 5.0 30 99-128 3-32 (178)
325 TIGR00067 glut_race glutamate 49.2 1.9E+02 0.0041 27.9 10.5 126 83-241 46-181 (251)
326 cd08177 MAR Maleylacetate redu 48.7 40 0.00086 34.3 6.1 73 155-237 11-83 (337)
327 cd06314 PBP1_tmGBP Periplasmic 48.4 54 0.0012 31.7 6.9 78 170-257 2-80 (271)
328 COG3221 PhnD ABC-type phosphat 48.0 27 0.00058 34.7 4.5 45 488-535 51-95 (299)
329 PRK09756 PTS system N-acetylga 47.8 1.4E+02 0.0031 26.4 8.6 80 154-250 17-97 (158)
330 cd06315 PBP1_ABC_sugar_binding 47.8 97 0.0021 30.2 8.7 79 168-257 1-82 (280)
331 cd08486 PBP2_CbnR The C-termin 47.6 61 0.0013 29.3 6.8 70 489-566 14-84 (198)
332 PF00448 SRP54: SRP54-type pro 47.6 74 0.0016 29.4 7.1 75 156-242 19-93 (196)
333 cd06307 PBP1_uncharacterized_s 47.5 75 0.0016 30.8 7.8 81 169-257 1-84 (275)
334 PF13531 SBP_bac_11: Bacterial 47.5 31 0.00067 32.6 4.8 77 486-566 8-90 (230)
335 PF14503 YhfZ_C: YhfZ C-termin 47.5 20 0.00044 33.8 3.3 92 486-581 25-127 (232)
336 cd00001 PTS_IIB_man PTS_IIB, P 47.3 1.4E+02 0.0031 26.1 8.5 81 154-250 12-92 (151)
337 cd08550 GlyDH-like Glycerol_de 46.9 70 0.0015 32.7 7.6 75 156-241 12-86 (349)
338 cd06287 PBP1_LacI_like_8 Ligan 46.9 2.5E+02 0.0054 27.1 11.3 120 35-162 119-244 (269)
339 cd00886 MogA_MoaB MogA_MoaB fa 46.7 1.1E+02 0.0024 26.7 7.9 65 169-241 2-70 (152)
340 COG3221 PhnD ABC-type phosphat 46.7 63 0.0014 32.1 6.8 154 1-180 1-157 (299)
341 cd06317 PBP1_ABC_sugar_binding 46.6 67 0.0015 31.0 7.3 78 170-257 2-82 (275)
342 cd01391 Periplasmic_Binding_Pr 46.5 72 0.0016 30.1 7.4 78 169-257 1-83 (269)
343 PRK05452 anaerobic nitric oxid 46.5 3E+02 0.0065 29.5 12.5 143 101-271 198-349 (479)
344 cd08197 DOIS 2-deoxy-scyllo-in 46.2 2.1E+02 0.0045 29.3 10.8 76 156-237 12-90 (355)
345 PRK11425 PTS system N-acetylga 46.2 1.6E+02 0.0034 26.1 8.6 80 154-250 15-94 (157)
346 PRK10991 fucI L-fucose isomera 46.1 4.3E+02 0.0093 28.8 14.6 60 67-130 47-109 (588)
347 PF02602 HEM4: Uroporphyrinoge 46.0 1.1E+02 0.0023 28.9 8.3 93 148-255 97-190 (231)
348 cd06299 PBP1_LacI_like_13 Liga 45.9 92 0.002 29.8 8.1 76 170-257 2-79 (265)
349 PRK11303 DNA-binding transcrip 45.9 1E+02 0.0022 30.9 8.6 81 166-257 60-142 (328)
350 cd08175 G1PDH Glycerol-1-phosp 45.6 84 0.0018 32.1 7.9 78 156-241 12-89 (348)
351 TIGR02637 RhaS rhamnose ABC tr 45.1 76 0.0017 31.3 7.5 73 177-257 10-82 (302)
352 cd06319 PBP1_ABC_sugar_binding 45.0 73 0.0016 30.8 7.3 79 169-257 1-81 (277)
353 cd08453 PBP2_IlvR The C-termin 44.5 86 0.0019 28.1 7.3 72 490-566 14-86 (200)
354 PRK00002 aroB 3-dehydroquinate 44.3 2E+02 0.0044 29.4 10.5 90 142-241 9-101 (358)
355 cd08440 PBP2_LTTR_like_4 TThe 44.3 78 0.0017 28.0 7.0 69 489-565 13-82 (197)
356 PRK10014 DNA-binding transcrip 44.3 1.1E+02 0.0023 30.9 8.6 81 166-257 63-145 (342)
357 cd06323 PBP1_ribose_binding Pe 44.2 75 0.0016 30.5 7.2 77 170-257 2-81 (268)
358 cd08451 PBP2_BudR The C-termin 44.2 65 0.0014 28.7 6.4 69 490-565 15-84 (199)
359 cd08466 PBP2_LeuO The C-termin 43.9 75 0.0016 28.5 6.8 70 489-566 13-83 (200)
360 PRK11242 DNA-binding transcrip 43.9 69 0.0015 31.5 6.9 70 490-566 105-174 (296)
361 cd08448 PBP2_LTTR_aromatics_li 43.9 83 0.0018 27.9 7.1 69 489-565 13-82 (197)
362 PRK10653 D-ribose transporter 43.7 1.4E+02 0.003 29.4 9.0 81 167-257 26-108 (295)
363 cd08446 PBP2_Chlorocatechol Th 43.6 83 0.0018 28.1 7.0 69 490-566 15-84 (198)
364 PRK10355 xylF D-xylose transpo 43.6 1.1E+02 0.0023 31.0 8.3 80 167-257 25-107 (330)
365 COG1922 WecG Teichoic acid bio 43.5 1.1E+02 0.0024 29.4 7.6 97 153-269 95-195 (253)
366 COG0107 HisF Imidazoleglycerol 43.2 35 0.00076 31.9 4.1 48 486-535 182-229 (256)
367 cd08425 PBP2_CynR The C-termin 43.2 84 0.0018 28.0 7.0 68 491-566 16-84 (197)
368 cd08452 PBP2_AlsR The C-termin 42.9 92 0.002 27.9 7.2 69 490-566 14-83 (197)
369 cd08463 PBP2_DntR_like_4 The C 42.8 77 0.0017 28.8 6.7 72 488-566 12-84 (203)
370 COG1880 CdhB CO dehydrogenase/ 42.6 2.4E+02 0.0051 24.8 9.8 127 88-228 27-168 (170)
371 PRK11917 bifunctional adhesin/ 42.4 59 0.0013 31.5 6.0 71 493-566 161-233 (259)
372 cd08420 PBP2_CysL_like C-termi 42.4 82 0.0018 28.0 6.8 70 489-566 13-83 (201)
373 PF02401 LYTB: LytB protein; 42.4 1.8E+02 0.0038 28.6 9.1 86 36-128 156-242 (281)
374 cd06291 PBP1_Qymf_like Ligand 42.0 2.6E+02 0.0056 26.6 10.6 117 36-162 114-239 (265)
375 cd08450 PBP2_HcaR The C-termin 41.5 88 0.0019 27.8 6.9 69 489-565 13-82 (196)
376 cd08438 PBP2_CidR The C-termin 41.3 85 0.0018 27.8 6.7 70 489-566 13-83 (197)
377 cd08419 PBP2_CbbR_RubisCO_like 41.2 80 0.0017 28.0 6.5 69 490-566 13-82 (197)
378 cd08445 PBP2_BenM_CatM_CatR Th 41.1 84 0.0018 28.3 6.7 69 489-565 14-83 (203)
379 TIGR02370 pyl_corrinoid methyl 41.0 1.8E+02 0.0039 26.8 8.6 88 169-270 86-177 (197)
380 cd06321 PBP1_ABC_sugar_binding 40.8 96 0.0021 29.9 7.3 77 170-257 2-83 (271)
381 PRK10481 hypothetical protein; 40.7 1.5E+02 0.0032 28.0 8.0 83 35-128 130-213 (224)
382 cd00578 L-fuc_L-ara-isomerases 40.6 2.8E+02 0.006 29.5 11.2 67 184-257 23-89 (452)
383 cd01543 PBP1_XylR Ligand-bindi 40.4 2.9E+02 0.0062 26.4 10.6 119 36-163 111-239 (265)
384 PF12916 DUF3834: Protein of u 40.4 39 0.00085 30.6 3.8 45 488-535 76-121 (201)
385 cd08459 PBP2_DntR_NahR_LinR_li 40.1 77 0.0017 28.4 6.2 70 489-566 13-83 (201)
386 cd08412 PBP2_PAO1_like The C-t 40.1 93 0.002 27.7 6.8 70 489-566 13-83 (198)
387 cd08456 PBP2_LysR The C-termin 40.1 97 0.0021 27.5 6.9 69 489-565 13-82 (196)
388 cd08462 PBP2_NodD The C-termin 39.9 84 0.0018 28.3 6.5 68 490-566 14-82 (200)
389 cd08461 PBP2_DntR_like_3 The C 39.9 77 0.0017 28.3 6.2 70 489-566 13-83 (198)
390 cd06324 PBP1_ABC_sugar_binding 39.8 93 0.002 30.8 7.2 77 170-257 2-83 (305)
391 cd03364 TOPRIM_DnaG_primases T 39.8 63 0.0014 24.5 4.6 41 158-202 35-75 (79)
392 TIGR00237 xseA exodeoxyribonuc 39.5 2.2E+02 0.0047 30.1 9.9 91 33-130 128-228 (432)
393 PF07302 AroM: AroM protein; 39.3 2.1E+02 0.0045 26.9 8.6 82 35-127 126-208 (221)
394 cd06281 PBP1_LacI_like_5 Ligan 39.3 1.2E+02 0.0027 29.1 7.9 77 170-257 2-80 (269)
395 cd08434 PBP2_GltC_like The sub 39.2 91 0.002 27.5 6.5 69 490-566 14-83 (195)
396 PRK03601 transcriptional regul 38.9 87 0.0019 30.5 6.7 70 489-566 102-172 (275)
397 cd08413 PBP2_CysB_like The C-t 38.8 1E+02 0.0023 27.6 6.9 70 490-566 14-84 (198)
398 KOG0025 Zn2+-binding dehydroge 38.7 1.9E+02 0.004 28.4 8.2 95 142-257 162-258 (354)
399 cd08427 PBP2_LTTR_like_2 The C 38.6 1E+02 0.0022 27.3 6.8 72 489-566 13-85 (195)
400 PLN02821 1-hydroxy-2-methyl-2- 38.6 1.4E+02 0.003 31.3 8.0 90 35-126 299-393 (460)
401 cd08421 PBP2_LTTR_like_1 The C 38.6 1E+02 0.0022 27.4 6.8 68 491-566 15-83 (198)
402 cd08465 PBP2_ToxR The C-termin 38.6 94 0.002 28.0 6.5 69 489-565 13-82 (200)
403 cd08418 PBP2_TdcA The C-termin 38.4 1E+02 0.0023 27.4 6.8 72 489-566 13-85 (201)
404 PF12683 DUF3798: Protein of u 38.4 61 0.0013 31.2 5.0 98 153-265 17-137 (275)
405 cd08430 PBP2_IlvY The C-termin 38.3 1E+02 0.0022 27.5 6.7 69 490-565 14-83 (199)
406 PF13380 CoA_binding_2: CoA bi 38.2 50 0.0011 27.4 4.1 86 168-269 1-89 (116)
407 COG1638 DctP TRAP-type C4-dica 38.1 1.5E+02 0.0033 29.9 8.2 47 33-84 28-76 (332)
408 cd08444 PBP2_Cbl The C-termina 38.1 98 0.0021 27.8 6.6 71 489-566 13-84 (198)
409 TIGR02634 xylF D-xylose ABC tr 38.0 1.2E+02 0.0025 30.1 7.5 71 177-257 10-80 (302)
410 TIGR02417 fruct_sucro_rep D-fr 37.6 1.8E+02 0.004 28.9 9.0 81 166-257 59-141 (327)
411 PRK11151 DNA-binding transcrip 37.4 97 0.0021 30.7 6.9 69 490-566 105-174 (305)
412 PRK09492 treR trehalose repres 37.3 2.2E+02 0.0047 28.2 9.5 115 35-162 176-295 (315)
413 cd07766 DHQ_Fe-ADH Dehydroquin 37.3 3.2E+02 0.0069 27.5 10.7 72 156-237 12-84 (332)
414 COG1609 PurR Transcriptional r 37.2 4.5E+02 0.0098 26.5 12.1 122 34-162 175-303 (333)
415 cd08467 PBP2_SyrM The C-termin 37.1 92 0.002 28.0 6.2 70 489-566 13-83 (200)
416 TIGR00363 lipoprotein, YaeC fa 37.0 83 0.0018 30.5 6.0 55 33-102 18-72 (258)
417 TIGR03884 sel_bind_Methan sele 36.8 94 0.002 23.3 4.6 41 67-108 10-53 (74)
418 cd06295 PBP1_CelR Ligand bindi 36.8 1.4E+02 0.0031 28.7 7.9 77 167-257 3-88 (275)
419 cd08437 PBP2_MleR The substrat 36.8 1.1E+02 0.0025 27.2 6.8 71 490-566 14-85 (198)
420 cd06270 PBP1_GalS_like Ligand 36.7 1.6E+02 0.0034 28.2 8.2 76 170-257 2-79 (268)
421 PRK10341 DNA-binding transcrip 36.7 1.1E+02 0.0023 30.6 7.0 71 490-566 111-182 (312)
422 cd06280 PBP1_LacI_like_4 Ligan 36.6 2.6E+02 0.0056 26.7 9.7 117 35-163 116-239 (263)
423 cd08436 PBP2_LTTR_like_3 The C 36.6 1.2E+02 0.0025 26.8 6.8 71 489-566 13-84 (194)
424 PF12273 RCR: Chitin synthesis 36.6 23 0.00051 30.1 1.9 23 578-600 2-24 (130)
425 PRK07239 bifunctional uroporph 36.5 2.9E+02 0.0062 28.6 10.3 97 154-257 127-225 (381)
426 COG1879 RbsB ABC-type sugar tr 36.4 1.1E+02 0.0024 30.6 7.2 83 168-258 34-118 (322)
427 PF03830 PTSIIB_sorb: PTS syst 36.3 74 0.0016 27.9 5.0 84 154-253 13-96 (151)
428 cd08426 PBP2_LTTR_like_5 The C 36.0 1.1E+02 0.0023 27.3 6.4 69 490-566 14-83 (199)
429 cd08417 PBP2_Nitroaromatics_li 35.9 87 0.0019 27.9 5.9 70 489-566 13-83 (200)
430 COG0503 Apt Adenine/guanine ph 35.8 3.4E+02 0.0073 24.6 10.1 109 87-206 43-151 (179)
431 cd06296 PBP1_CatR_like Ligand- 35.8 1.3E+02 0.0029 28.8 7.5 76 170-257 2-79 (270)
432 cd06308 PBP1_sensor_kinase_lik 35.7 1.3E+02 0.0028 29.0 7.3 78 170-257 2-82 (270)
433 cd08460 PBP2_DntR_like_1 The C 35.7 98 0.0021 27.8 6.2 70 488-566 12-82 (200)
434 cd08183 Fe-ADH2 Iron-containin 35.6 2E+02 0.0043 29.7 8.9 74 156-242 12-85 (374)
435 PRK00856 pyrB aspartate carbam 35.5 4.6E+02 0.01 26.1 12.2 137 35-204 46-188 (305)
436 cd08414 PBP2_LTTR_aromatics_li 35.4 1.2E+02 0.0027 26.7 6.8 69 490-565 14-82 (197)
437 COG1570 XseA Exonuclease VII, 35.3 1.5E+02 0.0033 30.9 7.7 93 33-136 134-238 (440)
438 TIGR03427 ABC_peri_uca ABC tra 35.1 41 0.0009 34.0 3.7 61 453-534 2-62 (328)
439 cd08178 AAD_C C-terminal alcoh 35.0 1.2E+02 0.0025 31.7 7.1 66 165-237 19-84 (398)
440 cd00758 MoCF_BD MoCF_BD: molyb 35.0 1.7E+02 0.0036 24.9 7.0 47 186-241 21-67 (133)
441 cd08449 PBP2_XapR The C-termin 34.9 1.5E+02 0.0032 26.3 7.2 70 490-565 14-84 (197)
442 cd08442 PBP2_YofA_SoxR_like Th 34.7 1.2E+02 0.0027 26.6 6.7 70 489-566 13-83 (193)
443 CHL00180 rbcR LysR transcripti 34.7 1.2E+02 0.0025 30.2 6.9 72 490-566 109-181 (305)
444 cd08439 PBP2_LrhA_like The C-t 34.6 1.4E+02 0.003 26.4 6.9 66 491-566 15-81 (185)
445 PRK02929 L-arabinose isomerase 34.5 6.2E+02 0.013 27.3 12.6 75 54-129 30-105 (499)
446 COG3340 PepE Peptidase E [Amin 34.3 3.5E+02 0.0076 25.3 8.9 85 157-257 23-107 (224)
447 cd06285 PBP1_LacI_like_7 Ligan 34.2 4.1E+02 0.0089 25.2 10.6 119 35-162 115-241 (265)
448 PF07172 GRP: Glycine rich pro 34.2 26 0.00056 27.9 1.6 20 1-20 1-21 (95)
449 COG3919 Predicted ATP-grasp en 34.1 4.7E+02 0.01 25.8 15.6 91 99-196 6-98 (415)
450 cd06278 PBP1_LacI_like_2 Ligan 33.9 1.8E+02 0.004 27.7 8.1 75 170-257 2-78 (266)
451 cd07372 2A5CPDO_B The beta sub 33.9 3.8E+02 0.0083 26.6 10.1 88 79-177 95-190 (294)
452 cd06309 PBP1_YtfQ_like Peripla 33.8 93 0.002 30.1 6.0 71 176-257 10-81 (273)
453 COG0371 GldA Glycerol dehydrog 33.8 2.3E+02 0.005 28.9 8.5 89 158-257 21-109 (360)
454 cd08429 PBP2_NhaR The C-termin 33.8 1.3E+02 0.0028 27.4 6.6 70 489-563 13-83 (204)
455 cd01575 PBP1_GntR Ligand-bindi 33.8 4.2E+02 0.0091 25.1 11.7 118 36-162 118-243 (268)
456 COG0426 FpaA Uncharacterized f 33.6 3.9E+02 0.0085 27.6 10.1 104 154-271 233-342 (388)
457 TIGR02136 ptsS_2 phosphate bin 33.5 56 0.0012 32.2 4.3 70 493-566 52-129 (287)
458 PRK10677 modA molybdate transp 33.3 96 0.0021 30.0 5.8 72 491-566 41-118 (257)
459 cd08441 PBP2_MetR The C-termin 33.3 1.3E+02 0.0028 26.8 6.6 67 491-565 15-82 (198)
460 PF03480 SBP_bac_7: Bacterial 33.2 1.4E+02 0.0031 29.3 7.1 61 487-548 12-74 (286)
461 PRK10423 transcriptional repre 33.2 4.2E+02 0.0092 26.2 10.9 121 33-162 173-301 (327)
462 PRK13054 lipid kinase; Reviewe 33.2 2.6E+02 0.0057 27.7 9.1 76 168-255 4-79 (300)
463 KOG0780 Signal recognition par 33.2 1.9E+02 0.0041 29.7 7.6 104 154-269 117-223 (483)
464 PRK13792 lysozyme inhibitor; P 32.9 45 0.00097 28.1 2.9 23 1-24 1-23 (127)
465 cd01569 PBEF_like pre-B-cell c 32.7 5.1E+02 0.011 27.0 10.9 143 103-265 197-360 (407)
466 cd08411 PBP2_OxyR The C-termin 32.7 1.5E+02 0.0034 26.3 7.0 68 490-565 15-83 (200)
467 cd08469 PBP2_PnbR The C-termin 32.7 1.5E+02 0.0033 27.1 7.1 70 489-566 13-83 (221)
468 PRK14805 ornithine carbamoyltr 32.4 5.2E+02 0.011 25.8 11.4 133 35-204 39-177 (302)
469 cd08431 PBP2_HupR The C-termin 32.3 1.5E+02 0.0032 26.4 6.7 69 489-564 13-82 (195)
470 PF00072 Response_reg: Respons 32.0 2E+02 0.0043 22.9 6.8 59 183-256 8-69 (112)
471 cd01542 PBP1_TreR_like Ligand- 32.0 1.7E+02 0.0036 27.9 7.4 76 170-257 2-79 (259)
472 PRK09791 putative DNA-binding 31.9 1.4E+02 0.0029 29.6 6.9 73 490-567 109-181 (302)
473 TIGR02405 trehalos_R_Ecol treh 31.8 3.8E+02 0.0081 26.5 10.1 118 35-162 173-292 (311)
474 cd06313 PBP1_ABC_sugar_binding 31.7 1.3E+02 0.0029 29.0 6.7 69 178-257 12-81 (272)
475 cd08416 PBP2_MdcR The C-termin 31.6 1.4E+02 0.0031 26.5 6.6 71 489-565 13-84 (199)
476 TIGR02079 THD1 threonine dehyd 31.6 5.4E+02 0.012 26.9 11.4 129 99-256 65-193 (409)
477 PRK08639 threonine dehydratase 31.5 6.3E+02 0.014 26.5 12.1 130 99-256 74-204 (420)
478 cd06271 PBP1_AglR_RafR_like Li 31.5 1.4E+02 0.0031 28.4 6.9 75 170-257 2-83 (268)
479 cd08423 PBP2_LTTR_like_6 The C 31.4 1.6E+02 0.0035 26.0 6.9 71 490-565 14-87 (200)
480 KOG2387 CTP synthase (UTP-ammo 31.4 3.6E+02 0.0077 28.1 9.2 92 32-128 296-399 (585)
481 cd06274 PBP1_FruR Ligand bindi 31.3 2E+02 0.0044 27.4 7.9 76 170-257 2-79 (264)
482 cd08457 PBP2_OccR The C-termin 31.2 1.5E+02 0.0033 26.4 6.6 67 490-564 14-81 (196)
483 cd06292 PBP1_LacI_like_10 Liga 31.2 2.2E+02 0.0048 27.3 8.2 78 170-257 2-84 (273)
484 COG1619 LdcA Uncharacterized p 31.1 3.7E+02 0.008 26.9 9.4 76 36-116 12-93 (313)
485 COG1058 CinA Predicted nucleot 30.9 1.2E+02 0.0027 29.2 5.8 47 186-241 23-69 (255)
486 PF11965 DUF3479: Domain of un 30.8 2E+02 0.0042 25.7 6.7 83 50-137 11-99 (164)
487 cd01574 PBP1_LacI Ligand-bindi 30.8 2.1E+02 0.0046 27.2 8.0 77 170-257 2-80 (264)
488 cd08435 PBP2_GbpR The C-termin 30.8 1.7E+02 0.0037 25.9 7.0 71 490-566 14-85 (201)
489 cd01972 Nitrogenase_VnfE_like 30.7 1.4E+02 0.003 31.6 6.9 146 97-259 162-320 (426)
490 cd03557 L-arabinose_isomerase 30.6 2.5E+02 0.0054 30.1 8.6 75 55-130 25-100 (484)
491 cd06288 PBP1_sucrose_transcrip 30.6 4.4E+02 0.0096 25.0 10.2 120 36-163 118-245 (269)
492 cd06268 PBP1_ABC_transporter_L 30.5 2.7E+02 0.0058 26.8 8.8 79 170-257 2-91 (298)
493 cd06273 PBP1_GntR_like_1 This 30.4 2E+02 0.0044 27.4 7.7 76 170-257 2-79 (268)
494 PRK10481 hypothetical protein; 30.1 3.9E+02 0.0085 25.2 8.9 83 158-253 119-202 (224)
495 PRK00286 xseA exodeoxyribonucl 30.0 4.9E+02 0.011 27.5 11.0 90 33-130 134-233 (438)
496 PF04392 ABC_sub_bind: ABC tra 30.0 1.7E+02 0.0037 28.9 7.1 114 34-164 131-247 (294)
497 cd08443 PBP2_CysB The C-termin 29.9 1.7E+02 0.0036 26.3 6.7 70 490-566 14-84 (198)
498 cd06298 PBP1_CcpA_like Ligand- 29.7 1.9E+02 0.0042 27.6 7.5 76 170-257 2-79 (268)
499 PF00731 AIRC: AIR carboxylase 29.7 2.3E+02 0.005 24.8 6.8 72 169-249 2-73 (150)
500 PRK14987 gluconate operon tran 29.6 3.2E+02 0.0069 27.3 9.3 79 167-257 63-143 (331)
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=2.8e-61 Score=471.64 Aligned_cols=545 Identities=18% Similarity=0.305 Sum_probs=438.7
Q ss_pred CCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCC--C--eEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSR--N--HKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~--g--~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
+..|.||.++|.... +...|+++|+...|.... . .+|.+.+.. ...+......++|... ..+|.||+|...
T Consensus 24 ~~tiqigglF~~n~~---qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~-s~Gv~Aifg~yd 99 (897)
T KOG1054|consen 24 PNTIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQF-SRGVYAIFGFYD 99 (897)
T ss_pred CCceeeccccCCcch---HHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHH-hhhHhhheeccc
Confidence 356999999999853 456789999988887541 2 344433332 2267778888999998 899999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchH
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~ 186 (635)
-.....+..+|...++|+|+++.. .+...++.+++.|+ +-.++++++.|++|.++.++|+.+. | ...+
T Consensus 100 ~ks~~~ltsfc~aLh~~~vtpsfp------~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~lyD~~r-g--~s~L 167 (897)
T KOG1054|consen 100 KKSVNTLTSFCGALHVSFVTPSFP------TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLYDTDR-G--LSIL 167 (897)
T ss_pred ccchhhhhhhccceeeeeecccCC------cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEEcccc-h--HHHH
Confidence 888999999999999999987644 33346789999998 4678999999999999999998865 6 7788
Q ss_pred HHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 187 ~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
+++.+.+.+++ +.|.....-... | ...++.+++.+...+.+-|++ .|..+....++.++.+.+....+|++++
T Consensus 168 qai~~~a~~~n-w~VtA~~v~~~~----d-~~~yr~~f~~l~~r~e~rv~i-Dce~~~~~~il~q~i~~~k~~~~YHYvl 240 (897)
T KOG1054|consen 168 QAIMEAAAQNN-WQVTAINVGNIN----D-VKEYRMLFEMLDRRQENRVLI-DCESERRNRILLQVIELGKHVKGYHYVL 240 (897)
T ss_pred HHHHHHHHhcC-ceEEEEEcCCcc----c-HHHHHHHHHHHhccccceEEE-EcccHHHHHHHHHHHHHhhhccceEEEE
Confidence 99999998889 998876532222 2 245888999998888887888 9999999999999999998889999999
Q ss_pred eCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 267 TNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
.+......+.. .......++.+|.....+. |..++|.++|++.-..+++...+.++...++.+|||++++++|++.+
T Consensus 241 aNl~f~d~dl~--~f~~g~aNitgFqivn~~~-~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~ 317 (897)
T KOG1054|consen 241 ANLGFTDIDLE--RFQHGGANITGFQIVNKNN-PMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSL 317 (897)
T ss_pred eeCCCchhhHH--HHhcCCcceeEEEEecCCC-hHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 88654333221 1122334577888776555 78999999998776666666566778888999999999999999987
Q ss_pred ccc--------------------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCC
Q 006683 347 NYN--------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFG 406 (635)
Q Consensus 347 ~~~--------------------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~ 406 (635)
... |..|..+.++|+++.++|++|+|.||..|.|.|...+|+++..++.+++|+|....+
T Consensus 318 ~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~ 397 (897)
T KOG1054|consen 318 RRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEG 397 (897)
T ss_pred HHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccCc
Confidence 531 456889999999999999999999999999999999999999999999999998877
Q ss_pred CccccCCCccCCCCCcccccCCCcccccCCCCcCcCCCccccCCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCcc
Q 006683 407 FSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLR 486 (635)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~P~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~ 486 (635)
+....+..+ -++ -+...+++++.|.+... .||++.+.+.+. ..| +.+
T Consensus 398 fv~~~t~a~-------------------~~~--------d~~~~~n~tvvvttiL~---spyvm~kkn~~~-~eg--n~r 444 (897)
T KOG1054|consen 398 FVPGSTVAQ-------------------SRN--------DQASKENRTVVVTTILE---SPYVMLKKNHEQ-LEG--NER 444 (897)
T ss_pred eeecccccc-------------------ccc--------cccccccceEEEEEecC---CchhHHHhhHHH-hcC--Ccc
Confidence 654432100 000 00122345566665543 367777765321 244 678
Q ss_pred ccceeHHHHHHHHHHCCCcccEEEecC--------CCC-hhhHHHHHHcCcccEEEecccccccccccccccccceeeee
Q 006683 487 YDGFSIELFRLVVDHLNYDLPYEFVPH--------DGV-YDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGF 557 (635)
Q Consensus 487 ~~G~~~dl~~~la~~l~~~~~~~~~~~--------~~~-~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~ 557 (635)
++|||+||+.+||+..+.+|++.++.+ +++ |+||+++|..|++|+|++++|+|.+|++.+|||.||+++|+
T Consensus 445 yEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGI 524 (897)
T KOG1054|consen 445 YEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGI 524 (897)
T ss_pred cceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCe
Confidence 999999999999999999999998864 445 99999999999999999999999999999999999999999
Q ss_pred EEEEeCCCCC--CcceeecCCCHhHHHHHHHHHHHHHHHhhhhhcccCCCCCCC-------------cccccchhhHhHH
Q 006683 558 SMIVPAKQEE--STWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT-------------LKDQISNILWFAF 622 (635)
Q Consensus 558 ~~~v~~~~~~--~~~~~l~pf~~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~w~~~ 622 (635)
+||++||... +.++||.|+..++|+|++..++.++++++++.|++|+||+.+ ...+++||+||++
T Consensus 525 SIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsL 604 (897)
T KOG1054|consen 525 SIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSL 604 (897)
T ss_pred EEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHH
Confidence 9999998766 789999999999999999999999999999999999887532 1236899999999
Q ss_pred HHhhccCCCCCCC
Q 006683 623 STIFFSHSEYPLN 635 (635)
Q Consensus 623 ~~~~~q~~~~~~~ 635 (635)
|+|||||-++.||
T Consensus 605 gAFMQQG~DI~PR 617 (897)
T KOG1054|consen 605 GAFMQQGCDISPR 617 (897)
T ss_pred HHHHhcCCCCCcc
Confidence 9999999998876
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2.4e-60 Score=467.29 Aligned_cols=524 Identities=21% Similarity=0.354 Sum_probs=417.8
Q ss_pred CCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEec--CCCCHHHHHHHHHHHhhcCCeEEEEc-CC-Ch
Q 006683 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAG-ME-TW 107 (635)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D--~~~~~~~a~~~~~~li~~~~v~aiiG-~~-~s 107 (635)
++.++||.++.-. ..++-+.-++.++|++.+..++.+.... ...++...+..+|+-+-...|.+|+- +. +|
T Consensus 33 p~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~vSh~~Ts 107 (993)
T KOG4440|consen 33 PKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHGSWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLVSHPPTS 107 (993)
T ss_pred ccceeeeeeeech-----hHHHHHHHHHHHhhccccceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEecCCCCC
Confidence 6889999998775 4567888999999988766666663333 44567777777776443777776664 32 22
Q ss_pred h---hHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCc
Q 006683 108 E---ETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDS 183 (635)
Q Consensus 108 ~---~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~ 183 (635)
. +-.++...++.++||++..... +..+++ .-++.|.|+.|+..+++.+..++|.+|.|++|.++.++|..| +
T Consensus 108 ~d~f~p~~vSYT~gFY~iPV~G~~~R--da~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~g--r 183 (993)
T KOG4440|consen 108 NDHFTPTPVSYTAGFYRIPVLGLTTR--DAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEG--R 183 (993)
T ss_pred Ccccccccceeeccceeeeeeeeeeh--hhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccc--h
Confidence 1 2345567788899999999988 889998 578999999999999999999999999999999999999888 7
Q ss_pred chHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeE
Q 006683 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (635)
Q Consensus 184 ~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (635)
....+++..+++.. -++.....+.++. ..+++.+..+|...+|+++. ....+++..+++.|..++|+|++|+
T Consensus 184 a~~~r~qt~~e~~~-~~~e~v~~f~p~~------~~~t~~l~~~k~~~~rv~~~-~as~dDA~~ifr~Ag~lnmTG~G~V 255 (993)
T KOG4440|consen 184 AAQKRLQTLLEERE-SKAEKVLQFDPGT------KNVTALLMEAKELEARVIIL-SASEDDAATIFRAAGMLNMTGSGYV 255 (993)
T ss_pred hHHhHHHHHHHHHh-hhhhhheecCccc------chHHHHHhhhhhhhheeEEe-ecccchHHHHHHhhhhhcccCceEE
Confidence 77677777777666 6666666677776 67999999999999999999 9999999999999999999999999
Q ss_pred EEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHH
Q 006683 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (635)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (635)
||.+..-... ....+|+++.......+ ..+..-|++.+++.|+
T Consensus 256 WiV~E~a~~~--------nn~PdG~LGlqL~~~~~-----------------------------~~~hirDsv~vlasAv 298 (993)
T KOG4440|consen 256 WIVGERAISG--------NNLPDGILGLQLINGKN-----------------------------ESAHIRDSVGVLASAV 298 (993)
T ss_pred EEEecccccc--------CCCCCceeeeEeecCcc-----------------------------ccceehhhHHHHHHHH
Confidence 9998753211 12357888887643322 1245679999999999
Q ss_pred Hhhccc----------------CCChHHHHHHHHcC-cccceeeeEEEeCCCCCCCCcEEEEEe-eCCceEEEEeecCCC
Q 006683 344 GRLNYN----------------ISSPEMLLRQMLSS-DFSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELDFWLPNF 405 (635)
Q Consensus 344 ~~~~~~----------------~~~~~~l~~~l~~~-~f~g~~G~v~F~~~g~~~~~~~~i~~~-~~~~~~~vG~w~~~~ 405 (635)
+++... |.++..+.+.+... ..+|.+|+|.||++|+|....|+|+|+ ++...+.+|.++.-.
T Consensus 299 ~e~~~~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~r 378 (993)
T KOG4440|consen 299 HELLEKENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGTR 378 (993)
T ss_pred HHHHhhccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcccccee
Confidence 998652 56677888888764 458999999999999999999999999 444444455554321
Q ss_pred CCccccCCCccCCCCCcccccCCCcccccCCCCcCcCCCccccCCCCCCEEEEecCCCCccceEEeec---CCCCC----
Q 006683 406 GFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKD---DPLNG---- 478 (635)
Q Consensus 406 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~P~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~---~~~~~---- 478 (635)
.. .+ .++|+||||.+ ++|+++++|+ ||||.+.+++ ||++... +++|.
T Consensus 379 -----~~-------~n-------d~~IiWpGg~~-~KP~gi~~pt---hLrivTi~~~---PFVYv~p~~sd~~c~eef~ 432 (993)
T KOG4440|consen 379 -----VI-------PN-------DRKIIWPGGET-EKPRGIQMPT---HLRIVTIHQE---PFVYVKPTLSDGTCKEEFT 432 (993)
T ss_pred -----ec-------cC-------CceeecCCCCc-CCCccccccc---eeEEEEeccC---CeEEEecCCCCcchhhhcc
Confidence 10 11 17899999998 9999999885 6999998875 6777773 22221
Q ss_pred -----------------CCCCC----CccccceeHHHHHHHHHHCCCcccEEEecC----------------CCChhhHH
Q 006683 479 -----------------NSNDK----NLRYDGFSIELFRLVVDHLNYDLPYEFVPH----------------DGVYDDLI 521 (635)
Q Consensus 479 -----------------~~g~~----~~~~~G~~~dl~~~la~~l~~~~~~~~~~~----------------~~~~~~~~ 521 (635)
..|.+ ..||.||||||+-+|++++||+|+..++++ ...|+||+
T Consensus 433 ~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~i 512 (993)
T KOG4440|consen 433 VNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMI 512 (993)
T ss_pred ccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhh
Confidence 01111 458999999999999999999999998875 12699999
Q ss_pred HHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCCCC-cceeecCCCHhHHHHHHHHHHHHHHHhhhhhc
Q 006683 522 NGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES-TWMFTKPFTWEMWMVTAASFIYTMFIVWLLEH 600 (635)
Q Consensus 522 ~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~-~~~~l~pf~~~~W~~~~~~~~~~~~~~~~~~~ 600 (635)
++|..|++||+++++|+++||+++++||.||.+.|+.|+.+++.+.+ +.+||+||+.++|++++++++++++++|+++|
T Consensus 513 GEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDr 592 (993)
T KOG4440|consen 513 GELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDR 592 (993)
T ss_pred hhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999988875 56999999999999999999999999999999
Q ss_pred ccCCC-CCCC-------cccccchhhHhHHHHhhccC-CCCCCC
Q 006683 601 QSNPE-FRGT-------LKDQISNILWFAFSTIFFSH-SEYPLN 635 (635)
Q Consensus 601 ~~~~~-~~~~-------~~~~~~~~~w~~~~~~~~q~-~~~~~~ 635 (635)
++|.+ |... -.-++.++|||+||.|+..| ||..||
T Consensus 593 fSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPR 636 (993)
T KOG4440|consen 593 FSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPR 636 (993)
T ss_pred cCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCc
Confidence 99864 2211 11259999999999999997 565554
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=3e-48 Score=396.06 Aligned_cols=480 Identities=20% Similarity=0.359 Sum_probs=362.6
Q ss_pred CCCCHHHHHHHHHHHhhcCCeEEEEcCCChh---hHHHHHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHH
Q 006683 78 HNRDPFQAATAAQELINKEKVKVIAGMETWE---ETAVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSE 153 (635)
Q Consensus 78 ~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~---~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~ 153 (635)
...||...+..+|.++...+|.+|+-...+. ++..+--+....+||+|+....+ +..++++ ....++++.|+.++
T Consensus 81 N~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~-a~~~~~kd~gs~flQlg~Sieq 159 (1258)
T KOG1053|consen 81 NTTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGA-AMVLTPKDLGSTFLQLGPSIEQ 159 (1258)
T ss_pred CCCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCc-cceecCCCCcceEEEeCCcHHH
Confidence 4489999999999999999999887655443 33334446677899999988773 4445553 33579999999999
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCC-eEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCc
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSS-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~-~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~ 232 (635)
|+++++++|+.++|.++++|.+..+.- +.+...+++.....-. +++.......+.. .|. ......++|+.++
T Consensus 160 qa~Vml~iL~~ydW~~Fs~vtt~~pg~--~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~--~d~---~a~~q~qLkki~a 232 (1258)
T KOG1053|consen 160 QAQVMLKILEEYDWYNFSLVTTQFPGN--RTFVSLIRQTNDNSHVGWEMINVLTLDPST--DDL---LAKLQAQLKKIQA 232 (1258)
T ss_pred HHHHHHHHHHHcCcceeEEEEeecCch--HHHHHHHHHhhhhccccceeeeeeecCCCC--Cch---HHHHHHHHHhcCC
Confidence 999999999999999999999998855 7777777776655420 4444444333333 222 2233344444468
Q ss_pred eEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHh
Q 006683 233 RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRN 312 (635)
Q Consensus 233 ~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~ 312 (635)
.||++ +|+.+++..++..|.+.|+++.+|.||++...... ++.-.....|.+.+... .|+
T Consensus 233 ~Vill-yC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~----~~~pa~~P~GLisv~~~-------------~w~-- 292 (1258)
T KOG1053|consen 233 PVILL-YCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL----EPRPAEFPLGLISVSYD-------------TWR-- 292 (1258)
T ss_pred cEEEE-EecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC----CCCCccCccceeeeecc-------------chh--
Confidence 89999 99999999999999999999999999997654331 01011233455444321 111
Q ss_pred hccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccc------------------CCChHHHHHHHHcCcccceeeeEEE
Q 006683 313 FTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN------------------ISSPEMLLRQMLSSDFSGLSGKIRF 374 (635)
Q Consensus 313 ~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~------------------~~~~~~l~~~l~~~~f~g~~G~v~F 374 (635)
.......-|++.+++.|.+.+... ...+..+..+|.|+.|+| +.++|
T Consensus 293 -------------~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf 357 (1258)
T KOG1053|consen 293 -------------YSLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSF 357 (1258)
T ss_pred -------------hhHHHHHhhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--cceee
Confidence 123456779999999998877541 246888999999999999 79999
Q ss_pred eCCCCCCCCcEEEEEee-CCceEEEEeecCCCCCccccCCCccCCCCCcccccCCCcccccCCCCcCcCCCccccCCCCC
Q 006683 375 KDGELLNADTLRIVNVV-GKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQE 453 (635)
Q Consensus 375 ~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~P~~~~~~~~~~ 453 (635)
+++|-..++.+-++.+. +..|.+||.|..+. +.+ +-.+||.-. +.....+ +..
T Consensus 358 ~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~M--------------------~y~vWPr~~----~~~q~~~-d~~ 411 (1258)
T KOG1053|consen 358 NEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LVM--------------------KYPVWPRYH----KFLQPVP-DKL 411 (1258)
T ss_pred cCCceeeccceEEEecCCCcchheeceecCCe-EEE--------------------ecccccccc----CccCCCC-Ccc
Confidence 99998888888888774 58899999998754 222 335899532 2233333 467
Q ss_pred CEEEEecCCCCccceEEeec-CCC--CC------------------CCCC--CCccccceeHHHHHHHHHHCCCcccEEE
Q 006683 454 PMRIGVPTRTFFEKFVVIKD-DPL--NG------------------NSND--KNLRYDGFSIELFRLVVDHLNYDLPYEF 510 (635)
Q Consensus 454 ~l~v~~~~~~~~~p~~~~~~-~~~--~~------------------~~g~--~~~~~~G~~~dl~~~la~~l~~~~~~~~ 510 (635)
||+|++.+++ ||+++.+ |.. .+ ..+| ...||.||||||+++||+.+||+|++++
T Consensus 412 HL~VvTLeE~---PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYl 488 (1258)
T KOG1053|consen 412 HLTVVTLEER---PFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYL 488 (1258)
T ss_pred eeEEEEeccC---CeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEE
Confidence 9999999875 6777654 221 11 0111 1568999999999999999999999999
Q ss_pred ecC-------CCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCCC-CcceeecCCCHhHHH
Q 006683 511 VPH-------DGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE-STWMFTKPFTWEMWM 582 (635)
Q Consensus 511 ~~~-------~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~-~~~~~l~pf~~~~W~ 582 (635)
+.+ +|.|+|||++|..+++||+++++++++||.+.+|||.||.++++++||+..+.. ++-+||.||++.||+
T Consensus 489 VtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWV 568 (1258)
T KOG1053|consen 489 VTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWV 568 (1258)
T ss_pred ecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHH
Confidence 975 678999999999999999999999999999999999999999999999888777 889999999999999
Q ss_pred HHHHHHHHHHH-HhhhhhcccCCCCC---------CCcccccchhhHhHHHHhhccC
Q 006683 583 VTAASFIYTMF-IVWLLEHQSNPEFR---------GTLKDQISNILWFAFSTIFFSH 629 (635)
Q Consensus 583 ~~~~~~~~~~~-~~~~~~~~~~~~~~---------~~~~~~~~~~~w~~~~~~~~q~ 629 (635)
.+++++++++. .+|++|+++|..|. +.+.+++.++.|+.|+-++...
T Consensus 569 mmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnns 625 (1258)
T KOG1053|consen 569 MMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNS 625 (1258)
T ss_pred HHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCC
Confidence 99999887755 56799999987653 2345689999999998655543
No 4
>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=9.4e-45 Score=386.51 Aligned_cols=362 Identities=19% Similarity=0.251 Sum_probs=301.4
Q ss_pred CCCeEEEEEEeeCCC----------------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHH
Q 006683 31 IEEVTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQA 85 (635)
Q Consensus 31 ~~~~i~IG~i~p~s~----------------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a 85 (635)
.+++|.||+++|.+. ..|.....|+.+|+++||+++ |+++|+++++|+|+++..+
T Consensus 9 ~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a 88 (510)
T cd06364 9 KKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKA 88 (510)
T ss_pred ecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHH
Confidence 368899999999972 457888999999999999988 6789999999999999999
Q ss_pred HHHHHHHhhcCC------------------eEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEE
Q 006683 86 ATAAQELINKEK------------------VKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIR 146 (635)
Q Consensus 86 ~~~~~~li~~~~------------------v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r 146 (635)
++.+.+++..++ +.+||||.+|.++.++++++..++||+|+++++ ++.+++ ..|||+||
T Consensus 89 ~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~ss--s~~ls~~~~yp~ffR 166 (510)
T cd06364 89 LEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASS--SRLLSNKNQFKSFLR 166 (510)
T ss_pred HHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccC--CcccCCccccCCeeE
Confidence 999999985443 469999999999999999999999999999999 888987 58999999
Q ss_pred EecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHh
Q 006683 147 MASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (635)
Q Consensus 147 ~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~ 226 (635)
+.|++..++.++++++++++|++|++|+.+++|| +...+.+++.+++.| +||+..+.++... ...++.+++++
T Consensus 167 t~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG--~~~~~~~~~~~~~~G-i~I~~~~~i~~~~----~~~d~~~~l~k 239 (510)
T cd06364 167 TIPNDEHQATAMADIIEYFRWNWVGTIAADDDYG--RPGIEKFREEAEERD-ICIDFSELISQYS----DEEEIQRVVEV 239 (510)
T ss_pred cCCChHHHHHHHHHHHHHcCCeEEEEEEecCcch--HHHHHHHHHHHHHCC-cEEEEEEEeCCCC----CHHHHHHHHHH
Confidence 9999999999999999999999999999999999 999999999999999 9999888776532 12689999999
Q ss_pred hhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHH
Q 006683 227 VQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFS 306 (635)
Q Consensus 227 l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~ 306 (635)
++++++|+||+ .+...++..+++++.++|+.+ ..||+++.|............+.+.|++++.+..... +++++|+
T Consensus 240 lk~~~a~vVvl-~~~~~~~~~ll~qa~~~g~~~--~iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i-~~f~~~l 315 (510)
T cd06364 240 IQNSTAKVIVV-FSSGPDLEPLIKEIVRRNITG--KIWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQI-PGFREFL 315 (510)
T ss_pred HHhcCCeEEEE-EeCcHHHHHHHHHHHHhCCCC--cEEEEEchhhcccccccCCccceeeEEEEEEECCCcC-ccHHHHH
Confidence 99999999999 999999999999999999987 5999999886543333333446778999998876555 5677776
Q ss_pred HHHH----------HhhccCCCCCC---------------------------------CCC----------------Ccc
Q 006683 307 ALFR----------RNFTSEYPEED---------------------------------HFH----------------PSI 327 (635)
Q Consensus 307 ~~~~----------~~~~~~~~~~~---------------------------------~~~----------------~~~ 327 (635)
+.+. +.||+..++|. .|. ...
T Consensus 316 ~~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~ 395 (510)
T cd06364 316 QKVHPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLR 395 (510)
T ss_pred HhCCcccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchh
Confidence 6532 23332211110 121 122
Q ss_pred hhhhHhhHHHHHHHHHHhhcccC----------------CChHHHHHHHHcCcccceee-eEEEeCCCCCCCCcEEEEEe
Q 006683 328 HALRAHDSIKIITEAIGRLNYNI----------------SSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNV 390 (635)
Q Consensus 328 ~~~~~yDav~~~a~Al~~~~~~~----------------~~~~~l~~~l~~~~f~g~~G-~v~F~~~g~~~~~~~~i~~~ 390 (635)
.+++.||||+++|||||++..|. .++++|+++|++++|.|.+| +|.||++|+.. ..|+|+++
T Consensus 396 ~~~~v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~-~~YdI~n~ 474 (510)
T cd06364 396 ISYNVYLAVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLV-GNYSIINW 474 (510)
T ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCCc-cceeEEEe
Confidence 35779999999999999986431 35899999999999999998 99999999985 79999999
Q ss_pred eC------CceEEEEeecCCCC
Q 006683 391 VG------KKYKELDFWLPNFG 406 (635)
Q Consensus 391 ~~------~~~~~vG~w~~~~~ 406 (635)
+. ..+++||.|++...
T Consensus 475 q~~~~~~~~~~v~VG~~~~~~~ 496 (510)
T cd06364 475 HLSPEDGSVVFKEVGYYNVYAK 496 (510)
T ss_pred eecCCCCcEEEEEEEEEcCCCC
Confidence 83 23689999987543
No 5
>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=3.8e-45 Score=387.21 Aligned_cols=360 Identities=17% Similarity=0.216 Sum_probs=299.0
Q ss_pred CeEEEEEEeeCCC----------------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHH
Q 006683 33 EVTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAAT 87 (635)
Q Consensus 33 ~~i~IG~i~p~s~----------------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~ 87 (635)
++|.||+++|.+. ..|.+...|+.+|+++||++. ||++|++.++|+|+++..+++
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 3588899888761 346788899999999999887 899999999999999999999
Q ss_pred HHHHHhhc-------------CCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHH
Q 006683 88 AAQELINK-------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSE 153 (635)
Q Consensus 88 ~~~~li~~-------------~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~ 153 (635)
.+.+++.. +++.++|||.+|..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~st--s~~lsd~~~yp~ffRt~psd~~ 158 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPF--DPLLSDRVQFPSLYQMAPKDTS 158 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccC--CccccchhhCCcceEecCCchh
Confidence 99998853 57999999999999999999999999999999998 889987 578999999999999
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
++.++++++++|+|++|++|+.+++|| +...+.+.+.+++.| +||+..+.++.... +...++..++++++++++|
T Consensus 159 q~~ai~~li~~f~W~~Vaiv~~d~~yg--~~~~~~~~~~~~~~g-i~I~~~~~i~~~~~--~~~~~~~~~l~~i~~~~ar 233 (469)
T cd06365 159 LPLGMVSLMLHFSWTWVGLVISDDDRG--EQFLSDLREEMQRNG-ICLAFVEKIPVNMQ--LYLTRAEKYYNQIMTSSAK 233 (469)
T ss_pred HHHHHHHHHHhcCCeEEEEEEecChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCch--hhHHHHHHHHHHhhcCCCe
Confidence 999999999999999999999999999 999999999999999 99999988876541 1124788999999999999
Q ss_pred EEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHH---
Q 006683 234 VFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFR--- 310 (635)
Q Consensus 234 vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~--- 310 (635)
+||+ .+..+.+..++.++.+.+..+ ++||+++.|...... .....+.++|++++.++.+.. |++++|++++.
T Consensus 234 vIvl-~~~~~~~~~l~~~~~~~~~~~--~~wi~s~~w~~~~~~-~~~~~~~~~G~lg~~~~~~~~-~~f~~fl~~l~~~~ 308 (469)
T cd06365 234 VIII-YGDTDSLLEVSFRLWQYLLIG--KVWITTSQWDVTTSP-KDFTLNSFHGTLIFSHHHSEI-PGFKDFLQTVNPSK 308 (469)
T ss_pred EEEE-EcCcHHHHHHHHHHHHhccCc--eEEEeeccccccccc-cccccceeeEEEEEEeccCcC-cchHHHhhccCccc
Confidence 9999 999888888777777766655 799999888643321 122346789999999887766 78999887753
Q ss_pred -------HhhccCCCCCC----------CCC----------------CcchhhhHhhHHHHHHHHHHhhccc--------
Q 006683 311 -------RNFTSEYPEED----------HFH----------------PSIHALRAHDSIKIITEAIGRLNYN-------- 349 (635)
Q Consensus 311 -------~~~~~~~~~~~----------~~~----------------~~~~~~~~yDav~~~a~Al~~~~~~-------- 349 (635)
+.||+..++|. .|. ....+.+.||||+++|+|||++..|
T Consensus 309 ~~~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~ 388 (469)
T cd06365 309 YPEDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSEN 388 (469)
T ss_pred CCCccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcC
Confidence 33444322221 121 1224678999999999999999754
Q ss_pred -----CCChHHHHHHHHcCcccceee-eEEEeCCCCCCCCcEEEEEee--C---CceEEEEeecCCC
Q 006683 350 -----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVV--G---KKYKELDFWLPNF 405 (635)
Q Consensus 350 -----~~~~~~l~~~l~~~~f~g~~G-~v~F~~~g~~~~~~~~i~~~~--~---~~~~~vG~w~~~~ 405 (635)
..++++|+++|++++|.|.+| +|.||++|++. ..|+|++++ + ..+++||+|++..
T Consensus 389 ~~~~~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~VG~~~~~~ 454 (469)
T cd06365 389 NGKRLIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKLD-TEYDILNYWNFPQGLGLKVKVGEFSPQA 454 (469)
T ss_pred CCCCCCccHHHHHHHHHhccccCCCCCEEEecCCCCcC-ceeeEEEEEECCCCCEEEEEEEEEeCCC
Confidence 146889999999999999999 79999999985 799999996 2 3479999998643
No 6
>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=3.9e-44 Score=371.59 Aligned_cols=330 Identities=20% Similarity=0.246 Sum_probs=280.5
Q ss_pred CcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhc------------------CCeEEEEcCCC
Q 006683 47 MGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINK------------------EKVKVIAGMET 106 (635)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~------------------~~v~aiiG~~~ 106 (635)
.|.+...|+.+|+|+||+++ ||++|+++++|+|++|..++..+.+++++ ++|.+||||.+
T Consensus 33 ~g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 33 KGFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred hHHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 47888999999999999998 78999999999999999999999999954 58999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~ 185 (635)
|..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..+++++++++++++|++|++|+.+++|| +..
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~at--s~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG--~~~ 188 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYAST--AEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYG--RSA 188 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcC--CcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchH--HHH
Confidence 999999999999999999999999 999997 589999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCC-chHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISD-PKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d-~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (635)
.+.+++.+++.| +||+..+.++......+ ...++..+++.+++.++|+||+ .+...++..++++|+++|+ + ++|
T Consensus 189 ~~~f~~~~~~~G-icIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv-~~~~~~~~~l~~~a~~~g~-~--~~w 263 (403)
T cd06361 189 LETFIIQAEANG-VCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV-FARQFHVFLLFNKAIERNI-N--KVW 263 (403)
T ss_pred HHHHHHHHHHCC-eEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE-EeChHHHHHHHHHHHHhCC-C--eEE
Confidence 999999999999 99999988876431111 1145666677788889999999 9999999999999999999 3 799
Q ss_pred EeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHH
Q 006683 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (635)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~ 344 (635)
|+++.|................|++++.+.... ..+|.+.+++.+ ..++|+||+++|+||+
T Consensus 264 igs~~w~~~~~~~~~~~~~~~~g~ig~~~~~~~----~~~F~~~~~~~~---------------~~~v~~AVyaiA~Al~ 324 (403)
T cd06361 264 IASDNWSTAKKILTDPNVKKIGKVVGFTFKSGN----ISSFHQFLKNLL---------------IHSIQLAVFALAHAIR 324 (403)
T ss_pred EEECcccCccccccCCcccccceEEEEEecCCc----cchHHHHHHHhh---------------HHHHHHHHHHHHHHHH
Confidence 999999754333322223456788888876543 344444444432 3457999999999999
Q ss_pred hhcc---c----CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC----CceEEEEeecCCC
Q 006683 345 RLNY---N----ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNF 405 (635)
Q Consensus 345 ~~~~---~----~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~~~ 405 (635)
+++. | ..++++|+++|++++|+|.+|++.||++|+.. ..|+|+++++ ..+++||.|++..
T Consensus 325 ~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~~-~~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 325 DLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDLN-LGYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred HhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCCC-cceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 9863 1 35899999999999999998899999999974 7899999975 3479999998764
No 7
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=1.9e-43 Score=372.69 Aligned_cols=355 Identities=16% Similarity=0.244 Sum_probs=297.1
Q ss_pred CeEEEEEEeeCCC-------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhh--
Q 006683 33 EVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELIN-- 94 (635)
Q Consensus 33 ~~i~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~-- 94 (635)
++|.||+++|.+. ..|.+...|+.+|+|+||+++ ||++|++.++|+|+++..+++.+.+++.
T Consensus 1 Gd~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~ 80 (458)
T cd06375 1 GDLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRAS 80 (458)
T ss_pred CCEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhh
Confidence 4689999999972 358899999999999999998 7999999999999999999999888772
Q ss_pred ----------------------cCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCc
Q 006683 95 ----------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASND 151 (635)
Q Consensus 95 ----------------------~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~ 151 (635)
.++|.+||||.+|..+.+++++++.++||+|+++++ ++.|++ ..|||+||+.|++
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~st--s~~Ls~~~~~~~ffRt~psd 158 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYAST--SAKLSDKSRYDYFARTVPPD 158 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccC--ChhhcccccCCCeEEecCCc
Confidence 357999999999999999999999999999999999 899987 5799999999999
Q ss_pred HHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh-c
Q 006683 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-K 230 (635)
Q Consensus 152 ~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~ 230 (635)
..+++++++++++++|++|++|+++++|| +...+.+.+.+++.| +||+..+.++... ...++..+++++++ .
T Consensus 159 ~~qa~ai~~ll~~~~W~~Vaii~~~~~yG--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~----~~~d~~~~l~~l~~~~ 231 (458)
T cd06375 159 FYQAKAMAEILRFFNWTYVSTVASEGDYG--ETGIEAFEQEARLRN-ICIATSEKVGRSA----DRKSYDSVIRKLLQKP 231 (458)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEeCchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCC----CHHHHHHHHHHHhccC
Confidence 99999999999999999999999999999 999999999999999 9999888886543 12689999999875 5
Q ss_pred CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHH
Q 006683 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFR 310 (635)
Q Consensus 231 ~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~ 310 (635)
++|+||+ .+...++..++++|.++|+. +.||+++.|........ ......+|++++.+..... |++++|++.+.
T Consensus 232 ~a~vVvl-~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~~-~~~~~~~G~i~~~~~~~~i-~~f~~yl~~l~ 305 (458)
T cd06375 232 NARVVVL-FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIVK-GSEDVAEGAITIELASHPI-PDFDRYFQSLT 305 (458)
T ss_pred CCEEEEE-ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhhh-ccchhhceEEEEEeccccc-hhHHHHHHhCC
Confidence 9999999 99999999999999999986 59999998863211111 1225678999999877665 67888887642
Q ss_pred ----------HhhccCCCCCC---------CCC------------CcchhhhHhhHHHHHHHHHHhhcc--c--------
Q 006683 311 ----------RNFTSEYPEED---------HFH------------PSIHALRAHDSIKIITEAIGRLNY--N-------- 349 (635)
Q Consensus 311 ----------~~~~~~~~~~~---------~~~------------~~~~~~~~yDav~~~a~Al~~~~~--~-------- 349 (635)
..||+..++|. .|. ....+.+.||||+++|||||++.. |
T Consensus 306 p~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~ 385 (458)
T cd06375 306 PETNTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCD 385 (458)
T ss_pred cCcCCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Confidence 33443322221 121 234678899999999999999863 2
Q ss_pred ---CCChHHHH-HHHHcCccc-----ceee-eEEEeCCCCCCCCcEEEEEeeC--C----ceEEEEeecC
Q 006683 350 ---ISSPEMLL-RQMLSSDFS-----GLSG-KIRFKDGELLNADTLRIVNVVG--K----KYKELDFWLP 403 (635)
Q Consensus 350 ---~~~~~~l~-~~l~~~~f~-----g~~G-~v~F~~~g~~~~~~~~i~~~~~--~----~~~~vG~w~~ 403 (635)
..++++|+ .+|++++|. |.+| +|.||++|+.. ..|+|++++. + .+++||.|+.
T Consensus 386 ~~~~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 386 AMKPLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDGL-GRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCCC-cceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 24688999 599999999 9988 89999999985 7999999973 2 2689999964
No 8
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=1.9e-43 Score=375.77 Aligned_cols=360 Identities=19% Similarity=0.279 Sum_probs=297.4
Q ss_pred CeEEEEEEeeCCC-------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhc-
Q 006683 33 EVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK- 95 (635)
Q Consensus 33 ~~i~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~- 95 (635)
+++.||+++|.+. ..|.....|+++|+|+||+++ ||++|+++++|+++++..+++.+.+++.+
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 3689999999982 357788999999999999998 68999999999999999999999888743
Q ss_pred ---------------------CCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHH
Q 006683 96 ---------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSE 153 (635)
Q Consensus 96 ---------------------~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~ 153 (635)
++|.+||||.+|.++.++++++..+++|+|+++++ ++.+++ ..|||+||+.|++..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~st--s~~ls~~~~~~~~fR~~p~d~~ 158 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYAST--SPELSDKTRYDYFSRTVPPDSF 158 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccC--chhhccccccCCEEEecCChHH
Confidence 68999999999999999999999999999999999 888887 589999999999999
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh-cCc
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQS 232 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~ 232 (635)
++.++++++++++|++|++|+++++|| +...+.+.+.+++.| ++|+..+.++... ...++.++++++++ .++
T Consensus 159 ~~~a~~~~l~~~~w~~vaii~~~~~~G--~~~~~~~~~~~~~~g-i~i~~~~~~~~~~----~~~d~~~~l~~l~~~~~a 231 (452)
T cd06362 159 QAQAMVDIVKAFNWTYVSTVASEGNYG--EKGIEAFEKLAAERG-ICIAGSEKIPSSA----TEEEFDNIIRKLLSKPNA 231 (452)
T ss_pred HHHHHHHHHHHCCCcEEEEEEeCCHHH--HHHHHHHHHHHHHCC-eeEEEEEEcCCCC----CHHHHHHHHHHHhhcCCC
Confidence 999999999999999999999999999 999999999999999 9999888776532 12789999999987 479
Q ss_pred eEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHH---
Q 006683 233 RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALF--- 309 (635)
Q Consensus 233 ~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~--- 309 (635)
|+|++ .+...++..+++++.++|+++ .+.||+++.|....... .......+|++++.++.... +.+++|+..+
T Consensus 232 ~viil-~~~~~~~~~~~~~a~~~g~~~-~~~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i-~~f~~~l~~l~~~ 307 (452)
T cd06362 232 RVVVL-FCREDDIRGLLAAAKRLNAEG-HFQWIASDGWGARNSVV-EGLEDVAEGAITIELQSAEV-PGFDEYFLSLTPE 307 (452)
T ss_pred eEEEE-EcChHHHHHHHHHHHHcCCcC-ceEEEEeccccccchhh-cccccccceEEEEEeccccc-ccHHHHhhhCCcC
Confidence 99999 999999999999999999983 47999998876432111 12235678888887765554 3566655332
Q ss_pred -------HHhhccCCCCCC-----------CC----------CCcchhhhHhhHHHHHHHHHHhhcc---------c---
Q 006683 310 -------RRNFTSEYPEED-----------HF----------HPSIHALRAHDSIKIITEAIGRLNY---------N--- 349 (635)
Q Consensus 310 -------~~~~~~~~~~~~-----------~~----------~~~~~~~~~yDav~~~a~Al~~~~~---------~--- 349 (635)
-+.||+..+.|. .| ....++++.||||+++|+||+++.. |
T Consensus 308 ~~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~ 387 (452)
T cd06362 308 NNSRNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAM 387 (452)
T ss_pred cCCCChHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCc
Confidence 233332221110 01 1234788999999999999998852 1
Q ss_pred -CCChHHHHHHHHcCcccceee-eEEEeCCCCCCCCcEEEEEeeC----CceEEEEeecCCCC
Q 006683 350 -ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNFG 406 (635)
Q Consensus 350 -~~~~~~l~~~l~~~~f~g~~G-~v~F~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~~~~ 406 (635)
+.+++.|+++|++++|+|++| +|.||++|++. ..|+|++++. ..+++||+|++..+
T Consensus 388 ~~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~ 449 (452)
T cd06362 388 KPIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELS 449 (452)
T ss_pred cCCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEecccc
Confidence 357899999999999999998 89999999996 6999999973 46899999987644
No 9
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=6.7e-43 Score=371.94 Aligned_cols=358 Identities=19% Similarity=0.276 Sum_probs=294.6
Q ss_pred CCeEEEEEEeeCCC-----------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHH
Q 006683 32 EEVTKIGAIVDANS-----------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQE 91 (635)
Q Consensus 32 ~~~i~IG~i~p~s~-----------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~ 91 (635)
+++|.||+++|.+. ..|.....|+.+|+|+||+++ ||++|++.++|+|+++..|++.+.+
T Consensus 7 ~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~ 86 (472)
T cd06374 7 DGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSIE 86 (472)
T ss_pred cCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHHH
Confidence 67899999999872 247788899999999999998 7999999999999999999999999
Q ss_pred Hhh-------------------------cCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEE
Q 006683 92 LIN-------------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLI 145 (635)
Q Consensus 92 li~-------------------------~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~ 145 (635)
++. +++|.+||||.+|..+.+++++++.++||+|+++++ ++.+++ ..|||+|
T Consensus 87 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~at--s~~ls~~~~~p~~f 164 (472)
T cd06374 87 FIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSAT--SIDLSDKTLFKYFL 164 (472)
T ss_pred HHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccC--chhhcccccCCceE
Confidence 885 248999999999999999999999999999999999 888987 4799999
Q ss_pred EEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHH
Q 006683 146 RMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELK 225 (635)
Q Consensus 146 r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~ 225 (635)
|+.|++..++.++++++++|+|++|++|+++++|| +...+.+++.+++.| +||+..+.++... ...+++.+++
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~----~~~d~~~~l~ 237 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYG--ESGMEAFKELAAHEG-LCIAHSDKIYSNA----GEQSFDRLLR 237 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCC----chHHHHHHHH
Confidence 99999999999999999999999999999999999 999999999999999 9999888775432 1268999999
Q ss_pred hhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhH
Q 006683 226 KVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYK 303 (635)
Q Consensus 226 ~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 303 (635)
+|++. ++++|++ .+....+..++++++++|+.+ .+.||+++.|........ ...+..+|++++.++.... ++++
T Consensus 238 ~lk~~~~da~vvv~-~~~~~~~~~~l~~a~~~g~~~-~~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~~-~~F~ 313 (472)
T cd06374 238 KLRSRLPKARVVVC-FCEGMTVRGLLMAMRRLGVGG-EFQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPEV-PSFD 313 (472)
T ss_pred HHHhcCCCcEEEEE-EechHHHHHHHHHHHHhcCCC-ceEEEEecccccchHhhh-cchhhhheeEEEEecCCCC-ccHH
Confidence 99975 4556666 678888999999999999974 379999998864322221 2235678999998876655 5677
Q ss_pred HHHHHHH----------HhhccCCCCCC-------------CCC----------CcchhhhHhhHHHHHHHHHHhhcc--
Q 006683 304 EFSALFR----------RNFTSEYPEED-------------HFH----------PSIHALRAHDSIKIITEAIGRLNY-- 348 (635)
Q Consensus 304 ~f~~~~~----------~~~~~~~~~~~-------------~~~----------~~~~~~~~yDav~~~a~Al~~~~~-- 348 (635)
+|++.+. ..||+..+.|. .|. ....+.++||||+++|+|||++..
T Consensus 314 ~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~ 393 (472)
T cd06374 314 DYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDL 393 (472)
T ss_pred HHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhh
Confidence 7665421 22222111110 111 124566899999999999999852
Q ss_pred -------c----CCChHHHHHHHHcCcccceee-eEEEeCCCCCCCCcEEEEEeeC-----CceEEEEeecC
Q 006683 349 -------N----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (635)
Q Consensus 349 -------~----~~~~~~l~~~l~~~~f~g~~G-~v~F~~~g~~~~~~~~i~~~~~-----~~~~~vG~w~~ 403 (635)
| ..+++.|+++|++++|+|++| +|.||++|++. ..|+|++++. ..+++||.|++
T Consensus 394 ~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 394 CPGHVGLCDAMKPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCCCCCCcCCCCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 2 246899999999999999999 89999999996 5899999984 46899999974
No 10
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=2.7e-42 Score=366.65 Aligned_cols=358 Identities=19% Similarity=0.299 Sum_probs=286.3
Q ss_pred CeEEEEEEeeCC--C-----------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHH----HHHH
Q 006683 33 EVTKIGAIVDAN--S-----------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATA----AQEL 92 (635)
Q Consensus 33 ~~i~IG~i~p~s--~-----------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~----~~~l 92 (635)
++|+||+++|.+ + ..|.....|+++|+++||+++ ||++|+++++|+++++..+.+. +.++
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 469999999988 1 256778899999999999998 6899999999999877544443 4444
Q ss_pred hh------------------cCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHH
Q 006683 93 IN------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSE 153 (635)
Q Consensus 93 i~------------------~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~ 153 (635)
+. .++|.+||||.+|..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~at--s~~ls~~~~~~~ffR~~p~d~~ 158 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYAST--APELSDDRRYDFFSRVVPPDSF 158 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccC--ChhhcccccCCceEEccCCHHH
Confidence 42 258999999999999999999999999999999999 889987 578999999999999
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh-cCc
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQS 232 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~ 232 (635)
++.++++++++++|++|++|+.+++|| ....+.+.+.+++.|.++|...+.++... ...|+..+++++++ .++
T Consensus 159 ~~~ai~~~i~~~~w~~Vaii~~~~~yg--~~~~~~~~~~~~~~g~~~v~~~~~i~~~~----~~~d~~~~l~~ik~~~~~ 232 (463)
T cd06376 159 QAQAMVDIVKALGWNYVSTLASEGNYG--ESGVEAFTQISREAGGVCIAQSIKIPREP----RPGEFDKIIKRLLETPNA 232 (463)
T ss_pred HHHHHHHHHHHcCCeEEEEEEeCChHH--HHHHHHHHHHHHHcCCceEEEEEecCCCC----CHHHHHHHHHHHhccCCC
Confidence 999999999999999999999999999 99999999999886416876665554332 12789999999986 699
Q ss_pred eEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHH----
Q 006683 233 RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL---- 308 (635)
Q Consensus 233 ~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~---- 308 (635)
|+||+ .+...++..++++|+++|+.+ .++||+++.|........ .....+.|++++.+..... +++++|+..
T Consensus 233 ~vIvl-~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~~-~~F~~~~~~l~~~ 308 (463)
T cd06376 233 RAVII-FANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDVAEGAITILPKRASI-EGFDAYFTSRTLE 308 (463)
T ss_pred eEEEE-ecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcceeeeEEEEEeccccc-hhHHHHHHhCCcc
Confidence 99999 999999999999999999986 489999998864322211 1224578999988765554 567776653
Q ss_pred -----------HHHhhccCCC-----------CCCCCC---------CcchhhhHhhHHHHHHHHHHhhcc---------
Q 006683 309 -----------FRRNFTSEYP-----------EEDHFH---------PSIHALRAHDSIKIITEAIGRLNY--------- 348 (635)
Q Consensus 309 -----------~~~~~~~~~~-----------~~~~~~---------~~~~~~~~yDav~~~a~Al~~~~~--------- 348 (635)
|...|.+..+ .|.+.. ....+++.||||+++|+|||++..
T Consensus 309 ~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~ 388 (463)
T cd06376 309 NNRRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGV 388 (463)
T ss_pred cCCCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCC
Confidence 2232322211 111110 122678999999999999999852
Q ss_pred c----CCChHHHHHHHHcCcccceee-eEEEeCCCCCCCCcEEEEEeeC-----CceEEEEeecC
Q 006683 349 N----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (635)
Q Consensus 349 ~----~~~~~~l~~~l~~~~f~g~~G-~v~F~~~g~~~~~~~~i~~~~~-----~~~~~vG~w~~ 403 (635)
| +.+++.|+++|++++|+|.+| +|.||++|++. ..|+|.+++. ..+++||.|++
T Consensus 389 C~~~~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 389 CPEMEPADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred CccCCCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 2 357899999999999999999 89999999996 5799998872 56899999975
No 11
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=2.9e-42 Score=355.09 Aligned_cols=338 Identities=39% Similarity=0.684 Sum_probs=295.3
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
|||+++|++ +..|.....|+++|+++||+++ +|++|+++++|++++|..+++.+++|+.+++|.+||||.+|..+.
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~ 80 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAE 80 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHH
Confidence 699999999 7778999999999999999997 479999999999999999999999999777999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
++++++..+++|+|+++++ ++.+++ ..+||+||+.|++..++.++++++++++|+++++|+.++++| ....+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~~ 156 (350)
T cd06366 81 FVAEVANEWNVPVLSFAAT--SPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYG--SGGLPDLV 156 (350)
T ss_pred HHHHHhhcCCeeEEeccCC--CccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCccc--chhHHHHH
Confidence 9999999999999999999 888855 578999999999999999999999999999999999999999 99999999
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.+++.| ++|+....++... ...|+..+++++++.++|+|++ .+...++..+++++.++|+.++.++|+.++.+
T Consensus 157 ~~~~~~g-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~~dvvi~-~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 230 (350)
T cd06366 157 DALQEAG-IEISYRAAFPPSA----NDDDITDALKKLKEKDSRVIVV-HFSPDLARRVFCEAYKLGMMGKGYVWILTDWL 230 (350)
T ss_pred HHHHHcC-CEEEEEeccCCCC----ChhHHHHHHHHHhcCCCeEEEE-ECChHHHHHHHHHHHHcCCcCCCEEEEECcch
Confidence 9999999 9999988887652 1168999999999999999999 99999999999999999998888999998765
Q ss_pred hhhhc----ccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 271 ANALD----SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 271 ~~~~~----~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
...+. ..........+|++++..+.+...+..++|.++|+++|....+. ...|+.+++++||++++
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~-------- 300 (350)
T cd06366 231 SSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA-------- 300 (350)
T ss_pred hhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee--------
Confidence 54321 11222345678999888876653477999999999998643211 12577889999999998
Q ss_pred cccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCCc
Q 006683 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (635)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~~ 408 (635)
+.+|+|++|+++||++|++.+..++++++.++++++||.|++..++.
T Consensus 301 ---------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 301 ---------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred ---------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 45899999999999999987899999999999999999999865543
No 12
>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=1.5e-41 Score=352.44 Aligned_cols=318 Identities=19% Similarity=0.333 Sum_probs=263.0
Q ss_pred CCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCC---CeEEEEEEecCCCCHHHHHHHHH-HHhhcCCeEEEEc-CC-
Q 006683 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSR---NHKLSLQIRDHNRDPFQAATAAQ-ELINKEKVKVIAG-ME- 105 (635)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~---g~~l~~~~~D~~~~~~~a~~~~~-~li~~~~v~aiiG-~~- 105 (635)
+.+||||+++|.+ ....|+++|++++|++.+ +.+++-...+..+++..+...+| +|+ +++|.+||| +.
T Consensus 17 ~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li-~~~V~aii~~~~~ 90 (377)
T cd06379 17 PKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLI-SNQVYAVIVSHPP 90 (377)
T ss_pred CcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHh-hcceEEEEEeCCC
Confidence 3679999999843 568999999999999542 22333222222346666555555 577 579999974 33
Q ss_pred Chh---hHHHHHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCC
Q 006683 106 TWE---ETAVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG 181 (635)
Q Consensus 106 ~s~---~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~ 181 (635)
++. .+.+++.+++.++||+|+++++ ++.+++. .|||+||+.|++..++.++++++++++|++|++|+++++||
T Consensus 91 ss~~~~~~~~v~~~~~~~~iP~Is~~a~--~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g- 167 (377)
T cd06379 91 TSNDHLTPTSVSYTAGFYRIPVVGISTR--DSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEG- 167 (377)
T ss_pred CCcccccHHHHHHHhhCCCCcEEecccC--CccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcch-
Confidence 332 4677888999999999999988 7888774 68999999999999999999999999999999999999999
Q ss_pred CcchHHHHHHHHhccCCe----EEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 182 DSGKLALLAEALQNVSSS----EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 182 ~~~~~~~~~~~l~~~g~~----~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+...+.+++.+++.| + +++..+.++.+. .++..+++++++.++|+|++ .++.+++..+++++.++|+
T Consensus 168 -~~~~~~~~~~~~~~g-~~~~~~v~~~~~~~~~~------~d~~~~l~~ik~~~~~vIvl-~~~~~~~~~l~~qa~~~g~ 238 (377)
T cd06379 168 -RAAQKRFETLLEERE-IEFKIKVEKVVEFEPGE------KNVTSLLQEAKELTSRVILL-SASEDDAAVIYRNAGMLNM 238 (377)
T ss_pred -hHHHHHHHHHHHhcC-CccceeeeEEEecCCch------hhHHHHHHHHhhcCCeEEEE-EcCHHHHHHHHHHHHHcCC
Confidence 999999999999999 9 888877776554 68999999999999999999 9999999999999999999
Q ss_pred CCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHH
Q 006683 258 VGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIK 337 (635)
Q Consensus 258 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~ 337 (635)
++++|+||+++.+... .....|++++..... ...++++||||+
T Consensus 239 ~~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~~-----------------------------~~~~~~~yDAV~ 281 (377)
T cd06379 239 TGEGYVWIVSEQAGAA--------RNAPDGVLGLQLING-----------------------------KNESSHIRDAVA 281 (377)
T ss_pred CCCCEEEEEecccccc--------ccCCCceEEEEECCC-----------------------------CCHHHHHHHHHH
Confidence 9999999999987321 134578888875421 124578999999
Q ss_pred HHHHHHHhhcc----------c------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEee
Q 006683 338 IITEAIGRLNY----------N------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFW 401 (635)
Q Consensus 338 ~~a~Al~~~~~----------~------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w 401 (635)
++|+|++++.. | |.+|+.++++|++++|+|++|+|.||++|++....|+|+++++.++++||.|
T Consensus 282 ~~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w 361 (377)
T cd06379 282 VLASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLY 361 (377)
T ss_pred HHHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEE
Confidence 99999998742 1 3467899999999999999999999999999878999999999999999999
Q ss_pred cCC
Q 006683 402 LPN 404 (635)
Q Consensus 402 ~~~ 404 (635)
++.
T Consensus 362 ~~~ 364 (377)
T cd06379 362 NGD 364 (377)
T ss_pred cCc
Confidence 873
No 13
>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=6.1e-42 Score=353.80 Aligned_cols=321 Identities=18% Similarity=0.281 Sum_probs=277.7
Q ss_pred eEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh-
Q 006683 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE- 109 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~- 109 (635)
.|+||.++|.++. ..+++.|+..+|.+. .+++++++..|+.+||..++.++|+++.+++|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSSS-----EPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCcc-----hhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 4899999999842 367777888777665 4799999999999999999999999987789999999999987
Q ss_pred --HHHHHHhhccCCccEEeecCCCCCCCC-CC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch
Q 006683 110 --TAVVAEIASRVQVPILSFAAPAVTPLS-MS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (635)
Q Consensus 110 --~~~v~~~~~~~~ip~Is~~~~~~~~~l-~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~ 185 (635)
+.+++++++.++||+|+++++ ++.+ ++ ..|||+||+.|++..+++++++++++++|++|++||+++++| ++.
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~--~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g--~~~ 152 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGR--ESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGY--RDF 152 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeecc--ccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCccc--HHH
Confidence 899999999999999999998 7888 76 589999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhccCCeE--EEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeE
Q 006683 186 LALLAEALQNVSSSE--IQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~--v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (635)
.+.+++.+++.| ++ ++....++.... .++...+.++++.++|+|++ .++..++..++++|.++|+++++|+
T Consensus 153 ~~~l~~~l~~~g-~~~~i~~~~~~~~~~~-----~~~~~~l~~l~~~~~~vivl-~~~~~~~~~il~~a~~~g~~~~~~~ 225 (362)
T cd06367 153 LDRVETTLEESF-VGWEFQLVLTLDLSDD-----DGDARLLRQLKKLESRVILL-YCSKEEAERIFEAAASLGLTGPGYV 225 (362)
T ss_pred HHHHHHHHHhcc-cceeeeeeEEeccCCC-----cchHHHHHHHHhcCCcEEEE-eCCHHHHHHHHHHHHHcCCCCCCcE
Confidence 999999999999 89 776666655431 26788999999999999999 9999999999999999999999999
Q ss_pred EEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHH
Q 006683 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (635)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (635)
||+++.+..... .......|++++.+... ..++++.||||+++++|+
T Consensus 226 wI~~~~~~~~~~----~~~~~~~G~~g~~~~~~-----------------------------~~~~~~~~Dav~~~a~Al 272 (362)
T cd06367 226 WIVGELALGSGL----APEGLPVGLLGVGLDTW-----------------------------YSLEARVRDAVAIVARAA 272 (362)
T ss_pred EEECcccccccC----CccCCCCeeEEEEeccc-----------------------------ccHHHHHHHHHHHHHHHH
Confidence 999999864211 12245578888875421 134678999999999999
Q ss_pred Hhhccc------------------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-CCceEEEEeecC
Q 006683 344 GRLNYN------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (635)
Q Consensus 344 ~~~~~~------------------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~ 403 (635)
+++..+ +.+|..|.++|++++|.|.+|+|.||++|++.+..|+|++++ +.++++||.|++
T Consensus 273 ~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 273 ESLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred HHHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 987431 356789999999999999999999999999987899999998 889999999975
No 14
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=2e-41 Score=351.67 Aligned_cols=354 Identities=20% Similarity=0.289 Sum_probs=287.0
Q ss_pred eEEEEEEee-CC---CcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCC-CCHHHHHHHHHHHhhcCCeEEEEcCC
Q 006683 34 VTKIGAIVD-AN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGME 105 (635)
Q Consensus 34 ~i~IG~i~p-~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aiiG~~ 105 (635)
.|+||+++| ++ +..|...+.|+++|+++||+++ ++..|.+.+.+.+ +++..+...+|+++ .++|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l-~~~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQL-ALGVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhccc-ccCcEEEECCC
Confidence 489999999 55 4557788999999999999988 5788888888854 47767888899988 68999999999
Q ss_pred ChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch
Q 006683 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (635)
Q Consensus 106 ~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~ 185 (635)
+|..+.+++++|+.++||+|+++++ ++.+++.. ++++|+.|++..+..++++++++++|++|++||+++. | ...
T Consensus 81 ~S~~~~av~~i~~~~~iP~Is~~~t--~~~lt~~~-~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g--~~~ 154 (384)
T cd06393 81 QGSCTNAVQSICNALEVPHIQLRWK--HHPLDNKD-TFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-G--LIR 154 (384)
T ss_pred ChHHHHHHHHHHhccCCCeEeccCC--CcccCccc-eeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-h--HHH
Confidence 9999999999999999999999988 78887643 5788888998889999999999999999999998765 6 554
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
++.+.+.+++.| ++|+.. .++.+. .|++.+|+++|+.++++||+ .++..++..+++||+++||.++.|+|+
T Consensus 155 l~~~~~~~~~~g-~~v~~~-~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~~~~~ 225 (384)
T cd06393 155 LQELIMAPSRYN-IRLKIR-QLPTDS------DDARPLLKEMKRGREFRIIF-DCSHQMAAQILKQAMAMGMMTEYYHFI 225 (384)
T ss_pred HHHHHHhhhccC-ceEEEE-ECCCCc------hHHHHHHHHHhhcCceEEEE-ECCHHHHHHHHHHHHHhccccCceEEE
Confidence 567888888889 998864 355443 78999999999999999999 999999999999999999999999999
Q ss_pred eeCchhhhhcccChhhhhhccc--eEEEEeecCCCCchhHHHHHHHHHh-hccCC-CCCCC--CCCcchhhhHhhHHHHH
Q 006683 266 VTNTVANALDSLNTTVISSMEG--TLGIKSYYSDDSSPYKEFSALFRRN-FTSEY-PEEDH--FHPSIHALRAHDSIKII 339 (635)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g--~~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~-~~~~~--~~~~~~~~~~yDav~~~ 339 (635)
.++......+ .+.. ...| ++++...... .+..++|.++|+++ |.... +.... ..+..+++++||||+++
T Consensus 226 ~~~~~~~~~~---~~~~-~~~~~~it~~~~~~~~-~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~ 300 (384)
T cd06393 226 FTTLDLYALD---LEPY-RYSGVNLTGFRILNVD-NPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMV 300 (384)
T ss_pred EccCcccccc---chhh-hcCcceEEEEEecCCC-cHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHH
Confidence 8876543222 1111 1233 3555554444 46799999999854 54321 11100 11356899999999999
Q ss_pred HHHHHhhcc-------c-----CCChHHHHHHHHcCcccceeeeEEEeC-CCCCCCCcEEEEEeeCCceEEEEeecCCCC
Q 006683 340 TEAIGRLNY-------N-----ISSPEMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVVGKKYKELDFWLPNFG 406 (635)
Q Consensus 340 a~Al~~~~~-------~-----~~~~~~l~~~l~~~~f~g~~G~v~F~~-~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~ 406 (635)
++|++++.. | |..|..|+++|++++|+|+||+++||+ +|.|.+..++|+++.+.++++||+|++..+
T Consensus 301 a~A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~~~g 380 (384)
T cd06393 301 SVCYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNPNTG 380 (384)
T ss_pred HHHHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcCCCC
Confidence 999997643 2 456789999999999999999999996 678889999999999999999999999877
Q ss_pred Cc
Q 006683 407 FS 408 (635)
Q Consensus 407 ~~ 408 (635)
+.
T Consensus 381 ~~ 382 (384)
T cd06393 381 LN 382 (384)
T ss_pred cC
Confidence 64
No 15
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.9e-41 Score=345.43 Aligned_cols=342 Identities=15% Similarity=0.272 Sum_probs=286.6
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+|++.+. ...+.|++.|++++|.+. +|...+.. +..|+..+.+++|+++ +++|.|||||.++.++..++
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~---~l~~~~~~~~~~dsf~~~~~~C~~~-~~gV~AI~Gp~s~~~a~~v~ 73 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPP---KLLPQIDIVNISDSFEMTYTFCSQF-SKGVYAIFGFYDRKTVNMLT 73 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCc---ccccceEEeccccHHHHHHHHHHHh-hcCceEEEccCChhHHHHHH
Confidence 4899998864 356899999999999874 44433322 5579999999999999 89999999999999999999
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
++|+..+||+|++.. |... ..+|++++.|+ +.+|+++++++|+|++|++||+++ || ...++.+.+.++
T Consensus 74 sic~~~~vP~i~~~~----~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g--~~~lq~l~~~~~ 141 (364)
T cd06390 74 SFCGALHVCFITPSF----PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RG--LSVLQKVLDTAA 141 (364)
T ss_pred HhhcCCCCCceecCC----CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-cc--HHHHHHHHHhhh
Confidence 999999999998643 3222 23568999998 799999999999999999999765 89 999999999999
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhh
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (635)
+.| ++|.....++... .+++.+|+++++.++++||+ .|..+.+..+++++.+.++.+.+|+||+++......
T Consensus 142 ~~~-~~I~~~~~~~~~~------~d~~~~L~~ik~~~~rvIVl-~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~ 213 (364)
T cd06390 142 EKN-WQVTAVNILTTTE------EGYRKLFQDLDKKKERLIVV-DCESERLNAILNQIIKLEKNGIGYHYILANLGFMDI 213 (364)
T ss_pred ccC-ceeeEEEeecCCh------HHHHHHHHhccccCCeEEEE-ECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccc
Confidence 999 9998776655333 68999999999999999999 999999999999998888889999999998543222
Q ss_pred cccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc-------
Q 006683 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN------- 347 (635)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~------- 347 (635)
+. .+......|++++..+.+.. +..++|..+|++.....++......+..+++++||||+++|+|++++.
T Consensus 214 ~~--~~~~~~~~nitg~r~~~~~~-~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~ 290 (364)
T cd06390 214 DL--TKFRESGANVTGFQLVNYTD-TTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDIS 290 (364)
T ss_pred cH--HHHhcCCcCceEEEEecCCC-HHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 21 12234678999999988766 568999999988766555544444677899999999999999999652
Q ss_pred ------cc-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCC
Q 006683 348 ------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (635)
Q Consensus 348 ------~~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~ 407 (635)
.| |..|..|+++|++++|+|+||+|.|+++|+|.+..|+|+++.+.++++||+|++..++
T Consensus 291 ~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 291 RRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred cCCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 22 4568899999999999999999999999999999999999999999999999987654
No 16
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=3.4e-41 Score=349.74 Aligned_cols=347 Identities=15% Similarity=0.223 Sum_probs=285.5
Q ss_pred EEEEeeCC---CcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 37 IGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 37 IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|=+++|.+ ...+.....|+++|+++||+++ +|++|+++++|++|++..+...+.++. +++|.+||||.||..+
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~-~~~v~aiiGp~~s~~~ 80 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSC-ARKPDLILGPVCEYAA 80 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHH-hhCCCEEECCCCccHH
Confidence 34677765 2345788899999999999976 579999999999999877777777777 5799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCC--CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch---
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK--- 185 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~--~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~--- 185 (635)
.+++++++.++||+|+++++ ++.+++ ..||++||+.|++..++.++++++++|+|++|++||+++++| +..
T Consensus 81 ~~va~ia~~~~iP~Is~~a~--~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~--~~~~~~ 156 (387)
T cd06386 81 APVARLASHWNIPMISAGAL--AAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQE--RNCYFT 156 (387)
T ss_pred HHHHHHHHhCCCcEEccccC--chhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCC--ccceeh
Confidence 99999999999999999998 888876 368999999999999999999999999999999999999988 765
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
.+.+.+.+++.| ++|+....++... .++.++++++++.+ |+||+ +++.+.++.++++|+++||++.+|+||
T Consensus 157 ~~~l~~~~~~~g-i~v~~~~~~~~~~------~d~~~~l~~ik~~~-rvii~-~~~~~~~~~ll~~A~~~gm~~~~yv~i 227 (387)
T cd06386 157 LEGVHHVFQEEG-YHMSIYPFDETKD------LDLDEIIRAIQASE-RVVIM-CAGADTIRSIMLAAHRRGLTSGDYIFF 227 (387)
T ss_pred HHHHHHHHHhcC-ceEEEEecCCCCc------ccHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 888999999999 9998765443332 57999999999877 99999 889999999999999999999999999
Q ss_pred eeCchh-hhh--------cccC---hhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCC-CCCcchhhhH
Q 006683 266 VTNTVA-NAL--------DSLN---TTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDH-FHPSIHALRA 332 (635)
Q Consensus 266 ~~~~~~-~~~--------~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 332 (635)
..+... ... +..+ ......+.|+.++.+. .|.+++|.+++++++... +.+.+ ..++.+++++
T Consensus 228 ~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~----~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~aa~~ 302 (387)
T cd06386 228 NIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV----KPEFEKFSMEVKSSVEKA-GDLNDCDYVNMFVEGF 302 (387)
T ss_pred EEecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCC----ChHHHHHHHHHHHHHHhC-CCCcccccchHHHHHH
Confidence 997553 100 0112 1122344555444432 267899999998666432 22222 2456889999
Q ss_pred hhHHHHHHHHHHhh---cccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC---CceEEEEeecC
Q 006683 333 HDSIKIITEAIGRL---NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG---KKYKELDFWLP 403 (635)
Q Consensus 333 yDav~~~a~Al~~~---~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~---~~~~~vG~w~~ 403 (635)
|||++++|+||+++ +..+.+|..|.++|++++|+|++|+++||++|+|. ..|.++.+++ +.+++||+|..
T Consensus 303 yDav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~~~~~~~~ 378 (387)
T cd06386 303 HDAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYEVVGNYFG 378 (387)
T ss_pred HHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEEEEeEEcc
Confidence 99999999999998 43357899999999999999999999999999996 6999999964 88999999974
No 17
>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=3.2e-41 Score=352.59 Aligned_cols=348 Identities=15% Similarity=0.228 Sum_probs=283.9
Q ss_pred EEEEEEeeCCC----cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh
Q 006683 35 TKIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (635)
Q Consensus 35 i~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (635)
||||+++|+++ ..|.....|+++|+++||+++ +|++|+++++|++|++..++.++++++ .++|.+||||.+|
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li-~~~v~aiiGp~~S 79 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWW-KRGVVAFIGPECT 79 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHH-hcCceEEECCCch
Confidence 68999999986 348889999999999999997 479999999999999999999999999 6799999999998
Q ss_pred hhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchH
Q 006683 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (635)
Q Consensus 108 ~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~ 186 (635)
.. .++.+++.++||+|+++++ ++.+++ ..||++||+.|++..++.++++++++++|++|++|+++++|| +...
T Consensus 80 ~~--~~a~i~~~~~iP~Is~~a~--~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g--~~~~ 153 (404)
T cd06370 80 CT--TEARLAAAWNLPMISYKCD--EEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKY--SSVF 153 (404)
T ss_pred hH--HHHHHHhhcCCcEEecccC--CccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCccc--HHHH
Confidence 43 4567999999999999999 888887 478999999999999999999999999999999999999999 9999
Q ss_pred HHHHHHHhccCCeEEEEEeeeCCCCCC-CCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEE
Q 006683 187 ALLAEALQNVSSSEIQSRLVLPPISSI-SDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVW 264 (635)
Q Consensus 187 ~~~~~~l~~~g~~~v~~~~~~~~~~~~-~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~ 264 (635)
+.+++.+++.| ++|+..+.++..... .+...++..+++++++. ++++|+ .++..++..+++++.++||. +..|+|
T Consensus 154 ~~~~~~~~~~g-~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~-~~~~~~~~~~l~qa~~~g~~~~~~y~~ 230 (404)
T cd06370 154 ETLKEEAELRN-ITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVF-IGEANELRQFLMSMLDEGLLESGDYMV 230 (404)
T ss_pred HHHHHHHHHcC-CEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEE-EcCHHHHHHHHHHHHHcCCCCCCcEEE
Confidence 99999999999 999998888765210 01126788999988864 677777 67778999999999999998 678999
Q ss_pred EeeCchhh------h---------hc---ccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCC------
Q 006683 265 IVTNTVAN------A---------LD---SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE------ 320 (635)
Q Consensus 265 i~~~~~~~------~---------~~---~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~------ 320 (635)
|..+.... . .. .......+.++|++.+..... .+...+|.+.|++.+....+.+
T Consensus 231 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 308 (404)
T cd06370 231 LGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV--SPDYDSFSIFVRKYNLEPPFNGDLGESE 308 (404)
T ss_pred EEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC--CchHHHHHHHHHHhccCCCCcccccccc
Confidence 98653210 0 00 001123346788877765443 4567889999988754321111
Q ss_pred CCCCCcchhhhHhhHHHHHHHHHHhhccc---CCChHHHHHHHHcCcccceee-eEEEeCCCCCCCCcEEEEEeeCCce
Q 006683 321 DHFHPSIHALRAHDSIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVGKKY 395 (635)
Q Consensus 321 ~~~~~~~~~~~~yDav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~f~g~~G-~v~F~~~g~~~~~~~~i~~~~~~~~ 395 (635)
.+..++.+++++|||++++++||+++..+ ..++..|+++|++++|+|++| +|.||++|++. ..|.+++++++.|
T Consensus 309 ~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~~-~~y~v~~~~~~~~ 386 (404)
T cd06370 309 LVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDAE-GNYSVLALQPIPP 386 (404)
T ss_pred cccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCcc-cceEEEEeccccc
Confidence 12346778999999999999999998432 257999999999999999999 99999999995 8999999987654
No 18
>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=4e-41 Score=352.62 Aligned_cols=340 Identities=20% Similarity=0.287 Sum_probs=283.8
Q ss_pred CCeEEEEEEeeCCC---------------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHH
Q 006683 32 EEVTKIGAIVDANS---------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAAT 87 (635)
Q Consensus 32 ~~~i~IG~i~p~s~---------------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~ 87 (635)
++.+.||+++|.+. ..|.....|+++|+++||+++ ||++|+++++|+|+ +..+++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~~ 82 (410)
T cd06363 4 PGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANFP 82 (410)
T ss_pred CCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHHH
Confidence 57899999999872 346678899999999999998 47999999999976 767999
Q ss_pred HHHHHhhc---------------CCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCc
Q 006683 88 AAQELINK---------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASND 151 (635)
Q Consensus 88 ~~~~li~~---------------~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~ 151 (635)
.+.+|+++ ++|.+||||.+|..+.+++++++.+++|+|+++++ ++.+++ ..+||+||+.|++
T Consensus 83 ~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~--~~~lt~~~~~~~~fr~~~~~ 160 (410)
T cd06363 83 PTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGAS--SEVLSNKELYPSFLRTVPSD 160 (410)
T ss_pred HHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhccccccccccccc--CccccccccCCCeeEecCCc
Confidence 99998854 79999999999999999999999999999999998 888886 5789999999999
Q ss_pred HHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC
Q 006683 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (635)
Q Consensus 152 ~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~ 231 (635)
..++.++++++++++|++|++|+++++|| ....+.+++.+++.| ++++..+.++.... ...|++++++++++.+
T Consensus 161 ~~~~~al~~~l~~~~~k~vaii~~~~~~g--~~~~~~~~~~l~~~g-i~i~~~~~~~~~~~---~~~d~~~~l~~i~~~~ 234 (410)
T cd06363 161 KDQIEAMVQLLQEFGWNWVAFLGSDDEYG--RDGLQLFSELIANTG-ICIAYQGLIPLDTD---PETDYQQILKQINQTK 234 (410)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEeCChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCCc---hHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999 999999999999999 99998887765321 1278999999999999
Q ss_pred ceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHH
Q 006683 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR 311 (635)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~ 311 (635)
+|+|++ .+..+++..+++++.++|+.+. .|+++..+................+++++....+. .+..++|.++
T Consensus 235 ~dvIil-~~~~~~~~~il~qa~~~g~~~~--~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~f~~~--- 307 (410)
T cd06363 235 VNVIVV-FASRQPAEAFFNSVIQQNLTGK--VWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTVT-IPGFSDFIYS--- 307 (410)
T ss_pred CeEEEE-EcChHHHHHHHHHHHhcCCCCC--EEEEeCcccccccccCCccceeeccEEEEEeCCCC-CccHHHHHHH---
Confidence 999999 9999999999999999999764 78888765432111111111234456666554443 3567777665
Q ss_pred hhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccc---------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCC
Q 006683 312 NFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN---------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNA 382 (635)
Q Consensus 312 ~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~---------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~ 382 (635)
+++.+||||+++++|++++..+ ..+++.|+++|++++|+|++|++.||++|++.
T Consensus 308 ----------------~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~- 370 (410)
T cd06363 308 ----------------FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPN- 370 (410)
T ss_pred ----------------HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCc-
Confidence 3467899999999999998321 24689999999999999999999999999975
Q ss_pred CcEEEEEeeC----CceEEEEeecCC
Q 006683 383 DTLRIVNVVG----KKYKELDFWLPN 404 (635)
Q Consensus 383 ~~~~i~~~~~----~~~~~vG~w~~~ 404 (635)
..+.|++++. ..+++||+|++.
T Consensus 371 ~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 371 FGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred cceEEEEEEEcCCceeEEEEEEEECC
Confidence 6899999943 368999999874
No 19
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=7.4e-41 Score=348.34 Aligned_cols=350 Identities=17% Similarity=0.291 Sum_probs=280.4
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
+||+|++.+ +...+.|+++|++++|.+. +.++|.+.+.++ ++|+..+.+++|+++ +++|.+||||.+|.++.
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll-~~~V~aiiGp~~s~~~~ 76 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQL-SRGVFAIFGSYDKSSVN 76 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHH-hcCcEEEEecCcHHHHH
Confidence 489999998 3678899999999999874 456776666665 589999999999999 67999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
+++++|+.++||+|+++++ .+.++ ..++|+||+.|+. ..++++++++++|++|++||+++. | ...++.+.+
T Consensus 77 ~~~~~~~~~~iP~i~~~~~--~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~--~~~~~~~~~ 147 (382)
T cd06380 77 TLTSYSDALHVPFITPSFP--TNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-G--LLRLQQLLD 147 (382)
T ss_pred HHHHHHhcCCCCeEecCCC--cccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-c--hHHHHHHHH
Confidence 9999999999999999988 77774 4679999999863 458899999999999999998775 5 555677778
Q ss_pred HHhccCCeEEEEE-eeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 192 ALQNVSSSEIQSR-LVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 192 ~l~~~g~~~v~~~-~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
.+++.| .++... ..+.... ...|++.+|+++|+.++|+||+ .++.+++..+++||+++||.++.|+||+++..
T Consensus 148 ~~~~~g-~~i~v~~~~~~~~~----~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~ 221 (382)
T cd06380 148 YLREKD-NKWQVTARRVDNVT----DEEEFLRLLEDLDRRKEKRIVL-DCESERLNKILEQIVDVGKNRKGYHYILANLG 221 (382)
T ss_pred HHhccC-CceEEEEEEecCCC----cHHHHHHHHHHhhcccceEEEE-ECCHHHHHHHHHHHHHhhhcccceEEEEccCC
Confidence 888777 433222 2232211 1268999999999999999999 99999999999999999999999999998765
Q ss_pred hhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc--
Q 006683 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY-- 348 (635)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~-- 348 (635)
....+.. .......++.++....+. .+..++|.++|++.+...++......+..+++++||||+++++|+++++.
T Consensus 222 ~~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~ 298 (382)
T cd06380 222 FDDIDLS--KFLFGGVNITGFQLVDNT-NPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQR 298 (382)
T ss_pred cccccHH--HhccCceeeEEEeccCCC-CHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4332211 011122234555543333 46789999999988754443323345677899999999999999998852
Q ss_pred -----------------c-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCC
Q 006683 349 -----------------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPN 404 (635)
Q Consensus 349 -----------------~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~ 404 (635)
| +.+|..|+++|++++|+|++|+++||++|++.+..++|++++++++++||+|++.
T Consensus 299 ~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~ 378 (382)
T cd06380 299 GSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNED 378 (382)
T ss_pred cccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCC
Confidence 1 3578999999999999999999999999999888999999999999999999987
Q ss_pred CCC
Q 006683 405 FGF 407 (635)
Q Consensus 405 ~~~ 407 (635)
.++
T Consensus 379 ~g~ 381 (382)
T cd06380 379 DGL 381 (382)
T ss_pred cCc
Confidence 654
No 20
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.3e-40 Score=347.44 Aligned_cols=355 Identities=12% Similarity=0.159 Sum_probs=282.6
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
+||++.|.+. ..+.....|+++|+++||+++ ||++|+++++|++|++..++..+++++.+++|.+||||.||..
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 5899999763 356677789999999999987 5699999999999999999999999997789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC---CCCCc--
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDS-- 183 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~---~g~~~-- 183 (635)
+.+++++++.++||+|+++++ ++.+++ ..||+++|+.|++..++.++++++++++|++|++|+.++. ++ +
T Consensus 81 ~~av~~va~~~~iP~is~~s~--s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~--~~~ 156 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQ--TAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWD--EVD 156 (391)
T ss_pred HHHHHHHHhccCccEEEeecC--CccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhh--hHH
Confidence 999999999999999999998 888987 5789999999999999999999999999999999986532 32 1
Q ss_pred chHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeE
Q 006683 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (635)
Q Consensus 184 ~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (635)
...+.+.+.++ .+ ++++..+.++.+. .++...+.+.++.++|+||+ .+..+++..++++|.++||.++.|+
T Consensus 157 ~~~~~~~~~~~-~~-~~i~~~~~~~~~~------~d~~~~~l~~~~~~~~vii~-~~~~~~~~~i~~~a~~~g~~~~~y~ 227 (391)
T cd06372 157 ELWKAVENQLK-FH-FNITATVRYSSSN------PDLLQEKLRYISSVARVIIL-ICSSEDAKAILQAAEKLGLMKGKFV 227 (391)
T ss_pred HHHHHHHHHHh-hC-EEEEEEEecCCCC------hHHHHHHHHhhhccceEEEE-EcChHHHHHHHHHHHHcCCCCCCEE
Confidence 12334444443 67 8888887776554 56666665666689999999 9999999999999999999988899
Q ss_pred EEeeCchhhhhcc---c---ChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCC---CCCCcchhhhHhh
Q 006683 264 WIVTNTVANALDS---L---NTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED---HFHPSIHALRAHD 334 (635)
Q Consensus 264 ~i~~~~~~~~~~~---~---~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~---~~~~~~~~~~~yD 334 (635)
||.+.......+. . .....+..+|++++.+......+...+|.++|++++......+. ....+.+++++||
T Consensus 228 ~i~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yD 307 (391)
T cd06372 228 FFLLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHD 307 (391)
T ss_pred EEEehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHH
Confidence 9995332211110 0 01122356788877766543344577899998887753321111 1134578999999
Q ss_pred HHHHHHHHHHhhccc---CCChHHHHHHHH---cCcccceeeeEEEeCCCCCCCCcEEEEEeeC----CceEEEEeecCC
Q 006683 335 SIKIITEAIGRLNYN---ISSPEMLLRQML---SSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPN 404 (635)
Q Consensus 335 av~~~a~Al~~~~~~---~~~~~~l~~~l~---~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~~ 404 (635)
||+++++|++++..+ +.++..+.++|+ +++|+|++|+|.||++|+|. ..|.|+++++ ..+++||+|+..
T Consensus 308 av~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r~-~~y~i~~~~~~~~~~~~~~vg~~~~~ 386 (391)
T cd06372 308 AVLLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKRQ-MDYSVYALQKSGNSSLFLPFLHYDSH 386 (391)
T ss_pred HHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCcc-eeEEEEeccccCCccceeeEEEecch
Confidence 999999999996543 457899999999 68999999999999999995 8999999965 348999999874
No 21
>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=1.3e-40 Score=348.03 Aligned_cols=357 Identities=18% Similarity=0.233 Sum_probs=305.4
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
|||+++|+++ ..|.....|+++|+|+||+.+ +|++|+++++|++++|..+++.+.+++.+++|.+||||.+|..
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 6999999994 568889999999999999997 4799999999999999999999999997889999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-CCCCcchHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLA 187 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-~g~~~~~~~ 187 (635)
+.++++++..+++|+|+++++ ++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. || ....+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g--~~~~~ 156 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCV--ALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENC--FFTLE 156 (389)
T ss_pred HHHHHHHHhcCCCCEeccccc--ccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccH--HHHHH
Confidence 999999999999999999988 788876 4789999999999999999999999999999999999888 89 89999
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
.+.+.+++.| ++|+....++... ...|+..+++++++.+ |+|++ .+...++..+++++.++|+.+..++||.+
T Consensus 157 ~~~~~~~~~G-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~-~vii~-~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 157 ALEAALREFN-LTVSHVVFMEDNS----GAEDLLEILQDIKRRS-RIIIM-CGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHHhcC-CeEEEEEEecCCc----cchhHHHHHHHhhhcc-eEEEE-ECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 9999999999 9999988887652 0167999999999877 99988 88899999999999999999878999998
Q ss_pred Cchhhhhc-----------ccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCC--CCCCCcchhhhHhh
Q 006683 268 NTVANALD-----------SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE--DHFHPSIHALRAHD 334 (635)
Q Consensus 268 ~~~~~~~~-----------~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~~yD 334 (635)
+.+..... .......+..+|++++..... ..+..++|.++|++++...+..| ....++.++.++||
T Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 308 (389)
T cd06352 230 DLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPP-DNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYD 308 (389)
T ss_pred ehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCC-CCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHH
Confidence 76654321 111123355678888777665 44789999999999886433222 12246778999999
Q ss_pred HHHHHHHHHHhhccc---CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC--CceEEEEeecCCC
Q 006683 335 SIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG--KKYKELDFWLPNF 405 (635)
Q Consensus 335 av~~~a~Al~~~~~~---~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~--~~~~~vG~w~~~~ 405 (635)
|++++++|++++..+ +.++..+.+.|++++|.|++|+++||++|++. ..+.|+++++ +.+..++.++...
T Consensus 309 av~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~~~~~~~~~~ 383 (389)
T cd06352 309 AVLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLEVVYLYDTSS 383 (389)
T ss_pred HHHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEEEEEeccccc
Confidence 999999999999653 24788999999999999999999999999996 7899999975 7888888877654
No 22
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=8.2e-41 Score=349.57 Aligned_cols=357 Identities=18% Similarity=0.236 Sum_probs=289.0
Q ss_pred EEEEEeeCCC----cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCC----CHHHHHHHHHHHhhcCCeEEEEcC
Q 006683 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR----DPFQAATAAQELINKEKVKVIAGM 104 (635)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~----~~~~a~~~~~~li~~~~v~aiiG~ 104 (635)
+||+++|.++ ..|.....|+++|+++||+++ +|++|+++++|+++ ++..++..+.+++.+++|.+||||
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 5899999994 346688899999999999998 47999999999998 899999999888767899999999
Q ss_pred CChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCC--
Q 006683 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG-- 181 (635)
Q Consensus 105 ~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~-- 181 (635)
.||..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..++.++++++++++|+++++|+.+++++.
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as--~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~ 158 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAP--AAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRP 158 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCC--ccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcch
Confidence 99999999999999999999999999 888887 5799999999999999999999999999999999999877530
Q ss_pred CcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCC
Q 006683 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (635)
Q Consensus 182 ~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (635)
.....+.+.+.+++.| ++|+... +..... ..|+..+++++++.. |+|++ .+...++..+++++.++|++..+
T Consensus 159 ~~~~~~~~~~~~~~~g-~~v~~~~-~~~~~~----~~d~~~~l~~ik~~~-~vii~-~~~~~~~~~~~~qa~~~g~~~~~ 230 (396)
T cd06373 159 CYFTLEGVYTVLKEEN-ITVSDFP-FDEDKE----LDDYKELLRDISKKG-RVVIM-CASPDTVREIMLAAHRLGLTSGE 230 (396)
T ss_pred HHHHHHHHHHHHhhcC-ceeeEEe-ecCCcc----ccCHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCc
Confidence 0335778888999999 9987554 433210 157999999999865 99999 99999999999999999999999
Q ss_pred eEEEeeCchhhhh-----cc------cChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCC-CCCCCcchh
Q 006683 262 SVWIVTNTVANAL-----DS------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE-DHFHPSIHA 329 (635)
Q Consensus 262 ~~~i~~~~~~~~~-----~~------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~ 329 (635)
|+||..+...... .. ......+..+|++.+..+.+. .+..++|.++|+++...++..+ ....++.++
T Consensus 231 yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~-~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a 309 (396)
T cd06373 231 YVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPD-NPEYKEFSLEVKERAKKKFNTTSDDSLVNFFA 309 (396)
T ss_pred EEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCC-ChHHHHHHHHHHHHhhhcCCCCcchhHHHHHH
Confidence 9999875442111 00 001122345677777665544 3678899999987643333111 112456788
Q ss_pred hhHhhHHHHHHHHHHhhcc---cCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEe---eCCceEEEEeecC
Q 006683 330 LRAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKELDFWLP 403 (635)
Q Consensus 330 ~~~yDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~---~~~~~~~vG~w~~ 403 (635)
+++|||++++++||+++.. ...+++.|+++|++++|+|++|+++||++|++. ..|.++++ ++++++.+|+|++
T Consensus 310 ~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~~~~v~~~~~~~~g~~~~~~~~~~ 388 (396)
T cd06373 310 GAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDRE-SDFSLWDMTDTETGTFEVVANYNG 388 (396)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCccc-ceeeeeeccCCCCceEEEEeeccc
Confidence 9999999999999998732 126899999999999999999999999999985 77888665 6799999999987
Q ss_pred C
Q 006683 404 N 404 (635)
Q Consensus 404 ~ 404 (635)
.
T Consensus 389 ~ 389 (396)
T cd06373 389 S 389 (396)
T ss_pred c
Confidence 4
No 23
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=4.2e-40 Score=345.07 Aligned_cols=354 Identities=15% Similarity=0.176 Sum_probs=280.2
Q ss_pred EEEEEeeCCCc---Cc-HHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHH-----HHHHHHHHhhcCCeEEEEc
Q 006683 36 KIGAIVDANSQ---MG-KQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQ-----AATAAQELINKEKVKVIAG 103 (635)
Q Consensus 36 ~IG~i~p~s~~---~g-~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~-----a~~~~~~li~~~~v~aiiG 103 (635)
+||+++|+++. .+ .....|+++|+++||+++ +|++|++++.|+++++.. +...+.+++..+++.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 58999999843 33 678889999999999996 489999999998666543 3333444334689999999
Q ss_pred CCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEE-EEEcCC-CC
Q 006683 104 METWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA-IYEDNV-YG 180 (635)
Q Consensus 104 ~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vai-i~~~~~-~g 180 (635)
|.||..+.+++++++.++||+|+++++ ++.+++ ..|||+||+.|++..++.++++++++|+|+++++ ++.++. ++
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~--~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~ 158 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAP--ALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDD 158 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccC--hhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccc
Confidence 999999999999999999999999999 889987 5799999999999999999999999999999985 555443 22
Q ss_pred CCcc---hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 181 GDSG---KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 181 ~~~~---~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+. ..+.+.+.+++.| ++|+..+..+.+. .+++.+|+++++.. |+|++ +++...+..++++|.++||
T Consensus 159 --~~~~~~~~~l~~~~~~~g-i~v~~~~~~~~~~------~d~~~~l~~ik~~~-~iii~-~~~~~~~~~i~~~a~~~g~ 227 (405)
T cd06385 159 --RPCYFAMEGLYMELKKNN-ITVVDLVFEEDDL------INYTTLLQDIKQKG-RVIYV-CCSPDIFRRLMLQFWREGL 227 (405)
T ss_pred --cchHHHHHHHHHHHHhCC-eEEEEeeccCCch------hhHHHHHHHHhhcc-eEEEE-eCCHHHHHHHHHHHHHcCC
Confidence 32 4688899999999 9998875332222 67999999998754 99999 9999999999999999999
Q ss_pred CCCCeEEEeeCchhhhhcc------------cChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCC-CCCC
Q 006683 258 VGKDSVWIVTNTVANALDS------------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE-DHFH 324 (635)
Q Consensus 258 ~~~~~~~i~~~~~~~~~~~------------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~ 324 (635)
+++.|+||+++.+...... .+....+.+++++....+.+. ++.+++|.++|+++....+... ..+.
T Consensus 228 ~~~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~ 306 (405)
T cd06385 228 PSEDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQ-NPEYKEFLSDLKTDAKEMFNFTVEDSL 306 (405)
T ss_pred CCCcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCC-ChhHHHHHHHHHHHhhccCCCccchhh
Confidence 9999999998664322110 011223456777776554443 4678999999988642222110 1133
Q ss_pred CcchhhhHhhHHHHHHHHHHhhc---ccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEe---eCCceEEE
Q 006683 325 PSIHALRAHDSIKIITEAIGRLN---YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKEL 398 (635)
Q Consensus 325 ~~~~~~~~yDav~~~a~Al~~~~---~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~---~~~~~~~v 398 (635)
++.+++++||||+++++||+++. ..+.+|..|.++|++++|+|++|+|.||++|+|. ..+.++++ +++++++|
T Consensus 307 ~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~v 385 (405)
T cd06385 307 MNIIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALWDMTDTESGDFQVV 385 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEEEccCCCCCcEEEE
Confidence 67889999999999999999972 2235899999999999999999999999999995 78888755 67899999
Q ss_pred EeecCC
Q 006683 399 DFWLPN 404 (635)
Q Consensus 399 G~w~~~ 404 (635)
|+|+..
T Consensus 386 ~~~~~~ 391 (405)
T cd06385 386 SVYNGT 391 (405)
T ss_pred EEEccc
Confidence 999863
No 24
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=4e-40 Score=338.36 Aligned_cols=347 Identities=16% Similarity=0.255 Sum_probs=280.9
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+|++... .+.+.|++.|++.+|.. ..+|...+.. ...|...+.+++|+++ ++||.||+||.+|..+.+++
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~--~~~l~~~~~~~~~~dsf~~~~~~C~~~-~~GV~AI~Gp~ss~~~~~v~ 74 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS--EFRLTPHIDNLEVANSFAVTNAFCSQF-SRGVYAIFGFYDKKSVNTIT 74 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc--CceeeeeeEEecccchHHHHHHHHHHh-hcCcEEEEecCCHHHHHHHH
Confidence 4899999764 35679999999999997 4566664443 5679999999999999 89999999999999999999
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
++|+..+||+|++.++ . +..++|.+++.|+ ...++++++++++|++|++||+ ++|| ...++.+.+.++
T Consensus 75 ~i~~~~~IP~I~~~~~--~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~g--l~~lq~l~~~~~ 142 (370)
T cd06389 75 SFCGTLHVSFITPSFP--T----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRG--LSTLQAVLDSAA 142 (370)
T ss_pred HhhccCCCCeeeecCC--C----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchH--HHHHHHHHHhhc
Confidence 9999999999988644 2 2357888899998 5889999999999999999997 4589 888999999999
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhh
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (635)
+.| ++|+........... ...|++.+|+++++.++++||+ .|+.+.+..++++|.++||.++.|+||+++......
T Consensus 143 ~~g-~~V~~~~~~~i~~~~--~~~d~~~~L~~ik~~~~~~Iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~ 218 (370)
T cd06389 143 EKK-WQVTAINVGNINNDR--KDEAYRSLFQDLENKKERRVIL-DCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDG 218 (370)
T ss_pred cCC-ceEEEEEeecCCCcc--chHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEccCCcccc
Confidence 999 888754422111111 1158999999999999999999 999999999999999999999999999987643322
Q ss_pred cccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc-------
Q 006683 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN------- 347 (635)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~------- 347 (635)
+... ......++.++...... +|..++|.++|++....+++...+..+...++++||||+++++|++++.
T Consensus 219 ~l~~--~~~~~~nitg~~~~~~~-~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~ 295 (370)
T cd06389 219 DLSK--IQFGGANVSGFQIVDYD-DPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS 295 (370)
T ss_pred chhh--hccCCcceEEEEEecCC-CchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 2111 00122346666655444 4679999999987443344332234678899999999999999999763
Q ss_pred ------cc-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCC
Q 006683 348 ------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (635)
Q Consensus 348 ------~~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~ 407 (635)
.| |.+|..|+++|++++|+|+||+++||++|+|.+..++|++++..++++||+|++..++
T Consensus 296 ~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~ 368 (370)
T cd06389 296 RRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKM 368 (370)
T ss_pred cCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCc
Confidence 22 3578999999999999999999999999999988999999999999999999987665
No 25
>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=7.1e-40 Score=333.53 Aligned_cols=351 Identities=17% Similarity=0.263 Sum_probs=266.7
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEE-ecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~-~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
.||+|++.+.. ..+.|+++|++++|.+. ++.+|.+.+ +++.+|+..+..++|+++ +++|.|||||.++.++.
T Consensus 1 ~iG~if~~~~~---~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~-~~gV~AI~Gp~s~~~a~ 76 (400)
T cd06392 1 HIGAIFEENAA---KDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLM-TQGILALVTSTGCASAN 76 (400)
T ss_pred CeeeccCCCch---HHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHH-hcCeEEEECCCchhHHH
Confidence 38999998652 46799999999999776 578999988 889999999999999999 89999999999999999
Q ss_pred HHHHhhccCCccEEeecCCC---------CCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCC
Q 006683 112 VVAEIASRVQVPILSFAAPA---------VTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~---------~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~ 182 (635)
.++++|+..+||+|+++... .+|.++..+ |.+.+.|+ ..+..|+++++++|+|++|++|| |++||
T Consensus 77 ~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~--~~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~g-- 150 (400)
T cd06392 77 ALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEE--YTLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYD-- 150 (400)
T ss_pred HHHHHhccCcCCcEeecccccccccccccCCCCcCcCc--eeEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECccc--
Confidence 99999999999999986520 024333444 45556666 56788999999999999999999 67888
Q ss_pred cchHHHHHHHHhccCCeEEEEEeeeCCCC---CCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 183 SGKLALLAEALQNVSSSEIQSRLVLPPIS---SISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 183 ~~~~~~~~~~l~~~g~~~v~~~~~~~~~~---~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
...++.+.+.+.+.+ .+|.... +.... .....+......|.+++... ++||+ .|+++.+..++++|.++||.+
T Consensus 151 l~~lq~L~~~~~~~~-~~I~~~~-v~~~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv-~~s~~~~~~il~qA~~lgM~~ 226 (400)
T cd06392 151 IRGLQSFLDQASRLG-LDVSLQK-VDRNISRVFTNLFTTMKTEELNRYRDTL-RRAIL-LLSPRGAQTFINEAVETNLAS 226 (400)
T ss_pred HHHHHHHHHHHhhcC-ceEEEEE-cccCcchhhhhHHHHHHHhhhhhccccc-eEEEE-EcCcHHHHHHHHHHHHhCccc
Confidence 888888888899888 8887554 22111 00000112223334444334 78888 999999999999999999999
Q ss_pred CCeEEEeeCchhhhhcccChhhhhhccceE----EEEeecCCCCchhHHHH----HHHHHhhccCCCCCCCCCCcchhhh
Q 006683 260 KDSVWIVTNTVANALDSLNTTVISSMEGTL----GIKSYYSDDSSPYKEFS----ALFRRNFTSEYPEEDHFHPSIHALR 331 (635)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~----~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~~~~ 331 (635)
.+|+||+++......+ ..+...|.+ ++..+.+.... ..++. .+|++........ ....+..++++
T Consensus 227 ~~y~wI~t~~~~~~~d-----l~~~~~g~~~niT~~r~~~~~~~~-~~~~~~~~~~r~~~~~~~~~~~-~~~~l~~~aal 299 (400)
T cd06392 227 KDSHWVFVNEEISDTE-----ILELVHSALGRMTVIRQIFPLSKD-NNQRCIRNNHRISSLLCDPQEG-YLQMLQVSNLY 299 (400)
T ss_pred CCeEEEEecCCccccc-----HHHHhcccccceeeEEEecCCcHH-HHHHHHHHHHHHHhhhcccccc-cccccchhHHH
Confidence 9999999998765332 223344444 47766554422 33343 4454332211000 01246778999
Q ss_pred HhhHHHHHHHHHHhhc-----------cc-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee--
Q 006683 332 AHDSIKIITEAIGRLN-----------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-- 391 (635)
Q Consensus 332 ~yDav~~~a~Al~~~~-----------~~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-- 391 (635)
+||||+++|+|+++.. .| |..|..|+++|++++|+|+||+|.|+++|+|.+..|+|++++
T Consensus 300 ayDaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l~~~ 379 (400)
T cd06392 300 LYDSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILGTSYS 379 (400)
T ss_pred HHHHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEecccc
Confidence 9999999999999742 23 457999999999999999999999999999999999999964
Q ss_pred ---CCceEEEEeecCCCCC
Q 006683 392 ---GKKYKELDFWLPNFGF 407 (635)
Q Consensus 392 ---~~~~~~vG~w~~~~~~ 407 (635)
+.++++||+|++..++
T Consensus 380 ~~~g~g~~~iG~W~~~~gl 398 (400)
T cd06392 380 ETFGKDVRRLATWDSEKGL 398 (400)
T ss_pred ccCCCCceEeEEecCCCCC
Confidence 5569999999998765
No 26
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.2e-39 Score=331.93 Aligned_cols=344 Identities=15% Similarity=0.244 Sum_probs=276.4
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC----CCeEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS----RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~----~g~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||+|++.+. .+...|+++|++.+|.+. .+.+|...+.. ...|+..+.+.+|+++ +++|.||+||.+|..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~-~~gV~AI~Gp~ss~~~ 76 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQY-SRGVFAIFGLYDKRSV 76 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHH-hCCceEEEecCCHHHH
Confidence 5899999654 346799999999999865 12466655444 5579999999999999 8999999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
.+++++|+..+||+|++.++ . ...+.+.+++.|+ +..++++++++++|+++++||+++ +| ...++.+.
T Consensus 77 ~~v~~i~~~~~IP~I~~~~~--~----~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~~-~~--~~~lq~l~ 144 (371)
T cd06388 77 HTLTSFCSALHISLITPSFP--T----EGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDTD-RG--YSILQAIM 144 (371)
T ss_pred HHHHHHhhCCCCCeeecCcc--c----cCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecCC-cc--HHHHHHHH
Confidence 99999999999999987543 1 2334556667777 467888899999999999999644 45 56688899
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.+++.| ++|+.....+.+. .|++++|++++++++++||+ .|+++.+..+++||+++||.+++|+||+++..
T Consensus 145 ~~~~~~g-~~v~~~~~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~ 216 (371)
T cd06388 145 EKAGQNG-WQVSAICVENFND------ASYRRLLEDLDRRQEKKFVI-DCEIERLQNILEQIVSVGKHVKGYHYIIANLG 216 (371)
T ss_pred HhhHhcC-CeeeeEEeccCCc------HHHHHHHHHhcccccEEEEE-ECCHHHHHHHHHHHHhcCccccceEEEEccCc
Confidence 9999999 9988755433322 68999999999999999999 99999999999999999999999999998764
Q ss_pred hhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc---
Q 006683 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN--- 347 (635)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~--- 347 (635)
....+. .+......++.++....+. ++..++|.++|.+.+...+++. ++.|...++++||||+++++|++++.
T Consensus 217 ~~~~~l--~~~~~g~~nitg~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~-~~~~~~~aAl~YDaV~l~a~A~~~l~~~~ 292 (371)
T cd06388 217 FKDISL--ERFMHGGANVTGFQLVDFN-TPMVTKLMQRWKKLDQREYPGS-ESPPKYTSALTYDGVLVMAEAFRNLRRQK 292 (371)
T ss_pred cccccH--HHHhccCCceEEEEeecCC-ChhHHHHHHHHHhcCccccCCC-CCCccchHHHHHHHHHHHHHHHHHHHhcC
Confidence 332221 0111122236677766444 3678999999988776665432 14678899999999999999999863
Q ss_pred ----------cc-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCC
Q 006683 348 ----------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (635)
Q Consensus 348 ----------~~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~ 407 (635)
.| |..|..|+++|++++|+|+||+++||++|+|.+..++|+++...++++||+|++..++
T Consensus 293 ~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~ 369 (371)
T cd06388 293 IDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKL 369 (371)
T ss_pred CCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCc
Confidence 22 3456889999999999999999999999999988999999999999999999997765
No 27
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.4e-39 Score=328.81 Aligned_cols=345 Identities=17% Similarity=0.260 Sum_probs=282.9
Q ss_pred EEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CC-eEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDS---RN-HKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 37 IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g-~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
||+|++.+. .+.+.|++.|++++|.+. +. .+|...+.. ...|+..+.+++|+++ .+||.||+||.++.++.
T Consensus 2 iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~-~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 2 IGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQF-SRGVYAIFGFYDQMSMN 77 (372)
T ss_pred cceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHh-hcccEEEEecCCHhHHH
Confidence 799999654 356799999999999875 22 467664444 4679999999999999 89999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
.+.++|...+||+|.+... .+...++.+++.|+ +..|+++++++|+|++|.+|| |+++| ...++.+.+
T Consensus 78 ~v~s~c~~~~iP~i~~~~~------~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~g--l~~Lq~L~~ 145 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP------TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERG--FSILQAIME 145 (372)
T ss_pred HHHHhhccccCCeeeeCCC------CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchh--HHHHHHHHH
Confidence 9999999999999987433 12334788999999 789999999999999999999 55678 777888888
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
.+...+ ..|......+... ..+++.+++++++.+.+.||+ .|.++.+..++++|.++||++++|+||+++...
T Consensus 146 ~~~~~~-~~V~~~~v~~~~~-----~~~~~~~l~el~~~~~r~iIl-d~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~ 218 (372)
T cd06387 146 AAVQNN-WQVTARSVGNIKD-----VQEFRRIIEEMDRRQEKRYLI-DCEVERINTILEQVVILGKHSRGYHYMLANLGF 218 (372)
T ss_pred hhccCC-ceEEEEEeccCCc-----hHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHcCccccceEEEEecCCc
Confidence 888888 8776654333221 157899999999999999999 999999999999999999999999999998654
Q ss_pred hhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc----
Q 006683 272 NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN---- 347 (635)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~---- 347 (635)
...+.. +......+++++..+.+.. +..++|.++|++.....++.....++...++++||||+++|+|++++.
T Consensus 219 ~~~dl~--~~~~g~~NItg~rl~~~~~-~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~ 295 (372)
T cd06387 219 TDISLE--RVMHGGANITGFQIVNNEN-PMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRV 295 (372)
T ss_pred ccccHH--HhccCCcceeEEEEecCCC-chHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 333221 1112223389999987766 569999999988776666554444567889999999999999999752
Q ss_pred ---------cc-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCC
Q 006683 348 ---------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (635)
Q Consensus 348 ---------~~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~ 407 (635)
.| |..|..|.++|++++|+|+||++.|+++|+|.+..++|+++.+.++++||+|++..++
T Consensus 296 ~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 296 DVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred CcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 22 4678999999999999999999999999999999999999999999999999987764
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=7.1e-39 Score=331.52 Aligned_cols=340 Identities=18% Similarity=0.164 Sum_probs=270.8
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
|||++.|++ +..|.....|+++|+++||+++ +|++|+++++|++|++..++..+.++ +++|.+||||.||..
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~~S~~ 78 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPVNPGY 78 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCCCchH
Confidence 699999997 3557788999999999999997 47899999999999987766444332 478999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
+.+++++++.++||+|+++++ ++.+++ ..||+++|+.|++ +.++++++++|+|++|++|++++++| ....+.
T Consensus 79 ~~a~a~va~~~~iP~Is~~a~--~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~--~~~~~~ 151 (382)
T cd06371 79 CEAAALLAKEWDKALFSWGCV--NYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIW--VETAQK 151 (382)
T ss_pred HHHHHHHHHhcCceEEecccC--chhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccch--HHHHHH
Confidence 999999999999999999999 888887 6789999999986 46688899999999999999999999 888999
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC-ceEEEEecCCh-----hHHHHHHHHHHHcCCCCCCe
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASL-----DMTIHLFTEANRMGLVGKDS 262 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vii~~~~~~-----~~~~~~l~~a~~~g~~~~~~ 262 (635)
+.+.+++.| ++|+..+.++.+. .|++++|+++|+.+ +|+||+ ++.. .+...++++|+++||++.+|
T Consensus 152 l~~~l~~~g-i~v~~~~~~~~~~------~d~~~~L~~lk~~~~~~viv~-~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y 223 (382)
T cd06371 152 LASALRAHG-LPVGLVTSMGPDE------KGAREALKKVRSADRVRVVIM-CMHSVLIGGEEQRLLLETALEMGMTDGRY 223 (382)
T ss_pred HHHHHHHCC-CcEEEEEEecCCH------HHHHHHHHHHhcCCCcEEEEE-EeeccccCcHHHHHHHHHHHHcCCcCCcE
Confidence 999999999 9999887777654 68999999999887 699998 6665 67889999999999999999
Q ss_pred EEEeeCchhhhh-------cc--cChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhcc-CCCC-CCCCCCcchhhh
Q 006683 263 VWIVTNTVANAL-------DS--LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTS-EYPE-EDHFHPSIHALR 331 (635)
Q Consensus 263 ~~i~~~~~~~~~-------~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~-~~~~~~~~~~~~ 331 (635)
+||.++...... .. .+....+..++++.+....+ ..+|.+.|++.+.. +.+. ......+.++++
T Consensus 224 ~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 298 (382)
T cd06371 224 VFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSG-----EQSFYEAFRAAQERGEIPSDLEPEQVSPLFGT 298 (382)
T ss_pred EEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecCC-----CCcHHHHHHHHHhcCCCCCCCCccccchhHHH
Confidence 999987432100 00 01222245677766655422 13455555554421 1111 001123455668
Q ss_pred HhhHHHHHHHHHHhhccc--CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEE
Q 006683 332 AHDSIKIITEAIGRLNYN--ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKEL 398 (635)
Q Consensus 332 ~yDav~~~a~Al~~~~~~--~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~v 398 (635)
+|||++++++|+++++.. ..++.+++++|++++|+|++|+|+||++|++. ..|.|+++.+.+++-+
T Consensus 299 ~YDav~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~~-~~~~v~~~~~~~~~~~ 366 (382)
T cd06371 299 IYNSIYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGGQ-APYVVLDTDGKGDQLY 366 (382)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCcc-cceEEEecCCCCCeee
Confidence 999999999999999631 25899999999999999999999999999985 9999999987554443
No 29
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=2.4e-38 Score=326.02 Aligned_cols=335 Identities=16% Similarity=0.198 Sum_probs=287.3
Q ss_pred CCeEEEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 32 EEVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 32 ~~~i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
+++|+||++.|+|+ ..|.....++++|++++|+.+| |++|+++++|++++|..+.+++.+|+ +++|.+|+|+.+
T Consensus 23 ~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li-~~~V~~iiG~~~ 101 (369)
T PRK15404 23 ADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVV-NDGIKYVIGHLC 101 (369)
T ss_pred CCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHH-hCCceEEEcCCC
Confidence 46899999999994 4688899999999999999874 79999999999999999999999999 589999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcch
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGK 185 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~ 185 (635)
|..+.+++++++..++|+|++.++ ++.+++..+||+||+.|.+..++.++++++ ++++|+++++|++++.|| +..
T Consensus 102 s~~~~a~~~~~~~~~ip~i~~~s~--~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g--~~~ 177 (369)
T PRK15404 102 SSSTQPASDIYEDEGILMITPAAT--APELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYG--EGL 177 (369)
T ss_pred chhHHHhHHHHHHCCCeEEecCCC--CHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchh--HHH
Confidence 999999999999999999999988 888887778999999999999999999987 567999999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
.+.+++.+++.| .+++....++.+. .|+.+++.++++.++|+|++ .+...+...++++++++|+.. .|+
T Consensus 178 ~~~~~~~~~~~G-~~v~~~~~~~~g~------~D~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~k~~~~~G~~~---~~i 246 (369)
T PRK15404 178 ARSVKDGLKKAG-ANVVFFEGITAGD------KDFSALIAKLKKENVDFVYY-GGYHPEMGQILRQAREAGLKT---QFM 246 (369)
T ss_pred HHHHHHHHHHcC-CEEEEEEeeCCCC------CchHHHHHHHHhcCCCEEEE-CCCchHHHHHHHHHHHCCCCC---eEE
Confidence 999999999999 9999888888765 67999999999999999998 888888999999999999864 567
Q ss_pred eeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHh
Q 006683 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (635)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~ 345 (635)
.+...... ... ....+..+|+++..++....+|..++|.+.|++++. .+++.++..+||+++++++|+++
T Consensus 247 ~~~~~~~~-~~~-~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~Y~~~~~l~~Al~~ 316 (369)
T PRK15404 247 GPEGVGNK-SLS-NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ--------DPSGPFVWTTYAAVQSLAAGINR 316 (369)
T ss_pred ecCcCCCH-HHH-HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC--------CCCccchHHHHHHHHHHHHHHHh
Confidence 66433211 100 111245688876655444445778899999988752 23456778999999999999999
Q ss_pred hcccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCc
Q 006683 346 LNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK 394 (635)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~ 394 (635)
++. .+++.|.++|++.+|+|+.|+++|+++|+.....|.|+||++++
T Consensus 317 aG~--~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 317 AGS--DDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADG 363 (369)
T ss_pred hCC--CCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCC
Confidence 987 68999999999999999999999999998877899999997653
No 30
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=2.9e-38 Score=325.40 Aligned_cols=354 Identities=17% Similarity=0.272 Sum_probs=272.9
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCe--EEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNH--KLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~--~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||+|++.++..+ +.|+++|++++|.+. +++ ++.+...|++ |+..+..++|+++ +.+|.|||||.++..+
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~-~~gv~ai~Gp~~~~~~ 75 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELM-NQGILALVSSIGCTSA 75 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHH-hCCeEEEECCCcchHH
Confidence 4899999987533 569999999999876 567 4555888884 9999999999999 8899999999888888
Q ss_pred HHHHHhhccCCccEEee----cCCC---CCCCCCC--CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCC
Q 006683 111 AVVAEIASRVQVPILSF----AAPA---VTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG 181 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~----~~~~---~~~~l~~--~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~ 181 (635)
..++++|+.++||+|++ .++. +.+.+++ ..||+++| |+ ..+.+++++++++|+|++++++++ +++|
T Consensus 76 ~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~d-~~~~- 150 (400)
T cd06391 76 GSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFYD-TDYD- 150 (400)
T ss_pred HHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEEe-CCcc-
Confidence 99999999999999974 3320 0133443 46677776 65 678899999999999999998654 5677
Q ss_pred CcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCC-chHHHHH-HHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISD-PKEAVRG-ELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 182 ~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d-~~~~~~~-~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
...++.+.+.+++.| +||.... +.... .+ .+..+.. .++++++ ++.++||+ .+..+.+..++++|.++||
T Consensus 151 -~~~l~~l~~~~~~~~-i~I~~~~-~~~~~--~~~~~~~~~~~~~~~l~~~~~~~rviVl-~~~~~~~~~ll~~a~~~gm 224 (400)
T cd06391 151 -IRGIQEFLDKVSQQG-MDVALQK-VENNI--NKMITGLFRTMRIEELNRYRDTLRRAIL-VMNPATAKSFITEVVETNL 224 (400)
T ss_pred -HHHHHHHHHHHHHcC-CeEEEEe-cCcch--hhhhHHHHHHHHHHHHHhhcccccEEEE-ECCcHHHHHHHHHHHHcCC
Confidence 777888999999999 9998643 22111 00 0012222 4556665 56789998 9999999999999999999
Q ss_pred CCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCC--CCCC-CCCCcchhhhHhh
Q 006683 258 VGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEY--PEED-HFHPSIHALRAHD 334 (635)
Q Consensus 258 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~-~~~~~~~~~~~yD 334 (635)
++++|+||+++......+..+ .....+.|+.++.++.+.. ....+|..++..++.... +... ...+..+++++||
T Consensus 225 ~~~~y~wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~~-~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayD 302 (400)
T cd06391 225 VAFDCHWIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPLP-QNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYD 302 (400)
T ss_pred CCCCeEEEEeCccccccccch-HHhcccceEEEeccCCchH-HHHHHHHHHHhhhccccccCccccccccccchhhHHHH
Confidence 999999999999877665422 2234456677777765543 346777777776653221 1111 1235688999999
Q ss_pred HHHHHHHHHHhhcc-----------c-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-----
Q 006683 335 SIKIITEAIGRLNY-----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV----- 391 (635)
Q Consensus 335 av~~~a~Al~~~~~-----------~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~----- 391 (635)
||+++|+|++++.. | |..|..|+++|++++|+|+||++.|+++|+|.+..|+|+++.
T Consensus 303 aV~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~~~~~ 382 (400)
T cd06391 303 TVLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTNYGEDL 382 (400)
T ss_pred HHHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEeeccccC
Confidence 99999999997631 2 557999999999999999999999999999999999999996
Q ss_pred CCceEEEEeecCCCCC
Q 006683 392 GKKYKELDFWLPNFGF 407 (635)
Q Consensus 392 ~~~~~~vG~w~~~~~~ 407 (635)
+.++++||+|++..++
T Consensus 383 ~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 383 GRGVRKLGCWNPITGL 398 (400)
T ss_pred CCcceEEEEEcCCcCC
Confidence 7889999999998765
No 31
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=2.5e-38 Score=330.47 Aligned_cols=354 Identities=16% Similarity=0.200 Sum_probs=275.2
Q ss_pred EEEEEeeCCC----cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCH----HHHHHHHHHHhhcCCeEEEEcC
Q 006683 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDP----FQAATAAQELINKEKVKVIAGM 104 (635)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~----~~a~~~~~~li~~~~v~aiiG~ 104 (635)
+||+++|.+. ..-.....|+++|+|+||+++ +|++|+++++|+++++ ..+...+..+...+++.+||||
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 4788888652 223456679999999999998 4789999999986553 3333233222124778899999
Q ss_pred CChhhHHHHHHhhccCCccEEeecCCCCCCCCCC--CCCceEEEEecCcHHHHHHHHHHHHHCCCe-EEEEEEEcCCCCC
Q 006683 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYGG 181 (635)
Q Consensus 105 ~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~--~~~p~~~r~~p~~~~~~~al~~~l~~~~w~-~vaii~~~~~~g~ 181 (635)
.||..+.+++++++.++||+|+++++ ++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at--~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~ 158 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAP--AFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDD 158 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccc--hhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccC
Confidence 99999999999999999999999999 888876 478999999999999999988888999999 6889987643220
Q ss_pred --CcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 182 --DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 182 --~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
.....+.+.+.+++.| ++|+....+..+. .|+++++++++. ++|+|++ +++..++..++++++++|+++
T Consensus 159 ~~~~~~~~~~~~~~~~~g-i~v~~~~~~~~~~------~d~~~~l~~ik~-~~~vIi~-~~~~~~~~~i~~qa~~~g~~~ 229 (399)
T cd06384 159 RPHYFISEGVFLALQEEN-ANVSAHPYHIEKN------SDIIEIIQFIKQ-NGRIVYI-CGPLETFLEIMLQAQREGLTP 229 (399)
T ss_pred CcceEehHHHHHHHHhcC-ceEEEEEEeccch------hhHHHHHHHHhh-cccEEEE-eCCchHHHHHHHHHHHcCCCC
Confidence 0123566777888899 9998765544433 689999999997 8999999 999999999999999999999
Q ss_pred CCeEEEeeCchhhhhc-----c--------cChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCC-
Q 006683 260 KDSVWIVTNTVANALD-----S--------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP- 325 (635)
Q Consensus 260 ~~~~~i~~~~~~~~~~-----~--------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~- 325 (635)
+.|+||..+....... . ......+.+++++.+..+.+.. +.+++|.++|++++..++.. +..|
T Consensus 230 ~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~-~~~~~F~~~~~~~~~~~~~~--~~~p~ 306 (399)
T cd06384 230 GDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPEN-PEYKEFQRELHARAKEDFGV--ELEPS 306 (399)
T ss_pred CcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCC-chHHHHHHHHHHHHhhhcCC--CcCcc
Confidence 9999998765432111 0 0122334678888877665553 67899999998865433211 1123
Q ss_pred --cchhhhHhhHHHHHHHHHHhhc---ccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEE---EEeeCCceEE
Q 006683 326 --SIHALRAHDSIKIITEAIGRLN---YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI---VNVVGKKYKE 397 (635)
Q Consensus 326 --~~~~~~~yDav~~~a~Al~~~~---~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i---~~~~~~~~~~ 397 (635)
+.+++++||||++++.|++++. ..+.++..|+++|++++|+|++|+++||++|+|. ..+.+ .+++++++++
T Consensus 307 ~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~ 385 (399)
T cd06384 307 LMNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDLWAMTDHETGKYEV 385 (399)
T ss_pred hHhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEEEEeecCCCCeEEE
Confidence 5678999999999999999982 2246899999999999999999999999999995 56666 4668899999
Q ss_pred EEeecCC
Q 006683 398 LDFWLPN 404 (635)
Q Consensus 398 vG~w~~~ 404 (635)
+|+|+..
T Consensus 386 v~~~~~~ 392 (399)
T cd06384 386 VAHYNGI 392 (399)
T ss_pred EEEEcCC
Confidence 9999874
No 32
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=4.6e-39 Score=321.71 Aligned_cols=327 Identities=17% Similarity=0.290 Sum_probs=256.1
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHH-HHHHHHHHHhhcCCeEEEEcCCChhh-H
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPF-QAATAAQELINKEKVKVIAGMETWEE-T 110 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~-~a~~~~~~li~~~~v~aiiG~~~s~~-~ 110 (635)
+||+|++..+..|.....|+++|++++|+++ ++.+|++++.|.+.++. .+..++|+++ +++|.|||||.+|.. +
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l-~~gV~AIiGp~ss~~~~ 79 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQIL-PKGVVSVLGPSSSPASS 79 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHH-hcCeEEEECCCCchHHH
Confidence 5899999998889999999999999999987 34599999999988774 7788899999 789999999999965 6
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
..++++|+..+||+|+++... ++.+...++++ .++.|++..+++|+++++++|+|++|++||+++++ +..++
T Consensus 80 ~~v~~i~~~~~VP~Is~~~~~-~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~------l~~L~ 151 (333)
T cd06394 80 SIVSHICGEKEIPHFKVGPEE-TPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC------LLRLE 151 (333)
T ss_pred HHHHHHhhccCCceEEecccc-CcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH------HHHHH
Confidence 799999999999999987551 23333344445 89999999999999999999999999999999885 34445
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.++... .. ...++..... ...|++++++++++.++|+||+ .|+.+.+..++++|.++||..+.|+|++++..
T Consensus 152 ~~l~~~~-~~---~~~i~~~~~~--~~~d~~~~L~~ik~~~~~~iVv-~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~ 224 (333)
T cd06394 152 ELLRQFL-IS---KETLSVRMLD--DSRDPTPLLKEIRDDKTATIII-DANASMSHTILLKASELGMTSAFYKYILTTMD 224 (333)
T ss_pred HHHHhhc-cc---CCceeeEEcc--CcccHHHHHHHHHhcCCCEEEE-ECChHHHHHHHHHHHHcCCCCCceEEEEecCC
Confidence 5554433 21 1111111100 1157999999999999999999 99999999999999999999999999998877
Q ss_pred hhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcccC
Q 006683 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (635)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (635)
....+.... ......+.+|+...+.. |..++|.++|+++|.+......-......+++.||||+++
T Consensus 225 ~~~~~L~~~--~~~~~niTgF~l~d~~~-~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------- 290 (333)
T cd06394 225 FPLLRLDSI--VDDRSNILGFSMFNQSH-AFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------- 290 (333)
T ss_pred cccccHHHh--hcCCcceEEEEeecCCc-HHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------
Confidence 643222111 11133466777765544 7899999999987743221111111234688999999987
Q ss_pred CChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCCc
Q 006683 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (635)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~~ 408 (635)
|+||+|.||++|.|.+..++|++++..+.++||+|++..++.
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 999999999999999999999999999999999999987653
No 33
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.5e-38 Score=324.06 Aligned_cols=319 Identities=21% Similarity=0.305 Sum_probs=264.0
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCC-CCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
+||+++++ ..|.....|+++|+++||+++ +|++|+++++|++ +++..+.+.+|++++ ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~-~~V~aiiG~~~S~~~~ 77 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQ-QGVAAIFGPSSSEASS 77 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhh-cCcEEEECCCChhHHH
Confidence 59999997 457889999999999999998 4799999999998 899999999999995 5999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
+++++++.++||+|+++++ ++.++ .++++||+.|++..++.++++++++++|+++++++++++++ .. +.+
T Consensus 78 av~~~~~~~~vP~Is~~~~--~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~--~~----l~~ 147 (327)
T cd06382 78 IVQSICDAKEIPHIQTRWD--PEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL--LR----LQE 147 (327)
T ss_pred HHHHHHhccCCCceeccCC--cCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH--HH----HHH
Confidence 9999999999999999887 67666 45889999999999999999999999999999999988765 43 444
Q ss_pred HHhccCCe---EEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 192 ALQNVSSS---EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 192 ~l~~~g~~---~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
.+++.+ . .+.. ..++.. .|++++++++++.++|+|++ .+...++..++++|+++|+.++.|+|++++
T Consensus 148 ~~~~~~-~~g~~v~~-~~~~~~-------~d~~~~l~~i~~~~~d~vv~-~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~ 217 (327)
T cd06382 148 LLQAFG-ISGITITV-RQLDDD-------LDYRPLLKEIKNSGDNRIII-DCSADILIELLKQAQQVGMMSEYYHYIITN 217 (327)
T ss_pred HHHhhc-cCCCeEEE-EEccCC-------ccHHHHHHHHHhcCceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEec
Confidence 455444 3 4443 334332 26999999999999999999 999999999999999999999999999977
Q ss_pred chhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
......... .......+++++..+.++ +|..++|.++|+++|....+......|+.+++.+|||++++
T Consensus 218 ~~~~~~~l~--~~~~~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~--------- 285 (327)
T cd06382 218 LDLHTLDLE--DYRYSGVNITGFRLVDPD-SPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF--------- 285 (327)
T ss_pred CCccccchh--hhccCceeEEEEEEecCC-chhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe---------
Confidence 654332211 111122356666665554 46799999999999865433222334778899999999998
Q ss_pred cCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCC
Q 006683 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (635)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~ 407 (635)
|+||+|.||++|+|.+..++|+++.++++++||+|++..++
T Consensus 286 ------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 99999999999999999999999999999999999987654
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=2e-37 Score=328.05 Aligned_cols=381 Identities=19% Similarity=0.299 Sum_probs=317.1
Q ss_pred CCeEEEEEEeeCCC-------------cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhh--
Q 006683 32 EEVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELIN-- 94 (635)
Q Consensus 32 ~~~i~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~-- 94 (635)
+++|.||.++|.+. ..|.+...|+..|+++||+.. ||.++++.++|+|.++..|+++..+++.
T Consensus 29 ~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~~~ 108 (878)
T KOG1056|consen 29 PGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINNPDLLPNIKLGARILDTCSRSTYALEQSLSFVRAS 108 (878)
T ss_pred CCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcCcccCCCceeeeeEeeccCCcHHHHHhhHHHHHhc
Confidence 68999999999871 457788999999999999822 8999999999999999999999888775
Q ss_pred --c------------CCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHH
Q 006683 95 --K------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIA 159 (635)
Q Consensus 95 --~------------~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~ 159 (635)
. ..|.++||+..|..+.+++.++.-++||+|+++++ ++.|++ .+|+||.|+.|+|..|+++|+
T Consensus 109 ~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSt--s~~LSdk~ry~~F~RtVP~D~~Qa~Am~ 186 (878)
T KOG1056|consen 109 LTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYAST--SPDLSDKTRYDYFLRTVPSDVFQAQAMV 186 (878)
T ss_pred ccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccC--CcccccchhhhceeeecCChHHHHHHHH
Confidence 1 46899999999999999999999999999999999 999999 599999999999999999999
Q ss_pred HHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh-cCceEEEEe
Q 006683 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIVL 238 (635)
Q Consensus 160 ~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~~vii~~ 238 (635)
+++++|+|++|..++++++|| +...+++++..++.| +||...+.++... .+..+...++++.+ .++++||+
T Consensus 187 ~il~~f~W~yVstv~s~~dYG--E~Gieaf~~~a~~~~-iCIa~s~ki~~~~----~~~~~~~~l~kl~~~~~a~vvV~- 258 (878)
T KOG1056|consen 187 DILKKFNWNYVSTVASEGDYG--ESGIEAFKEEAAERG-ICIAFSEKIYQLS----IEQEFDCVLRKLLETPNARVVVV- 258 (878)
T ss_pred HHHHHhCeeEeeehhcCccch--hhhHHHHHHhHHhcC-ceEEehhhccccc----chhHHHHHHHHHhhcCCCeEEEE-
Confidence 999999999999999999999 999999999999999 9999987666543 23678889999887 69999999
Q ss_pred cCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHH-------
Q 006683 239 QASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR------- 311 (635)
Q Consensus 239 ~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~------- 311 (635)
++..++++.++++|.+.+++|. +.||.++.|....+.... .....+|++++....... +.+++|...+..
T Consensus 259 F~~~~~~r~~~~aa~~~n~~g~-~~wiaSd~W~~~~~~~~~-~e~~a~g~i~i~l~~~~v-~~F~~y~~s~~p~nn~~n~ 335 (878)
T KOG1056|consen 259 FCRGEDARRLLKAARRANLTGE-FLWIASDGWASQNSPTEA-PEREAEGAITIKLASPQV-PGFDRYFQSLHPENNRRNP 335 (878)
T ss_pred ecCcchHHHHHHHHHHhCCCcc-eEEEecchhhccCChhhh-hhhhhceeEEEEecCCcc-hhHHHHHHhcCccccccCc
Confidence 9999999999999999999984 799999999864333221 223678999998887655 678888777542
Q ss_pred ---hhccCCCCCC-------------CCC------------CcchhhhHhhHHHHHHHHHHhhccc-------------C
Q 006683 312 ---NFTSEYPEED-------------HFH------------PSIHALRAHDSIKIITEAIGRLNYN-------------I 350 (635)
Q Consensus 312 ---~~~~~~~~~~-------------~~~------------~~~~~~~~yDav~~~a~Al~~~~~~-------------~ 350 (635)
.||++.+.|. .|+ -..-....+|||+++|+||+.+..+ .
T Consensus 336 w~~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~ 415 (878)
T KOG1056|consen 336 WFAEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKA 415 (878)
T ss_pred ccchhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCccc
Confidence 3333322221 011 1123567999999999999998652 3
Q ss_pred CChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC----CceEEEEeecCCCCCccccCCCccCCCCCccccc
Q 006683 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAE 426 (635)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (635)
.+|+.|.+.+++++|.+..|.+.||++||.. ..|+|++++. ..+..+|+|+....+..
T Consensus 416 ~dg~~L~~~l~~vnF~~~~~~v~Fd~~gD~~-~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~i----------------- 477 (878)
T KOG1056|consen 416 IDGSLLLKYLLNVNFTGPAGSVRFDENGDGP-GRYDILNYQLTNGSYTYKEVGYWSEGLSLNI----------------- 477 (878)
T ss_pred cCHHHHHhhhheeEEecCCCceeecCCCCCc-cceeEEEeeccCCCccceeeeeecccccccc-----------------
Confidence 5899999999999999999999999999996 8999999964 36899999988654221
Q ss_pred CCCcccccCCCCcCcCCCccc
Q 006683 427 GFTGPVIWPGNLINRNPKGWA 447 (635)
Q Consensus 427 ~~~~~i~Wp~~~~~~~P~~~~ 447 (635)
.++.|.++.. +.|++-.
T Consensus 478 ---~~~~w~~~~~-~v~~S~C 494 (878)
T KOG1056|consen 478 ---EDLDWTTKPS-GVPKSVC 494 (878)
T ss_pred ---eeeeeccCCC-CCccccc
Confidence 4578888877 7776643
No 35
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=4.2e-37 Score=314.99 Aligned_cols=327 Identities=22% Similarity=0.293 Sum_probs=282.5
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||++.|+|+ ..|.....|+++|++++|+++ +|++|+++++|+++++..+++.+.+|+++ +|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCCccHhH
Confidence 6999999994 567889999999999999987 48999999999999999999999999955 99999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
..++++++..+||+|+++++ ++.+.+..||++||+.|++..++.++++++ ++++|++|++++.+++|| +...+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~~~~~~ 155 (334)
T cd06342 80 IPASPIYADAGIVMISPAAT--NPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYG--QGLADEF 155 (334)
T ss_pred HHhHHHHHhCCCeEEecCCC--CchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchh--hHHHHHH
Confidence 99999999999999999877 677776678999999999999999999987 578999999999999999 9999999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++|+....++... .|++..++++++.++++|++ .+...++..+++++.+.|+.. .|+....
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~~------~d~~~~l~~i~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (334)
T cd06342 156 KKALKAAG-GKVVAREGTTDGA------TDFSAILTKIKAANPDAVFF-GGYYPEAGPLVRQMRQLGLKA---PFMGGDG 224 (334)
T ss_pred HHHHHHcC-CEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cCcchhHHHHHHHHHHcCCCC---cEEecCc
Confidence 99999999 9999988887655 67999999999999999999 889999999999999999854 5666654
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
+... ... .......+|++....+.+. ..+..++|.++|.++|. ..++.++..+||+++++++|+++++.
T Consensus 225 ~~~~-~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~al~~~~~ 294 (334)
T cd06342 225 LCDP-EFI-KIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--------DPPGAYAPYAYDAANVLAEAIKKAGS 294 (334)
T ss_pred cCCH-HHH-HHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--------CCCchhHHHHHHHHHHHHHHHHHhCC
Confidence 3211 110 1112456787776665443 35678899999988773 34567889999999999999999976
Q ss_pred cCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEe
Q 006683 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (635)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~ 390 (635)
.++..+.++|++.+|+|++|+++|+++|++.+..++|+||
T Consensus 295 --~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 --TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred --CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 8899999999999999999999999999999999999886
No 36
>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=1.3e-36 Score=312.50 Aligned_cols=327 Identities=18% Similarity=0.293 Sum_probs=277.4
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCC------CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS------RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~------~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
|||+++|+| +..|.....|+++|++++|..+ .|++|+++++|++++|..+++++++|+++++|.+||||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 699999999 4568889999999999999965 2589999999999999999999999997679999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCC--CeEEEEEEEcCCCCCCcc
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN--WRRVAAIYEDNVYGGDSG 184 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~--w~~vaii~~~~~~g~~~~ 184 (635)
+..+.+++++++.++||+|+++++ ++.+....+||+||+.|++..++.++++++++++ |+++++++.+++|| +.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~ 156 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGA--SDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFS--QD 156 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCC--CchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCccc--HH
Confidence 999999999999999999999888 7777766789999999999999999999999887 99999999999999 99
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEE
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (635)
..+.+++.+++.| ++|+....++... +|++++++++++.++|+|++ .+...+...+++++.+.|+..+ ..+
T Consensus 157 ~~~~~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~-~~~ 227 (345)
T cd06338 157 VAEGAREKAEAAG-LEVVYDETYPPGT------ADLSPLISKAKAAGPDAVVV-AGHFPDAVLLVRQMKELGYNPK-ALY 227 (345)
T ss_pred HHHHHHHHHHHcC-CEEEEEeccCCCc------cchHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCCC-EEE
Confidence 9999999999999 9999887777654 67999999999999999999 9999999999999999999764 222
Q ss_pred EeeCchhh-hhcccChhhhhhccceEEEEeecCCC------CchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHH
Q 006683 265 IVTNTVAN-ALDSLNTTVISSMEGTLGIKSYYSDD------SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIK 337 (635)
Q Consensus 265 i~~~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~ 337 (635)
........ .... .....+|+++...+.+.. .|..++|.++|+++|. ..|+.++..+||+++
T Consensus 228 ~~~~~~~~~~~~~----~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~a~~ 295 (345)
T cd06338 228 MTVGPAFPAFVKA----LGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYG--------KAPDYHAAGAYAAGQ 295 (345)
T ss_pred EecCCCcHHHHHH----HhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhC--------CCCCcccHHHHHHHH
Confidence 21111111 1111 123457777666554433 3678999999999884 235667889999999
Q ss_pred HHHHHHHhhcccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEe
Q 006683 338 IITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (635)
Q Consensus 338 ~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~ 390 (635)
++++|+++++. .+++.+.++|++.+|+|++|+++|+++|++. ..+.+++|
T Consensus 296 ~~~~a~~~ag~--~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~~ 345 (345)
T cd06338 296 VLQEAVERAGS--LDPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQW 345 (345)
T ss_pred HHHHHHHHhCC--CCHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeeeC
Confidence 99999999987 7899999999999999999999999999886 46666654
No 37
>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=6.8e-36 Score=306.75 Aligned_cols=320 Identities=20% Similarity=0.268 Sum_probs=271.0
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+| +..|.....|+++|++++|+++ +|++|+++++|++++|..+++.+++|+.+++|.+||||.+|..+
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 80 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVV 80 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHH
Confidence 699999999 4678999999999999999988 47999999999999999999999999966799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCC----CCCceEEEEecCcHHHHHHHHHHHHH-----CCCeEEEEEEEcCCCCC
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMS----RRWPYLIRMASNDSEQMKCIADLARK-----YNWRRVAAIYEDNVYGG 181 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~----~~~p~~~r~~p~~~~~~~al~~~l~~-----~~w~~vaii~~~~~~g~ 181 (635)
.+++++++..++|+|+++++ ++.+++ ..+||+||+.|++..+..++++++++ ++|++|++++.+++||
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g- 157 (344)
T cd06345 81 LALQDVAAENKVPFIVTGAA--SPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWG- 157 (344)
T ss_pred HHHHHHHHHcCCcEEeccCC--CCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhh-
Confidence 99999999999999999888 777763 47899999999999999999998876 8999999999999999
Q ss_pred CcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCC
Q 006683 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (635)
Q Consensus 182 ~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (635)
+...+.+++.+++.| ++|+....++... .+++.+++++++.++|+|++ .+...+...+++++.++|+..+
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~- 227 (344)
T cd06345 158 -KGIDAGIKALLPEAG-LEVVSVERFSPDT------TDFTPILQQIKAADPDVIIA-GFSGNVGVLFTQQWAEQKVPIP- 227 (344)
T ss_pred -hHHHHHHHHHHHHcC-CeEEEEEecCCCC------CchHHHHHHHHhcCCCEEEE-eecCchHHHHHHHHHHcCCCCc-
Confidence 999999999999999 9999888777664 57999999999999999999 9999899999999999998543
Q ss_pred eEEEeeCchhhhhcccChhhhhhccceEEEEeecC---CCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHH
Q 006683 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS---DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (635)
Q Consensus 262 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 338 (635)
++....+....... .......+|.+....+.+ ...+..++|.++|+++|. ..|+.++..+||++++
T Consensus 228 --~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--------~~p~~~~~~~yda~~~ 296 (344)
T cd06345 228 --TIGISVEGNSPAFW-KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFG--------GPPNYMGASTYDSIYI 296 (344)
T ss_pred --eEEecCCcCCHHHH-HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhC--------CCCcccchHHHHHHHH
Confidence 33332221110000 111234556554433332 234678899999998884 3577888999999999
Q ss_pred HHHHHHhhcccCCChHHHHHHHHcCcccceeeeEEEeCCCCCC
Q 006683 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (635)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~ 381 (635)
+++|+++++. .+++.+.++|++.+|+|++|+++||++|++.
T Consensus 297 l~~A~~~ag~--~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 297 LAEAIERAGS--TDGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred HHHHHHHhcC--CCHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 9999999987 7899999999999999999999999999986
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=2.2e-36 Score=311.76 Aligned_cols=329 Identities=22% Similarity=0.359 Sum_probs=267.1
Q ss_pred HHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEee
Q 006683 51 AITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (635)
Q Consensus 51 ~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~ 127 (635)
+..|+++|+++||+++ ++++|++.+.|+++++......+...+.++++.+||||.|+..+.+++++++.++||+|++
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 5689999999999996 5899999999998555555555554544789999999999999999999999999999999
Q ss_pred cCCCCCCCCCC--CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEe
Q 006683 128 AAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL 205 (635)
Q Consensus 128 ~~~~~~~~l~~--~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~ 205 (635)
+++ ++.+++ ..||+++|+.|++..+++++++++++++|++|++|++++.+| ....+.+.+.+++.+..++....
T Consensus 82 ~~~--~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 157 (348)
T PF01094_consen 82 GST--SPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYG--NSLADSFQDLLRERGGICVAFIS 157 (348)
T ss_dssp SGG--SGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHH--HHHHHHHHHHHHHHTTCEEEEEE
T ss_pred ccc--ccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccc--cccchhhhhhhcccccceecccc
Confidence 999 888888 489999999999999999999999999999999999999998 88899999999996514444412
Q ss_pred eeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhh
Q 006683 206 VLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVIS 283 (635)
Q Consensus 206 ~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~ 283 (635)
...... .+....++.+++ .++++|++ .+....+..++++|.++|+...+|+||.++.+.............
T Consensus 158 ~~~~~~------~~~~~~~~~l~~~~~~~rvvil-~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~ 230 (348)
T PF01094_consen 158 VVISSD------SDAEELLKKLKEIKSGARVVIL-CSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFRE 230 (348)
T ss_dssp EEETTT------SHHHHHHHHHHHHTTTTSEEEE-ESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHC
T ss_pred cccccc------cchhhhhhhhhhccccceeeee-ecccccccccccchhhhhccccceeEEeecccccccccccccccc
Confidence 333332 344555555555 89999999 999999999999999999999999999999876553222234456
Q ss_pred hccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccc----------CCCh
Q 006683 284 SMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN----------ISSP 353 (635)
Q Consensus 284 ~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~----------~~~~ 353 (635)
...|++++....+.. +.+++|.++|++.............+..++.++|||++++++|++++..+ +.++
T Consensus 231 ~~~~~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g 309 (348)
T PF01094_consen 231 AFQGVLGFTPPPPSS-PEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQNG 309 (348)
T ss_dssp CHTTEEEEEESTTTS-HHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTH
T ss_pred cccceeeeeeecccc-cchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCccccccH
Confidence 778999998766654 67999999998753321111123457789999999999999999998642 2367
Q ss_pred HHHHHHHHcCcccceeeeEEEeC-CCCCCCCcEEEEEee
Q 006683 354 EMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVV 391 (635)
Q Consensus 354 ~~l~~~l~~~~f~g~~G~v~F~~-~g~~~~~~~~i~~~~ 391 (635)
..+.++|++++|+|++|++.|++ +|++.+..|+|++++
T Consensus 310 ~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 310 SQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 89999999999999999999999 899988999999874
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=3.9e-36 Score=303.83 Aligned_cols=303 Identities=19% Similarity=0.279 Sum_probs=260.4
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+++ ..|.....|+++|+++||+.++ |++|+++++|++++|..+++++++|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~ 80 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVT 80 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhh
Confidence 6999999994 4678899999999999999884 8999999999999999999999999977899999999999999
Q ss_pred HHH-HHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHH
Q 006683 111 AVV-AEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 111 ~~v-~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
.++ ++++.+.++|+|+++++ ++.+++ ..++|+||+.|++..++.++++++++++|+++++|+.+++|| +...+.
T Consensus 81 ~a~~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g--~~~~~~ 156 (312)
T cd06346 81 IAALTSVAVPNGVVMISPSST--SPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYG--VGLADA 156 (312)
T ss_pred HhhhhhhhccCCcEEEecCCC--CccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchh--hHHHHH
Confidence 999 89999999999999988 888887 467999999999999999999999999999999999999999 999999
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
+++.+++.| ++|+....++... .|++++++++++.++|+|++ .+...+...++++++++|+.. .|++++
T Consensus 157 ~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~---~~~~~~ 225 (312)
T cd06346 157 FTKAFEALG-GTVTNVVAHEEGK------SSYSSEVAAAAAGGPDALVV-IGYPETGSGILRSAYEQGLFD---KFLLTD 225 (312)
T ss_pred HHHHHHHcC-CEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCCCC---ceEeec
Confidence 999999999 9999988888775 67999999999999999999 888999999999999999954 566665
Q ss_pred chhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
...... ..........+|+++..+..+ . +..++|.++|+++|. ..|+.++..+||+++++++|
T Consensus 226 ~~~~~~-~~~~~~~~~~~g~~~~~~~~~-~-~~~~~f~~~~~~~~g--------~~p~~~~~~~Yd~~~~l~~A------ 288 (312)
T cd06346 226 GMKSDS-FLPADGGYILAGSYGTSPGAG-G-PGLEAFTSAYKAAYG--------ESPSAFADQSYDAAALLALA------ 288 (312)
T ss_pred cccChH-HHHhhhHHHhCCcEEccCCCC-c-hhHHHHHHHHHHHhC--------CCCCccchhhHHHHHHHHHH------
Confidence 432211 111111235678776654332 2 678999999999984 34778889999999999988
Q ss_pred cCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEE
Q 006683 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI 387 (635)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i 387 (635)
|.|++|+++|+++|++. ..|+.
T Consensus 289 ----------------~~g~~g~~~f~~~g~~~-~~~~~ 310 (312)
T cd06346 289 ----------------YQGASGVVDFDENGDVA-GSYDE 310 (312)
T ss_pred ----------------hCCCccceeeCCCCCcc-cceee
Confidence 89999999999999876 35543
No 40
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=1.6e-35 Score=301.77 Aligned_cols=319 Identities=19% Similarity=0.304 Sum_probs=260.2
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCC---CeEEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSR---NHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~---g~~l~~~~~D~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
+||+|+|.++ .....|+++|+++||+.++ +.++++.+.|+ ++++..+...+|+|+. ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~ 76 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSSSSSAN 76 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCCHHHHH
Confidence 5999999987 6788999999999999973 45888888987 5999999999999995 8999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
+++++++.++||+|+++++ ++.++. ++.+++.|+...++.++++++++++|+++++|++++.++ . ..+.+.+
T Consensus 77 av~~i~~~~~ip~is~~~~--~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~--~-~l~~~~~ 148 (324)
T cd06368 77 TVQSICDALEIPHITTSWS--PNPKPR---QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL--L-RLQELLD 148 (324)
T ss_pred HHHHHHhccCCCcEEecCC--cCCCCC---cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH--H-HHHHHHH
Confidence 9999999999999999988 777652 344555688778999999999999999999999887654 4 4566667
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
.+++.| ++++..... ... .|++++++++++.++|+|++ .+...++..+++++.++|+.++.|+||+++...
T Consensus 149 ~~~~~g-~~v~~~~~~-~~~------~d~~~~l~~i~~~~~d~Vi~-~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~ 219 (324)
T cd06368 149 ALSPKG-IQVTVRRLD-DDT------DMYRPLLKEIKREKERRIIL-DCSPERLKEFLEQAVEVGMMSEYYHYILTNLDF 219 (324)
T ss_pred hhccCC-ceEEEEEec-CCc------hHHHHHHHHHhhccCceEEE-ECCHHHHHHHHHHHHHhccccCCcEEEEccCCc
Confidence 788888 898876533 332 47999999999999999999 999999999999999999998889999887644
Q ss_pred hhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcccCC
Q 006683 272 NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (635)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~ 351 (635)
..... ........++.++....+. +|..++|.++|+++|...++......|..+++.+||+|+++
T Consensus 220 ~~~~~--~~~~~~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------ 284 (324)
T cd06368 220 HTLDL--ELFRYGGVNITGFRLVDPD-NPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------ 284 (324)
T ss_pred cccch--hhhhcCCceEEEEEEecCC-ChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe------------
Confidence 32111 1111122334555444433 47799999999998865333222236788999999999987
Q ss_pred ChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCC
Q 006683 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (635)
Q Consensus 352 ~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~ 407 (635)
+|+++||++|+|.+..++|+++.+.+++++|.|++..++
T Consensus 285 -----------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 999999999999999999999999999999999986553
No 41
>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=4.4e-35 Score=300.42 Aligned_cols=337 Identities=15% Similarity=0.176 Sum_probs=277.1
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||++.|+|+ ..|.....|+++|+++||+.+| |++|+++++|++++|..+++.+.+|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~ 80 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASR 80 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhH
Confidence 6999999994 5688999999999999999984 7999999999999999999999999977899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH-CCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~-~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
.++.+++...++|+|++... .. ...+||+||+.+.+..++..+++++.. .+++++++++.+++|| +...+.+
T Consensus 81 ~a~~~~~~~~~~~~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g--~~~~~~~ 153 (348)
T cd06355 81 KAVLPVFERHNGLLFYPVQY--EG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYP--RTANKIL 153 (348)
T ss_pred HHHHHHHhccCCceecCCCc--cC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHH--HHHHHHH
Confidence 99999999999999976533 21 235689999999999999999998864 5799999999999999 9999999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++... .|+++++.++++.++|+|++ ...+.++..+++++++.|+.+....++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~ 225 (348)
T cd06355 154 KAQLESLG-GEVVGEEYLPLGH------TDFQSIINKIKAAKPDVVVS-TVNGDSNVAFFKQLKAAGITASKVPVLSFSV 225 (348)
T ss_pred HHHHHHcC-CeEEeeEEecCCh------hhHHHHHHHHHHhCCCEEEE-eccCCchHHHHHHHHHcCCCccCCeeEEccc
Confidence 99999999 9999988888766 78999999999999999999 8889999999999999999765445555432
Q ss_pred hhhhhcccChhhhhhccceEEEEee-cCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSY-YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
......... .....|++....+ .....|..++|.++|+++|... ..++.++..+||+++++++|++++++
T Consensus 226 ~~~~~~~~g---~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~------~~~~~~a~~~Y~a~~~~~~Al~~ag~ 296 (348)
T cd06355 226 AEEELRGIG---PENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQD------RVTNDPMEAAYIGVYLWKQAVEKAGS 296 (348)
T ss_pred cHHHHhhcC---hHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHhCC
Confidence 222221111 1345676554332 2223577889999999888521 12455678899999999999999987
Q ss_pred cCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-CCceEEE
Q 006683 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (635)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-~~~~~~v 398 (635)
.+++.|.++|++.+|++..|.++|+++++.....+.+.+++ +++++.|
T Consensus 297 --~~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 297 --FDVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred --CCHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 78999999999999999999999998554444667788885 5666554
No 42
>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=9.5e-35 Score=298.40 Aligned_cols=325 Identities=18% Similarity=0.313 Sum_probs=267.7
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+|+ ..|.....|+++|++++|+.++ |++|+++++|++++|..+.+++++|+.+++|.+|+||.++..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~ 80 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQA 80 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHH
Confidence 6999999994 5689999999999999999884 7999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHH-HHHHHC-CCeEEEEEEEcCC-CCCCcchHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA-DLARKY-NWRRVAAIYEDNV-YGGDSGKLA 187 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~-~~l~~~-~w~~vaii~~~~~-~g~~~~~~~ 187 (635)
..+.++++..+||+|+++++ ++.+. ..+||+||+.+++..+...++ .+++++ +|+++++||.+++ || +...+
T Consensus 81 ~a~~~~~~~~~ip~i~~~~~--~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g--~~~~~ 155 (344)
T cd06348 81 FAADPIAERAGVPVVGPSNT--AKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFS--VSETE 155 (344)
T ss_pred HhhhHHHHhCCCCEEeccCC--CCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHH--HHHHH
Confidence 99999999999999999877 56553 356899999888766555444 556777 9999999997655 99 99999
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
.+++.+++.| ++++....++... .|+..++.+++++++|+|++ .+...++..+++++++.|+.. .++.+
T Consensus 156 ~~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~i~~~~~d~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~ 224 (344)
T cd06348 156 IFQKALRDQG-LNLVTVQTFQTGD------TDFQAQITAVLNSKPDLIVI-SALAADGGNLVRQLRELGYNG---LIVGG 224 (344)
T ss_pred HHHHHHHHcC-CEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCC---ceecc
Confidence 9999999999 9999888887755 67999999999999999999 999999999999999999976 35544
Q ss_pred CchhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
..+... ... ....+..+|++....+.+. ..+..++|.+.|+++|. ..|+.++..+||+++++++|++++
T Consensus 225 ~~~~~~-~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~yda~~~~~~A~~~a 294 (344)
T cd06348 225 NGFNTP-NVF-PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--------KAPPQFSAQAFDAVQVVAEALKRL 294 (344)
T ss_pred ccccCH-HHH-HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--------CCccHHHHHHHHHHHHHHHHHHHh
Confidence 432211 111 1122456787776655433 34678899999988874 346677889999999999999999
Q ss_pred ccc-CCC-------hHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEE
Q 006683 347 NYN-ISS-------PEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLR 386 (635)
Q Consensus 347 ~~~-~~~-------~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~ 386 (635)
+.+ ..+ +..|.++|++.+|+|++|++.|+++|++.+..|.
T Consensus 295 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 295 NQKQKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred cCCCccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 763 112 5789999999999999999999999998765554
No 43
>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=2.1e-34 Score=293.61 Aligned_cols=337 Identities=15% Similarity=0.179 Sum_probs=247.2
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
+||+|++.++.. ....-++.+|++++|.+++ +..+.++.+|+.+||..++.++|+|+++ +|.|||||.++..+.++
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~-gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecCChhHHHHH
Confidence 589999997532 3334455555666777662 4667888899999999999999999955 99999999999999999
Q ss_pred HHhhccCCccEEeecCCCCCC------CCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchH
Q 006683 114 AEIASRVQVPILSFAAPAVTP------LSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~------~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~ 186 (635)
+++|...+||+|++.+...++ .+.+ ...+|.|++.|++ .+..++++++++++|++|+++|+++++ ....
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~g---~~~l 154 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDYD---IRGL 154 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCch---HHHH
Confidence 999999999999976430011 1111 2335777777884 688999999999999999999998874 4445
Q ss_pred HHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhh-------hcCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-------DKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 187 ~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~-------~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+.+.+.+++.| +.+.... ...+. ...++...+.++ ..+.++||+ .|+++.+..++++|.++||+.
T Consensus 155 ~~~~~~~~~~g-~~v~~~~-~~~~~-----~~~~~~l~~~~~~~~l~~~~~~~~~vIl-~~~~~~~~~~l~~a~~~gm~~ 226 (363)
T cd06381 155 QEFLDQLSRQG-IDVLLQK-VDLNI-----SKMATALFTTMRCEELNRYRDTLRRALL-LLSPNGAYTFIDASVETNLAI 226 (363)
T ss_pred HHHHHHHHhcC-ceEEEEe-ccccc-----chhhhhhhhHHHHHHHHhhcccceEEEE-EcCcHHHHHHHHHHHHcCCCc
Confidence 77778888888 7665432 22111 122333333332 335557788 999999999999999999998
Q ss_pred CCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHH----HHHHhhccCCCCCCCCCCcchhhhHhhH
Q 006683 260 KDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSA----LFRRNFTSEYPEEDHFHPSIHALRAHDS 335 (635)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~----~~~~~~~~~~~~~~~~~~~~~~~~~yDa 335 (635)
.+|+|++++.+....... ........|+++|....+... ..++|++ .|.+.+... +. ..+.+...++++|||
T Consensus 227 ~~~~wi~~~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~~-~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~al~yDa 302 (363)
T cd06381 227 KDSHWFLINEEISDTEID-ELVRYAHGRMTVIRQTFSKEK-TNQRCLRNNHRISSLLCDPK-DG-YLQMLEISNLYIYDS 302 (363)
T ss_pred CceEEEEeccccccchhh-HHHhhcCccEEEEEEecCCcC-chHHHHHHHHHHHHhhcCCC-CC-CCCChhHHHHHHHHH
Confidence 899999887776422111 123356688999998765553 3564444 443322111 11 123566779999999
Q ss_pred HHHHHHHHHhhcccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCc-----eEEEEeecCCCCC
Q 006683 336 IKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK-----YKELDFWLPNFGF 407 (635)
Q Consensus 336 v~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~-----~~~vG~w~~~~~~ 407 (635)
|+++ .++|++++|+|+||+|.||++|.|.+..++|+++.-.+ .+.+|+|++..++
T Consensus 303 V~~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 303 VLLL-----------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred HHHH-----------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCccccceEEeeeccCCCCC
Confidence 9998 77889999999999999999999999999999997444 7889999887654
No 44
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.6e-35 Score=302.30 Aligned_cols=322 Identities=20% Similarity=0.278 Sum_probs=272.5
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC-----CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS-----RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~-----~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (635)
|||+++|+++ ..|.....|+++|++++|..+ +|++|+++++|++++|..+.+++++++.+++|.+|+|+.+|
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 6999999994 568899999999999999987 47999999999999999999999999976799999999999
Q ss_pred hhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC------CCeEEEEEEEcCCCCC
Q 006683 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGG 181 (635)
Q Consensus 108 ~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~------~w~~vaii~~~~~~g~ 181 (635)
..+.+++++++..++|+|++.++ ++.++...+||+||+.|++..++.++++++.++ +|+++++|+.+++||
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g- 157 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAV--SDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFG- 157 (347)
T ss_pred HhHHHHHHHHHHhCCCEEecccc--chHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHh-
Confidence 99999999999999999999888 777877778999999999999999999999876 458999999999999
Q ss_pred CcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCC
Q 006683 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (635)
Q Consensus 182 ~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (635)
+...+.+++.+++.| ++|+..+.++... .|++.+++++++.++|+|++ .+...++..+++++++.|+..+
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~G~~~~- 227 (347)
T cd06340 158 -TSVAEAIKKFAKERG-FEIVEDISYPANA------RDLTSEVLKLKAANPDAILP-ASYTNDAILLVRTMKEQRVEPK- 227 (347)
T ss_pred -HHHHHHHHHHHHHcC-CEEEEeeccCCCC------cchHHHHHHHHhcCCCEEEE-cccchhHHHHHHHHHHcCCCCc-
Confidence 999999999999999 9999888887654 67999999999999999999 9999999999999999999764
Q ss_pred eEEEeeCchh-hhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHH
Q 006683 262 SVWIVTNTVA-NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIIT 340 (635)
Q Consensus 262 ~~~i~~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a 340 (635)
..+....... ..+. ....+..+|++...++.+...+..++|.++|+++|. ..++.++..+||++++++
T Consensus 228 ~~~~~~~~~~~~~~~---~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--------~~~~~~~~~~Y~a~~~l~ 296 (347)
T cd06340 228 AVYSVGGGAEDPSFV---KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--------VDLSGNSARAYTAVLVIA 296 (347)
T ss_pred EEEecCCCcCcHHHH---HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--------CCCChHHHHHHHHHHHHH
Confidence 2222222111 1111 112245678887766655545778899999999884 246778899999999999
Q ss_pred HHHHhhcccCCChHHHH--HHHHcCccc---ceeeeEEEeCCCCCCCC
Q 006683 341 EAIGRLNYNISSPEMLL--RQMLSSDFS---GLSGKIRFKDGELLNAD 383 (635)
Q Consensus 341 ~Al~~~~~~~~~~~~l~--~~l~~~~f~---g~~G~v~F~~~g~~~~~ 383 (635)
+|++++++ .+++.+. .+|++..+. +..|+++||++|+..+.
T Consensus 297 ~A~~~ag~--~~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 297 DALERAGS--ADPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHHHHhcC--CCHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 99999987 7899999 488887765 46789999999997644
No 45
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.3e-34 Score=297.72 Aligned_cols=343 Identities=15% Similarity=0.214 Sum_probs=283.2
Q ss_pred CCCeEEEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCC
Q 006683 31 IEEVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGME 105 (635)
Q Consensus 31 ~~~~i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~ 105 (635)
++++|+||+++|+++ ..|.....++++|++++|+.++ |++|+++++|+++++..+.+.+.+|+.+++|.+|+|+.
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 357899999999994 5688999999999999999874 79999999999999999999999999778999999999
Q ss_pred ChhhHHHHHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCc
Q 006683 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDS 183 (635)
Q Consensus 106 ~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~ 183 (635)
+|..+..+.++++..+||+|++.++ ++.+++. .+||+||+.|++..++.++++++ ++++|+++++|+.+++|| +
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g--~ 158 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASG--ASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFG--K 158 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccc--cHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHH--H
Confidence 9999999999999999999998877 6777764 78999999999999999999976 578999999999999999 9
Q ss_pred chHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeE
Q 006683 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (635)
Q Consensus 184 ~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (635)
...+.+++.+++.| ++++....++... +|++++++++++.++|+|++ .+...+...++++++++|+...
T Consensus 159 ~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~--- 227 (362)
T cd06343 159 DYLKGLKDGLGDAG-LEIVAETSYEVTE------PDFDSQVAKLKAAGADVVVL-ATTPKFAAQAIRKAAELGWKPT--- 227 (362)
T ss_pred HHHHHHHHHHHHcC-CeEEEEeeecCCC------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHHcCCCce---
Confidence 99999999999999 9999888888765 68999999999999999999 9999999999999999999863
Q ss_pred EEeeCchhhhhcccChhhhhhccceEEEEeecC------CCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHH
Q 006683 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYS------DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIK 337 (635)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~ 337 (635)
++.+..+...............+|++....+.. ...|..++|.+.|++++... ..++.++..+||+++
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y~a~~ 301 (362)
T cd06343 228 FLLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEG------DPPDTYAVYGYAAAE 301 (362)
T ss_pred EEEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCC------CCCchhhhHHHHHHH
Confidence 454443321110011111245677776654432 23467888888888877421 136778899999999
Q ss_pred HHHHHHHhhcccCCChHHHHHHHHcCcc---cc-eeeeEEEeCCCCCCCCcEEEEEeeCCce
Q 006683 338 IITEAIGRLNYNISSPEMLLRQMLSSDF---SG-LSGKIRFKDGELLNADTLRIVNVVGKKY 395 (635)
Q Consensus 338 ~~a~Al~~~~~~~~~~~~l~~~l~~~~f---~g-~~G~v~F~~~g~~~~~~~~i~~~~~~~~ 395 (635)
++++|+++++. ..+++.|+++|+++++ .+ ..|+++|+.++++....+.|.++++++|
T Consensus 302 ~~~~a~~~ag~-~~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 302 TLVKVLKQAGD-DLTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred HHHHHHHHhCC-CCCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 99999999975 2689999999999886 33 3459999876655557888888887653
No 46
>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=2.2e-34 Score=295.65 Aligned_cols=341 Identities=12% Similarity=0.130 Sum_probs=274.4
Q ss_pred EEEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 35 i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
||||++.|+| +..|.....|+++|++++|..+| |++|+++++|++++|..++.++.+|+.+++|.+|+|+.+|..
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~ 80 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSAT 80 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHH
Confidence 7999999999 45688999999999999999884 799999999999999999999999997789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
+.++.+++.+.++|+|..... .. ....+|+||+.|++..++.++++++.....+++++|+.+++|| +...+.+
T Consensus 81 ~~A~~~~~~~~~~~~i~~~~~--~~---~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g--~~~~~~~ 153 (374)
T TIGR03669 81 REAIRPIIDRNEQLYFYTNQY--EG---GVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFG--QLSADWV 153 (374)
T ss_pred HHHHHHHHHhcCceEEcCccc--cc---ccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHH--HHHHHHH
Confidence 999999999999999964322 11 2346899999999999999999998654347899999999999 9989999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++.+. .|+++++.++++.++|+|++ .....+...+++++.++|+..+ ++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~g~------~Df~~~l~~i~~~~pD~V~~-~~~g~~~~~~~kq~~~~G~~~~---~~~~~~ 222 (374)
T TIGR03669 154 RVIAKENG-AEVVGEEFIPLSV------SQFSSTIQNIQKADPDFVMS-MLVGANHASFYEQAASANLNLP---MGTSTA 222 (374)
T ss_pred HHHHHHcC-CeEEeEEecCCCc------chHHHHHHHHHHcCCCEEEE-cCcCCcHHHHHHHHHHcCCCCc---ccchhh
Confidence 99999999 9999888888766 78999999999999999999 8888889999999999999653 222211
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
.......... ......|++....+... ..|..++|.++|+++|... ..++.++..+||+++++++|++++++
T Consensus 223 ~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~------p~~~~~a~~~Yda~~~l~~Ai~~AGs 295 (374)
T TIGR03669 223 MAQGYEHKRF-EPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDA------PYINQEAENNYFSVYMYKQAVEEAGT 295 (374)
T ss_pred hhhhhhhhhc-CchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCC------CCCChHHHHHHHHHHHHHHHHHHhCC
Confidence 1110000000 11234566555444333 3577899999999988421 12356688899999999999999998
Q ss_pred cCCChHHHHHHHHc-CcccceeeeEEEeCCCCCCCCcEEEEEeeC-CceEEEEeec
Q 006683 349 NISSPEMLLRQMLS-SDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWL 402 (635)
Q Consensus 349 ~~~~~~~l~~~l~~-~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~-~~~~~vG~w~ 402 (635)
.+++.|+++|++ .+|+|+.|+++|+++++.....+.|.+++. +.+..+..|+
T Consensus 296 --~d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 296 --TDQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred --CCHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 799999999997 679999999999987665546677777754 5555555565
No 47
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=2.3e-34 Score=295.81 Aligned_cols=337 Identities=23% Similarity=0.300 Sum_probs=279.8
Q ss_pred CCeEEEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 32 EEVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 32 ~~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
.++|+||++.|+| +..|.....|+++|+++||..+| |.+|+++++|+++||..+.+.+.+|+.+++|.+|+|+.+
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~ 87 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPTT 87 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEecc
Confidence 3579999999999 46799999999999999999995 677999999999999999999999998899999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHH-CCCeEEEEEEEcCCCCCCcc
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSG 184 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~-~~w~~vaii~~~~~~g~~~~ 184 (635)
|.++.++.+++++.++|+|+++++ ++.+... ..+++||+.|++..++.++++++.. .+.+++++|+.++.|| ++
T Consensus 88 S~~~~a~~~v~~~~~i~~i~p~st--~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg--~~ 163 (366)
T COG0683 88 SGVALAASPVAEEAGVPLISPSAT--APQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYG--EG 163 (366)
T ss_pred CcccccchhhHhhcCceEEeecCC--CCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcc--hh
Confidence 999999999999999999999999 7877764 3356999999999999999999864 5556999999999999 99
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEE
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (635)
+.+.+++.+++.| .+++..+.+.+.. .++..++.++++.++|+|++ .+...+...+++++.++|+.... .+
T Consensus 164 ~~~~~~~~l~~~G-~~~~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~r~~~~~G~~~~~-~~ 234 (366)
T COG0683 164 LADAFKAALKALG-GEVVVEEVYAPGD------TDFSALVAKIKAAGPDAVLV-GGYGPDAALFLRQAREQGLKAKL-IG 234 (366)
T ss_pred HHHHHHHHHHhCC-CeEEEEEeeCCCC------CChHHHHHHHHhcCCCEEEE-CCCCccchHHHHHHHHcCCCCcc-cc
Confidence 9999999999999 8866556666655 45999999999999999999 99999999999999999998752 22
Q ss_pred EeeCchhhhhcccChhhhhhcc--ceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHH
Q 006683 265 IVTNTVANALDSLNTTVISSME--GTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (635)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~--g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~A 342 (635)
+............. .... +.+....+.+...|..+.|+++|++++.. ...++.++..+||+++++++|
T Consensus 235 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~------~~~~~~~~~~~y~a~~~~~~a 304 (366)
T COG0683 235 GDGAGTAEFEEIAG----AGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGD------PAAPSYFAAAAYDAVKLLAKA 304 (366)
T ss_pred ccccCchhhhhhcc----cCccccEEEEecccccccCcchHHHHHHHHHHhCC------CCCcccchHHHHHHHHHHHHH
Confidence 22211111111111 1122 33333344444556788899999999851 135667899999999999999
Q ss_pred HHhhcccCCChHHHHHHHHcCc-ccceeeeEEEeCCCCCCCCcEEEEEeeC
Q 006683 343 IGRLNYNISSPEMLLRQMLSSD-FSGLSGKIRFKDGELLNADTLRIVNVVG 392 (635)
Q Consensus 343 l~~~~~~~~~~~~l~~~l~~~~-f~g~~G~v~F~~~g~~~~~~~~i~~~~~ 392 (635)
+++++. ..+++.+.++|+... +++.+|.+.|++++++....+.|.+++.
T Consensus 305 i~~a~~-~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~ 354 (366)
T COG0683 305 IEKAGK-SSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQK 354 (366)
T ss_pred HHHHhc-CCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEe
Confidence 999983 267899999999876 6889999999999999889999999874
No 48
>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=7.7e-34 Score=292.28 Aligned_cols=336 Identities=14% Similarity=0.164 Sum_probs=270.7
Q ss_pred EEEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 35 TKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 35 i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
|+||++.|+|+ ..|.....|+++|++++|+.+| |++|+++++|++++|..+++++++|+.+++|.+|+|+.+|..
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~ 80 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSAS 80 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHH
Confidence 69999999994 5678889999999999999984 799999999999999999999999997789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH-CCCeEEEEEEEcCCCCCCcchHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~-~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
+.++.+++...++|++++... . .....|++||+.+++..++..+++++.. .+.+++++++.+++|| +...+.
T Consensus 81 ~~a~~~~~~~~~~~~i~~~~~--~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g--~~~~~~ 153 (359)
T TIGR03407 81 RKAVLPVFEENNGLLFYPVQY--E---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFP--RTANKI 153 (359)
T ss_pred HHHHHHHHhccCCceEeCCcc--c---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHH--HHHHHH
Confidence 999999999999999976433 1 1235689999999999999999998865 5999999999999999 888889
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
+++.+++.| ++++....++... .|++++++++++.++|+|++ .........+++++++.|+......++.+.
T Consensus 154 ~~~~~~~~G-~~vv~~~~~~~~~------~D~s~~v~~l~~~~pDav~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~ 225 (359)
T TIGR03407 154 IKAYLKSLG-GTVVGEDYTPLGH------TDFQTIINKIKAFKPDVVFN-TLNGDSNVAFFKQLKNAGITAKDVPVVSFS 225 (359)
T ss_pred HHHHHHHcC-CEEEeeEEecCCh------HhHHHHHHHHHHhCCCEEEE-eccCCCHHHHHHHHHHcCCCccCCcEEEee
Confidence 999999999 9999888887766 78999999999999999998 777778889999999999976544444443
Q ss_pred chhhhhcccChhhhhhccceEEEEe-ecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 006683 269 TVANALDSLNTTVISSMEGTLGIKS-YYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (635)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (635)
.......... .+..+|++.... ......|..++|.++|++.|... ..+..++..+||+++++++|+++++
T Consensus 226 ~~~~~~~~~g---~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y~a~~~~~~A~~~ag 296 (359)
T TIGR03407 226 VAEEEIRGIG---PENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDD------RVTNDPMEAAYLGVYLWKAAVEKAG 296 (359)
T ss_pred cCHHHHhhcC---hHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHhC
Confidence 2222221111 134577654322 22233467889999998887421 1234456679999999999999998
Q ss_pred ccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-CCceE
Q 006683 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYK 396 (635)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-~~~~~ 396 (635)
+ .+++.+.++|++++|+++.|+++|+++++.....+.+.+++ +++++
T Consensus 297 ~--~~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~~~g~~~ 344 (359)
T TIGR03407 297 S--FDVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIRADGQFD 344 (359)
T ss_pred C--CCHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEccCCCEE
Confidence 7 68999999999999999999999997444333455566664 44443
No 49
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=100.00 E-value=4.4e-34 Score=294.30 Aligned_cols=306 Identities=26% Similarity=0.430 Sum_probs=256.6
Q ss_pred EEEEEeeCCC-------------cCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhc----
Q 006683 36 KIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK---- 95 (635)
Q Consensus 36 ~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~---- 95 (635)
+||+++|++. ..|.....++.+|++++|+++ +|++|+++++|++++|..+++.+++++.+
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 4788999884 335677789999999999985 58999999999999999999999999976
Q ss_pred ---------CCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHC
Q 006683 96 ---------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKY 165 (635)
Q Consensus 96 ---------~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~ 165 (635)
+++.+||||.+|..+.+++++++.+++|+|+++++ ++.+++ ..|||+||+.|++..++.+++++++++
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~--~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~ 158 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGAT--SPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHF 158 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCC--ChhhccccccCCeeEecCCcHHHHHHHHHHHHHC
Confidence 79999999999999999999999999999999999 888866 578999999999999999999999999
Q ss_pred CCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHH
Q 006683 166 NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (635)
Q Consensus 166 ~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (635)
+|++|++|+.+++|| ....+.+++.+++.| ++++..+.++... ...|+..++++++++++|+|++ .+...++
T Consensus 159 ~~~~v~~l~~~~~~g--~~~~~~~~~~~~~~g-i~v~~~~~~~~~~----~~~d~~~~l~~l~~~~~~vvv~-~~~~~~~ 230 (348)
T cd06350 159 GWTWVGLVYSDDDYG--RSGLSDLEEELEKNG-ICIAFVEAIPPSS----TEEDIKRILKKLKSSTARVIVV-FGDEDDA 230 (348)
T ss_pred CCeEEEEEEecchhH--HHHHHHHHHHHHHCC-CcEEEEEEccCCC----cHHHHHHHHHHHHhCCCcEEEE-EeCcHHH
Confidence 999999999999999 999999999999999 9999988887652 1268999999999999999999 9999999
Q ss_pred HHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCC
Q 006683 246 IHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP 325 (635)
Q Consensus 246 ~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 325 (635)
..++++++++|+ ++. .|++++.+....... ....+..+|++++..+.+... ...+|.+.+++
T Consensus 231 ~~~~~~a~~~g~-~~~-~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~-~~~~f~~~~~~-------------- 292 (348)
T cd06350 231 LRLFCEAYKLGM-TGK-YWIISTDWDTSTCLL-LFTLDAFQGVLGFSGHAPRSG-EIPGFKDFLRK-------------- 292 (348)
T ss_pred HHHHHHHHHhCC-CCe-EEEEEccccCccccc-cCCcceeeeEEEEEEEeecCC-cCCChHHHHHH--------------
Confidence 999999999999 333 555665554321111 112246788888877665331 23344444433
Q ss_pred cchhhhHhhHHHHHHHHHHhhcccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC----CceEEEEee
Q 006683 326 SIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFW 401 (635)
Q Consensus 326 ~~~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~----~~~~~vG~w 401 (635)
+++++|||+++ .+.|+++|++. ..+.|.+++. ..+++||.|
T Consensus 293 --~~~~~YDav~~--------------------------------~v~f~~~gd~~-~~~~i~~~~~~~~~~~~~~vg~~ 337 (348)
T cd06350 293 --YAYNVYDAVYA--------------------------------EVKFDENGDRL-ASYDIINWQIFPGGGGFVKVGFW 337 (348)
T ss_pred --HHHHHHhheeE--------------------------------EEEecCCCCcc-cceeEEEEEEcCCcEEEEEEEEE
Confidence 56889999998 89999999996 7899999976 789999999
Q ss_pred cCC
Q 006683 402 LPN 404 (635)
Q Consensus 402 ~~~ 404 (635)
++.
T Consensus 338 ~~~ 340 (348)
T cd06350 338 DPQ 340 (348)
T ss_pred cCC
Confidence 874
No 50
>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=2.1e-33 Score=287.65 Aligned_cols=318 Identities=22% Similarity=0.317 Sum_probs=268.7
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+++ ..|.....|+++|++++|+++ .|++|+++++|++++|..+++.+++++.+++|.+||||.++..+
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~ 80 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGAT 80 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHhH
Confidence 6999999994 567889999999999999987 47999999999999999999999999966699999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcC-CCCCCcchHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDN-VYGGDSGKLAL 188 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~-~~g~~~~~~~~ 188 (635)
..++++++..+||+|++.++ .+.+++.. +++||+.|++..++.++++++ ++++|++|++|+.++ +|+ ....+.
T Consensus 81 ~~v~~~~~~~~ip~i~~~~~--~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~--~~~~~~ 155 (334)
T cd06347 81 LAAGPIAEDAKVPMITPSAT--NPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYS--KGLAKA 155 (334)
T ss_pred HHhHHHHHHCCCeEEcCCCC--CCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchh--HHHHHH
Confidence 99999999999999999887 66666543 589999999999999999997 677999999999886 788 888899
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
+++.+++.| ++++....++... .++.+.++++++.++++|++ .+...+...+++++.+.|+.. .|+.++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~~~~~~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~---~i~~~~ 224 (334)
T cd06347 156 FKEAFKKLG-GEIVAEETFNAGD------TDFSAQLTKIKAKNPDVIFL-PGYYTEVGLIAKQARELGIKV---PILGGD 224 (334)
T ss_pred HHHHHHHcC-CEEEEEEEecCCC------CcHHHHHHHHHhcCCCEEEE-cCchhhHHHHHHHHHHcCCCC---cEEecc
Confidence 999999999 9999887777654 57999999999999999999 999999999999999999853 677766
Q ss_pred chhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 006683 269 TVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (635)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (635)
.|..... . .......+|+....++.+. ..|..++|.+.|++++. ..++.++..+||+++++++|+++++
T Consensus 225 ~~~~~~~-~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~Al~~ag 294 (334)
T cd06347 225 GWDSPKL-E-EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--------KEPDAFAALGYDAYYLLADAIERAG 294 (334)
T ss_pred cccCHHH-H-HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhHHHHHHHHHHHHHHHHHhC
Confidence 6543211 1 1122456787776655443 24678899999988773 3466788999999999999999998
Q ss_pred ccCCChHHHHHHHHcC-cccceeeeEEEeCCCCCC
Q 006683 348 YNISSPEMLLRQMLSS-DFSGLSGKIRFKDGELLN 381 (635)
Q Consensus 348 ~~~~~~~~l~~~l~~~-~f~g~~G~v~F~~~g~~~ 381 (635)
. .++..+.+.|++. +|+|++|+++|+++|+..
T Consensus 295 ~--~~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~ 327 (334)
T cd06347 295 S--TDPEAIRDALAKTKDFDGVTGKITIDENGNPV 327 (334)
T ss_pred C--CCHHHHHHHHHhCCCcccceeeeEECCCCCcC
Confidence 7 5899999998864 799999999999988875
No 51
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=6.4e-34 Score=290.48 Aligned_cols=318 Identities=16% Similarity=0.189 Sum_probs=264.7
Q ss_pred EEEEEeeCC--CcCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
+||++.|+| +..|.....|+++|+++||..+ +|++|+++++|++++|..+++.+.+|+.+++|.+|+|+.+|..+.
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~ 80 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATL 80 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHH
Confidence 589999999 4568889999999999999887 489999999999999999999999999778999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCC-CeEEEEEEEcCC-CCCCcchHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNV-YGGDSGKLALL 189 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~-w~~vaii~~~~~-~g~~~~~~~~~ 189 (635)
+++++++..++|+|++.++ ++.++ ..+||+||+.|++..++.++++++++.+ |+++++|+.++. || +.+.+.+
T Consensus 81 a~~~~~~~~~ip~i~~~a~--~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g--~~~~~~~ 155 (332)
T cd06344 81 AALDIYQKAKLVLISPTST--SVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYS--QSLKQEF 155 (332)
T ss_pred HHHHHHhhcCceEEccCcC--chhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHh--HHHHHHH
Confidence 9999999999999999877 67777 4679999999999999999999998876 999999999876 99 9999999
Q ss_pred HHHHhc-cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 190 AEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 190 ~~~l~~-~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
++.+++ .| .+++....++... .++.+++.++++.++++|++ .+.......+++++.+.+.. ..+++++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~---~~i~~~~ 224 (332)
T cd06344 156 TSALLERGG-GIVVTPCDLSSPD------FNANTAVSQAINNGATVLVL-FPDTDTLDKALEVAKANKGR---LTLLGGD 224 (332)
T ss_pred HHHHHHhcC-CeeeeeccCCCCC------CCHHHHHHHHHhcCCCEEEE-eCChhHHHHHHHHHHhcCCC---ceEEecc
Confidence 999999 58 8887654444322 46888999999999999999 88888889999998887752 2455544
Q ss_pred chhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
.+... .... ......+|+++..++.+. .+..++|.+.|+++|+ .+|+.++..+||+++++++|++++++
T Consensus 225 ~~~~~-~~~~-~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~--------~~~~~~a~~~Yda~~~l~~A~~~ag~ 293 (332)
T cd06344 225 SLYTP-DTLL-DGGKDLEGLVLAVPWHPL-ASPNSPFAKLAQQLWG--------GDVSWRTATAYDATKALIAALSQGPT 293 (332)
T ss_pred cccCH-HHHH-hchhhhcCeEEEEecccc-cccchHHHHHHHHHhc--------CCchHHHHhHHHHHHHHHHHHHhCCC
Confidence 43211 1111 112456788877776665 3568999999999884 35778899999999999999999986
Q ss_pred cCCChHHHH-HHHHcCcccceeeeEEEeCCCCCCC
Q 006683 349 NISSPEMLL-RQMLSSDFSGLSGKIRFKDGELLNA 382 (635)
Q Consensus 349 ~~~~~~~l~-~~l~~~~f~g~~G~v~F~~~g~~~~ 382 (635)
.++..+. ..+++..|+|..|+++||++|++..
T Consensus 294 --~~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 294 --REGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred --hhhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 5666666 6788888999999999999999863
No 52
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=1.1e-33 Score=288.89 Aligned_cols=320 Identities=18% Similarity=0.226 Sum_probs=267.5
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||+++|+++ ..|.....|+++|++++|+.+| |++|+++++|++++|..+.+++++|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASR 80 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHH
Confidence 6999999994 5688999999999999999984 7999999999999999999999999966799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
.++.++++..++|+|++... .. ....||+||+.|++..++.++++++...+|++|++|+.++.|| +...+.++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~~~~~ 153 (333)
T cd06331 81 KAVLPVVERGRGLLFYPTQY--EG---GECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWP--RESNRIAR 153 (333)
T ss_pred HHHHHHHHhcCceEEeCCCC--CC---CcCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhH--HHHHHHHH
Confidence 99999999999999987544 22 1245899999999999999999998666699999999999999 99999999
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.+++.| .+++....++... .|++++++++++.++|+|++ .+...+...+++++.+.|+......++.....
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~~~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 225 (333)
T cd06331 154 ALLEELG-GEVVGEEYLPLGT------SDFGSVIEKIKAAGPDVVLS-TLVGDSNVAFYRQFAAAGLDADRIPILSLTLD 225 (333)
T ss_pred HHHHHcC-CEEEEEEEecCCc------ccHHHHHHHHHHcCCCEEEE-ecCCCChHHHHHHHHHcCCCcCCCeeEEcccc
Confidence 9999999 9999888888765 78999999999999999999 99999999999999999997433333333222
Q ss_pred hhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccc
Q 006683 271 ANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (635)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 349 (635)
........ ....+|++...++.+. ..+..++|.++|++++... ..++.++..+||+++++++|++++++
T Consensus 226 ~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yda~~~~~~A~~~ag~- 295 (333)
T cd06331 226 ENELAAIG---AEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDD------AVINSPAEAAYEAVYLWAAAVEKAGS- 295 (333)
T ss_pred hhhhhccC---hhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCC------cCCCchhHHHHHHHHHHHHHHHHcCC-
Confidence 22222111 1345787776554332 3467888999998877421 13667889999999999999999987
Q ss_pred CCChHHHHHHHHcCcccceeeeEEEeCCCCCC
Q 006683 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (635)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~ 381 (635)
.+++.|+++|++++|+|++|.+.|++++++.
T Consensus 296 -~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 -TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred -CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 7899999999999999999999999887764
No 53
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=6.3e-34 Score=290.91 Aligned_cols=319 Identities=17% Similarity=0.199 Sum_probs=269.2
Q ss_pred EEEEEeeCCCcC----cHHHHHHHHHHHHhHhcCC-CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANSQM----GKQAITAMKIAVQNFNSDS-RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~~~----g~~~~~a~~~Av~~iN~~~-~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||+++|+++.. |.....|+++|++++| .+ .|++|+++++|++++|..+.+++.+|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN-ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~ 79 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG-GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVA 79 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc-CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHH
Confidence 689999999544 7889999999999999 33 57999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
.++.+++++.++|+|+++++ ++.++.. .+||+||+.|++..++.++++++...+++++++++.+++|| +...+.+
T Consensus 80 ~a~~~~~~~~~vp~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g--~~~~~~~ 155 (334)
T cd06327 80 LAVQEVAREKKKIYIVTGAG--SDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFG--HSLERDA 155 (334)
T ss_pred HHHHHHHHHhCceEEecCCC--ccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHh--HHHHHHH
Confidence 99999999999999999888 7788764 57999999999999999999998777899999999999999 9999999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++... +|+.++++++++.++|+|++ .+...+...+++++++.|+... ..++....
T Consensus 156 ~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~ 226 (334)
T cd06327 156 RKVVKANG-GKVVGSVRHPLGT------SDFSSYLLQAQASGADVLVL-ANAGADTVNAIKQAAEFGLTKG-QKLAGLLL 226 (334)
T ss_pred HHHHHhcC-CEEcCcccCCCCC------ccHHHHHHHHHhCCCCEEEE-eccchhHHHHHHHHHHhCCccC-CcEEEecc
Confidence 99999999 9999888777655 67999999999999999999 9999999999999999999733 23333332
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCCC-CchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSDD-SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
+....... ..+..+|++...++.... .+..++|.++|+++|. ..|+.++..+||+++++++|++++++
T Consensus 227 ~~~~~~~~---~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~Y~~~~~~~~A~~~ag~ 295 (334)
T cd06327 227 FLTDVHSL---GLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG--------KMPSMVQAGAYSAVLHYLKAVEAAGT 295 (334)
T ss_pred cHHHHHhh---chhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC--------cCCCcHHHHHHHHHHHHHHHHHHHCC
Confidence 22211111 123567877776654443 5778899999999884 34677889999999999999999988
Q ss_pred cCCChHHHHHHHHcCc-ccceeeeEEEeC-CCCCC
Q 006683 349 NISSPEMLLRQMLSSD-FSGLSGKIRFKD-GELLN 381 (635)
Q Consensus 349 ~~~~~~~l~~~l~~~~-f~g~~G~v~F~~-~g~~~ 381 (635)
.+++.+.++|++.+ +++..|+++|++ +|+..
T Consensus 296 --~~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 296 --DDADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred --CChHHHHHhccccceeccCCCCceeeccccchh
Confidence 78888999999974 578889999987 55543
No 54
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.4e-33 Score=285.55 Aligned_cols=330 Identities=17% Similarity=0.248 Sum_probs=272.7
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||++.|+|+ ..|.....|+++|++++|+++ +|++|+++++|+++++..+.+.+.+|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~ 80 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVS 80 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhH
Confidence 6999999994 568899999999999999988 48999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
.+++++++..++|+|++.++ .+.+++ ..+|+||+.|++..+..++++++ ++++|+++++++.+++|| +...+.+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~ 155 (340)
T cd06349 81 MAASPIYQRAGLVQLSPTNS--HPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWG--RTSADIF 155 (340)
T ss_pred HHhHHHHHhCCCeEEecCCC--CCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHh--HHHHHHH
Confidence 99999999999999999877 676655 35899999999999999999996 678999999999999999 9999999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++... .|++.++.+++++++|+|++ .+...+...+++++.+.|+.. .++....
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (340)
T cd06349 156 VKAAEKLG-GQVVAHEEYVPGE------KDFRPTITRLRDANPDAIIL-ISYYNDGAPIARQARAVGLDI---PVVASSS 224 (340)
T ss_pred HHHHHHcC-CEEEEEEEeCCCC------CcHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCCC---cEEccCC
Confidence 99999999 9999887777665 67999999999999999999 999999999999999999975 3444432
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
.... .... ......+|++....+.+. ..|..++|.++|+++|. ..|+.++..+||+++++++|+++++.
T Consensus 225 ~~~~-~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~~~~~~~~a~~~ag~ 294 (340)
T cd06349 225 VYSP-KFIE-LGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--------AQPDAFAAQAYDAVGILAAAVRRAGT 294 (340)
T ss_pred cCCH-HHHH-HhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhhhhHHHHHHHHHHHHHHhCC
Confidence 2111 1111 112356787776655443 35778899999988874 34677889999999999999999986
Q ss_pred cCCChHHHHHH-HHcCcccceeeeEEEeCC-CCCCCCcEEEEEeeCCc
Q 006683 349 NISSPEMLLRQ-MLSSDFSGLSGKIRFKDG-ELLNADTLRIVNVVGKK 394 (635)
Q Consensus 349 ~~~~~~~l~~~-l~~~~f~g~~G~v~F~~~-g~~~~~~~~i~~~~~~~ 394 (635)
.+...+.+. +.+..+.+..|.++|+++ ++.. ..+.++++++++
T Consensus 295 --~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~~g~ 339 (340)
T cd06349 295 --DRRAARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVRNGK 339 (340)
T ss_pred --CCHHHHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEeCCc
Confidence 444444333 244567899999999986 5554 588888887765
No 55
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=1.1e-33 Score=291.03 Aligned_cols=334 Identities=23% Similarity=0.377 Sum_probs=279.7
Q ss_pred eEEEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChh
Q 006683 34 VTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (635)
Q Consensus 34 ~i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~ 108 (635)
+|+||+++|+++ ..|.....|+++|++++|+++ .|++|+++++|+++++..+.+.+.+++++++|.+|+|+.++.
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~ 80 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSA 80 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcH
Confidence 599999999995 457789999999999999997 489999999999999999999999999779999999999999
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcchHH
Q 006683 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLA 187 (635)
Q Consensus 109 ~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~~~ 187 (635)
.+.++++.+...++|+|++.+. ++ ...++|+||+.|++..++.++++++ ++++.+++++|+.++++| +...+
T Consensus 81 ~~~~~~~~~~~~~ip~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g--~~~~~ 153 (343)
T PF13458_consen 81 QAEAVAPIAEEAGIPYISPSAS--SP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYG--RSLAE 153 (343)
T ss_dssp HHHHHHHHHHHHT-EEEESSGG--GG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHH--HHHHH
T ss_pred HHHHHHHHHHhcCcEEEEeecc--CC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhh--hHHHH
Confidence 9999999999999999997654 32 3567899999999999999999986 558999999999999999 99999
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
.+++.+++.| ++++....++.+. .|+.++++++++.++|+|++ .+.+.+...+++++.+.++..+.+....+
T Consensus 154 ~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~~~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (343)
T PF13458_consen 154 AFRKALEAAG-GKVVGEIRYPPGD------TDFSALVQQLKSAGPDVVVL-AGDPADAAAFLRQLRQLGLKPPRIPLFGT 225 (343)
T ss_dssp HHHHHHHHTT-CEEEEEEEE-TTS------SHHHHHHHHHHHTTTSEEEE-ESTHHHHHHHHHHHHHTTGCSCTEEEEEG
T ss_pred HHHHHHhhcC-ceeccceeccccc------ccchHHHHHHhhcCCCEEEE-eccchhHHHHHHHHHhhccccccceeecc
Confidence 9999999999 9998888888776 78999999999999999988 99999999999999999998754444443
Q ss_pred CchhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
..+...+.. ......+|++....+.++ ..|..++|.++|++.|..+ ..++.++..+||++.++++|++++
T Consensus 226 ~~~~~~l~~---~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yda~~~~~~al~~~ 296 (343)
T PF13458_consen 226 SLDDASLQQ---LGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEE------PPPSLYAAQGYDAARLLAQALERA 296 (343)
T ss_dssp GGSSHHHHH---HHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSST------GGTCHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCcHHHHH---hhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCC------CCCchhHHHHHHHHHHHHHHHHHh
Confidence 333322221 122457888888776553 3578899999999998532 137789999999999999999999
Q ss_pred cccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-CC
Q 006683 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GK 393 (635)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-~~ 393 (635)
+. .+++.+.++|++.+|+|+.|++.|+..++.....+.|++++ +|
T Consensus 297 g~--~~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 297 GS--LDREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp TS--HHHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred CC--CCHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 76 89999999999999999999999987666667889999998 54
No 56
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3.2e-33 Score=309.66 Aligned_cols=369 Identities=28% Similarity=0.518 Sum_probs=292.2
Q ss_pred HHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccC-hhhhhhccceEEEEeecCCCCch
Q 006683 223 ELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLN-TTVISSMEGTLGIKSYYSDDSSP 301 (635)
Q Consensus 223 ~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~ 301 (635)
...+++....+++++ .+.+.....++.++.++|+....|+|+.+.......+... ....+..+|.+....+.+.. ..
T Consensus 5 ~~~~~~~~~~~~~v~-~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s-~~ 82 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVL-HMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRS-EL 82 (656)
T ss_pred HHHHhhccCceEEEE-eCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCcc-HH
Confidence 334444457788888 8889999999999999999999999999987665444332 22334556666666555544 34
Q ss_pred hHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc------------cCCChHHHHHHHHcCccc---
Q 006683 302 YKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------------NISSPEMLLRQMLSSDFS--- 366 (635)
Q Consensus 302 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~------------~~~~~~~l~~~l~~~~f~--- 366 (635)
.+.|..++... +......+..+||++++++.|++.... .+.++..+.+.++.....
T Consensus 83 ~~~~~~~~~~~---------~~~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (656)
T KOG1052|consen 83 LQNFVTRWQTS---------NVELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLS 153 (656)
T ss_pred HHHHHHHHhhc---------cccccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhccc
Confidence 66666666543 124567789999999999999988762 134666777777765433
Q ss_pred ceeeeEEEeCCCCCCCCcEEEEEeeCCceEEEEeecCCCCCccccCCCccCCCCCcccccCCCcccccCCCCcCcCCCcc
Q 006683 367 GLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGW 446 (635)
Q Consensus 367 g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wp~~~~~~~P~~~ 446 (635)
|.+|.+.++.++.+....++++++.+.....||.|++..+ ..|.||+... ..|++|
T Consensus 154 ~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~~-~~~~~~ 209 (656)
T KOG1052|consen 154 GVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKDY-FVPKGW 209 (656)
T ss_pred cceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCcc-cCcCCc
Confidence 4567778887788888999999998888888999998643 2578999888 899999
Q ss_pred ccCCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCC-------CChhh
Q 006683 447 AMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHD-------GVYDD 519 (635)
Q Consensus 447 ~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~-------~~~~~ 519 (635)
..+..+++++|++...+| |....++. ....+ +..++|||+||++++++++||+++++.+++. |+|+|
T Consensus 210 ~~~~~~~~l~v~~~~~~P---~~~~~~~~-~~~~~--~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g 283 (656)
T KOG1052|consen 210 FFPTNGKPLRVGVVTEPP---FVDLVEDL-AILNG--NDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDG 283 (656)
T ss_pred cccCCCceEEEEEeccCC---ceeeeecc-cccCC--CCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhH
Confidence 888789999999998764 44444431 00111 4589999999999999999999999998862 58999
Q ss_pred HHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCCCC-cceeecCCCHhHHHHHHHHHHHHHHHhhhh
Q 006683 520 LINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES-TWMFTKPFTWEMWMVTAASFIYTMFIVWLL 598 (635)
Q Consensus 520 ~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~-~~~~l~pf~~~~W~~~~~~~~~~~~~~~~~ 598 (635)
++++|.+|++|++ ++++++++|++.+|||.||+..+++++++++.... .|.|++||++.||++++++++++++++|++
T Consensus 284 ~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~ 362 (656)
T KOG1052|consen 284 LVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWIL 362 (656)
T ss_pred HHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999 89999999999999999999999999999887764 699999999999999999999999999999
Q ss_pred hcccCCCCCCCc-----ccccchhhHhHHHHhhccCCCCCC
Q 006683 599 EHQSNPEFRGTL-----KDQISNILWFAFSTIFFSHSEYPL 634 (635)
Q Consensus 599 ~~~~~~~~~~~~-----~~~~~~~~w~~~~~~~~q~~~~~~ 634 (635)
+|..+.++ ... ..++.+|+|+++|++++||+...+
T Consensus 363 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p 402 (656)
T KOG1052|consen 363 ERLSPYEL-PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIP 402 (656)
T ss_pred hccccccC-CccccceeEeecccchhhhhHHHhccCCCccc
Confidence 99888877 222 224678999999999999976544
No 57
>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=1.4e-32 Score=283.02 Aligned_cols=340 Identities=16% Similarity=0.207 Sum_probs=274.4
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+| +..|.....|+++|++++|+.+| |++|+++++|++++|..++.++++|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~ 80 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSR 80 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHH
Confidence 699999999 46789999999999999999984 7999999999999999999999999988999999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
.++.++++..++|++++.+. .. + ...|++|++.++...+..++++++...+-+++++|+.+++|| +...+.++
T Consensus 81 ~a~~~~~~~~~~~~~~~~~~--~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g--~~~~~~~~ 153 (360)
T cd06357 81 KAVLPVVERHDALLWYPTLY--EG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYP--YESNRIMR 153 (360)
T ss_pred HHHHHHHHhcCceEEeCCCc--cC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcch--HHHHHHHH
Confidence 99999999999999987644 21 2 223678888888877788899998766668999999999999 99999999
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.+++.| ++++....++.... ..|+.+++.++++.++|+|++ .+...++..++++++++|+.++...+......
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~~----~~d~s~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~ 227 (360)
T cd06357 154 DLLEQRG-GEVLGERYLPLGAS----DEDFARIVEEIREAQPDFIFS-TLVGQSSYAFYRAYAAAGFDPARMPIASLTTS 227 (360)
T ss_pred HHHHHcC-CEEEEEEEecCCCc----hhhHHHHHHHHHHcCCCEEEE-eCCCCChHHHHHHHHHcCCCccCceeEEeecc
Confidence 9999999 99987665555410 178999999999999999999 99999999999999999997653323322212
Q ss_pred hhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccc
Q 006683 271 ANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (635)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 349 (635)
....... ..+..+|+++...+.+. ..|..++|.++|+++|... ..++.++..+||+++++++|+++++.
T Consensus 228 ~~~~~~~---~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~------~~~~~~~~~~yda~~~l~~Al~~ag~- 297 (360)
T cd06357 228 EAEVAAM---GAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGED------APVSACAEAAYFQVHLFARALQRAGS- 297 (360)
T ss_pred HHHHhhc---chHhhCCcEEecccccccCChhHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHcCC-
Confidence 1111111 12456787776654332 3577899999999988521 12566889999999999999999987
Q ss_pred CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEe-eCCceEEEE
Q 006683 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELD 399 (635)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~-~~~~~~~vG 399 (635)
.+++.|+++|++++|+|..|.+.|+..++.......+.++ .+|++..+.
T Consensus 298 -~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 298 -DDPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred -CCHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 6899999999999999999999999765543355666777 567776654
No 58
>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=4.5e-33 Score=285.36 Aligned_cols=315 Identities=16% Similarity=0.227 Sum_probs=264.7
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||++.|+++ ..|.....|+++|++++|+.+ .|++|+++++|++++|..+++.+++|+.+ +|.+|+|+.++..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~~-~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh-CCeEEEcccchHHH
Confidence 5999999994 568899999999999999987 47999999999999999999999999954 99999999999998
Q ss_pred HHH-------HHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCC-CeEEEEEEEcCCCCC
Q 006683 111 AVV-------AEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGG 181 (635)
Q Consensus 111 ~~v-------~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~-w~~vaii~~~~~~g~ 181 (635)
.++ .+++...++|+|++.++ ++.+++ ..+||+||+.|++..++.++++++.+.+ |+++++++.++.||
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g- 156 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASV--APALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWG- 156 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCC--CchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHH-
Confidence 888 78888999999999888 777776 5679999999999999999999998775 99999999999999
Q ss_pred CcchHHHHHHHHhc--cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 182 DSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 182 ~~~~~~~~~~~l~~--~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+...+.+++.+++ .| ++|+....++... .+|+..++.++++.++|+|++ .....+...+++++++.|+..
T Consensus 157 -~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~-----~~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~ 228 (342)
T cd06329 157 -QDVAAAFKAMLAAKRPD-IQIVGEDLHPLGK-----VKDFSPYVAKIKASGADTVIT-GNWGNDLLLLVKQAADAGLKL 228 (342)
T ss_pred -HHHHHHHHHHHHhhcCC-cEEeceeccCCCC-----CCchHHHHHHHHHcCCCEEEE-cccCchHHHHHHHHHHcCCCc
Confidence 9999999999999 99 9998877666532 046899999999999999999 888889999999999999965
Q ss_pred CCeEEEeeCchhhhhcccChhhhhhccceEEEEeecC-CCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHH
Q 006683 260 KDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (635)
Q Consensus 260 ~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 338 (635)
.++........+ ........+|.+....+.+ ..+|..++|.++|+++|. ..|+.++..+||++++
T Consensus 229 ---~~~~~~~~~~~~---~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~y~~~~~ 294 (342)
T cd06329 229 ---PFYTPYLDQPGN---PAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--------RVPDYYEGQAYNGIQM 294 (342)
T ss_pred ---eEEeccccchhH---HHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--------CCCCchHHHHHHHHHH
Confidence 344443322111 1112234567766655433 235778899999988874 3466788999999999
Q ss_pred HHHHHHhhcccCCChHHHHHHHHcCcccceeeeEEEeCCC
Q 006683 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGE 378 (635)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g 378 (635)
+++|++++++ .+++.+.++|++++|+|..|+++|+..+
T Consensus 295 ~~~a~~~ag~--~~~~~v~~al~~~~~~~~~g~~~~~~~~ 332 (342)
T cd06329 295 LADAIEKAGS--TDPEAVAKALEGMEVDTPVGPVTMRASD 332 (342)
T ss_pred HHHHHHHhCC--CCHHHHHHHHhCCccccCCCCeEEcccC
Confidence 9999999887 7899999999999999999999999533
No 59
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.2e-33 Score=286.87 Aligned_cols=321 Identities=18% Similarity=0.175 Sum_probs=267.6
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC----C--eEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR----N--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~----g--~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
|||++.|+++ ..|.....++++|++++|+.++ | ++|+++++|++++|..+.+.+++|+.+++|.+|+|+.+
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 6999999994 5678899999999999998863 4 58999999999999999999999997779999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchH
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~ 186 (635)
+..+.. ++++++.++|+|++.+. ++.+....+||+||+.|++..++.++++++++.+|++|++|+.+++|| +...
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~ 155 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSS--DLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYG--QPWV 155 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCC--cccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchh--HHHH
Confidence 988888 99999999999999988 787776667999999999999999999999889999999999999999 9999
Q ss_pred HHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh-HHHHHHHHHHHcCCCCCCeEEE
Q 006683 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 187 ~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~-~~~~~l~~a~~~g~~~~~~~~i 265 (635)
+.+++.+++.| ++++....++... .|++.+++++++.++|+|++ .+... +...++++++++|+.+. ..++
T Consensus 156 ~~~~~~l~~~G-~~vv~~~~~~~~~------~D~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~g~~~~-~~~~ 226 (347)
T cd06336 156 AAYKAAWEAAG-GKVVSEEPYDPGT------TDFSPIVTKLLAEKPDVIFL-GGPSPAPAALVIKQARELGFKGG-FLSC 226 (347)
T ss_pred HHHHHHHHHcC-CEEeeecccCCCC------cchHHHHHHHHhcCCCEEEE-cCCCchHHHHHHHHHHHcCCCcc-EEec
Confidence 99999999999 9999888887765 68999999999999999999 88888 99999999999999763 1222
Q ss_pred eeCchhhhhcccChhhhhhccceEEEEeecCC---CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHH
Q 006683 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSD---DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (635)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~A 342 (635)
............ .....+|++...++... ..|..++|.++|+++|. ..|+.++..+||+++++++|
T Consensus 227 ~~~~~~~~~~~~---~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~~~~~~~~A 295 (347)
T cd06336 227 TGDKYDELLVAT---GADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYG--------EPPNSEAAVSYDAVYILKAA 295 (347)
T ss_pred cCCCchHHHHHh---cHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHC--------CCCcHHHHHHHHHHHHHHHH
Confidence 222111111111 12456788877766553 45778899999999884 34677889999999999999
Q ss_pred HHhhcccCCChHHHHHHHHc--------CcccceeeeEEEeCCCCCCCC
Q 006683 343 IGRLNYNISSPEMLLRQMLS--------SDFSGLSGKIRFKDGELLNAD 383 (635)
Q Consensus 343 l~~~~~~~~~~~~l~~~l~~--------~~f~g~~G~v~F~~~g~~~~~ 383 (635)
+++++. .++..+.+.+.. ..|.+..|.+.||++|+...+
T Consensus 296 l~~ag~--~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 296 MEAAGS--VDDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred HHhcCC--CCcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 999987 455555555433 467888899999999998643
No 60
>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=9.6e-33 Score=281.94 Aligned_cols=327 Identities=18% Similarity=0.260 Sum_probs=266.1
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
|||+++|+++ ..|.....|+++|++++|...+|++|+++++|++++|..+++++.+|+.+++|.+|+|+.+|..+.+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~inggi~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a 80 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLGGKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLA 80 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhCCccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHH
Confidence 6999999994 4578899999999999994446899999999999999999999999997779999999999999999
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
+++++...++|+|++.+. .+.+.+ ..+||+||+.|++..+..+++++++..+|+++++++.+++|| +...+.+++
T Consensus 81 ~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g--~~~~~~~~~ 156 (333)
T cd06359 81 VVPPVLESGTFYISTNAG--PSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAG--KDALAGFKR 156 (333)
T ss_pred HHHHHHHcCCeEEecCCC--ccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhh--HHHHHHHHH
Confidence 999999999999998766 566665 358999999999999999999999889999999999999999 888888877
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
.++ .+++....++... +|++.++.++++.++|+|++ .........++++++++|+... ..++.+....
T Consensus 157 ~~~----~~v~~~~~~~~~~------~d~~~~i~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 224 (333)
T cd06359 157 TFK----GEVVGEVYTKLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMGVNFVKQYRQAGLKKD-IPLYSPGFSD 224 (333)
T ss_pred HhC----ceeeeeecCCCCC------cchHHHHHHHHhCCCCEEEE-EccCccHHHHHHHHHHcCcccC-CeeeccCccc
Confidence 663 3555555555444 67999999999999999999 8888889999999999998542 3455544332
Q ss_pred hhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcccC
Q 006683 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (635)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (635)
.. ... ....+..+|++....+.+. ..|..++|.++|+++|. ..++.++..+||+++++++|+++++.+.
T Consensus 225 ~~-~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~A~~~ag~~~ 294 (333)
T cd06359 225 EE-DTL-PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG--------RLPTLYAAQAYDAAQLLDSAVRKVGGNL 294 (333)
T ss_pred CH-HHH-HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC--------CCCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 11 000 1112456787776655443 34778999999998883 3577888999999999999999997633
Q ss_pred CChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEE
Q 006683 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (635)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~ 389 (635)
.+++.+.++|++.+|+|++|+++|+++|+.. ..+.+++
T Consensus 295 ~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~~ 332 (333)
T cd06359 295 SDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLRE 332 (333)
T ss_pred CCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEEe
Confidence 4899999999999999999999999887764 4455554
No 61
>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=4.4e-33 Score=283.42 Aligned_cols=326 Identities=15% Similarity=0.210 Sum_probs=240.0
Q ss_pred eEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEE-cCCChh--h
Q 006683 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIA-GMETWE--E 109 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~--~ 109 (635)
.+.||++++.+... ...++.+-...+..++..++.+++.. ...||...+.++|+++...+|.|+| ||.++. .
T Consensus 2 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~ 77 (362)
T cd06378 2 GLNIAVVLSGTNSS----TAFLRGRLTKEDFLDLPLDVNVVTLLVNETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAV 77 (362)
T ss_pred CceEEEEecCCCcc----hhhhccccccccccCCCCCccceeeecCCCCHHHHHHHHHHHhcccceEEEEecCCCCcccc
Confidence 47899998876210 11111111111111122333333222 5679999999999999666799755 999886 3
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
+..+..++++++||+|++.+.+ ++.+++ ..+||++|+.|++..+++++++++++|+|++|++|+++++.+ ..+.+.
T Consensus 78 a~~~s~~~~~~~vP~is~~~~s-~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~--~~~~~~ 154 (362)
T cd06378 78 AQILDFISAQTFLPILGIHGGS-SMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDWHAFSVVTSRFPGY--DDFVSA 154 (362)
T ss_pred chhhhhhhhceeccEEEecccc-cccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCCeEEEEEEEcCCCH--HHHHHH
Confidence 4566677777999999998662 235555 579999999999999999999999999999999999998866 667777
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
+++.+...+ +|+.....++..... + ......++++++.++++||+ +|+.+.+..++++|.++||++++|+||+++
T Consensus 155 l~~~~~~~~-~~~~i~~~~~~~~~~-~--~~~~~~l~~lk~~~arViVl-~~s~~~a~~if~~A~~~gm~g~~yvWI~t~ 229 (362)
T cd06378 155 VRTTVDNSF-VGWELQSVLTLDMSD-D--DGDARTQRQLKKLESQVILL-YCSKEEAEYIFRAARSAGLTGPGYVWIVPS 229 (362)
T ss_pred HHHHHhhcc-cceeEEEEEeeccCC-C--cchHHHHHHHHhcCCCEEEE-ECCHHHHHHHHHHHHHcCCcCCCeEEEecc
Confidence 887777666 665544333332211 1 34678889999999999999 999999999999999999999999999999
Q ss_pred chhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 006683 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (635)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (635)
......+. .......|++++.. ++|+. ...+..||||+++|+|++.+..
T Consensus 230 ~~~~~~~~---~~~~~~~G~i~v~~-------------~~w~~---------------~~~a~~~DaV~vva~Al~~l~~ 278 (362)
T cd06378 230 LVLGNTDL---GPSEFPVGLISVSY-------------DGWRY---------------SLRARVRDGVAIIATGASAMLR 278 (362)
T ss_pred cccCCCcc---ccccCCcceEeecc-------------ccccc---------------cHHHHHHHHHHHHHHHHHHHHh
Confidence 76644211 11123466655432 11110 1245779999999999996531
Q ss_pred -----------c-------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC-CceEEEEeecCC
Q 006683 349 -----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWLPN 404 (635)
Q Consensus 349 -----------~-------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~-~~~~~vG~w~~~ 404 (635)
| |..|..|+++|++++|+|+ +|+|+++|.|.++.|+|++++. .++++||.|+++
T Consensus 279 ~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~~ 351 (362)
T cd06378 279 QHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKERVWEEVGKWENG 351 (362)
T ss_pred ccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCCCceEEEEEcCC
Confidence 2 3468899999999999996 9999999999999999999986 589999999953
No 62
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=7.4e-33 Score=284.73 Aligned_cols=322 Identities=20% Similarity=0.226 Sum_probs=263.1
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+++ ..|.....|+++|++++|+++ +|++|+++++|+++++..+.+++++|+.+++|.+|+|+.++..+
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~ 80 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVA 80 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHH
Confidence 6999999994 457889999999999999998 48999999999999999999999999966799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLA 187 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~ 187 (635)
.+++++++..+||+|++.+. ++.+.+ ..++++||+.|++..+..+++++++++ +|+++++|+.++++| +...+
T Consensus 81 ~~~~~~~~~~~ip~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g--~~~~~ 156 (346)
T cd06330 81 LAVAPVAEELKVFFIATDPG--TPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYG--QDAWA 156 (346)
T ss_pred HHHHHHHHHcCCeEEEcCCC--CcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHH--HHHHH
Confidence 99999999999999999887 677765 578999999999999999999999877 499999999999999 88899
Q ss_pred HHHHHHhccC-CeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 188 LLAEALQNVS-SSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 188 ~~~~~l~~~g-~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
.+++.+++.| .++++....++... .|+..+++++++.++|+|++ .+...+...+++++.+.|+.+ ...|+.
T Consensus 157 ~~~~~~~~~g~~~~~v~~~~~~~~~------~d~~~~v~~i~~~~~d~ii~-~~~~~~~~~~~~~~~~~g~~~-~~~~~~ 228 (346)
T cd06330 157 DFKAALKRLRPDVEVVSEQWPKLGA------PDYGSEITALLAAKPDAIFS-SLWGGDLVTFVRQANARGLFD-GTTVVL 228 (346)
T ss_pred HHHHHHHHhCCCCeecccccCCCCC------cccHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHhcCccc-CceEEe
Confidence 9999999884 05555544444333 67999999999999999999 888899999999999999965 357776
Q ss_pred eCchhhhhcccChhhhhhccceEEEEee-cCC--CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHH
Q 006683 267 TNTVANALDSLNTTVISSMEGTLGIKSY-YSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (635)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (635)
+......... ......+|++..... ... ..+..++|.++|+++|. ..|+.++..+||+++++++|+
T Consensus 229 ~~~~~~~~~~---~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~y~a~~~l~~a~ 297 (346)
T cd06330 229 TLTGAPELAP---LGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--------DYPTYGAYGAYQAVMALAAAV 297 (346)
T ss_pred eccchhhhhh---hhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--------CCCChHHHHHHHHHHHHHHHH
Confidence 6554322111 112345666544322 111 34678899999998884 345677889999999999999
Q ss_pred HhhcccCCCh--HHHHHHHHcCcccceeeeEEEeCCCCC
Q 006683 344 GRLNYNISSP--EMLLRQMLSSDFSGLSGKIRFKDGELL 380 (635)
Q Consensus 344 ~~~~~~~~~~--~~l~~~l~~~~f~g~~G~v~F~~~g~~ 380 (635)
++++...... +.+.++|++.+|.|+.|+++|+++.++
T Consensus 298 ~~a~~~~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~ 336 (346)
T cd06330 298 EKAGATDGGAPPEQIAAALEGLSFETPGGPITMRAADHQ 336 (346)
T ss_pred HHhcCCCCCCcHHHHHHHHcCCCccCCCCceeeecCCCc
Confidence 9998631111 469999999999999999999974443
No 63
>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=2.7e-32 Score=279.67 Aligned_cols=325 Identities=17% Similarity=0.253 Sum_probs=273.7
Q ss_pred EEEEEeeCCCc---CcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 36 KIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
|||+++|+++. .|.....|+++|++++|...+|++|+++++|+++++..+.+++.+|+.+++|.+|||+.++..+.+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~ 80 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAGGKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALA 80 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhCCCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHH
Confidence 69999999953 457899999999999985446899999999999999999999999997789999999998888888
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
+.+.++..++|+|++++. ++.+++. .+||+||+.|++..++..+++++.+.+|+++++++.++.|| +...+.+++
T Consensus 81 ~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g--~~~~~~~~~ 156 (336)
T cd06360 81 MVKVLREPGTPLINPNAG--ADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFG--YEVVEGFKE 156 (336)
T ss_pred HHHHHHhcCceEEecCCC--CccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhh--HHHHHHHHH
Confidence 889999999999999887 7777763 57999999999999999999999988999999999999999 888899999
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
.+++.| ++++....++... .|++++++++++.++|+|++ .....++..+++++.+.|+.+. ..++.++...
T Consensus 157 ~~~~~G-~~v~~~~~~~~~~------~d~~~~v~~~~~~~pd~v~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~ 227 (336)
T cd06360 157 AFTEAG-GKIVKELWVPFGT------SDFASYLAQIPDDVPDAVFV-FFAGGDAIKFVKQYDAAGLKAK-IPLIGSGFLT 227 (336)
T ss_pred HHHHcC-CEEEEEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHHcCCccC-CeEEeccccc
Confidence 999999 9998877777655 67999999999999999999 8889999999999999999643 3556554332
Q ss_pred hhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcccC
Q 006683 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (635)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (635)
... .. ....+..+|++...++.+. ..|..++|.++|+++|. ..|+.++..+||+++++++|+++++...
T Consensus 228 ~~~-~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~--------~~~~~~~~~~yda~~~~~~A~~~a~~~~ 297 (336)
T cd06360 228 DGT-TL-GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP--------DTPSVYAVQGYDAGQALILALEAVGGDL 297 (336)
T ss_pred CHH-HH-HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC--------CCccHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 110 11 1122456787766655433 35778999999998884 3567889999999999999999998643
Q ss_pred CChHHHHHHHHcCcccceeeeEEEeCCCCCCCC
Q 006683 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNAD 383 (635)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~ 383 (635)
.+++.+.++|++.+|.|..|+++|+++|++...
T Consensus 298 ~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 298 SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred CCHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 478899999999999999999999999888643
No 64
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=2.3e-32 Score=278.67 Aligned_cols=316 Identities=17% Similarity=0.222 Sum_probs=258.9
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcC-C--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSD-S--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~-~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
|||++.|+++ ..|.....|+++|++++|+. + +|++|+++++|++++|..+..++.+|+.+++|.+|+|+.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~ 80 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGV 80 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHH
Confidence 6999999994 56889999999999999654 3 4799999999999999999999999997789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
+.++.+.+++.++|+|++.++ ++.+... .++|+||+.+++..+...++.++... +++|++|+.+++|| +...+.
T Consensus 81 ~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g--~~~~~~ 155 (333)
T cd06328 81 ALAVLPVAEENKKILIVEPAA--ADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFG--RDGVAA 155 (333)
T ss_pred HHHHHHHHHHhCCcEEecCCC--CchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCcccc--HHHHHH
Confidence 999999999999999998888 7888764 46999999998888888888888665 89999999999999 999999
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh-HHHHHHHHHHHcCCCCCCeEEEee
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~-~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
+++.+++.| ++++....++.+. .|+.+++.++++.++|+|++ ..... ....+++++...|+... ....
T Consensus 156 ~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~~g~~~~---~~~~ 224 (333)
T cd06328 156 FKAALEKLG-AAIVTEEYAPTDT------TDFTPYAQRLLDALKKVLFV-IWAGAGGPWPKLQQMGVLGYGIE---ITLA 224 (333)
T ss_pred HHHHHHhCC-CEEeeeeeCCCCC------cchHHHHHHHHhcCCCEEEE-EecCchhHHHHHHHhhhhcCCCe---EEec
Confidence 999999999 9999988888765 68999999999999999988 54444 56777888887777642 2222
Q ss_pred CchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 006683 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (635)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (635)
........ ........+|.+....+.+..+|..+.|.++|+++|. ..|+.++..+||++.++++|+++++
T Consensus 225 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--------~~p~~~~~~~y~a~~~l~~Ai~~ag 294 (333)
T cd06328 225 GDILANLT--MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG--------SPPDLFTAGGMSAAIAVVEALEETG 294 (333)
T ss_pred ccccCccc--cccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC--------CCcchhhHHHHHHHHHHHHHHHHhC
Confidence 22111111 0111233456555444432345778889999999884 3567889999999999999999998
Q ss_pred ccCCChHHHHHHHHcCcccceeeeEEEeCCCC
Q 006683 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGEL 379 (635)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~ 379 (635)
. .+++.+.++|++.+|+++.|+++|+.+++
T Consensus 295 ~--~~~~~v~~aL~~~~~~~~~g~~~f~~~~~ 324 (333)
T cd06328 295 D--TDTEALIAAMEGMSFETPKGTMTFRKEDH 324 (333)
T ss_pred C--CCHHHHHHHHhCCeeecCCCceEECcccc
Confidence 5 89999999999999999999999995333
No 65
>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=8e-32 Score=275.16 Aligned_cols=316 Identities=17% Similarity=0.230 Sum_probs=261.4
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+|+ ..|.....|+++|++++|..+| |++|+++++|++++|..+++++.+|+.+++|.+|||+.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a 80 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVR 80 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHH
Confidence 6999999994 4788999999999999999884 7999999999999999999999999977799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
.++.++++ .++|+|++.+. +. ....||+||+.+++..++.++++++ +..+|++|++++.+++|| +...+.+
T Consensus 81 ~a~~~~~~-~~vp~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g--~~~~~~~ 152 (333)
T cd06358 81 NAVAPVVA-GRVPYVYTSLY--EG---GECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWP--RGSLAAA 152 (333)
T ss_pred HHHHHHHh-cCceEEeCCCc--CC---CCCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhh--HHHHHHH
Confidence 99999999 99999997644 22 1246899999999998888888877 567999999999999999 8889999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe-eC
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV-TN 268 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~-~~ 268 (635)
++.+++.| ++|+....++... .|+++++.++++.++|+|++ .....+...+++++.+.|+..+ ++. ..
T Consensus 153 ~~~~~~~G-~~v~~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~---~~~~~~ 221 (333)
T cd06358 153 KRYIAELG-GEVVGEEYVPLGT------TDFTSVLERIAASGADAVLS-TLVGQDAVAFNRQFAAAGLRDR---ILRLSP 221 (333)
T ss_pred HHHHHHcC-CEEeeeeeecCCh------HHHHHHHHHHHHcCCCEEEE-eCCCCchHHHHHHHHHcCCCcc---Cceeec
Confidence 99999999 9999888888765 78999999999999999998 8888888899999999999874 222 22
Q ss_pred chhh-hhcccChhhhhhccceEEEEeecC-CCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 269 TVAN-ALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 269 ~~~~-~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
.+.. ...... ....+|++....+.+ ...|..++|.++|+++|.... ..++.++..+||+++++++|++++
T Consensus 222 ~~~~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~-----~~~~~~~~~~yda~~~~~~A~~~a 293 (333)
T cd06358 222 LMDENMLLASG---AEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDA-----PPLNSLSESCYEAVHALAAAAERA 293 (333)
T ss_pred ccCHHHHHhcC---hHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCC-----CCCChHHHHHHHHHHHHHHHHHHh
Confidence 2221 111111 134577766554332 234678999999999885321 235667889999999999999998
Q ss_pred cccCCChHHHHHHHHcCcccceeeeEEEeCCCCC
Q 006683 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELL 380 (635)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~ 380 (635)
+. .++..|.++|++.+|+|.+|.+.|++++..
T Consensus 294 g~--~~~~~v~~al~~~~~~~~~G~~~~~~~~~~ 325 (333)
T cd06358 294 GS--LDPEALIAALEDVSYDGPRGTVTMRGRHAR 325 (333)
T ss_pred CC--CCHHHHHHHhccCeeeCCCcceEEcccccc
Confidence 87 899999999999999999999999987553
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=9.6e-32 Score=274.24 Aligned_cols=317 Identities=15% Similarity=0.183 Sum_probs=260.9
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||++.|+| +..|.....++++|++++|+.+| |++|+++.+|++++|..+..++++|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~ 80 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASR 80 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHH
Confidence 699999999 45689999999999999999874 8999999999999999999999999977899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
.++.+++++.++|+|+.... .. ....||+||+.+++..++.++++++...+.+++++|+.+++|| ++..+.++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g--~~~~~~~~ 153 (334)
T cd06356 81 EAIRPIMDRTKQLYFYTTQY--EG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFG--QISAEWVR 153 (334)
T ss_pred HHHHHHHHhcCceEEeCCCc--cC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhh--HHHHHHHH
Confidence 99999999999999986433 22 2235899999999999999999998766558899999999999 99999999
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.+++.| ++++....++.+. .|++.+++++++.++|+|++ .....+...+++++.+.|+ .. ...+.....
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~ 223 (334)
T cd06356 154 KIVEENG-GEVVGEEFIPLDV------SDFGSTIQKIQAAKPDFVMS-ILVGANHLSFYRQWAAAGL-GN-IPMASSTLG 223 (334)
T ss_pred HHHHHcC-CEEEeeeecCCCc------hhHHHHHHHHHhcCCCEEEE-eccCCcHHHHHHHHHHcCC-cc-Cceeeeecc
Confidence 9999999 9999888888766 78999999999999999999 8888889999999999999 21 122322111
Q ss_pred hh-h-hcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 006683 271 AN-A-LDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (635)
Q Consensus 271 ~~-~-~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (635)
.. . ..... ....+|++....+.+. ..|..++|.++|+++|... ..++.++..+||+++++++|+++++
T Consensus 224 ~~~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------p~~~~~~~~~y~a~~~~~~A~~~ag 294 (334)
T cd06356 224 AQGYEHKRLK---PPALKDMYATANYIEELDTPANKAFVERFRAKFPDA------PYINEEAENNYEAIYLYKEAVEKAG 294 (334)
T ss_pred cchhHHhccC---chhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCC------CCCCchhHHHHHHHHHHHHHHHHHC
Confidence 11 0 11111 1345777666554333 3467889999999988421 0125678999999999999999998
Q ss_pred ccCCChHHHHHHHHc-CcccceeeeEEEeCCCCC
Q 006683 348 YNISSPEMLLRQMLS-SDFSGLSGKIRFKDGELL 380 (635)
Q Consensus 348 ~~~~~~~~l~~~l~~-~~f~g~~G~v~F~~~g~~ 380 (635)
+ .+++.|.++|++ ..++|+.|+++|+..++.
T Consensus 295 ~--~~~~~v~~aL~~~~~~~~~~g~~~~~~~~h~ 326 (334)
T cd06356 295 T--TDRDAVIEALESGLVCDGPEGKVCIDGKTHH 326 (334)
T ss_pred C--CCHHHHHHHHHhCCceeCCCceEEEecCCCc
Confidence 7 889999999997 578999999999975554
No 67
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.2e-31 Score=275.17 Aligned_cols=324 Identities=17% Similarity=0.221 Sum_probs=261.3
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+|+ ..|.....|+++|++++|..+| |++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.++..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVA 80 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHH
Confidence 6999999994 6788999999999999999974 7999999999999999999999999976799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCC--CCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcchHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLA 187 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~--~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~~~ 187 (635)
.++.++++..+||+|++.++ .+.+.. ..++|+||+.|++..++.++++++ ++.+|++|++++.+++|| +...+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g--~~~~~ 156 (347)
T cd06335 81 LANLEFIQQNKIPLIGPWAA--GTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWG--RSNRK 156 (347)
T ss_pred HhhhHHHHhcCCcEEecCCC--CcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchh--hhHHH
Confidence 99999999999999998877 666654 356899999999999999999987 556799999999999999 99999
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
.+++.+++.| ++++....++... .|+++.++++++.++++|++ .+...+...+++++++.|+..+ ++..
T Consensus 157 ~~~~~~~~~G-~~v~~~~~~~~~~------~d~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~~~~ 225 (347)
T cd06335 157 DLTAALAARG-LKPVAVEWFNWGD------KDMTAQLLRAKAAGADAIII-VGNGPEGAQIANGMAKLGWKVP---IISH 225 (347)
T ss_pred HHHHHHHHcC-CeeEEEeeecCCC------ccHHHHHHHHHhCCCCEEEE-EecChHHHHHHHHHHHcCCCCc---Eecc
Confidence 9999999999 9999888887765 67999999999999999999 8999999999999999999642 2322
Q ss_pred CchhhhhcccChhhhhhccceEEEEeecCC--CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHh
Q 006683 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (635)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~ 345 (635)
..... ..... ...+..+|++....+... ..|..++|.++|+++|...... ...++.++..+||+++++++|+++
T Consensus 226 ~~~~~-~~~~~-~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~ 301 (347)
T cd06335 226 WGLSG-GNFIE-GAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQ 301 (347)
T ss_pred cCCcC-chhhh-ccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHH
Confidence 11111 00000 111345676655443322 4577899999999988532110 113455678899999999999999
Q ss_pred hcccCCChHHHHHHHHcC--cccceee--eEEEeCCCCC
Q 006683 346 LNYNISSPEMLLRQMLSS--DFSGLSG--KIRFKDGELL 380 (635)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~--~f~g~~G--~v~F~~~g~~ 380 (635)
++. .+++.+.++|+++ .+.|+.| .+.|++..++
T Consensus 302 ag~--~~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h~ 338 (347)
T cd06335 302 AGS--TDGRAIKRALENLKKPVEGLVKTYDKPFSKEDHE 338 (347)
T ss_pred hcC--CCHHHHHHHHHhccCCceeeecccCCCCChhhcc
Confidence 987 5668899999975 4667777 3457654443
No 68
>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=6.4e-31 Score=269.18 Aligned_cols=326 Identities=17% Similarity=0.250 Sum_probs=265.3
Q ss_pred EEEEEeeCCCc---CcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 36 KIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
|||+++|+++. .|.....|+++|++++|...+|++|+++++|+++++..+.+.+.+|+.+++|.+|||+.++....+
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~ 80 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLGGKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALA 80 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhCCCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHH
Confidence 69999999954 566899999999999984446899999999999999999999999996669999999988888888
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
+.+.+...++|+|++++. .+.+.+. .+|++||+.|++..++..+++++...+|+++++|+.++.+| +...+.+++
T Consensus 81 ~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~--~~~~~~~~~ 156 (333)
T cd06332 81 VVPSLTESGTFLISPNAG--PSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAG--KDAVAGFKR 156 (333)
T ss_pred HHHHHhhcCCeEEecCCC--CccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchh--HHHHHHHHH
Confidence 889999999999999877 6677664 47999999999999999999999999999999999999999 888888888
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
.++ + .++....++... .|+..+++++++.++|+|++ .........+++++++.|+.+. ..++.+..+.
T Consensus 157 ~~~--~--~~~~~~~~~~~~------~d~~~~i~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~ 224 (333)
T cd06332 157 TFK--G--EVVEEVYTPLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMAVNFVKQYDQAGLKKK-IPLYGPGFLT 224 (333)
T ss_pred hhc--E--EEeeEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCcccC-CceeccCCCC
Confidence 876 4 344444555443 56888999999999999999 8887899999999999999543 4566655443
Q ss_pred hhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcccC
Q 006683 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (635)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (635)
... .. .......+|++...++.+. ..|..++|.++|+++|. ..+..++..+||+++++++|+++++...
T Consensus 225 ~~~-~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~a~~~ag~~~ 294 (333)
T cd06332 225 DQD-TL-PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG--------RVPSVYAAQGYDAAQLLDAALRAVGGDL 294 (333)
T ss_pred CHH-HH-HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC--------CCCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 210 00 1122456787776665443 24678899999998884 3467788999999999999999998643
Q ss_pred CChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEE
Q 006683 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIV 388 (635)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~ 388 (635)
.++..+.++|++.+|+|+.|+++|+++|+.. ..+.+.
T Consensus 295 ~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~-~~~~~~ 331 (333)
T cd06332 295 SDKDALRAALRAADFDSPRGPFKFNPNHNPI-QDFYLR 331 (333)
T ss_pred CCHHHHHHHHhcCceecCccceeECCCCCcc-cceeEE
Confidence 5678999999999999999999999988865 344443
No 69
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=100.00 E-value=6.9e-32 Score=275.64 Aligned_cols=315 Identities=15% Similarity=0.199 Sum_probs=229.0
Q ss_pred CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecC------C-CCHHHHHHHHHHHhhcCCe--EEEEcCCChhhHHHHHH
Q 006683 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH------N-RDPFQAATAAQELINKEKV--KVIAGMETWEETAVVAE 115 (635)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~------~-~~~~~a~~~~~~li~~~~v--~aiiG~~~s~~~~~v~~ 115 (635)
...|...+.|++.|++++|++. +.++.+...+. . .|...+.+++|+++ +.++ .|||||.++..+..+++
T Consensus 8 ~~~~~~~~~A~~~Av~~~N~~~-~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~-~~gv~~~AIiGp~ss~~a~~V~s 85 (368)
T cd06383 8 EDDNDVYKQIIDDALSYINRNI-GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKA-DSAIVPHLVLDTTTCGDASEIKS 85 (368)
T ss_pred ccchHHHHHHHHHHHHHHhcCC-CCceEEEEecccccccccCCcHHHHHHHHHHHH-HccCCcEEEECCCcchhHHHHHH
Confidence 3467889999999999999986 66777766666 4 46677777799999 6777 79999999999999999
Q ss_pred hhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchH-HHHHHHHh
Q 006683 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL-ALLAEALQ 194 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~-~~~~~~l~ 194 (635)
+|+.++||+|+++.. ..++..+||++|+.|++..+.+++++++++|+|++|++||+++.+. .... +.+++...
T Consensus 86 i~~~~~IP~Is~s~~----~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl--~~~l~~~l~~~~~ 159 (368)
T cd06383 86 VTGALGIPTFSASYG----QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVM--DHKYKSLLQNWPT 159 (368)
T ss_pred HHhccCCCEEEccCC----CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchh--hHHHHHHHHhHHh
Confidence 999999999998544 3344578999999999999999999999999999999999776643 3223 33333333
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhh
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (635)
..+ .++. +... .++...++++++++.+.||+.+..++.+..++++|.++||+++.|+||+++......
T Consensus 160 ~~~-~~v~-----~~~~------~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~ 227 (368)
T cd06383 160 RHV-ITII-----NSII------DEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIY 227 (368)
T ss_pred cCC-EEEE-----eccc------hhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhh
Confidence 444 4443 1111 458899999998888555551444699999999999999999999999999876543
Q ss_pred cccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc------
Q 006683 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------ 348 (635)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~------ 348 (635)
+... ......++.++....+... ..+++..++.+. ..+....++....++++||||+++++|++.+..
T Consensus 228 dl~~--~~~~~~Nitgfrl~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~ 301 (368)
T cd06383 228 DDLS--CQLRNASIFVTRPMMDYQS-SVRGALLRTDEP---TLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG 301 (368)
T ss_pred hhhh--hccccCcEEEeeccccchh-hhccceeeccCC---ccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC
Confidence 3211 1122346777877544432 245555554211 001111123445689999999999999996421
Q ss_pred c------CCCh-----------HHHHHHHHcCcccceeeeEEEeCCCCCCCCcE
Q 006683 349 N------ISSP-----------EMLLRQMLSSDFSGLSGKIRFKDGELLNADTL 385 (635)
Q Consensus 349 ~------~~~~-----------~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~ 385 (635)
| |.++ ..+.++|+.++|+|+||+|.||++|.|.+..+
T Consensus 302 ~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l 355 (368)
T cd06383 302 STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTI 355 (368)
T ss_pred CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeee
Confidence 1 1122 28899999999999999999999999864433
No 70
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=3.3e-30 Score=257.63 Aligned_cols=320 Identities=15% Similarity=0.211 Sum_probs=232.8
Q ss_pred CCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcC-CC
Q 006683 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGM-ET 106 (635)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aiiG~-~~ 106 (635)
+..|+||+|++.. ...+.|++.|++.+|.+. ++.+|++++.. ...|+..+.+.+|+++-.+||.||+|+ .+
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 3569999999976 356899999999999886 46788887776 457999999999999438999999995 77
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCC-CCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l-~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~ 185 (635)
+.++..+..+|..++||+|++... .... ++..+....++.|+.++++.++++++++|+|+++++||+.+...
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~--~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl----- 164 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRR--EFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDP----- 164 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCC--cccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCH-----
Confidence 778899999999999999998655 3232 32333344566999999999999999999999999999998743
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCC-CCCCchHHH-HHHHHhhhhcC-ceEEEEecCChhHHHHHHHHHHHcCCCCCCe
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPIS-SISDPKEAV-RGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGKDS 262 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~-~~~d~~~~~-~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~ 262 (635)
..|++.++..+...+.....+.... ...|. .++ +..|+++++.. .++|++ .|+.+.+..+++++.+ .|
T Consensus 165 -~~lq~l~~~~~~~~~~~~i~v~~~~~~~~d~-~~~~~~~L~~i~~~~~~~~ill-~cs~e~~~~il~~~~~------~y 235 (382)
T cd06377 165 -TGLLLLWTNHARFHLGSVLNLSRNDPSTADL-LDFLRAQLELLKDPPGPAVVLF-GCDVARARRVLELTPP------GP 235 (382)
T ss_pred -HHHHHHHHHhcccccCceEEEEeccCccCCh-hHHHHHHHHHhhcccCceEEEE-ECCHHHHHHHHHhhcc------ce
Confidence 3344444443311111111221111 00111 344 99999999988 899998 9999999999987765 39
Q ss_pred EEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHH
Q 006683 263 VWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (635)
Q Consensus 263 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~A 342 (635)
+||+++.. .++.... ...--|.+. +. .. ......++.||||+++++|
T Consensus 236 ~wIv~~~~--~le~~~~--~g~nigLl~---~~-~~-------------------------~~~~l~ali~DAV~lvA~a 282 (382)
T cd06377 236 HWILGDPL--PPEALRT--EGLPPGLLA---HG-ET-------------------------TQPPLEAYVQDALELVARA 282 (382)
T ss_pred EEEEcCCc--ChhhccC--CCCCceEEE---Ee-ec-------------------------ccccHHHHHHHHHHHHHHH
Confidence 99998722 1111100 011122221 10 10 0112378999999999999
Q ss_pred HHhhc-------------cc--------CCChHHHHHHHHcCcccceeeeEEEeCCCCC--CCCcEEEEEee--CC---c
Q 006683 343 IGRLN-------------YN--------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELL--NADTLRIVNVV--GK---K 394 (635)
Q Consensus 343 l~~~~-------------~~--------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~--~~~~~~i~~~~--~~---~ 394 (635)
++.+. +| |.+|..|.++|++++|+|.||+|.|+ .|.| .+..++|++++ .. .
T Consensus 283 ~~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~~~ 361 (382)
T cd06377 283 VGSATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQPT 361 (382)
T ss_pred HHHhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCCcc
Confidence 99751 12 34788999999999999999999995 5888 78999999997 32 4
Q ss_pred eEEEEeecCCC
Q 006683 395 YKELDFWLPNF 405 (635)
Q Consensus 395 ~~~vG~w~~~~ 405 (635)
|++||+|++..
T Consensus 362 W~kVG~W~~~~ 372 (382)
T cd06377 362 WTTVGSWQGGR 372 (382)
T ss_pred ceEEEEecCCC
Confidence 59999999863
No 71
>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=2e-31 Score=272.71 Aligned_cols=325 Identities=15% Similarity=0.152 Sum_probs=259.0
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||++.|+| +..|.....|+++|+++||..+| |++|+++++|++++|..+++++.+|+.+++|.+|+ +.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~ 79 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGIT 79 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHH
Confidence 689999999 46688999999999999999984 79999999999999999999999999777888876 5778888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCC-----CeEEEEEEEcCCCCCCcc
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYN-----WRRVAAIYEDNVYGGDSG 184 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~-----w~~vaii~~~~~~g~~~~ 184 (635)
.++.+++...+||+|+++++ ++.+.+ ..+||+||+.|++..++.++++++...+ .++|++|+.+++|| +.
T Consensus 80 ~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g--~~ 155 (351)
T cd06334 80 EALIPKIAADKIPLMSGSYG--ATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFG--KE 155 (351)
T ss_pred HHhhHHHhhcCCcEEecccc--hhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccc--hh
Confidence 99999999999999999877 666664 5789999999999999999999997654 79999999999999 99
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEE
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (635)
..+.+++.+++.| ++++....++.+. +|++.++.++++.++|+|++ .....+...++++++++|+.. .+
T Consensus 156 ~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~i~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~---~~ 224 (351)
T cd06334 156 PIEALKALAEKLG-FEVVLEPVPPPGP------NDQKAQWLQIRRSGPDYVIL-WGWGVMNPVAIKEAKRVGLDD---KF 224 (351)
T ss_pred hHHHHHHHHHHcC-CeeeeeccCCCCc------ccHHHHHHHHHHcCCCEEEE-ecccchHHHHHHHHHHcCCCc---eE
Confidence 9999999999999 9999888887765 78999999999999999999 889999999999999999954 34
Q ss_pred EeeCchhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHH
Q 006683 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (635)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (635)
+.+..... .... .......+|+++..++... .+|..++|.+.|+++|...... ...++.++..+||+++++++||
T Consensus 225 ~~~~~~~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~gy~a~~~l~~Al 300 (351)
T cd06334 225 IGNWWSGD-EEDV-KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGND--KEIGSVYYNRGVVNAMIMVEAI 300 (351)
T ss_pred EEeeccCc-HHHH-HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCc--ccccccHHHHHHHHHHHHHHHH
Confidence 54432211 1111 1122456787766554432 4578899999998887421100 0234678899999999999999
Q ss_pred HhhcccC----CChH-------HHHHHHHcCcccceeeeEEEeCCCCC
Q 006683 344 GRLNYNI----SSPE-------MLLRQMLSSDFSGLSGKIRFKDGELL 380 (635)
Q Consensus 344 ~~~~~~~----~~~~-------~l~~~l~~~~f~g~~G~v~F~~~g~~ 380 (635)
++++++. ..+. .-++.+++....|+.|+++|....++
T Consensus 301 ~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~~ 348 (351)
T cd06334 301 RRAQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDHR 348 (351)
T ss_pred HHHHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccCC
Confidence 9998731 1221 12234455567789999999874443
No 72
>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=100.00 E-value=1.4e-30 Score=268.01 Aligned_cols=328 Identities=14% Similarity=0.184 Sum_probs=258.5
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CC--eEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChh
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RN--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g--~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~ 108 (635)
|||++.|+|+ ..|.....+++++++++|..+ +| ++|+++++|++++|..+++++.+|+++++|.+|+|+.+|.
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~ 80 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPD 80 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcc
Confidence 6999999994 567788889999999999654 33 6899999999999999999999999778999999999999
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCC------C-CCCCceEEEEecCcHHHHHHHHHHHHHCC-CeEEEEEEEcCCCC
Q 006683 109 ETAVVAEIASRVQVPILSFAAPAVTPLS------M-SRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYG 180 (635)
Q Consensus 109 ~~~~v~~~~~~~~ip~Is~~~~~~~~~l------~-~~~~p~~~r~~p~~~~~~~al~~~l~~~~-w~~vaii~~~~~~g 180 (635)
.+.++++++++.+||+|++.+. .+.+ . ...++|+||+.+++..+..+++++++..+ ++++++++.+++||
T Consensus 81 ~~~a~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g 158 (357)
T cd06337 81 TTNPVSDQCEANGVPCISTMAP--WQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDG 158 (357)
T ss_pred hhhHHHHHHHHhCCCeEEeccc--hhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchh
Confidence 9999999999999999987543 2211 1 23478999999999888899999888877 99999999999999
Q ss_pred CCcchHHHHH---HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 181 GDSGKLALLA---EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 181 ~~~~~~~~~~---~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+...+.++ +.+++.| ++++..+.++... +|++++++++++.++|+|++ .+...++..++++++++|+
T Consensus 159 --~~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~ik~a~pD~v~~-~~~~~~~~~~~~~~~~~G~ 228 (357)
T cd06337 159 --NAFADPVIGLPAALADAG-YKLVDPGRFEPGT------DDFSSQINAFKREGVDIVTG-FAIPPDFATFWRQAAQAGF 228 (357)
T ss_pred --HHHHHhhhcccHHHHhCC-cEEecccccCCCC------CcHHHHHHHHHhcCCCEEEe-CCCccHHHHHHHHHHHCCC
Confidence 87666554 5667789 9999888888766 78999999999999999998 8999999999999999999
Q ss_pred CCCCeEEEee-Cch--hhhhcccChhhhhhccceEEEEeecCCC-------CchhHHHHHHHHHhhccCCCCCCCCCCcc
Q 006683 258 VGKDSVWIVT-NTV--ANALDSLNTTVISSMEGTLGIKSYYSDD-------SSPYKEFSALFRRNFTSEYPEEDHFHPSI 327 (635)
Q Consensus 258 ~~~~~~~i~~-~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 327 (635)
..+ ++.. ... ........ +..+|++....+.+.. ++..++|.++|+++|.. .+..
T Consensus 229 ~~~---~~~~~~~~~~~~~~~~~g----~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~--------~~~~ 293 (357)
T cd06337 229 KPK---IVTIAKALLFPEDVEALG----DRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR--------QWTQ 293 (357)
T ss_pred CCC---eEEEeccccCHHHHHHhh----hhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC--------CccC
Confidence 764 3332 111 12222221 2345655433322221 23578999999988842 3445
Q ss_pred hhhhHhhHHHHHHHHHHhhcccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeCCc
Q 006683 328 HALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK 394 (635)
Q Consensus 328 ~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~ 394 (635)
...++|++++++++|++++++. .+++.|.++|++.+++++.|+++|+++ . .....|+.+.++.
T Consensus 294 ~~~~~~~~~~~l~~Ai~~Ags~-~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~~~~ 356 (357)
T cd06337 294 PLGYAHALFEVGVKALVRADDP-DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLVGGQ 356 (357)
T ss_pred cchHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHcCCcccceeeeecCCC--C-CccccccccccCC
Confidence 5677999999999999999762 478899999999999999999999865 3 2456666666544
No 73
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=99.98 E-value=4.6e-30 Score=262.33 Aligned_cols=315 Identities=21% Similarity=0.328 Sum_probs=247.6
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCC---CeEEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSR---NHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~---g~~l~~~~~D~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
+||++++... .....|+++|++++|..++ +..+.+.+.+. .++|..+++.+|+++..++|.+|+||.++..+.
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 4888888865 5778999999999999873 34555544443 489999999999999778999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
+++++|+.++||+|+++++ ++.+.+ ..+||++|+.|++..++.++++++++++|+++++||+++++. .. .+.+.
T Consensus 78 ~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~--~~-l~~~~ 152 (328)
T cd06351 78 AVQSICDALEIPHISISGG--SEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGL--SR-LQELL 152 (328)
T ss_pred HHHHHhccCCCCeEEeecC--cccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHH--HH-HHHHH
Confidence 9999999999999999988 677765 578999999999999999999999999999999999998864 33 33333
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCc-eEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS-RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~-~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
+.....+ ..+... .+.... .+++..++++++.++ ++|+. ++..+.+..++++|.++||.++.|+||+++.
T Consensus 153 ~~~~~~~-~~v~~~-~~~~~~------~~~~~~l~~l~~~~~~~vil~-~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~ 223 (328)
T cd06351 153 DESGIKG-IQVTVR-RLDLDD------DNYRQLLKELKRSESRRIILD-CSSEEEAKEILEQAVELGMMGYGYHWILTNL 223 (328)
T ss_pred HhhcccC-ceEEEE-EecCCc------hhHHHHHHHHhhcccceEEEE-CCcHHHHHHHHHHHHHhccccCCcEEEEecC
Confidence 3333334 444433 344433 368999999999888 66665 6666999999999999999999999999998
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 349 (635)
.....+. ........|++++....+.. +...+|..+|.. ..+......+...++..||+++++
T Consensus 224 ~~~~~d~--~~~~~~~~~i~g~~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~d~~~~~---------- 286 (328)
T cd06351 224 DLSDIDL--EPFQYGPANITGFRLVDPDS-PDVSQFLQRWLE----ESPGVNLRAPIYDAALLYDAVLLL---------- 286 (328)
T ss_pred Cccccch--hhhccCCcceEEEEEeCCCc-hHHHHHHHhhhh----ccCCCCcCccchhhHhhhcEEEEE----------
Confidence 6644322 12224557899998877665 457778777732 222222344556677788877665
Q ss_pred CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-CCceEEEEeecC
Q 006683 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (635)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~ 403 (635)
+|++.|+++|.|.+..++|++++ +.++++||.|++
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 99999999999999999999998 899999999985
No 74
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=5.8e-30 Score=249.65 Aligned_cols=337 Identities=16% Similarity=0.220 Sum_probs=241.0
Q ss_pred EEEEEEeeCCCc---CcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 35 TKIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 35 i~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
||||+++.+++. .+..+..|..+|+++||++|| |++|+.+++|.++|+..-.+.+.+|+.+++|.+|+|..+|.+
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSas 80 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSAS 80 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhhh
Confidence 799999999954 456889999999999999997 899999999999999999999999998899999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHH-HHCCCeEEEEEEEcCCCCCCcchHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLA 187 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l-~~~~w~~vaii~~~~~~g~~~~~~~ 187 (635)
-.++.++.++++-+++.+.. ... ...|++|-+.....++...+++++ +++|.+++.+|.+|+.|+ +...+
T Consensus 81 RKaVlPvvE~~~~LL~Yp~~------YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~p--re~Nr 152 (363)
T PF13433_consen 81 RKAVLPVVERHNALLFYPTQ------YEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYP--RESNR 152 (363)
T ss_dssp HHHHHHHHHHCT-EEEE-S--------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHH--HHHHH
T ss_pred HHHHHHHHHhcCceEEeccc------cccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccch--HHHHH
Confidence 99999999999999996532 233 456899999999999999999987 788989999999999999 88888
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
.+++.+++.| ++++...++|.+. +++..++++|++.+||+|+. ...++....|+++..+.|+.....+.+..
T Consensus 153 i~r~~l~~~G-gevvgE~Y~plg~------td~~~ii~~I~~~~Pd~V~s-tlvG~s~~aF~r~~~~aG~~~~~~Pi~S~ 224 (363)
T PF13433_consen 153 IIRDLLEARG-GEVVGERYLPLGA------TDFDPIIAEIKAAKPDFVFS-TLVGDSNVAFYRAYAAAGLDPERIPIASL 224 (363)
T ss_dssp HHHHHHHHTT--EEEEEEEE-S-H------HHHHHHHHHHHHHT-SEEEE-E--TTCHHHHHHHHHHHH-SSS---EEES
T ss_pred HHHHHHHHcC-CEEEEEEEecCCc------hhHHHHHHHHHhhCCCEEEE-eCcCCcHHHHHHHHHHcCCCcccCeEEEE
Confidence 9999999999 9999999999877 89999999999999999999 99999999999999999998765555544
Q ss_pred CchhhhhcccChhhhhhccceEEEEeecCC-CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
+.........+. +...|.+...++... .+|..++|+++|+++|+.. ..++...-.+|.+|+++++|++++
T Consensus 225 ~~~E~E~~~~g~---~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~------~v~s~~~eaaY~~v~l~a~Av~~a 295 (363)
T PF13433_consen 225 STSEAELAAMGA---EAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDD------RVTSDPMEAAYFQVHLWAQAVEKA 295 (363)
T ss_dssp S--HHHHTTS-H---HHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----------HHHHHHHHHHHHHHHHHHHH
T ss_pred ecCHHHHhhcCh---hhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCC------CCCCcHHHHHHHHHHHHHHHHHHh
Confidence 444433333332 466788877776554 4688999999999988642 245666777999999999999999
Q ss_pred cccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee-CCceEEE
Q 006683 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (635)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~-~~~~~~v 398 (635)
++ .+++.++++|...+|+.+.|.|++|...+.......|-+++ +|+|..|
T Consensus 296 gs--~d~~~vr~al~g~~~~aP~G~v~id~~n~H~~l~~rIg~~~~dG~f~Iv 346 (363)
T PF13433_consen 296 GS--DDPEAVREALAGQSFDAPQGRVRIDPDNHHTWLPPRIGRVNADGQFDIV 346 (363)
T ss_dssp TS----HHHHHHHHTT--EEETTEEEEE-TTTSBEEB--EEEEE-TTS-EEEE
T ss_pred CC--CCHHHHHHHhcCCeecCCCcceEEcCCCCeecccceEEEEcCCCCEEEE
Confidence 98 89999999999999999999999998433332445555554 3555444
No 75
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=1.1e-28 Score=252.88 Aligned_cols=320 Identities=15% Similarity=0.192 Sum_probs=254.7
Q ss_pred EEEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 35 TKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 35 i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
|+||++.|+|+ ..|.....|+++|++++|+.++ |++|++..+|+++++..+.+.+++++.+++|.+|||+.++..
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~ 80 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPT 80 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchh
Confidence 69999999994 4578899999999999999884 799999999999999999999999995469999999888877
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
+..+.+++...++|+|++++. ++.++...+|++||+.+++...+..+++++.+.+|+++++|+.++.+| +...+.+
T Consensus 81 ~~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~--~~~~~~~ 156 (336)
T cd06326 81 TAAALPLLEEAGVPLVGPFTG--ASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFG--KDGLAGV 156 (336)
T ss_pred HHHHHHHHHHcCCeEEEecCC--cHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcch--HHHHHHH
Confidence 777889999999999998766 555544456899999999999999999999999999999999988899 8889999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++... .++..+++++++.++|+|++ ..+...+..++++++++|+..+ ++....
T Consensus 157 ~~~~~~~G-~~~~~~~~~~~~~------~d~~~~~~~l~~~~~dav~~-~~~~~~a~~~i~~~~~~G~~~~---~~~~~~ 225 (336)
T cd06326 157 EKALAARG-LKPVATASYERNT------ADVAAAVAQLAAARPQAVIM-VGAYKAAAAFIRALRKAGGGAQ---FYNLSF 225 (336)
T ss_pred HHHHHHcC-CCeEEEEeecCCc------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHhcCCCCc---EEEEec
Confidence 99999999 8887776676544 57889999999889999999 8887789999999999999653 222222
Q ss_pred hhhhhcccChhhhhhccceEEEEee---cCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSY---YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
..... .........+|++..... .....|..++|.+.|++.+.. .+++.++..+||+++++++|++++
T Consensus 226 ~~~~~--~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------~~~~~~~~~~y~~~~~~~~a~~~~ 296 (336)
T cd06326 226 VGADA--LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-------APPSYVSLEGYIAAKVLVEALRRA 296 (336)
T ss_pred cCHHH--HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-------CCCCeeeehhHHHHHHHHHHHHHc
Confidence 11110 001112345676643321 112246778888888877631 246677889999999999999998
Q ss_pred cccCCChHHHHHHHHcCccccee-eeEEEeCCCC
Q 006683 347 NYNISSPEMLLRQMLSSDFSGLS-GKIRFKDGEL 379 (635)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~~-G~v~F~~~g~ 379 (635)
+.+ .+++.|+++|++++..+.. +.++|++..+
T Consensus 297 g~~-~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 297 GPD-PTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred CCC-CCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 763 6899999999997664444 4999986433
No 76
>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=4.1e-30 Score=263.53 Aligned_cols=354 Identities=20% Similarity=0.250 Sum_probs=288.0
Q ss_pred CCCeEEEEEEeeCC-----CcCcHHHHHHHHHHHHhHhcCC---CCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEE
Q 006683 31 IEEVTKIGAIVDAN-----SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVI 101 (635)
Q Consensus 31 ~~~~i~IG~i~p~s-----~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~ai 101 (635)
+..+.++++++|+. ...|+....|+++|++++|+.+ ||+.|++...|++|++..+.++..+++.. .....+
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 35678899999987 2567889999999999999998 89999999999999999999999998843 344577
Q ss_pred EcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCC
Q 006683 102 AGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG 180 (635)
Q Consensus 102 iG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g 180 (635)
+|+ |++.+..++.-+..++.-+++++++ +|.|++ +.||++||++|+........+.++++++|++|+.++....--
T Consensus 118 l~G-Cs~v~~~iaea~~~w~l~~lsy~~s--sp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f 194 (865)
T KOG1055|consen 118 LGG-CSSVTTLIAEAAKMWNLIVLSYGAS--SPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVF 194 (865)
T ss_pred ccC-CCCcchHHHhhccccceeeecccCC--CccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhh
Confidence 777 9999999999999999999999999 999998 689999999999999999999999999999999999888644
Q ss_pred CCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCC
Q 006683 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (635)
Q Consensus 181 ~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (635)
..-.+.+...+.+.+ ++++....+-. |....+++++...+|+|+- ..+...++.+++++...+|.|.
T Consensus 195 --~~~~~dl~~~~~~~~-ieiv~~qsf~~---------dp~~~vk~l~~~D~RiI~g-~f~~~~Arkv~C~~Y~~~myg~ 261 (865)
T KOG1055|consen 195 --SSTLNDLEARLKEAG-IEIVFRQSFSS---------DPADSVKNLKRQDARIIVG-LFYETEARKVFCEAYKERLYGR 261 (865)
T ss_pred --cchHHHHHHhhhccc-cEEEEeecccc---------CHHHHHhhccccchhheec-cchHhhhhHHHHhhchhhcccc
Confidence 566888999999999 99998775543 3567889999999999999 9999999999999999999999
Q ss_pred CeEEEeeCchhhhhcc-cC-------hhhhhhccceEEEEeecCC-------CCchhHHHHHHHHHhhccCCCCCCCCCC
Q 006683 261 DSVWIVTNTVANALDS-LN-------TTVISSMEGTLGIKSYYSD-------DSSPYKEFSALFRRNFTSEYPEEDHFHP 325 (635)
Q Consensus 261 ~~~~i~~~~~~~~~~~-~~-------~~~~~~~~g~~~~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 325 (635)
.|+|+........++. .. .+...+++|.+.+....-+ .....++|+..+.+......+ ....
T Consensus 262 ky~w~~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~---~~~~ 338 (865)
T KOG1055|consen 262 KYVWFLIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPE---ETGG 338 (865)
T ss_pred eeEEEEEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccc---cccC
Confidence 9999998765544331 11 2344566776665442211 112245566665544332111 2345
Q ss_pred cchhhhHhhHHHHHHHHHHhhccc---------------CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEe
Q 006683 326 SIHALRAHDSIKIITEAIGRLNYN---------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (635)
Q Consensus 326 ~~~~~~~yDav~~~a~Al~~~~~~---------------~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~ 390 (635)
...+.++||+++++|+|++++... ..-...+.+++++++|+|++|.|.|+. |+|. .-..|-|+
T Consensus 339 ~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ieQ~ 416 (865)
T KOG1055|consen 339 FQEAPLAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIEQF 416 (865)
T ss_pred cccCchHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHHHH
Confidence 667889999999999999987431 122568899999999999999999998 9986 77889999
Q ss_pred eCCceEEEEeecCCC
Q 006683 391 VGKKYKELDFWLPNF 405 (635)
Q Consensus 391 ~~~~~~~vG~w~~~~ 405 (635)
++|+.+++|+++...
T Consensus 417 qdg~y~k~g~Yds~~ 431 (865)
T KOG1055|consen 417 QDGKYKKIGYYDSTK 431 (865)
T ss_pred hCCceEeeccccccc
Confidence 999999999998764
No 77
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=9.5e-29 Score=251.91 Aligned_cols=303 Identities=17% Similarity=0.194 Sum_probs=242.4
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
|||+++|+++ ..|.....|+++|++++| |++++++++|+++ |..+...+.+|+ .++|.+||||.+|..+.+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in----G~~i~l~~~D~~~-~~~a~~~~~~li-~~~V~~iiG~~~s~~~~a 74 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN----GASIELRVYDTAG-AAGAAAAARQAV-AEGADIIVGPLLKENVAA 74 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc----CCCceEEEEeCCC-cccHHHHHHHHH-HcCCCEEEccCCHHHHHH
Confidence 6999999995 468888999999999999 6889999999999 999999999999 469999999999998888
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 192 (635)
+++++...+||+|++++. .. +.. .|++||+.+++..++.++++++...|++++++++.+++|| +...+.+++.
T Consensus 75 ~~~~~~~~~ip~i~~~~~--~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g--~~~~~~f~~~ 147 (336)
T cd06339 75 LAAAAAELGVPVLALNND--ES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYG--QRVADAFRQA 147 (336)
T ss_pred HHhhhccCCCCEEEccCC--cc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHH--HHHHHHHHHH
Confidence 989999999999997755 33 322 5899999999999999999999888999999999999999 9999999999
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc---------------------CceEEEEecCChh-HHHHHHH
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---------------------QSRVFIVLQASLD-MTIHLFT 250 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---------------------~~~vii~~~~~~~-~~~~~l~ 250 (635)
+++.| ++|+....++.+. .|++.+++++++. ++|+|++ .+.+. ++..+.+
T Consensus 148 ~~~~G-~~vv~~~~~~~~~------~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~-~~~~~~~~~~~~~ 219 (336)
T cd06339 148 WQQLG-GTVVAIESYDPSP------TDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDA-VALPDGEARLIKP 219 (336)
T ss_pred HHHcC-CceeeeEecCCCH------HHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEE-EecChhhhhhhcc
Confidence 99999 9999888888765 7899999999987 9999998 77775 7777777
Q ss_pred HHHHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCC-cchh
Q 006683 251 EANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHA 329 (635)
Q Consensus 251 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~ 329 (635)
++...+.......+++++.+.... ... ......+|++....... ...+|.++|+++|. ..| +.++
T Consensus 220 ~~~~~~~~~~~~~~~g~~~~~~~~-~~~-~~g~~~~g~~~~~~~~~----~~~~f~~~y~~~~~--------~~p~~~~~ 285 (336)
T cd06339 220 QLLFYYGVPGDVPLYGTSRWYSGT-PAP-LRDPDLNGAWFADPPWL----LDANFELRYRAAYG--------WPPLSRLA 285 (336)
T ss_pred hhhhhccCcCCCCEEEeccccCCC-CCc-ccCcccCCcEEeCCCcc----cCcchhhhHHHHhc--------CCCCchHH
Confidence 777665411123667776655321 111 11235677665443111 23378888888874 356 7899
Q ss_pred hhHhhHHHHHHHHHHhhcccCCChHHHHHHHHc-CcccceeeeEEEeCCCCCC
Q 006683 330 LRAHDSIKIITEAIGRLNYNISSPEMLLRQMLS-SDFSGLSGKIRFKDGELLN 381 (635)
Q Consensus 330 ~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~-~~f~g~~G~v~F~~~g~~~ 381 (635)
+.+||++.+++.++++.+. +. +|.+ ..|+|++|+++|+++|+..
T Consensus 286 a~~YDa~~l~~~~~~~~~~---~~-----al~~~~~~~g~~G~~~f~~~g~~~ 330 (336)
T cd06339 286 ALGYDAYALAAALAQLGQG---DA-----ALTPGAGFSGVTGVLRLDPDGVIE 330 (336)
T ss_pred HHHHhHHHHHHHHHHcccc---cc-----ccCCCCccccCcceEEECCCCeEE
Confidence 9999999999988887654 22 3333 4799999999999988753
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=8e-28 Score=243.46 Aligned_cols=300 Identities=14% Similarity=0.129 Sum_probs=230.7
Q ss_pred cHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEE
Q 006683 48 GKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPIL 125 (635)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~I 125 (635)
+.....|+++|+++||..+| |++|+++..|. ++|..+++.+.+|+ +++|.+|+|+.+|.++.++.+++...++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li-~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALL-AQGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHH-HCCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 45678999999999999874 78999999985 68999999999999 6789999999999999999999999999999
Q ss_pred eecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEE
Q 006683 126 SFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSR 204 (635)
Q Consensus 126 s~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~ 204 (635)
+++++ ++.++. .++||+||+.|++..++.++++++...+.+++++|+.+++|| +.+.+.+++.+++.| ++|+..
T Consensus 88 ~~~a~--~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g--~~~~~~~~~~~~~~G-~~vv~~ 162 (347)
T TIGR03863 88 NAGAP--DDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPAD--ALYADAFRRSAKRFG-AKIVAE 162 (347)
T ss_pred eCCCC--ChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCccc--HHHHHHHHHHHHHCC-CEEEEe
Confidence 99988 888886 578999999999999999999999777999999999999999 999999999999999 999998
Q ss_pred eeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchhhhhcccChhhhhh
Q 006683 205 LVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISS 284 (635)
Q Consensus 205 ~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 284 (635)
+.++.... +..+++.......+.+++|+|++ .....+....+... .+. . ...+ .
T Consensus 163 ~~~~~~~~--~~~~d~s~~~~~~~~s~pDvv~~-~~~~~~~~~~~~~~--~~~-~--~~~~------------------g 216 (347)
T TIGR03863 163 RPFTFSGD--PRRTDQSEVPLFTQGADYDVVVV-ADEAGEFARYLPYA--TWL-P--RPVA------------------G 216 (347)
T ss_pred EEeccCCc--hhhhhcccCceeecCCCCCEEEE-ecchhhHhhhcccc--ccc-c--cccc------------------c
Confidence 88876431 11134443223333479999998 65544332211100 000 0 0000 1
Q ss_pred ccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcccCCChHHHHHHHHcCc
Q 006683 285 MEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSD 364 (635)
Q Consensus 285 ~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~ 364 (635)
..|+.....+.....|..++|.++|+++|. ..|+..++.+||++++++.|++++++ .++++|.++|++.+
T Consensus 217 ~~G~~~~~~~~~~~~~~~~~f~~~f~~~~g--------~~p~~~~a~aY~av~~~a~Ai~~AGs--~d~~aV~~aL~~~~ 286 (347)
T TIGR03863 217 SAGLVPTAWHRAWERWGATQLQSRFEKLAG--------RPMTELDYAAWLAVRAVGEAVTRTRS--ADPATLRDYLLSDE 286 (347)
T ss_pred ccCccccccCCcccchhHHHHHHHHHHHhC--------CCCChHHHHHHHHHHHHHHHHHHhcC--CCHHHHHHHHcCCC
Confidence 122221122222233568899999999884 35667789999999999999999998 89999999999977
Q ss_pred c--cceee-eEEEeC-CCCCCCCcEEEEEee
Q 006683 365 F--SGLSG-KIRFKD-GELLNADTLRIVNVV 391 (635)
Q Consensus 365 f--~g~~G-~v~F~~-~g~~~~~~~~i~~~~ 391 (635)
+ .+..| +++|++ +|+.. ..+.+.+.+
T Consensus 287 ~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~~~ 316 (347)
T TIGR03863 287 FELAGFKGRPLSFRPWDGQLR-QPVLLVHPR 316 (347)
T ss_pred ceecccCCCcceeeCCCcccc-cceEecccc
Confidence 6 57777 799996 55554 555555553
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=3.7e-27 Score=241.87 Aligned_cols=328 Identities=14% Similarity=0.126 Sum_probs=255.5
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCC--CeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+++ ..|.....|+++|++++|..++ |++++++++|+++++..+.+.+.+|+.+++|.+|||+.++...
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~~ 80 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAGG 80 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccch
Confidence 6999999993 6789999999999999999884 7999999999999999999999999966699999999888766
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-CCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~ 189 (635)
..+ +.+...++|+|++.+. ++.+.. .|+.|++.+++..++..+++++...+.+++++++.++. +| +...+.+
T Consensus 81 ~~~-~~~~~~~ip~v~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g--~~~~~~~ 153 (341)
T cd06341 81 SAL-PYLAGAGIPVIGGAGT--SAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAV--SAAAALL 153 (341)
T ss_pred hHH-HHHhhcCCceecCCCC--Cchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHH--HHHHHHH
Confidence 655 8888999999998766 555443 57889999999999999999999889999999987765 88 8889999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++... .|+..+++++++.++|+|++ ..+...+..++++++++|+..+.. ......
T Consensus 154 ~~~~~~~G-~~v~~~~~~~~~~------~d~~~~~~~i~~~~pdaV~~-~~~~~~a~~~~~~~~~~G~~~~~~-~~~~~~ 224 (341)
T cd06341 154 ARSLAAAG-VSVAGIVVITATA------PDPTPQAQQAAAAGADAIIT-VLDAAVCASVLKAVRAAGLTPKVV-LSGTCY 224 (341)
T ss_pred HHHHHHcC-CccccccccCCCC------CCHHHHHHHHHhcCCCEEEE-ecChHHHHHHHHHHHHcCCCCCEE-EecCCC
Confidence 99999999 9888766666543 56889999999999999999 888889999999999999977522 111111
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCC--CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (635)
...... ...+..+|++....+.+. ..|..++|.+.++ +|..++ +..++.++..+||+++++++|+++++
T Consensus 225 ~~~~~~----~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~-~~~~~~----~~~~~~~~~~~yda~~~~~~a~~~ag 295 (341)
T cd06341 225 DPALLA----APGPALAGVYIAVFYRPFESGTPAVALYLAAMA-RYAPQL----DPPEQGFALIGYIAADLFLRGLSGAG 295 (341)
T ss_pred CHHHHH----hcCcccCceEEEeeeccccCCCHHHHHHHHHHH-HhCCCC----CCCcchHHHHHHHHHHHHHHHHHhcC
Confidence 111111 122457888777665543 4577777776554 343222 23577889999999999999999998
Q ss_pred ccCCChHH-HHHHHHcCcccceee---eEEEeCCCCCCCCcEEEEE
Q 006683 348 YNISSPEM-LLRQMLSSDFSGLSG---KIRFKDGELLNADTLRIVN 389 (635)
Q Consensus 348 ~~~~~~~~-l~~~l~~~~f~g~~G---~v~F~~~g~~~~~~~~i~~ 389 (635)
.+ .+++. ++++|++++.....| .+++..++.+....+..+|
T Consensus 296 ~~-~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 340 (341)
T cd06341 296 GC-PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGRPSTCYSFVQ 340 (341)
T ss_pred CC-CChHHHHHHHhhcCCCCCCCCcccCccCccCCCCCchhhhhee
Confidence 73 57787 999999986544334 4444455555445555444
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=9.9e-27 Score=234.09 Aligned_cols=224 Identities=28% Similarity=0.456 Sum_probs=203.9
Q ss_pred EEEEEeeCCC-----cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc----CCeEEEEcCCC
Q 006683 36 KIGAIVDANS-----QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK----EKVKVIAGMET 106 (635)
Q Consensus 36 ~IG~i~p~s~-----~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~----~~v~aiiG~~~ 106 (635)
+||++++.+. ..+.....++..+++++|...+++++++.++|+++++..+...+.+++.. .++.+|+||.+
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~~~ 80 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINNDLPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGPSS 80 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhccCCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECCCC
Confidence 4899999874 35667888999999999987778999999999999999999999999865 69999999999
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~ 185 (635)
+..+.+++++++.+++|+|+++++ ++.+++ ..+|+++|+.|++..++.++++++++++|++++++|+++++| ...
T Consensus 81 s~~~~~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~--~~~ 156 (298)
T cd06269 81 SSSAEAVASLLGALHIPQISYSAT--SPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYG--RRL 156 (298)
T ss_pred chHHHHHHHHhccCCCcEEecccC--chhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhh--HHH
Confidence 999999999999999999999988 788876 578999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
.+.+++.+++.| +++.....++... .++...++++++.++++|+. ++..+++..+++++.++|+. ..++||
T Consensus 157 ~~~~~~~~~~~~-~~v~~~~~~~~~~------~~~~~~l~~l~~~~~~viv~-~~~~~~~~~~l~~a~~~g~~-~~~~~i 227 (298)
T cd06269 157 LELLEEELEKNG-ICVAFVESIPDGS------EDIRRLLKELKSSTARVIVV-FSSEEDALRLLEEAVELGMM-TGYHWI 227 (298)
T ss_pred HHHHHHHHHHCC-eeEEEEEEcCCCH------HHHHHHHHHHHhcCCcEEEE-EechHHHHHHHHHHHHcCCC-CCeEEE
Confidence 999999999989 9999888777654 67999999999999999999 88889999999999999998 779999
Q ss_pred eeCchhh
Q 006683 266 VTNTVAN 272 (635)
Q Consensus 266 ~~~~~~~ 272 (635)
+++.+..
T Consensus 228 ~~~~~~~ 234 (298)
T cd06269 228 ITDLWLT 234 (298)
T ss_pred EEChhhc
Confidence 9998764
No 81
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.95 E-value=9.6e-26 Score=226.94 Aligned_cols=284 Identities=24% Similarity=0.380 Sum_probs=228.9
Q ss_pred EEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||+++|+++ ..+.....|+++|++++|+.+ .|++++++++|+++++..+.+.+.+++.+.+|.+|||+.++..+
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~~ 80 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGVA 80 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 6999999994 568899999999999999987 47999999999999999999999999955599999999998888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCC-CCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
..+++++...+||+|++.+. .+.+.+ ..+|++|++.|++..++..+++++++++|+++++++.++.++ ....+.+
T Consensus 81 ~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~--~~~~~~~ 156 (299)
T cd04509 81 LAVAPVAEALKIPLISPGAT--APGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYG--RGLLEAF 156 (299)
T ss_pred HHHHHHHhhCCceEEeccCC--CcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHH--HHHHHHH
Confidence 88999999999999999877 666654 468999999999999999999999999999999999999888 8889999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| +++.....++... .++...++++++.++++|++ .++...+..+++++.+.|+. +.+.|+..+.
T Consensus 157 ~~~~~~~g-~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~v~~-~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~ 227 (299)
T cd04509 157 KAAFKKKG-GTVVGEEYYPLGT------TDFTSLLQKLKAAKPDVIVL-CGSGEDAATILKQAAEAGLT-GGYPILGITL 227 (299)
T ss_pred HHHHHHcC-CEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cccchHHHHHHHHHHHcCCC-CCCcEEeccc
Confidence 99999999 9988766665543 46888999998888999999 88889999999999999998 6689998877
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHH
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 338 (635)
+...... ....+..+|.++...+.+........+...+.+.+.... +..++.++..+||++++
T Consensus 228 ~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 228 GLSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY----EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ccCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh----CCCCChhhhhhcceeee
Confidence 6543221 122355678887776655443222333221111111111 24577889999999887
No 82
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.95 E-value=3.8e-25 Score=224.02 Aligned_cols=279 Identities=21% Similarity=0.261 Sum_probs=222.8
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
|||+++|+| +..|.....|+++|++++|+ + +|+++++++.|+++++..+.+.+.+++.+++|.+|||+.++..+
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~~ 79 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPAT 79 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHHH
Confidence 699999999 45678899999999999999 6 58999999999999999999999999966799999999888777
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
..+.+.+...++|+|++... ++.+. ..++|+||+.|++...+..+++++.+.||++|++++.++.+| +...+.++
T Consensus 80 ~~~~~~~~~~~vP~v~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~--~~~~~~~~ 154 (312)
T cd06333 80 MAVAPVAEEAKTPMISLAPA--AAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYG--ESGLKELK 154 (312)
T ss_pred HHHHHHHHhcCCCEEEccCC--ccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHH--HHHHHHHH
Confidence 78888999999999998766 44333 446899999999999999999999999999999999988888 88889999
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+.+++.| +++.....++... .++...+.++++.++|+|++ ..+...+..+++++++.|+..+ ++.+...
T Consensus 155 ~~~~~~G-~~v~~~~~~~~~~------~d~~~~~~~l~~~~pdaIi~-~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~ 223 (312)
T cd06333 155 ALAPKYG-IEVVADERYGRTD------TSVTAQLLKIRAARPDAVLI-WGSGTPAALPAKNLRERGYKGP---IYQTHGV 223 (312)
T ss_pred HHHHHcC-CEEEEEEeeCCCC------cCHHHHHHHHHhCCCCEEEE-ecCCcHHHHHHHHHHHcCCCCC---EEeecCc
Confidence 9999999 9988776666544 46888899998888999999 8777778889999999998764 3333322
Q ss_pred hhhhcccChhhhhhccceEEEEee------cCC---CCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHH
Q 006683 271 ANALDSLNTTVISSMEGTLGIKSY------YSD---DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIIT 340 (635)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~------~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a 340 (635)
.. .... .......+|++....+ .+. ..+..++|.++|+++|.. ..|..++..+||++++++
T Consensus 224 ~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~-------~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 224 AS-PDFL-RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA-------GSVSTFGGHAYDALLLLA 293 (312)
T ss_pred Cc-HHHH-HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC-------CCCCchhHHHHHHHHHHH
Confidence 11 1110 1112455777654321 122 135688999999988842 126778999999999998
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=99.92 E-value=2.8e-23 Score=208.86 Aligned_cols=279 Identities=24% Similarity=0.372 Sum_probs=227.6
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCC--CCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+||+++|++ +..+.+...|++.|++++|+.+ +|++++++++|+++++..+.+.+++++ ++++.+|||+.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~-~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELV-DDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHH-hCCceEEEcCCcchhH
Confidence 589999998 4678899999999999999987 479999999999999999999999999 6799999999988888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCC-CeEEEEEEEcCCCCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~-w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
..+.+.+...+||+|++.+. .+.+.+..+|++|++.|++..++..++++++..+ |+++++++.+++++ ....+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~--~~~~~~~ 155 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGAT--SPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYG--RGLAAAF 155 (298)
T ss_pred HhhHHHHHhCCCcEEccCCC--CcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchh--HHHHHHH
Confidence 88899999999999999877 5555444579999999999999999999998887 99999999998888 8889999
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
++.+++.| ++++....++... .++...++++++.++++|++ .++...+..+++++++.|+. ..|+..+.
T Consensus 156 ~~~~~~~g-~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~---~~~~~~~~ 224 (298)
T cd06268 156 REALKKLG-GEVVAEETYPPGA------TDFSPLIAKLKAAGPDAVFL-AGYGGDAALFLKQAREAGLK---VPIVGGDG 224 (298)
T ss_pred HHHHHHcC-CEEEEEeccCCCC------ccHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCC---CcEEecCc
Confidence 99999999 9988776665443 46888999999888999999 88888999999999999983 36777766
Q ss_pred hhhhhcccChhhhhhccceEEEEeecCCC-CchhHHHH-HHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHH
Q 006683 270 VANALDSLNTTVISSMEGTLGIKSYYSDD-SSPYKEFS-ALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIIT 340 (635)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a 340 (635)
+...... .......+|++...++.+.. .+....|. +.|++.+ +..++.++..+||++++++
T Consensus 225 ~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 225 AAAPALL--ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--------GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred cCCHHHH--HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--------CCCcccchHHHHHHHHHHc
Confidence 5432111 11224567777776654433 23344454 6666665 2467889999999999987
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=99.91 E-value=1.6e-22 Score=196.77 Aligned_cols=322 Identities=14% Similarity=0.106 Sum_probs=236.2
Q ss_pred cHHHHHHHHHHHHhHhcCC--CCeEEEE----------EEecCCC--CHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHH
Q 006683 48 GKQAITAMKIAVQNFNSDS--RNHKLSL----------QIRDHNR--DPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (635)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~--~g~~l~~----------~~~D~~~--~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~ 112 (635)
-..+..|++.|++.+++.. .|.++.+ ...+.+| +.-++++...+|... +.-.+++||.|+..+.+
T Consensus 17 ~~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 17 LKFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 4577889999999887765 5766666 5555433 345677777877753 56789999999999999
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH------HHCCCeEEEEEEEcCCCCCC-cch
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA------RKYNWRRVAAIYEDNVYGGD-SGK 185 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l------~~~~w~~vaii~~~~~~g~~-~~~ 185 (635)
++.....+++|+||.++. .-+... .+++-|+.|+....+..+.++. ++++|++.. ||.++....| --.
T Consensus 97 ~~~~~~~~~~P~ISaGsf--glscd~--k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~ 171 (380)
T cd06369 97 MVDDEFNLSLPIISAGSF--GLSCDY--KENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWY 171 (380)
T ss_pred hhhhhhcCCCceEecccc--ccCCCc--hhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeE
Confidence 999999999999999977 443333 3589999999999999999999 489997555 8887742100 123
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
++++....+..+ ..+.+.+..+.. +++.++++..++ +.||||+ ++.+++.+.++.+ ++..++|++|
T Consensus 172 i~al~a~~~~f~-~~~~~~~~l~~~-------~~~~~il~~~~~-~sRIiIm-CG~p~~ir~lm~~----~~~~gDYVf~ 237 (380)
T cd06369 172 INALEAGVAYFS-SALKFKELLRTE-------EELQKLLTDKNR-KSNVIIM-CGTPEDIVNLKGD----RAVAEDIVII 237 (380)
T ss_pred hHhhhhhhhhhh-hcccceeeecCc-------hhHHHHHHHhcc-CccEEEE-eCCHHHHHHHHhc----CccCCCEEEE
Confidence 566666555555 455544433321 568888888774 7899999 9999999999886 4444679999
Q ss_pred eeCchhhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCc-chhhhHhhHHHHHHHHHH
Q 006683 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPS-IHALRAHDSIKIITEAIG 344 (635)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~-~~~~~~yDav~~~a~Al~ 344 (635)
..+.+..... .+....++++.++.++...++. +..++ . .+. +.+.. .+++..||||+++|+||+
T Consensus 238 ~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~~-~~~~~-------~----~~f--n~~l~~~~aa~fyDaVLLYa~AL~ 302 (380)
T cd06369 238 LIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRNS-TNNSS-------F----TTD--NSLLKDDYVAAYHDGVLLFGHVLK 302 (380)
T ss_pred EEecccchhc-cCcchHHHHhceEEEecCCCCC-ccccc-------C----CCC--CcchHHHHHHHHHHHHHHHHHHHH
Confidence 9887754332 1223446788888888765543 22222 0 000 11222 789999999999999999
Q ss_pred hhccc--CCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEee--CCceEEEEeecCC
Q 006683 345 RLNYN--ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV--GKKYKELDFWLPN 404 (635)
Q Consensus 345 ~~~~~--~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~--~~~~~~vG~w~~~ 404 (635)
+.... ...+..+.+.++|.+|+|++|+|++|++|+|. ..|.++.+. .+++++||+|+..
T Consensus 303 EtL~~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd-~dfsLl~ms~~tg~y~vV~~y~t~ 365 (380)
T cd06369 303 KFLESQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDRD-VNFTLLYTSTDTSKYKVLFEFDTS 365 (380)
T ss_pred HHHHhCCCCCcHHHHHHHhCcceecCCCceEeCCCCCcc-CceEEEEeeCCCCCeEEEEEEECC
Confidence 98652 13348899999999999999999999999996 899998884 4899999999874
No 85
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=99.63 E-value=7.5e-14 Score=137.45 Aligned_cols=216 Identities=22% Similarity=0.378 Sum_probs=174.5
Q ss_pred EEEEEeeCC--CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
+||+++|.+ ...+.....+++.+++++ |..+++.++|+++++....+.+.++. ..++.++|++.++.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~ 74 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-----GRGLEVILADSQSDPERALEALRDLI-QQGVDGIIGPPSSSSALAV 74 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-----CCceEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEecCCCHHHHHH
Confidence 589999987 556677788888888887 35688899999999988888888888 6789999998887666657
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC-CCCCCcchHHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGKLALLAEA 192 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~-~~g~~~~~~~~~~~~ 192 (635)
...+...++|+|+.... .+... .+++++++.|++...+..+++++.+.+|+++++++.+. ..+ ....+.+++.
T Consensus 75 ~~~~~~~~ip~v~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~--~~~~~~~~~~ 148 (269)
T cd01391 75 VELAAAAGIPVVSLDAT--APDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYG--RERLEGFKAA 148 (269)
T ss_pred HHHHHHcCCcEEEecCC--CCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchh--hHHHHHHHHH
Confidence 88889999999999877 44443 56889999999999999999999999999999999887 566 7778899999
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc-CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
+++.| .++......+... + .++....+.+++. ++++|++ .++ ..+..+++++.+.|+.++++.|++.+.+.
T Consensus 149 ~~~~~-~~~~~~~~~~~~~---~--~~~~~~~~~l~~~~~~~~i~~-~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 149 LKKAG-IEVVAIEYGDLDT---E--KGFQALLQLLKAAPKPDAIFA-CND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred HHhcC-cEEEeccccCCCc---c--ccHHHHHHHHhcCCCCCEEEE-cCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 99998 7776544333221 1 3566777777766 7899988 666 88999999999999985567777776654
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.43 E-value=3.8e-13 Score=134.27 Aligned_cols=110 Identities=16% Similarity=0.216 Sum_probs=88.4
Q ss_pred CCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHH----HCCC-cccEEEecCCCChhhHHHHH
Q 006683 450 SNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVD----HLNY-DLPYEFVPHDGVYDDLINGV 524 (635)
Q Consensus 450 ~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~----~l~~-~~~~~~~~~~~~~~~~~~~l 524 (635)
.+.++|+||+. +.|+||.+.+++| +++||++||+++||+ ++|. .+++++++. +|..++..|
T Consensus 37 ~~~g~L~Vg~~--~~~pP~~f~~~~g----------~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~--~~~~~i~~L 102 (302)
T PRK10797 37 AKNGVIVVGHR--ESSVPFSYYDNQQ----------KVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI--TSQNRIPLL 102 (302)
T ss_pred HhCCeEEEEEc--CCCCCcceECCCC----------CEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc--ChHhHHHHH
Confidence 45788999995 4678999976555 799999998877766 5653 244666663 378899999
Q ss_pred HcCcccEEEecccccccccccccccccceeeeeEEEEeCCCCCCcceee
Q 006683 525 YDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFT 573 (635)
Q Consensus 525 ~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~l 573 (635)
.+|++||+++++++|++|.+.++||.||+.++.++++++++....+..|
T Consensus 103 ~~G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~i~sl~dL 151 (302)
T PRK10797 103 QNGTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADL 151 (302)
T ss_pred HCCCccEEecCCccCcchhhcceecccEeeccEEEEEECCCCCCChHHc
Confidence 9999999999999999999999999999999999999987644333333
No 87
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.39 E-value=2e-11 Score=129.95 Aligned_cols=312 Identities=12% Similarity=0.157 Sum_probs=168.4
Q ss_pred CeEEEEEEeeCCCc---CcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 33 EVTKIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 33 ~~i~IG~i~p~s~~---~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
.+-+|++++|+|+. .|..+..|+..|.. .. .+...++.++|+..++. .....+.+ .+++.+||||..-+.
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~~---~~-~~~~~~l~~~Dt~~~~~--~~~~~~a~-~~ga~~ViGPL~k~~ 290 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAYY---AD-ADSRPELRFYDTNADSA--DALYQQAV-ADGADFVIGPLLKSN 290 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH-------TT--S-EEEEETTTS-H--HHHHHHHH-HTT--EEE---SHHH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhhc---cc-ccCCCceEEecCCCCCH--HHHHHHHH-HcCCCEEEcCCCHHH
Confidence 45789999999964 35677777777771 11 23467788899876633 23355555 789999999999887
Q ss_pred HHHHHHhhc--cCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHH
Q 006683 110 TAVVAEIAS--RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (635)
Q Consensus 110 ~~~v~~~~~--~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~ 187 (635)
...++..-. ...||++..... +.. .. -+.+|...-+.+.++..+++.+..-|.++..||+.++++| +.+.+
T Consensus 291 V~~l~~~~~~~~~~vp~LaLN~~--~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g--~R~~~ 363 (536)
T PF04348_consen 291 VEALAQLPQLQAQPVPVLALNQP--DNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWG--QRMAE 363 (536)
T ss_dssp HHHHHH-GG-GGTT-EEEES-----TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHH--HHHHH
T ss_pred HHHHHhcCcccccCCceeeccCC--Ccc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHH--HHHHH
Confidence 777765543 248999988766 332 11 2344555555577889999999999999999999999999 99999
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
+|.+...+.| ..+.....+... .++...++.-...+.|.|++ .+.+.+++.+--...-. .....+.+.+
T Consensus 364 aF~~~W~~~g-g~~~~~~~~~~~-------~~~~~~i~~r~r~d~D~ifl-~a~~~~ar~ikP~l~~~--~a~~lPvyat 432 (536)
T PF04348_consen 364 AFNQQWQALG-GQVAEVSYYGSP-------ADLQAAIQPRRRQDIDAIFL-VANPEQARLIKPQLDFH--FAGDLPVYAT 432 (536)
T ss_dssp HHHHHHHHHH-SS--EEEEESST-------THHHHHHHHS--TT--EEEE----HHHHHHHHHHHTT---T-TT-EEEE-
T ss_pred HHHHHHHHcC-CCceeeEecCCH-------HHHHHHHhhcCCCCCCEEEE-eCCHHHHHHHhhhcccc--cCCCCCEEEe
Confidence 9999999998 777666666532 46888888666678999999 99999998887666543 2223344444
Q ss_pred Cch-hhhhcccChhhhhhccceEEEEeecCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 006683 268 NTV-ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (635)
Q Consensus 268 ~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (635)
+.. ... .+......++|+.+.....--. + .......+...+... ........+++|||..++.+- .
T Consensus 433 S~~~~g~---~~~~~~~dL~gv~f~d~Pwll~-~-~~~~~~~~~~~~~~~-----~~~~~RL~AlG~DA~~L~~~l-~-- 499 (536)
T PF04348_consen 433 SRSYSGS---PNPSQDRDLNGVRFSDMPWLLD-P-NSPLRQQLAALWPNA-----SNSLQRLYALGIDAYRLAPRL-P-- 499 (536)
T ss_dssp GGG--HH---T-HHHHHHTTT-EEEE-GGGG-----SHHHHHHH-HHTTT------HHHHHHHHHHHHHHHHHHTH-H--
T ss_pred ccccCCC---CCcchhhhhcCCEEeccccccC-C-CchHHHHHHhhccCC-----ccHHHHHHHHHHHHHHHHHHH-H--
Confidence 433 221 1233346788988766432211 0 111222333332110 011223467888887775321 1
Q ss_pred cccCCChHHHHHHHHcCcccceeeeEEEeCCCCCCCCcEEEEEeeC
Q 006683 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG 392 (635)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~~G~v~F~~~g~~~~~~~~i~~~~~ 392 (635)
-++.+....+.|.||.+++|++|.. ...+...++++
T Consensus 500 ---------~l~~~~~~~~~G~TG~L~~~~~g~i-~R~l~wa~f~~ 535 (536)
T PF04348_consen 500 ---------QLRQFPGYRLDGLTGQLSLDEDGRI-ERQLSWAQFRN 535 (536)
T ss_dssp ---------HHHHSTT--EEETTEEEEE-TT-BE-EEE-EEEEEET
T ss_pred ---------HHhhCCCCcccCCceeEEECCCCeE-EEeecceeecC
Confidence 1222333578999999999998865 36666666654
No 88
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.38 E-value=1.4e-12 Score=127.55 Aligned_cols=108 Identities=16% Similarity=0.295 Sum_probs=89.0
Q ss_pred CCCCCCEEEEecCCCCccceEEeec-CCCCCCCCCCCccccceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHc
Q 006683 449 PSNQEPMRIGVPTRTFFEKFVVIKD-DPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYD 526 (635)
Q Consensus 449 ~~~~~~l~v~~~~~~~~~p~~~~~~-~~~~~~~g~~~~~~~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~ 526 (635)
....++|+||+.. +++||.+.+. +| +++||++||++++|+++ |..+++++.+. +|...+.+|.+
T Consensus 34 i~~~g~l~vg~~~--~~pP~~~~~~~~g----------~~~G~~vdl~~~ia~~llg~~~~~~~~~~--~~~~~~~~l~~ 99 (259)
T PRK11917 34 IKSKGQLIVGVKN--DVPHYALLDQATG----------EIKGFEIDVAKLLAKSILGDDKKIKLVAV--NAKTRGPLLDN 99 (259)
T ss_pred HHhCCEEEEEECC--CCCCceeeeCCCC----------ceeEeeHHHHHHHHHHhcCCCccEEEEEc--ChhhHHHHHHC
Confidence 4567899999954 6789998653 44 89999999999999995 76544555442 26778899999
Q ss_pred CcccEEEecccccccccccccccccceeeeeEEEEeCCCCCCcc
Q 006683 527 KTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTW 570 (635)
Q Consensus 527 g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~ 570 (635)
|++|++++++++|++|++.++||.||+.++..++++++++....
T Consensus 100 g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~~~s~ 143 (259)
T PRK11917 100 GSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKNYKSL 143 (259)
T ss_pred CCccEEEecccCChhhhheeeeccCceeeceEEEEECCCCCCCH
Confidence 99999999999999999999999999999999999987654333
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.37 E-value=1.8e-12 Score=127.30 Aligned_cols=101 Identities=21% Similarity=0.324 Sum_probs=89.4
Q ss_pred CCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCccc
Q 006683 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (635)
Q Consensus 451 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D 530 (635)
...+|+|++. +.|+||.+.+++| ++.|+++||++++|+++|.+++++..+ |+.++.++..|++|
T Consensus 24 ~~~~l~v~~~--~~~pPf~~~~~~g----------~~~G~~vdl~~~ia~~lg~~~~~~~~~----~~~~~~~l~~g~~D 87 (260)
T PRK15010 24 LPETVRIGTD--TTYAPFSSKDAKG----------DFVGFDIDLGNEMCKRMQVKCTWVASD----FDALIPSLKAKKID 87 (260)
T ss_pred cCCeEEEEec--CCcCCceeECCCC----------CEEeeeHHHHHHHHHHhCCceEEEeCC----HHHHHHHHHCCCCC
Confidence 3578999984 3578999976666 899999999999999999998777554 99999999999999
Q ss_pred EEEecccccccccccccccccceeeeeEEEEeCCCCC
Q 006683 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (635)
Q Consensus 531 ~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~ 567 (635)
++++++..|++|++.++||.||+.+..+++++++.+.
T Consensus 88 i~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~ 124 (260)
T PRK15010 88 AIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPI 124 (260)
T ss_pred EEEecCcCCHHHHhhcccccceEeccEEEEEECCCCC
Confidence 9999999999999999999999999999999987643
No 90
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.35 E-value=2.8e-12 Score=125.86 Aligned_cols=102 Identities=22% Similarity=0.349 Sum_probs=90.4
Q ss_pred CCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcc
Q 006683 450 SNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTY 529 (635)
Q Consensus 450 ~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~ 529 (635)
.....|+|++. +.++||.+.+++| ++.|+++|+++++++++|.+++++..| |+.++.++.+|++
T Consensus 23 a~~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~vdi~~~ia~~lg~~i~~~~~p----w~~~~~~l~~g~~ 86 (259)
T PRK15437 23 AIPQNIRIGTD--PTYAPFESKNSQG----------ELVGFDIDLAKELCKRINTQCTFVENP----LDALIPSLKAKKI 86 (259)
T ss_pred ccCCeEEEEeC--CCCCCcceeCCCC----------CEEeeeHHHHHHHHHHcCCceEEEeCC----HHHHHHHHHCCCC
Confidence 34578999984 4578999877666 899999999999999999998887665 9999999999999
Q ss_pred cEEEecccccccccccccccccceeeeeEEEEeCCCCC
Q 006683 530 DAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (635)
Q Consensus 530 D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~ 567 (635)
|+++++++.|++|++.++||.||+.++..++++++.+.
T Consensus 87 D~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~ 124 (259)
T PRK15437 87 DAIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDI 124 (259)
T ss_pred CEEEecCCCCHHHhhhccccchhhcCceEEEEECCCCC
Confidence 99999999999999999999999999999999987653
No 91
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.34 E-value=3.1e-12 Score=124.62 Aligned_cols=99 Identities=23% Similarity=0.461 Sum_probs=86.8
Q ss_pred CCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCccc
Q 006683 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (635)
Q Consensus 451 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D 530 (635)
..++|+|++. +.|+||.+.+ ++ ++.||++||++++++++|.+++++..+ |.+++..+.+|++|
T Consensus 23 ~~~~l~v~~~--~~~~P~~~~~-~g----------~~~G~~vdl~~~ia~~lg~~~~~~~~~----~~~~~~~l~~G~vD 85 (247)
T PRK09495 23 ADKKLVVATD--TAFVPFEFKQ-GD----------KYVGFDIDLWAAIAKELKLDYTLKPMD----FSGIIPALQTKNVD 85 (247)
T ss_pred cCCeEEEEeC--CCCCCeeecC-CC----------ceEEEeHHHHHHHHHHhCCceEEEeCC----HHHHHHHHhCCCcC
Confidence 4578999984 4578998853 44 789999999999999999997776544 99999999999999
Q ss_pred EEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 531 ~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+++++++.+++|++.++||.||+.+++.++++++..
T Consensus 86 i~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~ 121 (247)
T PRK09495 86 LALAGITITDERKKAIDFSDGYYKSGLLVMVKANNN 121 (247)
T ss_pred EEEecCccCHHHHhhccccchheecceEEEEECCCC
Confidence 998889999999999999999999999999987754
No 92
>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=99.31 E-value=4.1e-12 Score=121.84 Aligned_cols=94 Identities=23% Similarity=0.510 Sum_probs=85.2
Q ss_pred EEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEe
Q 006683 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (635)
Q Consensus 455 l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 534 (635)
||||+.. .++||.+.++++ ++.|+++|+++++++++|++++++..+ |.+++.+|.+|++|++++
T Consensus 1 l~V~~~~--~~~P~~~~~~~~----------~~~G~~~dl~~~i~~~~g~~~~~~~~~----~~~~~~~l~~g~~D~~~~ 64 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDEDG----------EPSGIDVDLLRAIAKRLGIKIEFVPMP----WSRLLEMLENGKADIIIG 64 (225)
T ss_dssp EEEEEES--EBTTTBEEETTS----------EEESHHHHHHHHHHHHHTCEEEEEEEE----GGGHHHHHHTTSSSEEES
T ss_pred CEEEEcC--CCCCeEEECCCC----------CEEEEhHHHHHHHHhhcccccceeecc----cccccccccccccccccc
Confidence 6899943 578999988776 899999999999999999998887765 999999999999999999
Q ss_pred cccccccccccccccccceeeeeEEEEeCC
Q 006683 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (635)
Q Consensus 535 ~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~ 564 (635)
+++.+++|.+.++||.||+....++++++.
T Consensus 65 ~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~ 94 (225)
T PF00497_consen 65 GLSITPERAKKFDFSDPYYSSPYVLVVRKG 94 (225)
T ss_dssp SEB-BHHHHTTEEEESESEEEEEEEEEETT
T ss_pred cccccccccccccccccccchhheeeeccc
Confidence 999999999999999999999999999975
No 93
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.28 E-value=1e-11 Score=120.77 Aligned_cols=97 Identities=19% Similarity=0.350 Sum_probs=85.6
Q ss_pred CCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccE
Q 006683 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDA 531 (635)
Q Consensus 452 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~ 531 (635)
.++|+|++. +.++||.+.+.+| +++|+++|+++++++++|++++++..+ |+.++..+.+|++|+
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~~~~----~~~~~~~l~~g~~D~ 83 (243)
T PRK15007 20 AETIRFATE--ASYPPFESIDANN----------QIVGFDVDLAQALCKEIDATCTFSNQA----FDSLIPSLKFRRVEA 83 (243)
T ss_pred CCcEEEEeC--CCCCCceeeCCCC----------CEEeeeHHHHHHHHHHhCCcEEEEeCC----HHHHhHHHhCCCcCE
Confidence 568999995 3578999877655 899999999999999999998776544 999999999999999
Q ss_pred EEecccccccccccccccccceeeeeEEEEeCC
Q 006683 532 AVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (635)
Q Consensus 532 ~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~ 564 (635)
++++++.+++|++.++||.||+..+..++.++.
T Consensus 84 ~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~ 116 (243)
T PRK15007 84 VMAGMDITPEREKQVLFTTPYYDNSALFVGQQG 116 (243)
T ss_pred EEEcCccCHHHhcccceecCccccceEEEEeCC
Confidence 888899999999999999999999888887765
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=99.27 E-value=1.1e-11 Score=122.80 Aligned_cols=101 Identities=23% Similarity=0.302 Sum_probs=88.7
Q ss_pred CCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCc-ccEEEecCCCChhhHHHHHHcC
Q 006683 449 PSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYD-LPYEFVPHDGVYDDLINGVYDK 527 (635)
Q Consensus 449 ~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~-~~~~~~~~~~~~~~~~~~l~~g 527 (635)
....++|+|++. .++||.+.+.+| ++.||++||++++++++|++ ++++..+ |+.++..+.+|
T Consensus 29 i~~~~~l~v~~~---~~pP~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~~~~~----w~~~~~~l~~G 91 (275)
T TIGR02995 29 LKEQGFARIAIA---NEPPFTYVGADG----------KVSGAAPDVARAIFKRLGIADVNASITE----YGALIPGLQAG 91 (275)
T ss_pred HHhCCcEEEEcc---CCCCceeECCCC----------ceecchHHHHHHHHHHhCCCceeeccCC----HHHHHHHHHCC
Confidence 445788999985 367999877666 78999999999999999986 5566555 99999999999
Q ss_pred cccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 528 TYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 528 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
++|+++.++++|++|++.++||.||+.++.+++++++++
T Consensus 92 ~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~ 130 (275)
T TIGR02995 92 RFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNP 130 (275)
T ss_pred CcCEEeecccCCHHHHhccccccceeecceeEEEECCCC
Confidence 999988889999999999999999999999999998764
No 95
>PRK11260 cystine transporter subunit; Provisional
Probab=99.24 E-value=2.5e-11 Score=119.54 Aligned_cols=101 Identities=20% Similarity=0.419 Sum_probs=88.6
Q ss_pred CCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCc
Q 006683 449 PSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKT 528 (635)
Q Consensus 449 ~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~ 528 (635)
....++|+|++.. .++||.+.+++| ++.||.+|+++++++++|.+++++..+ |.+++.+|.+|+
T Consensus 37 i~~~~~l~v~~~~--~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~e~~~~~----~~~~~~~l~~G~ 100 (266)
T PRK11260 37 VKERGTLLVGLEG--TYPPFSFQGEDG----------KLTGFEVEFAEALAKHLGVKASLKPTK----WDGMLASLDSKR 100 (266)
T ss_pred hhcCCeEEEEeCC--CcCCceEECCCC----------CEEEehHHHHHHHHHHHCCeEEEEeCC----HHHHHHHHhcCC
Confidence 3457899999853 578998876555 789999999999999999997776654 999999999999
Q ss_pred ccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 529 YDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 529 ~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+|+++++++.+++|.+.+.||.||+..+.++++++..
T Consensus 101 ~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~ 137 (266)
T PRK11260 101 IDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGN 137 (266)
T ss_pred CCEEEeccccCHHHHhccccCCceeecceEEEEEcCC
Confidence 9999888999999999999999999999999998764
No 96
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.23 E-value=2.3e-11 Score=118.84 Aligned_cols=105 Identities=21% Similarity=0.388 Sum_probs=90.4
Q ss_pred ccccCCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHH
Q 006683 445 GWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGV 524 (635)
Q Consensus 445 ~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l 524 (635)
..+.... ++|+|++. ..++||.+.+++| +++||++|+++++++++|++++++..+ |..++.++
T Consensus 17 ~~~~~~~-~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~~~~----~~~~~~~l 79 (250)
T TIGR01096 17 TAAAAKE-GSVRIGTE--TGYPPFESKDANG----------KLVGFDVDLAKALCKRMKAKCKFVEQN----FDGLIPSL 79 (250)
T ss_pred hHHHhhC-CeEEEEEC--CCCCCceEECCCC----------CEEeehHHHHHHHHHHhCCeEEEEeCC----HHHHHHHH
Confidence 3444444 78999994 4678999876665 889999999999999999997776544 99999999
Q ss_pred HcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 525 YDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 525 ~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+|++|+++++++.+++|.+.+.||.||+..+..++++++.+
T Consensus 80 ~~G~~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~ 121 (250)
T TIGR01096 80 KAKKVDAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSD 121 (250)
T ss_pred hCCCcCEEEecCccCHHHhhccccccchhcCCeEEEEECCCC
Confidence 999999998888899999999999999999999999988764
No 97
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.22 E-value=2.6e-11 Score=117.74 Aligned_cols=89 Identities=17% Similarity=0.294 Sum_probs=75.3
Q ss_pred CEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHH---HHHHcCccc
Q 006683 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLI---NGVYDKTYD 530 (635)
Q Consensus 454 ~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~---~~l~~g~~D 530 (635)
+||||+ .+.|+||.+. ++ .||++||+++||+++|++++++..+ |++++ ..|.+|++|
T Consensus 1 ~l~vg~--~~~~pPf~~~--~~------------~Gfdvdl~~~ia~~lg~~~~~~~~~----~~~~~~~~~~L~~g~~D 60 (246)
T TIGR03870 1 TLRVCA--ATKEAPYSTK--DG------------SGFENKIAAALAAAMGRKVVFVWLA----KPAIYLVRDGLDKKLCD 60 (246)
T ss_pred CeEEEe--CCCCCCCccC--CC------------CcchHHHHHHHHHHhCCCeEEEEec----cchhhHHHHHHhcCCcc
Confidence 478999 5578999984 22 5999999999999999997777555 77766 699999999
Q ss_pred EEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 531 ~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+++ +++++++| ++||.||+.++.++++++++.
T Consensus 61 ii~-~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~ 92 (246)
T TIGR03870 61 VVL-GLDTGDPR---VLTTKPYYRSSYVFLTRKDRN 92 (246)
T ss_pred EEE-eCCCChHH---HhcccCcEEeeeEEEEeCCCC
Confidence 987 58888877 789999999999999998764
No 98
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=99.17 E-value=1.4e-11 Score=88.98 Aligned_cols=57 Identities=30% Similarity=0.638 Sum_probs=44.5
Q ss_pred ceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecC--------CCChhhHHHHHHc
Q 006683 467 KFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH--------DGVYDDLINGVYD 526 (635)
Q Consensus 467 p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~--------~~~~~~~~~~l~~ 526 (635)
||++.++++.. ..| +.+++|||+||+++||+.+||+|+++.+++ +|+|+||+++|.+
T Consensus 1 Pfvm~~~~~~~-~~g--~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGEN-LTG--NDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSG-SBG--GGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcc-cCC--CccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 67787766321 233 779999999999999999999999999885 6899999999874
No 99
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.15 E-value=8.6e-11 Score=125.09 Aligned_cols=105 Identities=18% Similarity=0.228 Sum_probs=87.1
Q ss_pred CccccCCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHH
Q 006683 444 KGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLING 523 (635)
Q Consensus 444 ~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~ 523 (635)
..+......++|||++.. .|+.+...++ ...||++||++++++++|++++++..+ +|+.++.+
T Consensus 34 ~~l~~I~~~g~LrVg~~~----~P~~~~~~~~----------~~~G~~~DLl~~ia~~LGv~~e~v~~~---~~~~ll~a 96 (482)
T PRK10859 34 NQLEQIQERGELRVGTIN----SPLTYYIGND----------GPTGFEYELAKRFADYLGVKLEIKVRD---NISQLFDA 96 (482)
T ss_pred ccHHHHHhCCEEEEEEec----CCCeeEecCC----------CcccHHHHHHHHHHHHhCCcEEEEecC---CHHHHHHH
Confidence 344445567899999964 2444444333 359999999999999999997776443 49999999
Q ss_pred HHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 524 l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
|.+|++|++++++++|++|++.++||.||+..+.+++++++.
T Consensus 97 L~~G~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~ 138 (482)
T PRK10859 97 LDKGKADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ 138 (482)
T ss_pred HhCCCCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCC
Confidence 999999999899999999999999999999999999998865
No 100
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=98.96 E-value=1.5e-09 Score=106.99 Aligned_cols=96 Identities=13% Similarity=0.212 Sum_probs=81.2
Q ss_pred CCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCccc
Q 006683 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (635)
Q Consensus 452 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D 530 (635)
..+|++++. .||||.+.+.++ ...|+..++++++++++ +++++++..| |++++.++ .|+.|
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~~~----------~~~G~~~~i~~~i~~~~~~~~~~~~~~p----w~r~l~~l-~~~~d 78 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSGPS----------KGRGVFDVILQEIRRALPQYEHRFVRVS----FARSLKEL-QGKGG 78 (268)
T ss_pred cceeEEEec---ccCCeeEeCCCC----------CCCChHHHHHHHHHHHcCCCceeEEECC----HHHHHHHH-hcCCC
Confidence 467888874 478998875444 67999999999999998 8888888777 99999999 78888
Q ss_pred EEEeccccccccccccccccccee-eeeEEEEeCCC
Q 006683 531 AAVGDLTILGNRTEYVEFTQPYAE-SGFSMIVPAKQ 565 (635)
Q Consensus 531 ~~~~~~~~~~~r~~~~~fs~p~~~-~~~~~~v~~~~ 565 (635)
+++.++++|+||++.++||.||+. ....+++++++
T Consensus 79 ~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~ 114 (268)
T TIGR02285 79 VCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKEL 114 (268)
T ss_pred eEEeeccCCcchhhceeecCCccccCCceEEEccch
Confidence 878789999999999999999975 57888888764
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.95 E-value=1.7e-09 Score=129.71 Aligned_cols=98 Identities=6% Similarity=0.128 Sum_probs=84.1
Q ss_pred CCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccE
Q 006683 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDA 531 (635)
Q Consensus 452 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~ 531 (635)
.++|+|++ .+.|+||.+.+++| ++.||++|++++|++++|++++++... +|..+...|.+|++|+
T Consensus 301 ~~~l~v~~--~~~~pP~~~~d~~g----------~~~G~~~Dll~~i~~~~g~~~~~v~~~---~~~~~~~~l~~g~~D~ 365 (1197)
T PRK09959 301 HPDLKVLE--NPYSPPYSMTDENG----------SVRGVMGDILNIITLQTGLNFSPITVS---HNIHAGTQLNPGGWDI 365 (1197)
T ss_pred CCceEEEc--CCCCCCeeEECCCC----------cEeeehHHHHHHHHHHHCCeEEEEecC---CHHHHHHHHHCCCceE
Confidence 45689998 56789999988766 899999999999999999985555443 4888899999999998
Q ss_pred EEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 532 AVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 532 ~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+ .+++.|++|++.++||.||+.++++++++++.
T Consensus 366 i-~~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~ 398 (1197)
T PRK09959 366 I-PGAIYSEDRENNVLFAEAFITTPYVFVMQKAP 398 (1197)
T ss_pred e-ecccCCccccccceeccccccCCEEEEEecCC
Confidence 5 45678999999999999999999999998764
No 102
>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=98.91 E-value=1e-07 Score=93.56 Aligned_cols=198 Identities=14% Similarity=0.128 Sum_probs=138.8
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.+ .........+++.+.++. | +++.+.++..++....+.+.+++ ..++.++|+...+.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~l~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~~~~~~~~~ 72 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA-----G--YQVLLANSQNDAEKQLSALENLI-ARGVDGIIIAPSDLTAPTIV 72 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc-----C--CeEEEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCcchhHH
Confidence 589999986 445567777777777772 2 56677888888877788888888 56888888766554444356
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+. .++++++.+++...+..+++++...+-++++++..+.. ++ ....+.+++.
T Consensus 73 ~~l~~~~ip~v~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~~~~~~~~~ 143 (264)
T cd01537 73 KLARKAGIPVVLVDRD--IPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTA--RERVAGFKDA 143 (264)
T ss_pred HHhhhcCCCEEEeccC--CCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcH--HHHHHHHHHH
Confidence 7788899999998766 332 24566788888899999999998888999999987655 44 5557788888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC--ceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.|...+........+. .+....++++.+.+ +++|++ ..+ ..+..+++++.+.|+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~i~~-~~~-~~a~~~~~~~~~~g~~ 203 (264)
T cd01537 144 LKEAGPIEIVLVQEGDWDA------EKGYQAAEELLTAHPDPTAIFA-AND-DMALGALRALREAGLR 203 (264)
T ss_pred HHHcCCcChhhhccCCCCH------HHHHHHHHHHHhcCCCCCEEEE-cCc-HHHHHHHHHHHHhCCC
Confidence 8766411222221111111 45566777776665 677776 443 4666788999999885
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=98.90 E-value=2.9e-09 Score=127.72 Aligned_cols=103 Identities=12% Similarity=0.134 Sum_probs=86.4
Q ss_pred CCCCCEEEEecCCCCccce-EEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCc
Q 006683 450 SNQEPMRIGVPTRTFFEKF-VVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKT 528 (635)
Q Consensus 450 ~~~~~l~v~~~~~~~~~p~-~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~ 528 (635)
...++|+||+.. .++|+ .+.+++| +++||++|++++|++++|++++++..+ +|++++.+|.+|+
T Consensus 53 ~~~~~l~vgv~~--~~~p~~~~~~~~g----------~~~G~~~D~l~~ia~~lG~~~e~v~~~---~~~~~l~~l~~g~ 117 (1197)
T PRK09959 53 ASKKNLVIAVHK--SQTATLLHTDSQQ----------RVRGINADYLNLLKRALNIKLTLREYA---DHQKAMDALEEGE 117 (1197)
T ss_pred hhCCeEEEEecC--CCCCCceeecCCC----------ccceecHHHHHHHHHhcCCceEEEeCC---CHHHHHHHHHcCC
Confidence 457789999953 44454 4434555 899999999999999999997666543 5999999999999
Q ss_pred ccEEEecccccccccccccccccceeeeeEEEEeCCCCC
Q 006683 529 YDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (635)
Q Consensus 529 ~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~ 567 (635)
+|++++.++.+++|.+.++||.||+.+..+++++++...
T Consensus 118 iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~~ 156 (1197)
T PRK09959 118 VDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDSM 156 (1197)
T ss_pred CcEecCccccccccccchhcCCCccCCCceEEEeCCCCC
Confidence 999988899999999999999999999999999876543
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=98.89 E-value=5.9e-09 Score=100.56 Aligned_cols=90 Identities=21% Similarity=0.331 Sum_probs=74.0
Q ss_pred CEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEE
Q 006683 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAV 533 (635)
Q Consensus 454 ~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~ 533 (635)
.|||++ ++.|+||.+ + +..||++||++++++++|.+++++..+. .+..++..+.+|++|+++
T Consensus 1 ~l~v~~--~~~~~P~~~----~----------~~~G~~~el~~~i~~~~g~~i~~~~~~~--~~~~~~~~l~~g~~Di~~ 62 (232)
T TIGR03871 1 ALRVCA--DPNNLPFSN----E----------KGEGFENKIAQLLADDLGLPLEYTWFPQ--RRGFVRNTLNAGRCDVVI 62 (232)
T ss_pred CeEEEe--CCCCCCccC----C----------CCCchHHHHHHHHHHHcCCceEEEecCc--chhhHHHHHhcCCccEEE
Confidence 378888 456789875 2 2369999999999999999988877662 144467799999999976
Q ss_pred ecccccccccccccccccceeeeeEEEEeCCC
Q 006683 534 GDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 534 ~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+ +++|.+.++||.||+..++++++++++
T Consensus 63 ~----~~~r~~~~~fs~py~~~~~~lv~~~~~ 90 (232)
T TIGR03871 63 G----VPAGYEMVLTTRPYYRSTYVFVTRKDS 90 (232)
T ss_pred e----ccCccccccccCCcEeeeEEEEEeCCC
Confidence 5 578999999999999999999999875
No 105
>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=98.88 E-value=3.1e-07 Score=90.48 Aligned_cols=206 Identities=14% Similarity=0.099 Sum_probs=138.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v 113 (635)
+||++.|.. .........+++.+.++.| +++.+.++..++....+.+.+++ ..++.++|+...+ ......
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g-------~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgvi~~~~~~~~~~~~ 72 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELG-------VELIVLDAQNDVSKQIQQIEDLI-AQGVDGIIISPVDSAALTPA 72 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcC-------ceEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCchhHHHH
Confidence 589999975 4556677788888877732 56666777778888788888887 5588888764333 333335
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC--CCCCcchHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~ 189 (635)
...+...++|+|..... .+. .+.+..+.+++...+..+++++... |-+++++++.+.. ++ ....+.+
T Consensus 73 ~~~l~~~~ip~V~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~r~~gf 143 (267)
T cd01536 73 LKKANAAGIPVVTVDSD--IDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNA--QERVKGF 143 (267)
T ss_pred HHHHHHCCCcEEEecCC--CCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchH--HHHHHHH
Confidence 55666789999988755 332 1334567788888888889988766 8899999987653 55 6667889
Q ss_pred HHHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC--ceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 190 ~~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
++.+++. | .++......... ..+..+.++++.+.. +++|++ ++...+..+++++++.|+. .+...++
T Consensus 144 ~~~~~~~~~-~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~i~~--~~d~~a~~~~~~l~~~g~~-~~i~ivg 213 (267)
T cd01536 144 RDALKEYPD-IEIVAVQDGNWD------REKALQAMEDLLQANPDIDAIFA--ANDSMALGAVAALKAAGRK-GDVKIVG 213 (267)
T ss_pred HHHHHhCCC-cEEEEEecCCCc------HHHHHHHHHHHHHhCCCccEEEE--ecCCchHHHHHHHHhcCCC-CCceEEe
Confidence 9998887 5 555433221111 134566777776544 555554 4446777799999999986 4444444
Q ss_pred eC
Q 006683 267 TN 268 (635)
Q Consensus 267 ~~ 268 (635)
.+
T Consensus 214 ~d 215 (267)
T cd01536 214 VD 215 (267)
T ss_pred cC
Confidence 43
No 106
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=98.86 E-value=6.3e-09 Score=103.18 Aligned_cols=116 Identities=21% Similarity=0.348 Sum_probs=92.4
Q ss_pred CCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcc--cEEEecCCCChhhHHHHHHcCc
Q 006683 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDL--PYEFVPHDGVYDDLINGVYDKT 528 (635)
Q Consensus 451 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~--~~~~~~~~~~~~~~~~~l~~g~ 528 (635)
..+.++|++... ..+||.+.+..+ | ++.||++|++++++++++... +++..+ |+++++.|..|+
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~-----~----~~~G~dvdl~~~ia~~l~~~~~~~~~~~~----~~~~~~~l~~g~ 97 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKG-----G----KLVGFDVDLAKAIAKRLGGDKKVEFVPVA----WDGLIPALKAGK 97 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCC-----C----eEEeeeHHHHHHHHHHhCCcceeEEeccc----hhhhhHHHhcCC
Confidence 457789998643 335898876551 2 899999999999999998863 344333 999999999999
Q ss_pred ccEEEecccccccccccccccccceeeeeEEEEeCCCCCC--cceeecCCCHhH
Q 006683 529 YDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES--TWMFTKPFTWEM 580 (635)
Q Consensus 529 ~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~--~~~~l~pf~~~~ 580 (635)
+|++++.+++|++|.+.++||.||+..+..+++++++... ....|+.....+
T Consensus 98 ~D~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~~~~~~DL~gk~v~v 151 (275)
T COG0834 98 VDIIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIGIKSLEDLKGKKVGV 151 (275)
T ss_pred cCEEEeccccCHHHhccccccccccccCeEEEEECCCCcCcCCHHHhCCCEEEE
Confidence 9999999999999999999999999999999998877653 445555443333
No 107
>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=98.79 E-value=1.9e-08 Score=95.28 Aligned_cols=98 Identities=21% Similarity=0.418 Sum_probs=85.3
Q ss_pred EEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEe
Q 006683 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (635)
Q Consensus 455 l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~ 534 (635)
|+|++.. .++||.+.+.+| ++.|+++|+++.+++++|++++++..+ |.+++.+|.+|++|+++.
T Consensus 1 l~i~~~~--~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~l~~g~~D~~~~ 64 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDANG----------ELTGFDVDLAKAIAKELGVKVKFVEVD----WDGLITALKSGKVDLIAA 64 (218)
T ss_pred CEEecCC--CCCCeeEECCCC----------CEEeeeHHHHHHHHHHhCCeEEEEeCC----HHHHHHHHhcCCcCEEee
Confidence 5788854 678999876555 899999999999999999886666555 999999999999999998
Q ss_pred cccccccccccccccccceeeeeEEEEeCCCCCC
Q 006683 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES 568 (635)
Q Consensus 535 ~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~ 568 (635)
....+++|.+.+.|+.|+...+.+++++++.+..
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (218)
T cd00134 65 GMTITPERAKQVDFSDPYYKSGQVILVKKGSPIK 98 (218)
T ss_pred cCcCCHHHHhhccCcccceeccEEEEEECCCCCC
Confidence 8788999999999999999999999999887654
No 108
>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=98.76 E-value=7.8e-07 Score=87.33 Aligned_cols=197 Identities=15% Similarity=0.149 Sum_probs=134.5
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||++.|.. .........+++.+.++. | +++.+.+...++....+.+.+++ ..++.+|+....+..... .
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~iii~~~~~~~~~-~ 71 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-----G--YSVLLCNSDEDPEKEREALELLL-SRRVDGIILAPSRLDDEL-L 71 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-----C--CEEEEEcCCCCHHHHHHHHHHHH-HcCcCEEEEecCCcchHH-H
Confidence 489999985 444556666766666653 2 44556777788888888888888 678888776555544444 6
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+. +.+..+.++....+..+++++...|.+++++++.+.. ++ ....+.+++.
T Consensus 72 ~~~~~~~ipvv~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~g~~~~ 141 (264)
T cd06267 72 EELAALGIPVVLVDRP--LDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTA--RERLEGYREA 141 (264)
T ss_pred HHHHHcCCCEEEeccc--ccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchH--HHHHHHHHHH
Confidence 6678899999998755 332 3445677888888888999998889999999987654 44 5566778888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC--ceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.+ ..+........... ..+....++++.+.+ +++|+. . +...+..+.+++++.|+.
T Consensus 142 ~~~~~-~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~i~~-~-~~~~a~~~~~al~~~g~~ 202 (264)
T cd06267 142 LEEAG-IPLDEELIVEGDFS----EESGYEAARELLASGERPTAIFA-A-NDLMAIGALRALRELGLR 202 (264)
T ss_pred HHHcC-CCCCcceEEecccc----hhhHHHHHHHHHhcCCCCcEEEE-c-CcHHHHHHHHHHHHhCCC
Confidence 88877 54332222222110 134556666666554 677776 4 445667888888998885
No 109
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=98.71 E-value=4.5e-08 Score=92.64 Aligned_cols=99 Identities=22% Similarity=0.466 Sum_probs=85.2
Q ss_pred CEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEE
Q 006683 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAV 533 (635)
Q Consensus 454 ~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~ 533 (635)
+|+|++. +.++||.+.+.++ .+.|+.+|+++.+.+++|+++++... .|..++.++.+|++|+++
T Consensus 1 ~l~v~~~--~~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~~~~~~~----~~~~~~~~l~~g~~D~~~ 64 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADEDG----------ELTGFDVDLAKAIAKELGLKVEFVEV----SFDNLLTALKSGKIDVVA 64 (219)
T ss_pred CEEEEec--CCCCCcEEECCCC----------CcccchHHHHHHHHHHhCCeEEEEec----cHHHHHHHHHCCcccEEe
Confidence 4789995 4678998877666 78999999999999999988666544 399999999999999999
Q ss_pred ecccccccccccccccccceeeeeEEEEeCCCCCC
Q 006683 534 GDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES 568 (635)
Q Consensus 534 ~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~~ 568 (635)
+....+.+|.+.+.|+.|+...+..++++++.+..
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (219)
T smart00062 65 AGMTITPERAKQVDFSDPYYKSGQVILVRKDSPIK 99 (219)
T ss_pred ccccCCHHHHhheeeccceeeceeEEEEecCCCCC
Confidence 88777889999999999999999999999887643
No 110
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.70 E-value=7.6e-07 Score=89.73 Aligned_cols=320 Identities=10% Similarity=0.081 Sum_probs=190.1
Q ss_pred CeEEEEEEeeCCC---cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 33 EVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 33 ~~i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
.+-+|++++|+++ ..+..+..||..|.. .+...++-..++.++|+...+.. .+......+++..|+||.--..
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~~~~~~~~~i~dT~~~~l~---~i~aqaqq~G~~~VVGPLlK~n 331 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQTAQVAELKIYDTSAQPLD---AILAQAQQDGADFVVGPLLKPN 331 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccCCccccceeeccCCcccHH---HHHHHHHhcCCcEEeccccchh
Confidence 4678999999995 456677778877755 23332333367888898877644 3344444799999999998877
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
...+...-. ..||++....+ .-++ ..+..+...-+.+.+++..++.+-.-|.+...++...+++| +..+++|
T Consensus 332 Ve~L~~~~q-~~i~vLALN~~----~n~r-~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG--~Rv~~AF 403 (604)
T COG3107 332 VEALLASNQ-QPIPVLALNQP----ENSR-NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLG--DRVANAF 403 (604)
T ss_pred HHHHHhCcC-CCCceeeecCC----cccc-CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHH--HHHHHHH
Confidence 776654432 67888876544 1122 23444445555566788899999999999999999999999 9999999
Q ss_pred HHHHhccCCeEEEEEeeeCCCC----------CC--CCchHHHHHH----HHhhhhcC-ceEEEEecCChhHHHHHHHHH
Q 006683 190 AEALQNVSSSEIQSRLVLPPIS----------SI--SDPKEAVRGE----LKKVQDKQ-SRVFIVLQASLDMTIHLFTEA 252 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~----------~~--~d~~~~~~~~----l~~l~~~~-~~vii~~~~~~~~~~~~l~~a 252 (635)
.++.++.| ...+....|.... .. ++...+.... -..+++.. .|.|++ ...+.+++.+--..
T Consensus 404 ~~~Wq~~g-g~~v~~~~fg~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyi-vAtp~el~~IKP~i 481 (604)
T COG3107 404 NQEWQKLG-GGTVLQQKFGSTSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYI-VATPSELALIKPMI 481 (604)
T ss_pred HHHHHHhc-CCchhHhhcCcHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEE-EecchhHhHHhhHH
Confidence 99999988 5333332222110 00 0000111100 01223334 789999 88888887775555
Q ss_pred HHcCCCCCCeEEEeeCchhhhhcccChhhhhhccceEEEEee--cCCCCchhHHHHHHHHHhhccCCCCCCCCCCcchhh
Q 006683 253 NRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSY--YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHAL 330 (635)
Q Consensus 253 ~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 330 (635)
.-.+.... -....++... .....++....++|+.+.... ...+.|.++.....|..
T Consensus 482 a~~~~~~~-~p~yaSSr~~--~gT~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~------------------- 539 (604)
T COG3107 482 AMANGSDS-PPLYASSRSS--QGTNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPN------------------- 539 (604)
T ss_pred HhhcCCCC-cceeeecccc--ccCCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCC-------------------
Confidence 43333221 1222332211 111223334567776543321 11223444444443321
Q ss_pred hHhhHHHHHHHHHHhhcccCCChHHHHHHHH---cC---cccceeeeEEEeCCCCCCCCcEEEEEeeCCceEEE
Q 006683 331 RAHDSIKIITEAIGRLNYNISSPEMLLRQML---SS---DFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKEL 398 (635)
Q Consensus 331 ~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~---~~---~f~g~~G~v~F~~~g~~~~~~~~i~~~~~~~~~~v 398 (635)
-|..+.++|..+ |.+.|..++. .+ ..+|+||.++.|+++... ..+.-.++++|..+++
T Consensus 540 -~~sl~RLyAmGv--------DAwrLan~f~elrqV~G~~i~G~TG~Lsad~~c~I~-R~l~Waqy~~G~vvP~ 603 (604)
T COG3107 540 -DYSLARLYAMGV--------DAWRLANHFSELRQVPGYQIDGLTGTLSADPDCVIE-RKLSWAQYQQGQVVPV 603 (604)
T ss_pred -chHHHHHHHhcc--------hHHHHHHHhHHhhcCCCcccccccceeecCCCceEe-ecchHHHhcCCCeeeC
Confidence 244555555443 3344433333 32 578999999999987764 6777777777777665
No 111
>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=98.68 E-value=2e-06 Score=85.44 Aligned_cols=201 Identities=13% Similarity=0.172 Sum_probs=136.0
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
|||++.|.+.........+++..+++.+-.. |.++++.+.|+..++......+.+++ ..++.+||+..++. .... .
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~-~~~vd~iI~~~~~~-~~~~-~ 76 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFKDGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFV-ADKPDLIVAIATPA-AQAA-A 76 (281)
T ss_pred CeEEecCCCCcchHHHHHHHHHHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCcHH-HHHH-H
Confidence 6899999776555666677776666655432 67899999999999988888888888 57899999855432 2222 2
Q ss_pred hhccCCccEEeecCCCCCCCCC----CCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC-CCCCcchHHH
Q 006683 116 IASRVQVPILSFAAPAVTPLSM----SRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLAL 188 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~----~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~-~g~~~~~~~~ 188 (635)
+...++|+|..+.. .+... ....+..+.+..++...+..+++++... |.+++++++.+.. ++ ....+.
T Consensus 77 -~~~~~iPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~--~~r~~g 151 (281)
T cd06325 77 -NATKDIPIVFTAVT--DPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANS--VVQVKE 151 (281)
T ss_pred -HcCCCCCEEEEecC--CccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccH--HHHHHH
Confidence 55679999988754 33211 1111122223445556677788888765 9999999986543 55 666788
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+++.+++.| +++.... . ... .++...++++.+ ++++|++ ..+ ..+..+++++.+.++
T Consensus 152 ~~~~~~~~g-~~~~~~~-~-~~~------~~~~~~~~~~~~-~~dai~~-~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 152 LKKAAAKLG-IEVVEAT-V-SSS------NDVQQAAQSLAG-KVDAIYV-PTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHHHhCC-CEEEEEe-c-CCH------HHHHHHHHHhcc-cCCEEEE-cCc-hhHHhHHHHHHHHHH
Confidence 999999999 8876532 1 111 456777777765 4688877 544 466677888888775
No 112
>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=2.9e-06 Score=83.95 Aligned_cols=202 Identities=14% Similarity=0.084 Sum_probs=134.3
Q ss_pred EEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHH
Q 006683 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v 113 (635)
|||++.|... .+-.....+++.+.++.-. .|+++++.+.|+..++....+...+++ ..++.+||....+ ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~--~g~~~~l~i~~~~~~~~~~~~~~~~~~-~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKK--AGLISEFIVTSADGDVAQQIADIRNLI-AQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhc--cCCeeEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChhhhHHH
Confidence 6899998653 3334555666666655311 246788899999989888888888888 6699888875443 223334
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcC--CCCCCcchHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDN--VYGGDSGKLALL 189 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~--~~g~~~~~~~~~ 189 (635)
...+...++|+|..... .+ . +.+.++.+++...+..++++|... +-++++++.... ..+ ....+.+
T Consensus 78 l~~~~~~~iPvv~~~~~--~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~R~~g~ 147 (272)
T cd06300 78 IEEACEAGIPVVSFDGT--VT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVD--EDRYAGA 147 (272)
T ss_pred HHHHHHCCCeEEEEecC--CC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcch--HHHHHHH
Confidence 55667789999988644 22 1 346678889989999999988665 788999997532 233 4556778
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC--ceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
++.+++.+.+.+.... .... ...+..+.++++.+++ +++|++ ..+. +..+++++++.|+..
T Consensus 148 ~~a~~~~~~~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~~~i~~-~~d~--A~g~~~al~~~g~~~ 210 (272)
T cd06300 148 KEVLKEYPGIKIVGEV--YGDW----DQAVAQKAVADFLASNPDVDGIWT-QGGD--AVGAVQAFEQAGRDI 210 (272)
T ss_pred HHHHHHCCCcEEEeec--CCCC----CHHHHHHHHHHHHHhCCCcCEEEe-cCCC--cHHHHHHHHHcCCCC
Confidence 8888776524443221 1111 1134556777776553 577666 4444 888999999999843
No 113
>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=98.61 E-value=1e-05 Score=80.20 Aligned_cols=210 Identities=10% Similarity=0.071 Sum_probs=131.1
Q ss_pred EEEEEeeC-CCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEE-EcCCChhhHHHH
Q 006683 36 KIGAIVDA-NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~-s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~ai-iG~~~s~~~~~v 113 (635)
|||++.|. +..+-.....+++.+.++. |+++.+...++..++....+...+++ ..++.++ +.|..+......
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~ 74 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL-----GVSVDIQAAPSEGDQQGQLSIAENMI-NKGYKGLLFSPISDVNLVPA 74 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh-----CCeEEEEccCCCCCHHHHHHHHHHHH-HhCCCEEEECCCChHHhHHH
Confidence 58999985 3444445556666666653 46677666677778777777777887 6678764 555544433444
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .. ....+ .+.+++...+..+++++... |.++++++........-....+.+++
T Consensus 75 ~~~~~~~~iPvV~~~~~--~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 75 VERAKKKGIPVVNVNDK--LI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHCCCeEEEECCC--CC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 56667889999987644 21 11112 35778888888899998655 88999999754332100344577899
Q ss_pred HHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
.+++. | +++..... ... ...+....++++.+. ++++|+. .+...+..+++.+++.|+. .+...++.+
T Consensus 147 ~~~~~~~-~~~~~~~~--~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~~-~di~vig~d 216 (275)
T cd06320 147 AIKKASG-IEVVASQP--ADW----DREKAYDVATTILQRNPDLKAIYC--NNDTMALGVVEAVKNAGKQ-GKVLVVGTD 216 (275)
T ss_pred HHhhCCC-cEEEEecC--CCc----cHHHHHHHHHHHHHhCCCccEEEE--CCchhHHHHHHHHHhcCCC-CCeEEEecC
Confidence 99998 8 77653221 111 013344556665543 3555543 5556677788889999986 334444444
Q ss_pred c
Q 006683 269 T 269 (635)
Q Consensus 269 ~ 269 (635)
.
T Consensus 217 ~ 217 (275)
T cd06320 217 G 217 (275)
T ss_pred C
Confidence 3
No 114
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.60 E-value=2.9e-05 Score=74.57 Aligned_cols=203 Identities=12% Similarity=0.146 Sum_probs=138.8
Q ss_pred CCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
.+.++||+....+.+.-.....|++-|+.+.-.. .+++.+...++|+..+.+.++++. .++.++|++ ..+..+.
T Consensus 28 ~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~G~~----n~~i~~~na~~~~~~a~~iarql~-~~~~dviv~-i~tp~Aq 101 (322)
T COG2984 28 ADQITVAITQFVEHPALDAAREGVKEALKDAGYK----NVKIDYQNAQGDLGTAAQIARQLV-GDKPDVIVA-IATPAAQ 101 (322)
T ss_pred ccceeEEEEEeecchhHHHHHHHHHHHHHhcCcc----CeEEEeecCCCChHHHHHHHHHhh-cCCCcEEEe-cCCHHHH
Confidence 3568899999988765566667777776665432 688888899999999999999998 666677776 4444455
Q ss_pred HHHHhhccCCccEEeecCCCCCCC---CCCC-CCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC-CCCCcc
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPL---SMSR-RWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSG 184 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~---l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~-~g~~~~ 184 (635)
.+..-. .++|+|-.+.+ ++. |.+. .-|----+.-+|..-...-.++++.. +.++++++|..+. .. ..
T Consensus 102 ~~~s~~--~~iPVV~aavt--d~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns--~~ 175 (322)
T COG2984 102 ALVSAT--KTIPVVFAAVT--DPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANS--VS 175 (322)
T ss_pred HHHHhc--CCCCEEEEccC--chhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCccc--HH
Confidence 544333 34999988776 443 2221 11222335666666566666777654 8899999998875 55 77
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhH---HHHHHHHHHHcCC
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM---TIHLFTEANRMGL 257 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~---~~~~l~~a~~~g~ 257 (635)
..+.+++.+++.| ++++... ++.. .|....++.+. .++|+|++ .++... ...++..+.+.+.
T Consensus 176 l~eelk~~A~~~G-l~vve~~-v~~~-------ndi~~a~~~l~-g~~d~i~~-p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 176 LVEELKKEARKAG-LEVVEAA-VTSV-------NDIPRAVQALL-GKVDVIYI-PTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHCC-CEEEEEe-cCcc-------cccHHHHHHhc-CCCcEEEE-ecchHHHHHHHHHHHHHHHhCC
Confidence 8899999999999 9887543 3332 34666666666 58899999 777643 3444556666554
No 115
>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=98.56 E-value=6.8e-06 Score=80.86 Aligned_cols=195 Identities=12% Similarity=0.159 Sum_probs=124.7
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ..+......+++.+.++. | +.+.+.++..++....+.+.+++ ..++.+||....+.......
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-----g--~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~~~~~~ 72 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-----G--YSLLLATTDYDAEREADAVETLL-RQRVDGLILTVADAATSPAL 72 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-----C--CEEEEeeCCCCHHHHHHHHHHHH-hcCCCEEEEecCCCCchHHH
Confidence 479999854 334445556666665542 3 44445566677777777777777 67888777543332223355
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC---CCCCCcchHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN---VYGGDSGKLALLAE 191 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~---~~g~~~~~~~~~~~ 191 (635)
..+...++|+|..... .. ..+++ +..++...+..++++|...|.++++++..+. +++ ....+.+++
T Consensus 73 ~~~~~~~ipvV~~~~~--~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~~ 141 (266)
T cd06282 73 DLLDAERVPYVLAYND--PQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRA--RQRYAGYRA 141 (266)
T ss_pred HHHhhCCCCEEEEecc--CC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchH--HHHHHHHHH
Confidence 6777889999987644 22 22344 3467778888999999888999999997432 244 556788899
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhh-hhc-CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV-QDK-QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l-~~~-~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
.+++.| +.+......+... .+....+.++ ++. .+++|+. ++...+..+++++++.|+.
T Consensus 142 ~l~~~~-~~~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~ 201 (266)
T cd06282 142 AMRAAG-LAPLPPVEIPFNT------AALPSALLALLTAHPAPTAIFC--SNDLLALAVIRALRRLGLR 201 (266)
T ss_pred HHHHcC-CCCCccccCCCcH------HHHHHHHHHHhcCCCCCCEEEE--CCcHHHHHHHHHHHHcCCC
Confidence 999888 6543322111111 2233444443 333 5677775 5666677899999999985
No 116
>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=98.48 E-value=2.8e-05 Score=76.58 Aligned_cols=206 Identities=11% Similarity=0.078 Sum_probs=127.3
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEE-EEcCCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~a-iiG~~~s~~~~~v 113 (635)
.||+++|.. ..+......+++.+.++. | +.+.+.++..++....+...+++ ..++.+ |+++..+......
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~-----g--~~v~~~~~~~~~~~~~~~~~~~~-~~~~dgii~~~~~~~~~~~~ 72 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL-----G--YELTVLDAQNDAAKQLNDIEDLI-TRGVDAIIINPTDSDAVVPA 72 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc-----C--ceEEecCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChHHHHHH
Confidence 378899853 445556667777777763 2 34456777778877777788877 567876 5555544433344
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC--CCCCcchHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~ 189 (635)
...+...++|+|..... .+. .+.+-.+..+....+..++++|.+. |-++++++..+.. .+ ....+.+
T Consensus 73 l~~l~~~~ipvv~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~--~~r~~g~ 143 (268)
T cd06323 73 VKAANEAGIPVFTIDRE--ANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAA--RERGKGF 143 (268)
T ss_pred HHHHHHCCCcEEEEccC--CCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccH--HHHHHHH
Confidence 45566789999988654 221 1223346667777788888988766 7789999986432 34 5556788
Q ss_pred HHHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 190 ~~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
++.+++. | +++......... ..+....+.++.+. ++++|+. .+...+..+++++++.|+ ++...++
T Consensus 144 ~~~l~~~~~-~~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~--~di~iig 212 (268)
T cd06323 144 HEVVDKYPG-LKVVASQPADFD------RAKGLNVMENILQAHPDIKGVFA--QNDEMALGAIEALKAAGK--DDVKVVG 212 (268)
T ss_pred HHHHHhCCC-cEEEecccCCCC------HHHHHHHHHHHHHHCCCcCEEEE--cCCchHHHHHHHHHHcCC--CCcEEEE
Confidence 8888884 7 665432111111 12233444444433 4566554 555566678889999998 3445555
Q ss_pred eCc
Q 006683 267 TNT 269 (635)
Q Consensus 267 ~~~ 269 (635)
.+.
T Consensus 213 ~d~ 215 (268)
T cd06323 213 FDG 215 (268)
T ss_pred eCC
Confidence 443
No 117
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.41 E-value=0.0001 Score=73.81 Aligned_cols=208 Identities=10% Similarity=0.112 Sum_probs=126.1
Q ss_pred eEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeE-EEEcCCChhhHH
Q 006683 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEETA 111 (635)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~-aiiG~~~s~~~~ 111 (635)
.-+||++.|.. ..+-.....+++.++++.+ +++.+.++..++....+...+++ ..++. +|+++..+....
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G-------~~~~~~~~~~d~~~~~~~~~~l~-~~~~dgiii~~~~~~~~~ 97 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLG-------YNLVVLDSQNNPAKELANVQDLT-VRGTKILLINPTDSDAVG 97 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcC-------CeEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChHHHH
Confidence 45899999853 4444566677777777633 44455677777877777777776 56676 455555444433
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-CC-eEEEEEEEcCC--CCCCcchHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNV--YGGDSGKLA 187 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-~w-~~vaii~~~~~--~g~~~~~~~ 187 (635)
.....+...++|+|..... .. . .+.+..+.+++...+..+++++... +. .+++++..+.. .. +...+
T Consensus 98 ~~l~~~~~~~ipvV~~~~~--~~---~--~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~--~~R~~ 168 (295)
T PRK10653 98 NAVKMANQANIPVITLDRG--AT---K--GEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAA--RERGE 168 (295)
T ss_pred HHHHHHHHCCCCEEEEccC--CC---C--CceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccH--HHHHH
Confidence 4556677789999988643 11 1 1233456677777778888887553 54 35666654322 22 45567
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
.+++.+++.| +.+.... .... ...+....++++.+. .+++|+. .+...+..+++++++.|+ .+...+
T Consensus 169 gf~~al~~~g-~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~l~al~~~G~--~dv~vi 237 (295)
T PRK10653 169 GFKQAVAAHK-FNVLASQ--PADF----DRTKGLNVMQNLLTAHPDVQAVFA--QNDEMALGALRALQTAGK--SDVMVV 237 (295)
T ss_pred HHHHHHhhCC-CEEEEec--CCCC----CHHHHHHHHHHHHHhCCCcCEEEE--CCChhHHHHHHHHHHcCC--CceEEE
Confidence 8999999999 7764221 1111 112334455556543 3566554 555566678999999998 244555
Q ss_pred eeCc
Q 006683 266 VTNT 269 (635)
Q Consensus 266 ~~~~ 269 (635)
+.+.
T Consensus 238 g~d~ 241 (295)
T PRK10653 238 GFDG 241 (295)
T ss_pred EeCC
Confidence 5443
No 118
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=98.41 E-value=2.7e-07 Score=88.94 Aligned_cols=103 Identities=16% Similarity=0.145 Sum_probs=84.7
Q ss_pred cCCCCCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcC
Q 006683 448 MPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK 527 (635)
Q Consensus 448 ~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g 527 (635)
-+...|+|||+|.++| ..+....+ .++|++.|+++++|+.||++.++...+ +-+.++.+|.+|
T Consensus 18 ~Iq~rGvLrV~tinsp----~sy~~~~~----------~p~G~eYelak~Fa~yLgV~Lki~~~~---n~dqLf~aL~ng 80 (473)
T COG4623 18 AIQARGVLRVSTINSP----LSYFEDKG----------GPTGLEYELAKAFADYLGVKLKIIPAD---NIDQLFDALDNG 80 (473)
T ss_pred HHHhcCeEEEEeecCc----cceeccCC----------CccchhHHHHHHHHHHhCCeEEEEecC---CHHHHHHHHhCC
Confidence 3456899999998764 33433333 578999999999999999885554443 378999999999
Q ss_pred cccEEEecccccccccccccccccceeeeeEEEEeCCCCC
Q 006683 528 TYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (635)
Q Consensus 528 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~ 567 (635)
++|++++++...++|.+.+-....|+..+..++.|+.+..
T Consensus 81 ~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R 120 (473)
T COG4623 81 NADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR 120 (473)
T ss_pred CcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC
Confidence 9999999999999999999999999999999998887643
No 119
>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=98.32 E-value=8.5e-05 Score=73.57 Aligned_cols=207 Identities=10% Similarity=0.048 Sum_probs=125.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEE-EcCCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~ai-iG~~~s~~~~~v 113 (635)
+||++.|.. ..+-.....+++.+.++. | +++.+.++..++....+...+++ ..++.++ +++..+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-----g--~~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 72 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-----G--YDAVELSAENSAKKELENLRTAI-DKGVSGIIISPTNSSAAVTL 72 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-----C--CeEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCCchhhhHHH
Confidence 488998864 333334445555554442 2 44456677788877777777877 5778766 455554444455
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC------CCeEEEEEEEcC--CCCCCcch
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDN--VYGGDSGK 185 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~------~w~~vaii~~~~--~~g~~~~~ 185 (635)
...+...++|+|..... . .+ ..++..+.++....+..++++|.+. |-++++++.... ..+ ...
T Consensus 73 l~~~~~~~ipvV~~~~~--~---~~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~--~~r 143 (277)
T cd06319 73 LKLAAQAKIPVVIADIG--A---EG--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNG--QKR 143 (277)
T ss_pred HHHHHHCCCCEEEEecC--C---CC--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccH--HHH
Confidence 66777889999986533 1 11 1234456677777677777776433 668999997543 234 566
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (635)
.+.+++.+++.| +.+.... ...+. + .......++++.++ .+++|+. .+...+..+++++++.|+. .+..
T Consensus 144 ~~gf~~~l~~~~-~~~~~~~-~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~-~di~ 214 (277)
T cd06319 144 TKGFKEAMKEAG-CDLAGIR-QQKDF---S-YQETFDYTNDLLTANPDIRAIWL--QGSDRYQGALDAIATAGKT-GKVL 214 (277)
T ss_pred HHHHHHHHHhcC-CceEeec-cCCCC---C-HHHHHHHHHHHHHhCCCCCEEEE--CCCccchHHHHHHHHcCCC-CCEE
Confidence 788999999998 7654221 11111 1 12333455555444 3456554 4444567889999999986 3344
Q ss_pred EEeeC
Q 006683 264 WIVTN 268 (635)
Q Consensus 264 ~i~~~ 268 (635)
.++.+
T Consensus 215 vvg~d 219 (277)
T cd06319 215 LICFD 219 (277)
T ss_pred EEEcC
Confidence 44443
No 120
>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=98.29 E-value=0.00013 Score=72.03 Aligned_cols=208 Identities=12% Similarity=0.073 Sum_probs=131.6
Q ss_pred EEEEEeeCC--CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEcCC-ChhhHH
Q 006683 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGME-TWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~-~~~~a~~~~~~li~~~~v~aiiG~~-~s~~~~ 111 (635)
|||++.|.. ..+......+++.+.++.| +.+ .+.++.. ++....+...+++ ..++.++|... ......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g-----~~v--~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~ 72 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLG-----VDV--EYRGPETFDVADMARLIEAAI-AAKPDGIVVTIPDPDALD 72 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhC-----CEE--EEECCCCCCHHHHHHHHHHHH-HhCCCEEEEeCCChHHhH
Confidence 689999864 4455667778888777743 444 4445444 7777777777777 66888777533 322233
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH-CCCeEEEEEEEcCC--CCCCcchHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~-~~w~~vaii~~~~~--~g~~~~~~~~ 188 (635)
.....+...++|+|..... .+... ..+.+..+..++...+..++++|.+ .|-++++++..+.. .+ ....+.
T Consensus 73 ~~l~~~~~~~ipvV~~~~~--~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~--~~r~~g 146 (271)
T cd06312 73 PAIKRAVAAGIPVISFNAG--DPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTL--EDRCAG 146 (271)
T ss_pred HHHHHHHHCCCeEEEeCCC--CCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccH--HHHHHH
Confidence 4445566789999988644 22211 1234556778888899999999988 89899999975332 33 456778
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
+++.++..+ +.+.. ..... +. .+....++++.+. ++++|+. .+...+..+++.+++.|+. .....++
T Consensus 147 ~~~~~~~~~-~~~~~---~~~~~---~~-~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~-~di~vvg 215 (271)
T cd06312 147 FADGLGGAG-ITEEV---IETGA---DP-TEVASRIAAYLRANPDVDAVLT--LGAPSAAPAAKALKQAGLK-GKVKLGG 215 (271)
T ss_pred HHHHHHhcC-ceeeE---eecCC---CH-HHHHHHHHHHHHhCCCccEEEE--eCCccchHHHHHHHhcCCC-CCeEEEE
Confidence 888888888 65432 11111 11 2334445554333 4677665 5566677888889999987 4444444
Q ss_pred eC
Q 006683 267 TN 268 (635)
Q Consensus 267 ~~ 268 (635)
.+
T Consensus 216 ~d 217 (271)
T cd06312 216 FD 217 (271)
T ss_pred ec
Confidence 43
No 121
>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=98.28 E-value=8.8e-05 Score=73.04 Aligned_cols=207 Identities=18% Similarity=0.199 Sum_probs=127.8
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||++.|.. ..+...+..+++.++++.| ..+.+.++..++....+.+..++ ..++.++|--.... .....
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~g-------~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~-~~~~~ 71 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAHG-------YTLLVASSGYDLDREYAQARKLL-ERGVDGLALIGLDH-SPALL 71 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHCC-------CEEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCC-CHHHH
Confidence 489999854 3444555666666666533 33445788888887777778887 55676555321111 22334
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC---CCCCCcchHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN---VYGGDSGKLALLAE 191 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~---~~g~~~~~~~~~~~ 191 (635)
..+...++|+|..... .+. ...++ +..++...+..+++++...|.+++++|.... .++ ....+.|.+
T Consensus 72 ~~l~~~~iPvv~~~~~--~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~~ 141 (268)
T cd06273 72 DLLARRGVPYVATWNY--SPD---SPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRA--RARRAGVRA 141 (268)
T ss_pred HHHHhCCCCEEEEcCC--CCC---CCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccH--HHHHHHHHH
Confidence 5667789999987644 221 12333 5578888889999998778999999997543 233 456778899
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~~~ 268 (635)
.+++.+ +.+.....+.... + ..+....++++.+ ..+++|++ ++...+..+++++++.|+..+ ....++.+
T Consensus 142 ~l~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~~~~~~l~~~g~~~p~~i~vig~d 214 (268)
T cd06273 142 ALAEAG-LELPELWQVEAPY---S-IADGRAALRQLLEQPPRPTAVIC--GNDVLALGALYEARRLGLSVPEDLSIVGFD 214 (268)
T ss_pred HHHHcC-CCCCHHHeeeCCC---c-HHHHHHHHHHHHcCCCCCCEEEE--cChHHHHHHHHHHHHcCCCCCCceEEEecC
Confidence 998887 6543222222111 0 1223345555543 35788775 566667788889999998533 33344433
No 122
>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=98.24 E-value=0.00014 Score=71.80 Aligned_cols=212 Identities=15% Similarity=0.121 Sum_probs=125.2
Q ss_pred EEEEEeeCC--CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHH
Q 006683 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~ 112 (635)
.||++.|.. ..+...+..+++.+.++. | +++.+.++..++....+....++ ..+++++|. +..+.....
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~-----g--~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~~~~~ 72 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED-----G--VEVIVLDANGDVARQAAQVEDLI-AQKVDGIILWPTDGQAYIP 72 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc-----C--CEEEEEcCCcCHHHHHHHHHHHH-HcCCCEEEEecCCccccHH
Confidence 378899863 455667777777777772 3 44555777778887777777777 667887754 433333334
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEE-EecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR-MASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r-~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
....+...++|+|..... . .....+++.. +.+++...+...++++.+. |-++++++.....+.......+.+
T Consensus 73 ~l~~~~~~~iPvV~~~~~--~---~~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 73 GLRKAKQAGIPVVITNSN--I---SEKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHCCCcEEEeCCC--C---CCCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 445567889999977644 2 1222344432 2345556667777776443 667999997644332003445778
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh---cCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~---~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
++.+++.| ..+.......... +. .+....++++.+ .++++|++ ++...+..+++++++.|+. .+...++
T Consensus 148 ~~~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~-~dv~v~g 219 (275)
T cd06317 148 EDELAEVC-PGVEVLDTQPADW---DR-EKAQVAMEALITKFGDDIDGVYA--GDDNMARGALNAAKEAGLA-GGIVIVG 219 (275)
T ss_pred HHHHHhhC-CCCEEEeccCCCC---CH-HHHHHHHHHHHHhCCCCccEEEE--CCCcHHHHHHHHHHhcCCc-CCcEEEE
Confidence 88888886 3332221111111 11 222233444332 24678776 4445578899999999987 3444444
Q ss_pred eC
Q 006683 267 TN 268 (635)
Q Consensus 267 ~~ 268 (635)
.+
T Consensus 220 ~d 221 (275)
T cd06317 220 AN 221 (275)
T ss_pred eC
Confidence 43
No 123
>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=98.23 E-value=0.00023 Score=70.27 Aligned_cols=211 Identities=13% Similarity=0.069 Sum_probs=127.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (635)
+||+++|.. ..+......+++.+.++. . | +++.+.++..++..-.+...+++ ..++.++| .+..+.....+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--~--~--~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 73 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL--G--G--VELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPVDTAATAPI 73 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc--C--C--cEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecCchhhhHHH
Confidence 589999864 333344555555555551 1 2 55566777778887777788877 66788665 45544434455
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC--CCCCcchHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~ 189 (635)
...+...++|+|..... .... .+.+..+..++...+..++++|... +-++++++..... .. ....+.+
T Consensus 74 ~~~l~~~~iPvv~~~~~--~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~--~~R~~gf 145 (272)
T cd06301 74 VKAANAAGIPLVYVNRR--PENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQ--IDRTKGV 145 (272)
T ss_pred HHHHHHCCCeEEEecCC--CCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccH--HHHHHHH
Confidence 56678899999987643 2211 1234457788888888888888554 4469999976433 22 3445778
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
++.+++.|.+.+... ..... +. ......++++.+. .+++|++ .+...+..+++.+++.|+.+++...++.
T Consensus 146 ~~~l~~~~~~~~~~~--~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~~di~ivg~ 217 (272)
T cd06301 146 EEVLAKYPDIKVVEE--QTANW---SR-AEAMDLMENWLSSGGKIDAVVA--NNDEMALGAIMALKAAGKSDKDVPVAGI 217 (272)
T ss_pred HHHHHHCCCcEEEec--CCCCc---cH-HHHHHHHHHHHHhCCCCCEEEE--CCCchHHHHHHHHHHcCCCCCCcEEEee
Confidence 888877651332211 11111 11 2223444444332 4677665 5566677889999999987545555555
Q ss_pred Cc
Q 006683 268 NT 269 (635)
Q Consensus 268 ~~ 269 (635)
+.
T Consensus 218 d~ 219 (272)
T cd06301 218 DG 219 (272)
T ss_pred CC
Confidence 44
No 124
>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=98.21 E-value=0.00038 Score=68.77 Aligned_cols=211 Identities=12% Similarity=0.016 Sum_probs=123.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChh-hHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE-ETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~-~~~~v 113 (635)
|||++.|.- ..+-.....+++.+.++ . |+++.+...++..++....+...+++ ..++.++|-..... .....
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~---~--g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgvii~~~~~~~~~~~ 74 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE---L--GVKVTFQGPASETDVAGQVNLLENAI-ARGPDAILLAPTDAKALVPP 74 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH---c--CCEEEEecCccCCCHHHHHHHHHHHH-HhCCCEEEEcCCChhhhHHH
Confidence 689999863 33333444555544444 2 45665554444567777777777777 66788777533332 22334
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .+. ... +..+..++...+..+++++... |.++++++.....+.......+.+++
T Consensus 75 l~~~~~~~ipvV~~~~~--~~~--~~~---~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 75 LKEAKDAGIPVVLIDSG--LNS--DIA---VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHCCCCEEEecCC--CCC--Ccc---eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 45556789999987643 111 111 2235566667778888888665 89999999754433200334577888
Q ss_pred HHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
.+++. | +.+.... .... + ..+-...++++.+. .+++|++ .+...+..+++.+++.|+. +....++.+
T Consensus 148 a~~~~~~-~~~~~~~--~~~~---~-~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPG-IEIVATQ--YSDS---D-YAKALDITEDLLTANPDLKGIFG--ANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCC-cEEEecc--cCCc---C-HHHHHHHHHHHHHhCCCceEEEe--cCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 88888 7 7654321 1111 1 12233455555433 3566554 5666788899999999986 445555544
Q ss_pred c
Q 006683 269 T 269 (635)
Q Consensus 269 ~ 269 (635)
.
T Consensus 218 ~ 218 (273)
T cd06310 218 A 218 (273)
T ss_pred C
Confidence 3
No 125
>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=98.17 E-value=0.00018 Score=70.30 Aligned_cols=204 Identities=17% Similarity=0.189 Sum_probs=137.1
Q ss_pred EEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCChhhHHHHH
Q 006683 37 IGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (635)
Q Consensus 37 IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v~ 114 (635)
||++.|..+ .+...+..+++.+.++.+- .+.+. .|...++..-.+.+.+++ .+++.+|| .|..+.......
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~-----~~~~~-~~~~~d~~~q~~~i~~~i-~~~~d~Iiv~~~~~~~~~~~l 73 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGY-----EVEIV-FDAQNDPEEQIEQIEQAI-SQGVDGIIVSPVDPDSLAPFL 73 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTC-----EEEEE-EESTTTHHHHHHHHHHHH-HTTESEEEEESSSTTTTHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCC-----EEEEe-CCCCCCHHHHHHHHHHHH-HhcCCEEEecCCCHHHHHHHH
Confidence 788898874 4556788899988888663 34444 789999988888999998 77788666 566666666777
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-C-CeEEEEEEEcCCCCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N-WRRVAAIYEDNVYGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-~-w~~vaii~~~~~~g~~~~~~~~~~~~ 192 (635)
..+...+||+|.... + .....+....+.++....+..+++++... + -.+++++.....+.......+.+++.
T Consensus 74 ~~~~~~gIpvv~~d~----~--~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 74 EKAKAAGIPVVTVDS----D--EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHTTSEEEEESS----T--HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHhhcCceEEEEec----c--ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 778889999998642 2 11122445567888889999999998443 3 26888886554432002346677888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC-ceEEEEecCChhHHHHHHHHHHHcCCCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (635)
+++.+.+++.......... .......+.++.+.+ .++|+ .++...+..+++++++.|+.+.
T Consensus 148 l~~~~~~~~~~~~~~~~~~-----~~~a~~~~~~~l~~~~~~~i~--~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEYTDWD-----PEDARQAIENLLQANPVDAII--ACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEECTTS-----HHHHHHHHHHHHHHTTEEEEE--ESSHHHHHHHHHHHHHTTCTTT
T ss_pred HhhcceeeeeeeeeccCCC-----HHHHHHHHHHhhhcCCceEEE--eCCChHHHHHHHHHHHcCCccc
Confidence 8874327776643322221 244555555555444 44443 6888888889999999999665
No 126
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=98.15 E-value=0.0004 Score=68.64 Aligned_cols=214 Identities=13% Similarity=0.072 Sum_probs=127.3
Q ss_pred EEEEEeeC-CCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDA-NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~-s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
+||++.|. +..+-.....+++.+.++. | +++.+.++..+...-.+.+..++ ..++.+||- +.........
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~-----g--~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~ 72 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR-----G--FDLKFADAQQKQENQISAIRSFI-AQGVDVIILAPVVETGWDPV 72 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc-----C--CEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCccccchHH
Confidence 48999994 3433345555555555553 2 45555676667776667777777 567776653 4333322344
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .+. ....+++.++.+++...+..++++|... +-++++++..+..........+.+++
T Consensus 73 i~~~~~~~iPvV~~~~~--~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 73 LKEAKAAGIPVILVDRG--VDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHCCCCEEEEecC--cCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 45677789999988744 221 1112456778889888899999988665 78899999765332100344567888
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc---CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEee
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVT 267 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~ 267 (635)
.+++.+...+.... . .. ....+....++++.+. .+++|+. .+...+..+++++++.|+.. .+...++.
T Consensus 149 ~l~~~~~~~~~~~~--~-~~---~~~~~~~~~~~~~l~~~~~~~~aI~~--~~d~~a~g~~~a~~~~g~~ip~di~iig~ 220 (273)
T cd06309 149 VIKKYPNMKIVASQ--T-GD---FTRAKGKEVMEALLKAHGDDIDAVYA--HNDEMALGAIQAIKAAGKKPGKDIKIVSI 220 (273)
T ss_pred HHHHCCCCEEeecc--C-Cc---ccHHHHHHHHHHHHHhCCCCccEEEE--CCcHHHHHHHHHHHHcCCCCCCCeEEEec
Confidence 88876314443211 1 11 0112333444444433 3677665 55556667889999999863 34444544
Q ss_pred Cc
Q 006683 268 NT 269 (635)
Q Consensus 268 ~~ 269 (635)
+.
T Consensus 221 d~ 222 (273)
T cd06309 221 DG 222 (273)
T ss_pred CC
Confidence 43
No 127
>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=98.14 E-value=0.00022 Score=70.31 Aligned_cols=212 Identities=16% Similarity=0.142 Sum_probs=128.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ..+...+..|++.+.++. |+.+.+...+.. .......+.+++...++.+||............
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~ 73 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRDT-----GYQLVIEPCDSG--SPDLAERVRALLQRSRVDGVILTPPLSDNPELL 73 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHhC-----CCeEEEEeCCCC--chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHH
Confidence 389999875 456667778888877653 456665544432 222445566655468888887754432234445
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
+.+...++|+|..... .+. ...++ +..+....+..+++++...|.++++++..+..+.......+.+++.++
T Consensus 74 ~~~~~~~ipvv~i~~~--~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 74 DLLDEAGVPYVRIAPG--TPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHhcCCCEEEEecC--CCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 6677789999988654 322 22233 456777778888999888899999999865543200233567888888
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeCc
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTNT 269 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~~ 269 (635)
+.| +++.......... +. .+-...++++.+ .++++|++ .+...+..+++++++.|+.. .....++.+.
T Consensus 146 ~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~~~~~~g~~~p~~i~vig~d~ 216 (270)
T cd01545 146 EAG-LPLDPELVAQGDF---TF-ESGLEAAEALLALPDRPTAIFA--SNDDMAAGVLAVAHRRGLRVPDDLSVVGFDD 216 (270)
T ss_pred HcC-CCCChhhEEeCCC---Ch-hhHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEEECC
Confidence 888 6542111111111 00 122234444433 35677775 45577788999999999853 3344444443
No 128
>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=98.11 E-value=0.00043 Score=68.32 Aligned_cols=209 Identities=12% Similarity=0.078 Sum_probs=125.3
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcC-CChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~~~v 113 (635)
+||++.|.. ..+......+++.+.++. |++ +.+.++..++....+....++ ..++.+||.. ..+.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~--~~~~~~~~~~~~~~~~l~~~~-~~~vdgii~~~~~~~~~~~~ 72 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL-----GGD--LRVYDAGGDDAKQADQIDQAI-AQKVDAIIIQHGRAEVLKPW 72 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc-----CCE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecCChhhhHHH
Confidence 589998853 334445666776666654 333 445677788887777777887 5688888764 333333444
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH--CCCeEEEEEEEcCC-CCCCcchHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNV-YGGDSGKLALLA 190 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~--~~w~~vaii~~~~~-~g~~~~~~~~~~ 190 (635)
...+...++|+|..... .+. +.+..+.+++...++.+++++.. .|.++++++...+. .. ....+.++
T Consensus 73 i~~~~~~~ipvV~~~~~--~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~--~~R~~g~~ 142 (273)
T cd06305 73 VKRALDAGIPVVAFDVD--SDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPL--DRRYDVWQ 142 (273)
T ss_pred HHHHHHcCCCEEEecCC--CCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchH--HHHHHHHH
Confidence 55667789999988644 221 22334677888888888888855 58899999975421 12 33345677
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC--c--eEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--S--RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~--~--~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
+.+++.+...+.......... ...+....++++.+.. + ++|++ .+...+..++..+++.|+.. +...++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~-di~iig 215 (273)
T cd06305 143 AVLKAYPGIKEVAELGDVSNN----TAQDAAAQVEAVLKKYPKGGIDAIWA--AWDEFAKGAKQALDEAGRTD-EIKIYG 215 (273)
T ss_pred HHHHHCCCcEEeccccccccc----chhHHHHHHHHHHHHCCCcccCeEEE--cChhhhHHHHHHHHHcCCCC-CceEEE
Confidence 777765513332211111111 1123344555554333 4 55554 45556777888999999864 344555
Q ss_pred eCc
Q 006683 267 TNT 269 (635)
Q Consensus 267 ~~~ 269 (635)
.+.
T Consensus 216 ~d~ 218 (273)
T cd06305 216 VDI 218 (273)
T ss_pred ecC
Confidence 544
No 129
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=98.07 E-value=0.0018 Score=65.87 Aligned_cols=208 Identities=13% Similarity=0.117 Sum_probs=113.6
Q ss_pred CCeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhh
Q 006683 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEE 109 (635)
Q Consensus 32 ~~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~ 109 (635)
.++.+||++.|.. ..+...+..+++.+.++.+ + ..+.+.++..++....+....++ ..++.++|= +..+..
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g----~--~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~ 94 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAP----D--VQLLMNDSQNDQSKQNDQIDVLL-AKGVKALAINLVDPAA 94 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhcC----C--eEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEeccCHHH
Confidence 3568999999843 3334455555555555432 2 34444566666665555666666 677886664 223332
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH-HC-----------CCeEEEEEEEcC
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR-KY-----------NWRRVAAIYEDN 177 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~-~~-----------~w~~vaii~~~~ 177 (635)
.......+...++|+|..... ...-.-...+-...+..+....+..+++++. +. |-.++++|....
T Consensus 95 ~~~~l~~l~~~giPvV~vd~~--~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~ 172 (330)
T PRK15395 95 APTVIEKARGQDVPVVFFNKE--PSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEP 172 (330)
T ss_pred HHHHHHHHHHCCCcEEEEcCC--ccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCC
Confidence 344445567789999998754 2110001112223456777766766666553 32 323345454332
Q ss_pred C--CCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc----CceEEEEecCChhHHHHHHHH
Q 006683 178 V--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTE 251 (635)
Q Consensus 178 ~--~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~----~~~vii~~~~~~~~~~~~l~~ 251 (635)
. .. ....+.+++.+++.| +.+.... ...... +. ..-...++++.+. ++++|+. ++...+..++++
T Consensus 173 ~~~~~--~~R~~G~~~al~~~g-~~~~~~~-~~~~~~--~~-~~a~~~~~~~l~~~~~~~~~ai~~--~~d~~A~gvl~a 243 (330)
T PRK15395 173 GHPDA--EARTTYVIKELNDKG-IKTEQLQ-LDTAMW--DT-AQAKDKMDAWLSGPNANKIEVVIA--NNDAMAMGAVEA 243 (330)
T ss_pred CCchH--HHHHHHHHHHHHhcC-CCeeeee-cccCCc--CH-HHHHHHHHHHHhhCcCCCeeEEEE--CCchHHHHHHHH
Confidence 2 22 334667888888888 7654321 211110 11 2223444554332 4677665 566677789999
Q ss_pred HHHcCC
Q 006683 252 ANRMGL 257 (635)
Q Consensus 252 a~~~g~ 257 (635)
+++.|+
T Consensus 244 l~~~Gl 249 (330)
T PRK15395 244 LKAHNK 249 (330)
T ss_pred HHhcCC
Confidence 999998
No 130
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.05 E-value=0.0031 Score=64.61 Aligned_cols=203 Identities=9% Similarity=-0.020 Sum_probs=115.9
Q ss_pred CCeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhh
Q 006683 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEE 109 (635)
Q Consensus 32 ~~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~ 109 (635)
...-+||++.|.. ..+-.....+++.+.++. |+++.+...+...+...-.+....++ ..++.+||= +.....
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-----G~~l~i~~~~~~~~~~~q~~~i~~l~-~~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL-----GVDLKVLEAGGYYNLAKQQQQLEQCV-AWGADAILLGAVTPDG 117 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh-----CCEEEEEcCCCCCCHHHHHHHHHHHH-HhCCCEEEEeCCChHH
Confidence 3578999999875 333345556666666543 34444432222345554455566666 677876663 433332
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-----CCeEEEEEEEcCCCCCCcc
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-----NWRRVAAIYEDNVYGGDSG 184 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-----~w~~vaii~~~~~~g~~~~ 184 (635)
..... .+...++|+|..... .. .+.. ...+..++...+...+++|... |-++++++..+........
T Consensus 118 ~~~~l-~~~~~giPvV~~~~~--~~--~~~~---~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 118 LNPDL-ELQAANIPVIALVNG--ID--SPQV---TTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred hHHHH-HHHHCCCCEEEecCC--CC--Cccc---eEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 22222 456789999976432 11 1111 2346778888888888887554 4679999875432110034
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
..+.+++.+++.| +++.... ..... . ..-...++++.+. ++++|+. . ...+..+++.+++.|+.
T Consensus 190 R~~Gf~~~l~~~~-i~~~~~~-~~~~~----~-~~~~~~~~~~l~~~~~~~ai~~--~-d~~A~ga~~al~~~g~~ 255 (343)
T PRK10936 190 VEQGFRAAIAGSD-VRIVDIA-YGDND----K-ELQRNLLQELLERHPDIDYIAG--S-AVAAEAAIGELRGRNLT 255 (343)
T ss_pred HHHHHHHHHhcCC-CEEEEee-cCCCc----H-HHHHHHHHHHHHhCCCccEEEe--C-CHHHHHHHHHHHhcCCC
Confidence 4677888888888 8765421 11111 1 2223445554433 4677653 2 35677788888899984
No 131
>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=98.04 E-value=0.0006 Score=67.42 Aligned_cols=201 Identities=14% Similarity=0.115 Sum_probs=131.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.- .++..++..+++.+.++. |+.+ .+.++..++..- +....+. +.+|+++|-.........+.
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~-----Gy~l--~l~~t~~~~~~e-~~i~~l~-~~~vDGiI~~s~~~~~~~l~ 73 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREH-----GYQL--LLCNTGDDEEKE-EYIELLL-QRRVDGIILASSENDDEELR 73 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHT-----TCEE--EEEEETTTHHHH-HHHHHHH-HTTSSEEEEESSSCTCHHHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHc-----CCEE--EEecCCCchHHH-HHHHHHH-hcCCCEEEEecccCChHHHH
Confidence 699999986 344455556665555553 3444 445666666655 5555555 78888776543333335566
Q ss_pred HhhccCCccEEeecCCCCCCCCCCC-CCceEEEEecCcHHHHHHHHHHHHHCCCeE-EEEEEEcCCCCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSR-RWPYLIRMASNDSEQMKCIADLARKYNWRR-VAAIYEDNVYGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~-~~p~~~r~~p~~~~~~~al~~~l~~~~w~~-vaii~~~~~~g~~~~~~~~~~~~ 192 (635)
.+.+. ++|+|..... .... ..|++ ..++..-+..++++|...|-++ |+++..+.....-....+.++++
T Consensus 74 ~~~~~-~iPvV~~~~~-----~~~~~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~A 144 (279)
T PF00532_consen 74 RLIKS-GIPVVLIDRY-----IDNPEGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDA 144 (279)
T ss_dssp HHHHT-TSEEEEESS------SCTTCTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHH
T ss_pred HHHHc-CCCEEEEEec-----cCCcccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHH
Confidence 66666 9999987644 1222 34554 4667777888899999999999 99999876532003445668999
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce--EEEEecCChhHHHHHHHHHHHcC-CCCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR--VFIVLQASLDMTIHLFTEANRMG-LVGKD 261 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~--vii~~~~~~~~~~~~l~~a~~~g-~~~~~ 261 (635)
+++.| +.+.......... ...+-...++++.+.+++ +|+. ++..-+..+++.+.+.| +..+.
T Consensus 145 l~~~G-l~~~~~~i~~~~~----~~~~g~~~~~~ll~~~p~idai~~--~nd~~A~ga~~~l~~~gr~~ip~ 209 (279)
T PF00532_consen 145 LKEAG-LPIDEEWIFEGDF----DYESGYEAARELLESHPDIDAIFC--ANDMMAIGAIRALRERGRLKIPE 209 (279)
T ss_dssp HHHTT-SCEEEEEEEESSS----SHHHHHHHHHHHHHTSTT-SEEEE--SSHHHHHHHHHHHHHTT-TCTTT
T ss_pred HHHcC-CCCCcccccccCC----CHHHHHHHHHHHHhhCCCCEEEEE--eCHHHHHHHHHHHHHcCCcccCh
Confidence 99999 8665544433322 113444666777666666 8775 77778889999999999 66554
No 132
>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=98.03 E-value=0.00046 Score=67.88 Aligned_cols=208 Identities=11% Similarity=0.112 Sum_probs=126.8
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ..+-..+..+++.+.++. |+++ .+.++..++..-.+...+++ ..++.++|...+........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~-----g~~~--~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~ 72 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA-----GYTV--FLANSGEDVERQEQLLSTML-EHGVAGIILCPAAGTSPDLL 72 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHH-HcCCCEEEEeCCCCccHHHH
Confidence 488999864 344456777777777764 3444 44566667766666677776 67888777654433333345
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+ ....+ .+.++....+..+++++...|-++++++..+.. .. ....+.|.+.
T Consensus 73 ~~~~~~~ipvV~~~~~--~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~ 142 (268)
T cd06289 73 KRLAESGIPVVLVARE--VA---GAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTR--RERLAGYRAA 142 (268)
T ss_pred HHHHhcCCCEEEEecc--CC---CCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccch--HHHHHHHHHH
Confidence 5677789999987643 22 12223 356777788888889888888899999875433 33 4556788888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~~~ 268 (635)
+++.| ..+.....+.... + .......++++.+. ++++|+. .+...+..+++++++.|+..+ ....++.+
T Consensus 143 l~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 143 LAEAG-LPFDSELVVEGPP---S-RQGGAEAVAQLLDLPPRPTAIVC--FNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HHHcC-CCCCchhEEecCc---c-hhhHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 88877 5432211111111 0 02223344444332 5677775 455567778999999998632 34444443
No 133
>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=98.03 E-value=0.0016 Score=63.94 Aligned_cols=203 Identities=15% Similarity=0.113 Sum_probs=121.1
Q ss_pred EEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
.||++.|... .+......+++.+.++ . |+ ++.+.++..++....+...+++ ..++.++|- +..+......
T Consensus 1 ~i~~~~~~~~~~~~~~~~~~i~~~~~~---~--g~--~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~~~~~~~~~ 72 (267)
T cd06322 1 VIGASLLTQQHPFYIELANAMKEEAKK---Q--KV--NLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPVDSKGIRAA 72 (267)
T ss_pred CeeEeecCcccHHHHHHHHHHHHHHHh---c--CC--EEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChhhhHHH
Confidence 3788888753 2233444555554443 2 34 4455676677776677777777 667887665 4433322333
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC-CCCCcchHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLA 190 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~-~g~~~~~~~~~~ 190 (635)
...+...++|+|..... .+ . .+.+..+.++....+...++++... |-+++++++..+. .. ....+.++
T Consensus 73 ~~~~~~~~ipvV~~~~~--~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~--~~R~~gf~ 143 (267)
T cd06322 73 IAKAKKAGIPVITVDIA--AE---G--VAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSV--VDRVRGFK 143 (267)
T ss_pred HHHHHHCCCCEEEEccc--CC---C--CceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccH--HHHHHHHH
Confidence 45566789999988643 11 1 1223457778778888888888654 7789999975432 22 34567788
Q ss_pred HHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 191 EALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 191 ~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
+.+++. | +++... .... +. ......++++.+. ++++|+. .+...+..+++++.+.|+ .+...++.
T Consensus 144 ~~~~~~~~-~~~~~~---~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~--~di~vvg~ 211 (267)
T cd06322 144 EALADYPN-IKIVAV---QPGI---TR-AEALTAAQNILQANPDLDGIFA--FGDDAALGAVSAIKAAGR--DNVKVIGF 211 (267)
T ss_pred HHHHhCCC-cEEEEe---cCCC---Ch-HHHHHHHHHHHHhCCCCCEEEE--cCCcHHHHHHHHHHHCCC--CCeEEEEe
Confidence 888888 8 765322 1111 11 2223344444322 4677665 555567778899999998 33444444
No 134
>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=98.01 E-value=0.00061 Score=67.00 Aligned_cols=208 Identities=16% Similarity=0.140 Sum_probs=126.8
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.. ..+-..+..+++.+.++. |+.+.+. .+..++..-.+...+++ ..+++++|-..+. ......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~-~~~~~~ 71 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-----KYNIILS--NSDNDKEKELKVLNNLL-AKQVDGIIFMGGK-ISEEHR 71 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-----CCeEEEE--eCCCCHHHHHHHHHHHH-HhcCCEEEEeCCC-CcHHHH
Confidence 478999864 333345555665555543 3455444 44556666666677776 6778877742221 122344
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC---CCCCcchHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALLAE 191 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~---~g~~~~~~~~~~~ 191 (635)
..+...++|+|..... .+ ....+ .+.+++...+..++++|...|-++++++..+.. .+ ....+.+++
T Consensus 72 ~~l~~~~ipvV~~~~~--~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~--~~r~~gf~~ 141 (268)
T cd06298 72 EEFKRSPTPVVLAGSV--DE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSING--DERLAGYKE 141 (268)
T ss_pred HHHhcCCCCEEEEccc--cC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccch--hHHHHHHHH
Confidence 5566679999988644 22 11223 357788888888999998788899999985443 34 566788899
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC-ceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeCc
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTNT 269 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~~ 269 (635)
.+++.| +.+.......... +. ......++++.+.. +++|++ .+...+..+++++++.|+.- .+..+++.+.
T Consensus 142 ~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~di~vvg~d~ 214 (268)
T cd06298 142 ALSEAN-IEFDESLIFEGDY---TY-ESGYELAEELLEDGKPTAAFV--TDDELAIGILNAAQDAGLKVPEDFEIIGFNN 214 (268)
T ss_pred HHHHcC-CCCCHHHeEeCCC---Ch-hHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCccceEEEeecc
Confidence 998888 6543211111111 11 22334555665544 788776 45555778999999999853 3344555443
No 135
>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=97.98 E-value=0.0023 Score=63.16 Aligned_cols=205 Identities=9% Similarity=0.062 Sum_probs=122.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
.||++.|.. ..+-.....+++.+.++......| +++.+.+...++....+....++ ..++.+||- |.........
T Consensus 1 ~Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~g--~~~~~~~~~~~~~~~~~~~~~l~-~~~vDgiii~~~~~~~~~~~ 77 (274)
T cd06311 1 TIGVSIPAADHGWTAGIVWHAQAAAKKLEAAYPD--VEFILVTASNDTEQQNAQQDLLI-NRKIDALVILPFESAPLTQP 77 (274)
T ss_pred CeeeeccCCCCcHHHHHHHHHHHHHHHhhhhCCC--eEEEEEcCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCchhhHHH
Confidence 378888753 444456777888887777655333 55556676666655555555566 567775553 3333322233
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...+||+|..... .+ ... .....+.++....+...++++... +.++++++.......+ ....+.+++
T Consensus 78 i~~~~~~gIpvV~~d~~--~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~-~~R~~gf~~ 150 (274)
T cd06311 78 VAKAKKAGIFVVVVDRG--LS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPID-NERVDAFDA 150 (274)
T ss_pred HHHHHHCCCeEEEEcCC--CC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcch-hHHHHHHHH
Confidence 34556789999987643 11 111 112346777777888888888655 7789999975433210 445678899
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
.+++.+ +++.... .... +. ......++++.+. ++++|++ .+...+..+++++++.|+.+
T Consensus 151 ~l~~~~-~~~~~~~--~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~~ 211 (274)
T cd06311 151 AIAKYP-IKILDRQ--YANW---NR-DDAFSVMQDLLTKFPKIDAVWA--HDDDMAVGVLAAIKQAGRTD 211 (274)
T ss_pred HHhhCC-cEEEecc--CCCC---cH-HHHHHHHHHHHHhCCCcCEEEE--CCCcHHHHHHHHHHHcCCCC
Confidence 998888 7765421 1111 11 2223444444322 4677765 44445778889999999864
No 136
>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=97.95 E-value=0.001 Score=65.10 Aligned_cols=193 Identities=14% Similarity=0.097 Sum_probs=121.7
Q ss_pred EEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
||+++|.- ..+......+++.+.++. |+++ .+.++..++..-.+...+++ ..++.++|....... ..+..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~~dgii~~~~~~~-~~~~~ 72 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN-----GYQM--LLMNTNFSIEKEIEALELLA-RQKVDGIILLATTIT-DEHRE 72 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCCC-HHHHH
Confidence 78898853 444456777777776653 3444 44556667776677777777 688887776433222 34445
Q ss_pred hhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC-C--CCCCcchHHHHHHH
Q 006683 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-V--YGGDSGKLALLAEA 192 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~-~--~g~~~~~~~~~~~~ 192 (635)
.+...++|+|..... .+ ..+ .+.++....+..++++|...+-++++++.... . .+ ....+.+++.
T Consensus 73 ~~~~~~ipvv~~~~~--~~-----~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~--~~r~~gf~~~ 140 (259)
T cd01542 73 AIKKLNVPVVVVGQD--YP-----GIS---SVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVG--ILRKQGYLDA 140 (259)
T ss_pred HHhcCCCCEEEEecc--CC-----CCC---EEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhH--HHHHHHHHHH
Confidence 566679999988644 22 123 36678888889999999888889999996432 2 22 3456778888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC-ceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+++.| .+..... ..... . ......++++.+.. +++|++ .+...+..+++.+++.|+.-
T Consensus 141 ~~~~~-~~~~~~~-~~~~~----~-~~~~~~~~~~l~~~~~~~i~~--~~d~~a~g~~~~l~~~g~~v 199 (259)
T cd01542 141 LKEHG-ICPPNIV-ETDFS----Y-ESAYEAAQELLEPQPPDAIVC--ATDTIALGAMKYLQELGRRI 199 (259)
T ss_pred HHHcC-CChHHee-eccCc----h-hhHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 98888 6111111 11111 0 22334454544333 688776 45567778899999999864
No 137
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.94 E-value=0.0035 Score=63.72 Aligned_cols=202 Identities=9% Similarity=-0.006 Sum_probs=119.0
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC-hhhH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEET 110 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~-s~~~ 110 (635)
+..+||++.|.. ..+......+++.+.++.| +. +.+.++..++..-.+....++ ..+++++|-... ....
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g-----~~--l~i~~~~~~~~~~~~~i~~l~-~~~vDGiIi~~~~~~~~ 95 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESLG-----AK--VFVQSANGNEETQMSQIENMI-NRGVDVLVIIPYNGQVL 95 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHcC-----CE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChhhH
Confidence 469999999854 4445555566666655433 34 445666677766666666776 678886654332 2222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC---CCCCcchHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLA 187 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~---~g~~~~~~~ 187 (635)
......+...++|+|..... . .... ....+.+++...+..++++|...|-++++++..... .. ....+
T Consensus 96 ~~~l~~~~~~~iPvV~id~~--~---~~~~--~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~--~~R~~ 166 (330)
T PRK10355 96 SNVIKEAKQEGIKVLAYDRM--I---NNAD--IDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNA--KLFRA 166 (330)
T ss_pred HHHHHHHHHCCCeEEEECCC--C---CCCC--ccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccH--HHHHH
Confidence 34445667789999987543 1 1111 123578888899999999997778788776553221 22 33456
Q ss_pred HHHHHHhcc---CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhh-h--cCceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 188 LLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-D--KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 188 ~~~~~l~~~---g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~-~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
.+++.+++. |.+.+.... ..... + ..+....++++. + ..+++|++ .+...+..+++.+++.|+.
T Consensus 167 gf~~~l~~~~~~~~i~~~~~~-~~~~~---~-~~~~~~~~~~lL~~~~~~~~aI~~--~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 167 GQMKVLKPYIDSGKIKVVGDQ-WVDGW---L-PENALKIMENALTANNNKIDAVVA--SNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHhhhccCCCeEEeccc-CCCCC---C-HHHHHHHHHHHHHhCCCCccEEEE--CCCchHHHHHHHHHHCCCC
Confidence 677777653 203322111 11111 1 122234444443 2 24787765 5666677889999999986
No 138
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=97.92 E-value=0.0022 Score=63.82 Aligned_cols=216 Identities=13% Similarity=0.078 Sum_probs=121.5
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcC-CChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~~~v 113 (635)
+||+++|.. ..+......+++.+.++. |+++ .++++. ++..-.+...+++ ..++.+||-. ..+......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~-~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 71 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-----GFTV--VKIDVP-DGEKVLSAIDNLG-AQGAKGFVICVPDVKLGPAI 71 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-----CCEE--EEccCC-CHHHHHHHHHHHH-HcCCCEEEEccCchhhhHHH
Confidence 589999854 334456666776666652 3444 455655 6655556666676 6777766643 223334455
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH----HCCC--eEEEEEEEc-C--CCCCCcc
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR----KYNW--RRVAAIYED-N--VYGGDSG 184 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~----~~~w--~~vaii~~~-~--~~g~~~~ 184 (635)
...+...++|+|..... .+....+..+.+..+..+....+...+++|. ..|+ +++++|... . ... ..
T Consensus 72 ~~~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~--~~ 147 (289)
T cd01540 72 VAKAKAYNMKVVAVDDR--LVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTA--KP 147 (289)
T ss_pred HHHHHhCCCeEEEecCC--CcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcch--hh
Confidence 56677899999987644 2211100112233355676666666666553 4566 688888532 2 233 55
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceE-EEEecCChhHHHHHHHHHHHcCCCCCC
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRV-FIVLQASLDMTIHLFTEANRMGLVGKD 261 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~v-ii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (635)
..+.+++.+++.| +............ .+. ..-...++++... .++. +++ +.+...+..+++++++.|+...+
T Consensus 148 R~~G~~~~l~~~~-~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~~~~i~-~~~d~~a~g~~~al~~~g~~~~d 222 (289)
T cd01540 148 RTDGALEALKAPG-FPEANIFQAPQKT--TDT-EGAFDAAASTLTKNPNVKNWIIY-GLNDETVLGAVRATEQSGIAAAD 222 (289)
T ss_pred HHHHHHHHHhcCC-CCcceEecccccC--cch-hhHHHHHHHHHHhCCCcCeeEEE-eCCcHHHHHHHHHHHHcCCCCcc
Confidence 5778888998887 6532211111111 011 1122344454433 3453 344 56666788889999999987545
Q ss_pred eEEEeeCc
Q 006683 262 SVWIVTNT 269 (635)
Q Consensus 262 ~~~i~~~~ 269 (635)
...++.+.
T Consensus 223 i~vig~d~ 230 (289)
T cd01540 223 VIGVGING 230 (289)
T ss_pred eEEEecCC
Confidence 55554443
No 139
>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=97.89 E-value=0.0019 Score=65.82 Aligned_cols=210 Identities=17% Similarity=0.158 Sum_probs=124.8
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-.||+++|.. ..+......+++.+.++. |+.+.+ .++..++..-.+....+. ..++.++|-.... ...
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~-----g~~~~i--~~~~~~~~~~~~~~~~l~-~~~vdGiIi~~~~-~~~ 128 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMY-----KYNIIL--SNSDEDPEKEVQVLNTLL-SKQVDGIIFMGGT-ITE 128 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHH-hCCCCEEEEeCCC-CCh
Confidence 457899999853 333445555655554442 355544 444445555445555565 6777766631111 122
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC---CCCCcchHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLAL 188 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~---~g~~~~~~~~ 188 (635)
.+...+...++|+|..... .+ ...++ .+..++...+..++++|...|.++++++..... .+ ....+.
T Consensus 129 ~~~~~l~~~~iPvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~--~~R~~G 198 (329)
T TIGR01481 129 KLREEFSRSPVPVVLAGTV--DK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSING--EDRLEG 198 (329)
T ss_pred HHHHHHHhcCCCEEEEecC--CC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccch--HHHHHH
Confidence 3344556679999987643 21 12223 356777777888889888889999999975332 23 445677
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEee
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVT 267 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~ 267 (635)
|++.+++.| +.+.......... + ..+....++++.+.++++|++ .+...+..+++++++.|+.- .+...++.
T Consensus 199 f~~~l~~~g-~~~~~~~~~~~~~---~-~~~~~~~~~~ll~~~p~ai~~--~~d~~A~g~~~al~~~g~~vP~dvsvvgf 271 (329)
T TIGR01481 199 YKEALNKAG-IQFGEDLVCEGKY---S-YDAGYKAFAELKGSLPTAVFV--ASDEMAAGILNAAMDAGIKVPEDLEVITS 271 (329)
T ss_pred HHHHHHHcC-CCCCcceEEecCC---C-hHHHHHHHHHHhCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEee
Confidence 888999888 6643222111111 1 122345566665557888876 44457778999999999853 33444444
Q ss_pred C
Q 006683 268 N 268 (635)
Q Consensus 268 ~ 268 (635)
+
T Consensus 272 d 272 (329)
T TIGR01481 272 N 272 (329)
T ss_pred C
Confidence 3
No 140
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.87 E-value=0.013 Score=59.18 Aligned_cols=217 Identities=9% Similarity=0.010 Sum_probs=122.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
+||++.|.. ..+......+++.+.++. |+++.+...+...+...-.+....++ ..++.+||- +..+......
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL-----GVSVDIFASPSEGDFQSQLQLFEDLS-NKNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc-----CCeEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChHHHHHH
Confidence 899999864 333445555665555543 45565543355556666666677776 667776653 3333222222
Q ss_pred HHhhccCCccEEeecCCCCCCC--CCCCCCceEEEEecCcHHHHHHHHHHHHH-CCC--eEEEEEEEcCCCCCCcchHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPL--SMSRRWPYLIRMASNDSEQMKCIADLARK-YNW--RRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~--l~~~~~p~~~r~~p~~~~~~~al~~~l~~-~~w--~~vaii~~~~~~g~~~~~~~~ 188 (635)
...+...+||+|..... .+. +..........+..+....+...+++|.. .|- ++++++.............+.
T Consensus 100 l~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 100 VARAWKKGIYLVNLDEK--IDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHCCCcEEEeCCC--CCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 23345689999988744 221 11111112334677888888888998844 453 689988654332100444677
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEe
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (635)
+++.+++.+.+++... ..... + .......++++.+. ++++|++ .+...+..++.++++.|+. .+...++
T Consensus 178 f~~al~~~~~~~~~~~--~~~~~---~-~~~~~~~~~~ll~~~~~~~~I~~--~~d~~A~g~~~al~~~G~~-~dv~vvg 248 (311)
T PRK09701 178 ATEAFKKASQIKLVAS--QPADW---D-RIKALDVATNVLQRNPNIKAIYC--ANDTMAMGVAQAVANAGKT-GKVLVVG 248 (311)
T ss_pred HHHHHHhCCCcEEEEe--cCCCC---C-HHHHHHHHHHHHHhCCCCCEEEE--CCcchHHHHHHHHHHcCCC-CCEEEEE
Confidence 8888877652443221 11111 1 12233455555433 4677664 5666777889999999986 3344444
Q ss_pred eCc
Q 006683 267 TNT 269 (635)
Q Consensus 267 ~~~ 269 (635)
.+.
T Consensus 249 ~d~ 251 (311)
T PRK09701 249 TDG 251 (311)
T ss_pred eCC
Confidence 443
No 141
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.85 E-value=0.0042 Score=63.05 Aligned_cols=209 Identities=13% Similarity=0.141 Sum_probs=135.9
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-.||++.|.- ..+..+...|++.+.++.+ ..+.+..+..++..-.+....++ +.+|++||-.. .....
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~g-------y~~~l~~~~~~~~~e~~~~~~l~-~~~vdGiIi~~-~~~~~ 127 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREAG-------YSLLLANTDDDPEKEREYLETLL-QKRVDGLILLG-ERPND 127 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHcC-------CEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEec-CCCCH
Confidence 567899999943 3344455566665555533 44555666556766555556665 78888777533 23344
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC--CCCCCcchHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--VYGGDSGKLALL 189 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~--~~g~~~~~~~~~ 189 (635)
.....+...++|+|..... .+ +..++ .+..++..-+..++++|...|-+++++|.... ..+ ..-.+.+
T Consensus 128 ~~~~~l~~~~~P~V~i~~~--~~---~~~~~---~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~Gf 197 (333)
T COG1609 128 SLLELLAAAGIPVVVIDRS--PP---GLGVP---SVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSAS--RERLEGY 197 (333)
T ss_pred HHHHHHHhcCCCEEEEeCC--Cc---cCCCC---EEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccH--hHHHHHH
Confidence 5556677779999988755 33 22333 46788888999999999999999999999873 334 5567889
Q ss_pred HHHHhccCCeEE-EEEeeeCCCCCCCCchHHHHHHHHhhhhc--C-ceEEEEecCChhHHHHHHHHHHHcCCCCCC-eEE
Q 006683 190 AEALQNVSSSEI-QSRLVLPPISSISDPKEAVRGELKKVQDK--Q-SRVFIVLQASLDMTIHLFTEANRMGLVGKD-SVW 264 (635)
Q Consensus 190 ~~~l~~~g~~~v-~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~-~~vii~~~~~~~~~~~~l~~a~~~g~~~~~-~~~ 264 (635)
.+.+++.| +.. ... +...... . .+-...++++... . +++|++ ++..-+..+++++.+.|+..+. ...
T Consensus 198 ~~al~~~~-~~~~~~~--i~~~~~~--~-~~g~~~~~~ll~~~~~~ptAif~--~nD~~Alg~l~~~~~~g~~vP~disv 269 (333)
T COG1609 198 RAALREAG-LPINPEW--IVEGDFS--E-ESGYEAAERLLARGEPRPTAIFC--ANDLMALGALRALRELGLRVPEDLSV 269 (333)
T ss_pred HHHHHHCC-CCCCcce--EEecCCC--h-HHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCeeEE
Confidence 99999999 765 211 1111111 1 2333444444432 2 789886 6777888899999999986543 344
Q ss_pred EeeC
Q 006683 265 IVTN 268 (635)
Q Consensus 265 i~~~ 268 (635)
++.+
T Consensus 270 iGfD 273 (333)
T COG1609 270 IGFD 273 (333)
T ss_pred EEec
Confidence 4433
No 142
>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=97.85 E-value=0.0029 Score=61.98 Aligned_cols=207 Identities=13% Similarity=0.146 Sum_probs=120.1
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ......+..+++.+.++. |+.+.+...+ ..++..-.+....++ ..++.++|-.........+.
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~~~~~~ 73 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-----GYAVTLSMLA-EADEEALRAAVRRLL-AQRVDGVIVNAPLDDADAAL 73 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-----CCeEEEEeCC-CCchHHHHHHHHHHH-hcCCCEEEEeCCCCChHHHH
Confidence 389999854 334455666666666663 3455444222 223444445555665 66788776322222222333
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
. +...++|+|..... .. ...+ .+..+....+..+++++...|-++++++..+..........+.+++.++
T Consensus 74 ~-~~~~~ipvv~~~~~--~~----~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (264)
T cd01574 74 A-AAPADVPVVFVDGS--PS----PRVS---TVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALE 143 (264)
T ss_pred H-HHhcCCCEEEEecc--CC----CCCC---EEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHH
Confidence 3 34678999988644 21 1223 3667878888899999988899999999765432100344567888888
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc-CceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
..| +.+.... .... +. ......++++.+. .+++|++ ++...+..+++++++.|.. ++....+..+
T Consensus 144 ~~~-~~~~~~~--~~~~---~~-~~~~~~~~~~l~~~~~~ai~~--~~d~~a~g~~~~~~~~g~~ip~~i~ii~~d 210 (264)
T cd01574 144 AAG-IAPPPVL--EGDW---SA-ESGYRAGRELLREGDPTAVFA--ANDQMALGVLRALHELGLRVPDDVSVVGFD 210 (264)
T ss_pred HCC-CCcceee--ecCC---CH-HHHHHHHHHHHhCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCccceEEeccc
Confidence 777 6654322 1111 11 2223444455433 3677765 5666677889999999974 3334444333
No 143
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=97.85 E-value=0.004 Score=61.75 Aligned_cols=215 Identities=12% Similarity=0.076 Sum_probs=118.3
Q ss_pred EEEEEeeCC--CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC--CCHHHHHHHHHHHhhcCCeEEEEcCCChh-hH
Q 006683 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAGMETWE-ET 110 (635)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~~~~~a~~~~~~li~~~~v~aiiG~~~s~-~~ 110 (635)
|||+++|.. ..+......+++.+ +... |+.+.+...++. .++..-.+....++ ..++.+||-...+. ..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~---~~~~--g~~~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTAR---LEEL--NIPYELTQFSSRPGIDHRLQSQQLNEAL-QSKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHH---HHHc--CCcEEEEEeccCcccCHHHHHHHHHHHH-HcCCCEEEEcCCchhhH
Confidence 589999973 22222333333333 3333 456666544433 35555555566666 67888776533322 22
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH--CCCeEEEEEEEcCCCCCCcchHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~--~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
..+.. +...++|.|...... .+.......+....+.++....+..++++|.. .|.+++++|........ ....+.
T Consensus 75 ~~~~~-l~~~~~p~V~i~~~~-~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~-~~R~~g 151 (280)
T cd06303 75 KLIER-VLASGKTKIILQNIT-TPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYIS-TARGDT 151 (280)
T ss_pred HHHHH-HHhCCCCeEEEeCCC-CCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcch-hHHHHH
Confidence 33333 444677766653220 12100000122334667777788888888866 78899999976432210 445677
Q ss_pred HHHHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 189 LAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 189 ~~~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
+++.+++. + +.+... +.... ...+....++++.+. ++++|+. .+...+..+++++++.|+. ++...+
T Consensus 152 f~~al~~~~~-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~l~al~~~G~~-~dv~vv 221 (280)
T cd06303 152 FIDCVHARNN-WTLTSE--FYTDA----TRQKAYQATSDILSNNPDVDFIYA--CSTDIALGASDALKELGRE-DDILIN 221 (280)
T ss_pred HHHHHHhCCC-ceEEEe--ecCCC----CHHHHHHHHHHHHHhCCCCcEEEE--CCcHHHHHHHHHHHHcCCC-CCcEEE
Confidence 88888887 6 654332 11111 112233455555433 4677765 5666677899999999986 445555
Q ss_pred eeCc
Q 006683 266 VTNT 269 (635)
Q Consensus 266 ~~~~ 269 (635)
+.+.
T Consensus 222 g~d~ 225 (280)
T cd06303 222 GWGG 225 (280)
T ss_pred ecCC
Confidence 5444
No 144
>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=97.85 E-value=0.0026 Score=62.49 Aligned_cols=206 Identities=12% Similarity=0.125 Sum_probs=121.2
Q ss_pred EEEEeeCC-----CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 37 IGAIVDAN-----SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 37 IG~i~p~s-----~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
||+++|.. ..+...+..+++.+.++ . |+.+.+...+. + ....+.+.+++...++.++|...+.....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~---~--g~~~~~~~~~~--~-~~~~~~~~~~~~~~~vdgiii~~~~~~~~ 73 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE---H--GYDLVLLPVDP--D-EDPLEVYRRLVESGLVDGVIISRTRPDDP 73 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH---C--CceEEEecCCC--c-HHHHHHHHHHHHcCCCCEEEEecCCCCCh
Confidence 78999862 33344555555555444 2 45565554333 2 23345566776556788777543322222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALL 189 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~ 189 (635)
....+...++|+|..... .+ ...+++ +.+++...+..+++++...|-++++++..... .+ ....+.+
T Consensus 74 -~~~~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~gf 142 (268)
T cd06271 74 -RVALLLERGFPFVTHGRT--EL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFA--QHRRAGY 142 (268)
T ss_pred -HHHHHHhcCCCEEEECCc--CC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchH--HHHHHHH
Confidence 234556789999987644 22 223344 45677778888898888889999999975543 22 3456788
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEEe
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIV 266 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~ 266 (635)
++.+++.| ..+.....+.... + .......++++.+. .+++|++ .+...+..+++++.+.|+..+ ....++
T Consensus 143 ~~~~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~vp~~i~iig 215 (268)
T cd06271 143 RRALAEAG-LPLDPALIVSGDM---T-EEGGYAAAAELLALPDRPTAIVC--SSELMALGVLAALAEAGLRPGRDVSVVG 215 (268)
T ss_pred HHHHHHhC-CCCCCceEEeCCC---C-hHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHhCCCCCcceeEEE
Confidence 88898888 6542222222111 1 12233455555332 4788876 445666788999999998543 344444
Q ss_pred eC
Q 006683 267 TN 268 (635)
Q Consensus 267 ~~ 268 (635)
.+
T Consensus 216 ~d 217 (268)
T cd06271 216 FD 217 (268)
T ss_pred ec
Confidence 43
No 145
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.84 E-value=0.002 Score=63.18 Aligned_cols=195 Identities=13% Similarity=0.102 Sum_probs=117.1
Q ss_pred EEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
||++.|.. ..+-.....+++.+.++. |+++ .+.|+..++....+....++ ..+++++|......... ...
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~~~~~~-~~~ 72 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA-----GYGV--LLGDTRSDPEREQEYLDLLR-RKQADGIILLDGSLPPT-ALT 72 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHH-HcCCCEEEEecCCCCHH-HHH
Confidence 78888875 334445566666666652 3444 45677777766555555555 78888777633222222 223
Q ss_pred hhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHHH
Q 006683 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~l 193 (635)
.. ..++|+|..... .+ . +....+..+....+..+++++...|.++++++..+.. .+ ....+.|.+.+
T Consensus 73 ~~-~~~ipvv~~~~~--~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~~ 141 (267)
T cd06284 73 AL-AKLPPIVQACEY--IP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLA--RDRLEGYRQAL 141 (267)
T ss_pred HH-hcCCCEEEEecc--cC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhH--HHHHHHHHHHH
Confidence 33 359999977533 11 1 1223366777788888999988889999999976432 34 45567888888
Q ss_pred hccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
++.+ +.+.......... +. ......++++.+. .+++|++ .+...+..+++++++.|+.
T Consensus 142 ~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~al~~~g~~ 201 (267)
T cd06284 142 AEAG-LPADEELIQEGDF---SL-ESGYAAARRLLALPDRPTAIFC--FSDEMAIGAISALKELGLR 201 (267)
T ss_pred HHcC-CCCCcceEEeCCC---Ch-HHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 8887 5533211111111 11 2233444444322 4677776 4555577889999999985
No 146
>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=97.84 E-value=0.0045 Score=60.91 Aligned_cols=210 Identities=14% Similarity=0.119 Sum_probs=122.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
+||++.|.- ..+...+..+++.+.++.+ |+++ .+.++..++..-.+...+++ ..++.+||- +.........
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~~----g~~~--~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~ 73 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNYP----DVEL--IIADAADDNSKQVADIENFI-RQGVDLLIISPNEAAPLTPV 73 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhcC----CcEE--EEEcCCCCHHHHHHHHHHHH-HhCCCEEEEecCchhhchHH
Confidence 589999853 3333344445544444321 4455 44566667766667777777 567765543 3332222233
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .+ +. .+...+..++...+...++++... |-++++++.............+.+++
T Consensus 74 ~~~~~~~~ipvV~~~~~--~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 74 VEEAYRAGIPVILLDRK--IL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHCCCCEEEeCCC--CC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 34456689999987643 11 11 123346778888888888988664 88999999754432200334677888
Q ss_pred HHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
.++++ | +.+.... .... +. .+....++++.+ .++++|+. .+...+..+++++++.|+. .+...++.+
T Consensus 147 ~l~~~~~-~~~~~~~--~~~~---~~-~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPK-IKIVAQQ--DGDW---LK-EKAEEKMEELLQANPDIDLVYA--HNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCC-CEEEEec--CCCc---cH-HHHHHHHHHHHHhCCCCcEEEe--CCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 88888 7 7654321 1111 11 122233444432 24777665 5666777889999999987 445555554
Q ss_pred c
Q 006683 269 T 269 (635)
Q Consensus 269 ~ 269 (635)
.
T Consensus 217 ~ 217 (270)
T cd06308 217 G 217 (270)
T ss_pred C
Confidence 4
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=97.82 E-value=0.0046 Score=60.86 Aligned_cols=207 Identities=12% Similarity=0.045 Sum_probs=124.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (635)
+||+++|.. ..+-.+...+++.+.++++ ..+.+.+.++..++..-.+....++ ..++.+|| .+.........
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiIi~~~~~~~~~~~ 74 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN-----PGVKVTVVSADYDLNKQVSQIDNFI-AAKVDLILLNAVDSKGIAPA 74 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC-----CCeEEEEccCCCCHHHHHHHHHHHH-HhCCCEEEEeCCChhHhHHH
Confidence 489999865 3344566667777776653 2355566666677766556666666 56676554 34333322333
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC-CCCCcchHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLA 190 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~-~g~~~~~~~~~~ 190 (635)
...+...++|+|..... .+ + .. ..+..++...+..+++++... |.++++++..... .. ....+.++
T Consensus 75 i~~~~~~~ipvv~~~~~--~~---~-~~---~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~--~~R~~g~~ 143 (271)
T cd06321 75 VKRAQAAGIVVVAVDVA--AE---G-AD---ATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAV--LDRVAGCK 143 (271)
T ss_pred HHHHHHCCCeEEEecCC--CC---C-cc---ceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchH--HHHHHHHH
Confidence 34456679999998754 22 1 11 246788888888889988766 8899999976532 22 44457788
Q ss_pred HHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 191 EALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 191 ~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
+.+++. + ++..... ..... +. ..-...++++.+. .+++|++ .+...+..+++++++.|+. +..+++.
T Consensus 144 ~~~~~~~~-~~~~~~~-~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~--di~v~g~ 213 (271)
T cd06321 144 AALAKYPG-IKLLSDD-QNGKG---SR-DGGLRVMQGLLTRFPKLDGVFA--INDPTAIGADLAAKQAGRN--DIKITSV 213 (271)
T ss_pred HHHHhCCC-cEEEeee-cCCCC---Ch-hhHHHHHHHHHHhCCCCCEEEE--CCchhHHHHHHHHHHcCCC--CcEEEEe
Confidence 888887 5 5432211 11111 11 1122344444333 4687765 5556677788999999983 4555555
Q ss_pred Cc
Q 006683 268 NT 269 (635)
Q Consensus 268 ~~ 269 (635)
+.
T Consensus 214 d~ 215 (271)
T cd06321 214 DG 215 (271)
T ss_pred cC
Confidence 44
No 148
>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=97.81 E-value=0.0019 Score=63.55 Aligned_cols=208 Identities=12% Similarity=0.095 Sum_probs=123.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.. ..+-.....+++.+.++. |+. +.+.++..++....+....++ ..++.++|--.+......+.
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~l~-~~~vdgii~~~~~~~~~~~~ 72 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-----GYS--LLIANSLNDPERELEILRSFE-QRRMDGIIIAPGDERDPELV 72 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-----CCE--EEEEeCCCChHHHHHHHHHHH-HcCCCEEEEecCCCCcHHHH
Confidence 489999854 444556667776666663 233 455666667766666666666 67787776433322234455
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
..+...++|+|..... .+ ...++ +..+...-+..+++.|...|-++++++.............+.+++.++
T Consensus 73 ~~~~~~~ipvV~i~~~--~~----~~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 73 DALASLDLPIVLLDRD--MG----GGADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHhCCCCEEEEecc--cC----CCCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 5667789999988755 22 12233 556666666778888877799999999764332100344577888998
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEEeeC
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~~~ 268 (635)
+.| +.+.....+.... .......++++.+ ..+++|++ .+...+..+++++.+.|+.-+ ....++.+
T Consensus 144 ~~~-~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 144 AAG-LPPDPALVRLSTP-----AASGFDATRALLALPDRPTAIIA--GGTQVLVGVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred HcC-CCCCHHHeecCcH-----HHHHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEEEec
Confidence 888 6542111111110 1222334444432 25788876 445556678899999998532 33444443
No 149
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.79 E-value=0.019 Score=58.23 Aligned_cols=209 Identities=12% Similarity=0.126 Sum_probs=130.4
Q ss_pred eEEEEEEeeCCCc-CcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEE-EEcCCChhhHH
Q 006683 34 VTKIGAIVDANSQ-MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETA 111 (635)
Q Consensus 34 ~i~IG~i~p~s~~-~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~a-iiG~~~s~~~~ 111 (635)
..+||++.+..+. +...+..+++.+.+++.. ...+...|.+.++..-++.+.+++ .+++.+ ++.|..+....
T Consensus 33 ~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~-----~~~~~~~~~~~d~~~Q~~~i~~~i-a~~~daIiv~~~d~~~~~ 106 (322)
T COG1879 33 GKTIGVVVPTLGNPFFQAVRKGAEAAAKKLGV-----VVAVVIADAQNDVAKQIAQIEDLI-AQGVDAIIINPVDPDALT 106 (322)
T ss_pred CceEEEEeccCCChHHHHHHHHHHHHHHHcCC-----cEEEEecccccChHHHHHHHHHHH-HcCCCEEEEcCCChhhhH
Confidence 3889999997642 334444454444444332 466777888889988888999998 777764 45678888888
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH-HHCCC-eEEEEEEEcCCCCCCcchHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNW-RRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l-~~~~w-~~vaii~~~~~~g~~~~~~~~~ 189 (635)
.....+...+||+|..... .+.- ......+..+....+...++++ ++++- .++.++.............+.+
T Consensus 107 ~~v~~a~~aGIpVv~~d~~--~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~ 180 (322)
T COG1879 107 PAVKKAKAAGIPVVTVDSD--IPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGF 180 (322)
T ss_pred HHHHHHHHCCCcEEEEecC--CCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhH
Confidence 8889999999999998755 2221 1234445556777777778877 44432 3466665444322004456778
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
++.+.+.+ ..+........+. ....-.+.++.+..+.+++-.++..+...+....+++++.|..+
T Consensus 181 ~~~l~~~~-~~~~v~~~~~~~~----~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 181 RDALKEHP-PDIEVVDVQTGDW----DRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHHhCC-CcEEEeeccCCcc----cHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 88898887 4322222121111 11334455666666666665553455556666677777888876
No 150
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.79 E-value=0.0029 Score=62.09 Aligned_cols=207 Identities=11% Similarity=0.124 Sum_probs=120.8
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||++.|.. ...-.....+++.+.++. |+.+ .+.+...++..-.+....++ ..++.+||-...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~-~~~~ 71 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA-----GYQL--LLGNTGYSPEREEELLRTLL-SRRPAGLILTGLEHT-ERTR 71 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc-----CCEE--EEecCCCCchhHHHHHHHHH-HcCCCEEEEeCCCCC-HHHH
Confidence 379999864 333345556666665553 3444 34555555555455566666 677887764332222 2334
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+ . +....+..+....+..+++++...|-+++++|..+.. .. ....+.+++.
T Consensus 72 ~~~~~~~ipvv~~~~~--~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~gf~~~ 141 (268)
T cd01575 72 QLLRAAGIPVVEIMDL--PP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRA--QQRLEGFRAA 141 (268)
T ss_pred HHHHhcCCCEEEEecC--CC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccH--HHHHHHHHHH
Confidence 4455679999977533 11 1 1122356777888888899998889999999986643 22 3445678888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
+++.| ............. + .......++++.+. .+++|++ .+...+..+++.+.+.|+. +.+...++.+
T Consensus 142 l~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~di~vig~d 213 (268)
T cd01575 142 LRAAG-LDPPLVVTTPEPS---S-FALGRELLAELLARWPDLDAVFC--SNDDLALGALFECQRRGISVPEDIAIAGFG 213 (268)
T ss_pred HHHcC-CCCCceeEeccCC---C-HHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCcceEEEecC
Confidence 88887 5332222121111 1 12233445555433 5788776 4455667789999999875 3333344433
No 151
>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=97.78 E-value=0.0026 Score=62.83 Aligned_cols=206 Identities=14% Similarity=0.137 Sum_probs=117.0
Q ss_pred EEEEEEeeCC--------CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 35 TKIGAIVDAN--------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 35 i~IG~i~p~s--------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
=.||+++|.. ..+...+..+++.++++. |+++.+...+ .+. ...+.+.+...++.+||-..+
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~v~~~~--~~~---~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER-----GYDLLLSFVS--SPD---RDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHHc-----CCEEEEEeCC--chh---HHHHHHHHHhCCCCEEEEeCC
Confidence 4689999952 223334445555444432 4556554333 221 233445554567776653222
Q ss_pred hhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcc
Q 006683 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSG 184 (635)
Q Consensus 107 s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~ 184 (635)
.... .....+...++|+|..+.. .+. ..++ .+.+++...+..++++|...|.++++++..+.. .+ ..
T Consensus 74 ~~~~-~~~~~~~~~~ipvV~~~~~--~~~---~~~~---~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~--~~ 142 (275)
T cd06295 74 HDQD-PLPERLAETGLPFVVWGRP--LPG---QPYC---YVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEG--EE 142 (275)
T ss_pred CCCh-HHHHHHHhCCCCEEEECCc--cCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchh--HH
Confidence 1112 2245566789999987644 222 2223 467788888999999998889999999976443 23 45
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC-CCC
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKD 261 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~ 261 (635)
..+.|++.+++.| ..+.......... +. ......+.++.+. ++++|++ . +...+..+++.+++.|+. ++.
T Consensus 143 r~~gf~~~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~-~-~~~~a~g~~~~l~~~g~~ip~~ 215 (275)
T cd06295 143 RLEGYREALAEAG-LPLDPRLVAPGDF---TE-ESGRAAMRALLERGPDFDAVFA-A-SDLMALGALRALREAGRRVPED 215 (275)
T ss_pred HHHHHHHHHHHcC-CCCChhhEEeccC---CH-HHHHHHHHHHHhCCCCCCEEEE-C-CcHHHHHHHHHHHHhCCCCccc
Confidence 5677888888877 5443221111111 11 2223344444332 4688776 4 455667888889999984 333
Q ss_pred eEEEeeC
Q 006683 262 SVWIVTN 268 (635)
Q Consensus 262 ~~~i~~~ 268 (635)
...+..+
T Consensus 216 i~ii~~d 222 (275)
T cd06295 216 VAVVGFD 222 (275)
T ss_pred eEEEeeC
Confidence 4444443
No 152
>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=97.77 E-value=0.0018 Score=63.62 Aligned_cols=198 Identities=15% Similarity=0.123 Sum_probs=118.1
Q ss_pred EEEEEeeCC--CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
.||+++|.. ..+......+++.+.++. |+.+ .+.++..++..-.+....+. ..+++++|........ +
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~-~~~~dgiii~~~~~~~--~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-----GYLL--LVVNTGGDDELEAEAVEALL-DHRVDGIIYATMYHRE--V 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCCh--h
Confidence 489999874 444456666777666653 3444 44455555554445556665 6777766654332111 1
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l 193 (635)
.......++|+|..... .+. ..++ .+.+++...+..+++++...|-++++++..+..........+.+.+.+
T Consensus 71 ~~~~~~~~ipvv~~~~~--~~~---~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 TLPPELLSVPTVLLNCY--DAD---GALP---SVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred HHHHHhcCCCEEEEecc--cCC---CCCC---eEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 22234578999987644 221 1223 466788888899999987779999999986543210034567788888
Q ss_pred hccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
++.+ +.+.......... + ..+....++++.+. ++++|++ .+...+..+++++++.|+.
T Consensus 143 ~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~ 202 (269)
T cd06288 143 AEAG-IPFDPDLVVHGDW---S-ADDGYEAAAALLDLDDRPTAIFC--GNDRMAMGAYQALLERGLR 202 (269)
T ss_pred HHcC-CCCCHHHeEeCCC---C-hHHHHHHHHHHHhCCCCCCEEEE--eCcHHHHHHHHHHHHcCCC
Confidence 8887 6432111111111 0 02233445555433 4788765 5666677888999999985
No 153
>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=97.77 E-value=0.0051 Score=60.30 Aligned_cols=200 Identities=13% Similarity=0.152 Sum_probs=120.5
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||++.|.. ..+-..+..+++.+.++.+ +.+ .+.+...++..-.....+++ ..++++||-.........+
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~g-----~~~--~~~~~~~~~~~~~~~~~~l~-~~~~dgiii~~~~~~~~~l- 71 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAHG-----YQV--LVCNSDNDPEKEKEYLESLL-AYQVDGLIVNPTGNNKELY- 71 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHcC-----CEE--EEEcCCCCHHHHHHHHHHHH-HcCcCEEEEeCCCCChHHH-
Confidence 378999865 3444566677777776543 344 44556666666566667777 5677766532222222233
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-CCCCcchHHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEAL 193 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~~~~l 193 (635)
..+...++|+|..... .+ ....+ .+..++...+..++++|...|-++++++..... ........+.+++.+
T Consensus 72 ~~~~~~~ipvV~~~~~--~~---~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 72 QRLAKNGKPVVLVDRK--IP---ELGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred HHHhcCCCCEEEEcCC--CC---CCCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 4456789999988644 22 12223 355677788888999998889999999975433 110024467788888
Q ss_pred hccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
++.| ............. + .......++++.+. .+++|++ .+...+..+++.+++.|+..
T Consensus 144 ~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~v 204 (267)
T cd06283 144 AEHG-IGVNEELIEIDDE---D-ADELDERLRQLLNKPKKKTAIFA--ANGLILLEVLKALKELGIRI 204 (267)
T ss_pred HHcC-CCCCcceeEeccc---c-hHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 8877 5332211111111 0 13344566666544 4678776 45556677899999999853
No 154
>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=97.76 E-value=0.0036 Score=61.61 Aligned_cols=207 Identities=11% Similarity=0.091 Sum_probs=123.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
.||++.|.. ..+......+++.+.++. |+++ .+.++..++..-.+....++ ..++.+||- +.... . ..
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~-~-~~ 70 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAAA-----GYDV--VLSESGRRTSPERQWVERLS-ARRTDGVILVTPELT-S-AQ 70 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCchHHHHHHHHHHH-HcCCCEEEEecCCCC-h-HH
Confidence 378999864 445566666776666652 3444 44555555544445556666 677876653 33222 2 23
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .. .....+ .+.++....+...++.+...|.++++++..... .. ....+.+.+
T Consensus 71 ~~~~~~~~ipvV~i~~~--~~--~~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~gf~~ 141 (270)
T cd06296 71 RAALRRTGIPFVVVDPA--GD--PDADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCS--RARLDGYRA 141 (270)
T ss_pred HHHHhcCCCCEEEEecc--cC--CCCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhH--HHHHHHHHH
Confidence 45567789999988644 11 112233 367788888888899888889999999975432 22 455677888
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
.+++.+ +.+.......... ........++++.+ ..+++|+. .+...+..+++.+++.|+. +.+...++.+
T Consensus 142 ~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 142 ALAEAG-IPVDPALVREGDF----STESGFRAAAELLALPERPTAIFA--GNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHHHcC-CCCChHHheeCCC----CHHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 888877 5543211111111 01223334444433 25677765 5566677889999999985 3344445443
No 155
>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=97.75 E-value=0.0053 Score=60.34 Aligned_cols=209 Identities=10% Similarity=0.065 Sum_probs=124.1
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ..+...+..+++.+.++.| +++.+ .++..++..-.+....++ ..++.+||-..+.... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~g-----~~~~~--~~~~~~~~~~~~~i~~~~-~~~vdgii~~~~~~~~-~~~ 71 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKAG-----KHLII--TAGHHSAEKEREAIEFLL-ERRCDALILHSKALSD-DEL 71 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHCC-----CEEEE--EeCCCchHHHHHHHHHHH-HcCCCEEEEecCCCCH-HHH
Confidence 489999875 4445566677766666633 44544 444455555555666666 6778877753332222 224
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
..+...++|+|..... .+ ...+++ +..+....+..++++|...|-+++++|..+..........+.+++.++
T Consensus 72 ~~~~~~~ipvV~~~~~--~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 72 IELAAQVPPLVLINRH--IP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHhhCCCCEEEEecc--CC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 4456789999988644 22 212232 567888888999999988899999999764332100344567888888
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~ 268 (635)
+.| +.+.......... + ..+....++++.+. .+++|+. ++...+..+++.+++.|+.- .+...++.+
T Consensus 144 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~di~v~g~d 213 (268)
T cd06270 144 EAG-IALDESLIIEGDF---T-EEGGYAAMQELLARGAPFTAVFC--ANDEMAAGAISALREHGISVPQDVSIIGFD 213 (268)
T ss_pred HcC-CCCCcceEEECCC---C-HHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceeEEEec
Confidence 888 6542211111111 0 12334455555443 4677775 55556778899999999853 333334433
No 156
>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=97.75 E-value=0.0028 Score=62.31 Aligned_cols=198 Identities=12% Similarity=0.117 Sum_probs=117.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||++.|.. ..+...+..+++.+.++. |+++. +.++..++..-.+....+. ..++++||-.........+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 72 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ-----GYNLI--LCNTEGDPERQRSYLRMLA-QKRVDGLLVMCSEYDQPLLA 72 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEEE--EEeCCCChHHHHHHHHHHH-HcCCCEEEEecCCCChHHHH
Confidence 389999864 444556666777666652 34453 4556667766666667776 56776555322222222223
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
.+....++|+|..... .+ ...+++ +..+....+..++++|...|-++++++..... .. ....+.+.+.
T Consensus 73 ~l~~~~~ipvV~i~~~--~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~--~~r~~gf~~~ 142 (269)
T cd06275 73 MLERYRHIPMVVMDWG--PE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPA--QQRLAGFRRA 142 (269)
T ss_pred HHHhcCCCCEEEEecc--cC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccH--HHHHHHHHHH
Confidence 3334569999987644 22 122333 45677777788889988889999999975433 22 3446778888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.| +.+.......... + .......++++.+. .+++|++ .+...+..+++.+++.|+.
T Consensus 143 ~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ 203 (269)
T cd06275 143 MAEAG-LPVNPGWIVEGDF---E-CEGGYEAMQRLLAQPKRPTAVFC--GNDLMAMGALCAAQEAGLR 203 (269)
T ss_pred HHHcC-CCCCHHHhccCCC---C-hHHHHHHHHHHHcCCCCCcEEEE--CChHHHHHHHHHHHHcCCC
Confidence 88888 6643211111111 1 12233455555433 4677765 5566677888999999875
No 157
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.74 E-value=0.0081 Score=61.08 Aligned_cols=207 Identities=11% Similarity=0.080 Sum_probs=120.9
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCC-hhhH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEET 110 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~-s~~~ 110 (635)
..-.||+++|.. ..+...+..+++.+.++ . |+.+.+ ..+..++..-.+....++ ..++.+||-... ....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~---~--g~~~~~--~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~ 131 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ---R--GYQLLI--ACSDDQPDNEMRCAEHLL-QRQVDALIVSTSLPPEH 131 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH---c--CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEcCCCCCCh
Confidence 456899999853 33334455555555544 2 455544 344445554445555555 677887664322 2122
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~ 188 (635)
..+ ..+...++|+|..... . ....+++ +..++...+..++++|...|-++|+++..... .+ ....+.
T Consensus 132 ~~~-~~l~~~~iPvV~v~~~--~---~~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~--~~R~~G 200 (328)
T PRK11303 132 PFY-QRLQNDGLPIIALDRA--L---DREHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVS--FEREQG 200 (328)
T ss_pred HHH-HHHHhcCCCEEEECCC--C---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccH--HHHHHH
Confidence 223 3345679999987543 1 1222333 45777778888889888889999999975443 23 445678
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEE
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWI 265 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i 265 (635)
|++.+++.| +.+... ..... +. .+-...++++.+. .+++|++ .+...+..+++++.+.|+. +.+...+
T Consensus 201 f~~al~~~g-~~~~~~--~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~disv~ 271 (328)
T PRK11303 201 FRQALKDDP-REVHYL--YANSF---ER-EAGAQLFEKWLETHPMPDALFT--TSYTLLQGVLDVLLERPGELPSDLAIA 271 (328)
T ss_pred HHHHHHHcC-CCceEE--EeCCC---Ch-HHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 899999888 654322 11111 11 2223344454433 5788876 4455677888999999984 3344444
Q ss_pred ee
Q 006683 266 VT 267 (635)
Q Consensus 266 ~~ 267 (635)
+.
T Consensus 272 gf 273 (328)
T PRK11303 272 TF 273 (328)
T ss_pred Ee
Confidence 33
No 158
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.73 E-value=0.018 Score=58.55 Aligned_cols=201 Identities=9% Similarity=0.017 Sum_probs=111.6
Q ss_pred EEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHH
Q 006683 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (635)
Q Consensus 35 i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~ 112 (635)
.+|+++.... .++...+..|++.+.++. |+++.+. ..+..++..-.+....++ .+++.+|+- |..+.....
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~-----G~~v~~~-~~~~~d~~~q~~~i~~li-~~~vdgIiv~~~d~~al~~ 96 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL-----GVDVTYD-GPTEPSVSGQVQLINNFV-NQGYNAIIVSAVSPDGLCP 96 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh-----CCEEEEE-CCCCCCHHHHHHHHHHHH-HcCCCEEEEecCCHHHHHH
Confidence 4799888655 344455666666666653 3455432 234456665567777888 678876664 444444456
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEec-CcHHHHHHHHHHHHH-C--CCeEEEEEEEcCCCCCCcchHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLARK-Y--NWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p-~~~~~~~al~~~l~~-~--~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
....+...+||+|..... .+. +. . .+-+.. ++...+..+++++.+ . +-.+++++.............+.
T Consensus 97 ~l~~a~~~gIpVV~~d~~--~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 97 ALKRAMQRGVKVLTWDSD--TKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHCCCeEEEeCCC--CCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 666778889999998654 221 11 1 122332 234567666777644 3 34688888754321100233455
Q ss_pred HHHHHhc--cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 189 LAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 189 ~~~~l~~--~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.+.+ .+ ++++... +... + ...-...++++.++ +.++|+. . +...+...++++++.|+.
T Consensus 170 ~~~~l~~~~p~-~~vv~~~-~~~~----d-~~~a~~~~~~lL~~~pdi~aI~~-~-~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPG-WEIVTTQ-FGYN----D-ATKSLQTAEGILKAYPDLDAIIA-P-DANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCC-CEEEeec-CCCC----c-HHHHHHHHHHHHHHCCCCcEEEE-C-CCccHHHHHHHHHhCCCC
Confidence 6666643 24 6665432 1111 1 12233455555444 4566665 4 444555678888888864
No 159
>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=97.72 E-value=0.0041 Score=60.99 Aligned_cols=191 Identities=17% Similarity=0.132 Sum_probs=113.1
Q ss_pred EEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
||++.|.. ..+...+..+++.+.++ . |+++.+...++ +. ...+...+++ ..++.++|-..+.... ....
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~---~--g~~~~~~~~~~--~~-~~~~~i~~~~-~~~vdgiii~~~~~~~-~~~~ 71 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA---R--GYQPLLINTDD--DE-DLDAALRQLL-QYRVDGVIVTSGTLSS-ELAE 71 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH---C--CCeEEEEcCCC--CH-HHHHHHHHHH-HcCCCEEEEecCCCCH-HHHH
Confidence 78999864 34444555555444443 2 45665554443 33 3334455666 6778876653333222 3355
Q ss_pred hhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHHH
Q 006683 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~l 193 (635)
.+...++|+|..... .+ .. .+..+.++....+..+++++...|-++++++..+.. .. ....+.+.+.+
T Consensus 72 ~~~~~~ipvV~~~~~--~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~gf~~~~ 141 (266)
T cd06278 72 ECRRNGIPVVLINRY--VD---GP---GVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTS--RERERGFRDAL 141 (266)
T ss_pred HHhhcCCCEEEECCc--cC---CC---CCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccch--HHHHHHHHHHH
Confidence 566789999988644 22 11 223477888888999999998889999999986543 23 44567788888
Q ss_pred hccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcC
Q 006683 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
++.| ..+.... ..... .......++++.+. .+++|+. .+...+..+++.+++.+
T Consensus 142 ~~~~-~~~~~~~-~~~~~-----~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 142 AAAG-VPVVVEE-AGDYS-----YEGGYEAARRLLASRPRPDAIFC--ANDLLAIGVMDAARQEG 197 (266)
T ss_pred HHcC-CChhhhc-cCCCC-----HHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHhc
Confidence 8888 6642211 11111 12233444444433 5677776 44555667777777653
No 160
>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=97.72 E-value=0.0061 Score=61.95 Aligned_cols=208 Identities=10% Similarity=0.061 Sum_probs=121.2
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (635)
..-.||+++|.. ..+...+..+++.+.++ . |+.+.+ .++..++..-.+....++ ..++.++|- +......
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~---~--gy~~~i--~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~ 130 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE---A--GYQLLI--ACSDDNPDQEKVVIENLL-ARQVDALIVASCMPPED 130 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH---C--CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCCCCh
Confidence 457899999853 33344455555554443 2 455544 444445555445555555 677876653 3322122
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~ 188 (635)
.....+...++|+|..... .+ +..+++ +.+++...+..++++|...|.++++++..... .. ....+.
T Consensus 131 -~~~~~l~~~~iPvV~~~~~--~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 199 (327)
T TIGR02417 131 -AYYQKLQNEGLPVVALDRS--LD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVS--RDRLAG 199 (327)
T ss_pred -HHHHHHHhcCCCEEEEccc--cC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhH--HHHHHH
Confidence 2234455679999987644 22 222333 55677777788888888889999999975443 22 345677
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc---CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
+++.+++.| +..... +.... +. .+-...++++.+. .+++|++ .+...+..+++++++.|-.+++...+
T Consensus 200 f~~al~~~~-~~~~~~--~~~~~---~~-~~~~~~~~~ll~~~~~~~~Ai~~--~~D~~A~g~~~al~~~g~vP~dvsvi 270 (327)
T TIGR02417 200 FRQALKQAT-LEVEWV--YGGNY---SR-ESGYQMFAKLCARLGRLPQALFT--TSYTLLEGVLDYMLERPLLDSQLHLA 270 (327)
T ss_pred HHHHHHHcC-CChHhE--EeCCC---Ch-HHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceEE
Confidence 888998888 653221 11111 00 2223455555432 3688876 44556778899999999333445555
Q ss_pred eeC
Q 006683 266 VTN 268 (635)
Q Consensus 266 ~~~ 268 (635)
+.+
T Consensus 271 gfd 273 (327)
T TIGR02417 271 TFG 273 (327)
T ss_pred EEC
Confidence 544
No 161
>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=97.72 E-value=0.013 Score=58.73 Aligned_cols=219 Identities=9% Similarity=0.070 Sum_probs=121.5
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (635)
|||++.|.. ..+-..+..+++.+.++++ ..+.+.+.+...++..-.+....++ ..++.+|| .|..+.....+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~-----~g~~~~~~~~~~~~~~q~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 74 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG-----GKVEFTFYDAKNNQSTQNEQIDTAL-AKGVDLLAVNLVDPTAAQTV 74 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC-----CCeeEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEecCchhhHHHH
Confidence 589999864 3334455566666666652 2255566677778876666777777 67777555 44444333455
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CC---------eE--EEEEEEcCCCC
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NW---------RR--VAAIYEDNVYG 180 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w---------~~--vaii~~~~~~g 180 (635)
...+...++|+|..... .+...-+..+-+..+.++....+..++++|... +- .+ ++++..+....
T Consensus 75 ~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 75 INKAKQKNIPVIFFNRE--PEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHCCCCEEEeCCC--CcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 55667789999987644 221111111223456777777777777877443 22 12 34454332211
Q ss_pred CCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhh-hc--CceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-DK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 181 ~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~-~~--~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
......+.+++.+++.+ ..+.......... +. ......++++. +. .+++|+. .+...+..+++++++.|+
T Consensus 153 ~~~~R~~gf~~~l~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~L~~~~~~~~ai~~--~~d~~a~g~~~al~~~g~ 225 (303)
T cd01539 153 DAIARTKYSIETLNDAG-IKTEELASDTANW---DR-AQAKDKMDALLLKYGDKIEAVIA--NNDAMALGAIEALQKYGY 225 (303)
T ss_pred hhhhhhhhHHHHHHhcC-CCeEEEEeecCCC---CH-HHHHHHHHHHHHhcCCCccEEEE--CCchHHHHHHHHHHHcCC
Confidence 00233566888888887 6543221111111 11 22223444443 32 3677665 455556678888888888
Q ss_pred CCC----CeEEEeeCc
Q 006683 258 VGK----DSVWIVTNT 269 (635)
Q Consensus 258 ~~~----~~~~i~~~~ 269 (635)
..+ ....++.+.
T Consensus 226 ~~p~~~~di~iig~d~ 241 (303)
T cd01539 226 NKGDKSKNIPVVGVDA 241 (303)
T ss_pred CcCCCCCceEEEccCC
Confidence 653 455554443
No 162
>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=97.72 E-value=0.0068 Score=60.96 Aligned_cols=213 Identities=14% Similarity=0.114 Sum_probs=122.3
Q ss_pred EEEEeeCC--CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcC--CeEEEEcCCChhhHHH
Q 006683 37 IGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAGMETWEETAV 112 (635)
Q Consensus 37 IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~--~v~aiiG~~~s~~~~~ 112 (635)
||+++|.. ..+......+++.+.++. |+.+.+ .++..+..........++ .. ++.+||=...+.....
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-----g~~v~~--~~~~~~~~~~~~~i~~~~-~~~~~vdgiIi~~~~~~~~~ 73 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-----GIELEV--LYAERDRFLMLQQARTIL-QRPDKPDALIFTNEKSVAPE 73 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-----CCeEEE--EeCCCCHHHHHHHHHHHH-HhccCCCEEEEcCCccchHH
Confidence 78888864 233345555666555442 344444 455566766666677777 56 8887664222222334
Q ss_pred HHHhhccCCccEEeecCCCCCCCCC-------CCCC-ceEEEEecCcHHHHHHHHHHHHHCCCeE--------EEEEEEc
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSM-------SRRW-PYLIRMASNDSEQMKCIADLARKYNWRR--------VAAIYED 176 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~-------~~~~-p~~~r~~p~~~~~~~al~~~l~~~~w~~--------vaii~~~ 176 (635)
....+...++|+|..... .+... ...+ +++-.+.++....++.+++.|...+.++ ++++...
T Consensus 74 ~~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 74 LLRLAEGAGVKLFLVNSG--LTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHhCCCeEEEEecC--CCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 456677799999988754 22211 0111 2345577888888889999887666553 7766643
Q ss_pred CC--CCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHH
Q 006683 177 NV--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEA 252 (635)
Q Consensus 177 ~~--~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a 252 (635)
.. .. ....+.+++.++++|...+... +.... + ...-...++++.+. ++++|+. .+...+..+++++
T Consensus 152 ~~~~~~--~~R~~Gf~~~~~~~g~~~~~~~--~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al 221 (305)
T cd06324 152 PTTPAA--ILREAGLRRALAEHPDVRLRQV--VYAGW---S-EDEAYEQAENLLKRYPDVRLIWA--ANDQMAFGALRAA 221 (305)
T ss_pred CCChHH--HHHHHHHHHHHHHCCCceEeee--ecCCC---C-HHHHHHHHHHHHHHCCCccEEEE--CCchHHHHHHHHH
Confidence 22 22 3446678888887751333221 21111 1 12233455555433 4677665 5566777899999
Q ss_pred HHcCCCC-CCeEEEeeCc
Q 006683 253 NRMGLVG-KDSVWIVTNT 269 (635)
Q Consensus 253 ~~~g~~~-~~~~~i~~~~ 269 (635)
++.|+.- +....++.+.
T Consensus 222 ~~~g~~vp~di~vig~D~ 239 (305)
T cd06324 222 KEAGRKPGRDVLFGGVNW 239 (305)
T ss_pred HHcCCCcCCCEEEEecCC
Confidence 9999863 3445554443
No 163
>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=97.72 E-value=0.0058 Score=59.90 Aligned_cols=197 Identities=18% Similarity=0.187 Sum_probs=116.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.. ..+-..+..+++.+.++.| +.+. +.++..++..-......++ ..++.+||-........ ..
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~g-----~~~~--~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~-~~ 71 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAAG-----YSTI--IGNSDENPETENRYLDNLL-SQRVDGIIVVPHEQSAE-QL 71 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHcC-----CEEE--EEeCCCCHHHHHHHHHHHH-hcCCCEEEEcCCCCChH-HH
Confidence 489999864 4445567777777776543 3343 4455556655555566666 77888666433322222 34
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+ ....+++ ..+....+..+++++...|-++|+++..... .. ....+.+++.
T Consensus 72 ~~l~~~~ipvV~~~~~--~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~--~~R~~gf~~~ 141 (265)
T cd06299 72 EDLLKRGIPVVFVDRE--IT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTG--RERLEAFRQA 141 (265)
T ss_pred HHHHhCCCCEEEEecc--cC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccH--HHHHHHHHHH
Confidence 5556689999987654 22 2233443 3455555566677777778899999965443 22 3445678888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.| ..+.......... + .......++++.+.++++|++ .+...+..+++.+++.|+.
T Consensus 142 ~~~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~av~~--~~d~~a~gv~~al~~~g~~ 200 (265)
T cd06299 142 CASLG-LEVNEDLVVLGGY---S-QESGYAGATKLLDQGATAIIA--GDSMMTIGAIRAIHDAGLV 200 (265)
T ss_pred HHHCC-CCCChHhEEecCc---c-hHHHHHHHHHHHcCCCCEEEE--cCcHHHHHHHHHHHHhCCC
Confidence 88887 5432211111111 0 122334555554445888776 5555677888999998875
No 164
>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=97.71 E-value=0.0069 Score=59.56 Aligned_cols=200 Identities=15% Similarity=0.104 Sum_probs=117.2
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||++.|.. ..+......+++.+.++. |+++.+ .++..++..-.+....+. ..++.++|--.+......+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----gy~v~~--~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 72 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR-----GLSLVL--CATRNRPERELTYLRWLD-TNHVDGLIFVTNRPDDGALA 72 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC-----CCEEEE--EeCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCCHHHHH
Confidence 489999864 344445555665555533 355543 444445554444455555 77788777533322223333
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
.+. ..++|+|..... .+ +...+ .+.+++...+..++++|...|-++++++..+..........+.+++.++
T Consensus 73 ~~~-~~~~pvV~i~~~--~~---~~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 73 KLI-NSYGNIVLVDED--VP---GAKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHH-hcCCCEEEECCC--CC---CCCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 333 357999987644 22 11122 3668888899999999988899999999755432100344678889998
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+.| ..+.......... + .......++++.+ ..+++|++ ++...+..+++.+++.|+.-
T Consensus 144 ~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~v 203 (269)
T cd06293 144 EAH-IPEVPEYVCFGDY---T-REFGRAAAAQLLARGDPPTAIFA--ASDEIAIGLLEVLRERGLSI 203 (269)
T ss_pred HcC-CCCChheEEecCC---C-HHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 887 5432211111111 0 1223344555433 25788776 56666778889999999753
No 165
>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=97.69 E-value=0.011 Score=58.01 Aligned_cols=197 Identities=13% Similarity=0.136 Sum_probs=115.0
Q ss_pred EEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|... .+-..+..+++.+.++ . |+.+. +.++..++..-.+....++ ..++.+|+-.........+
T Consensus 1 ~igvi~~~~~~~~~~~~~~~~~~~~~~---~--g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~- 71 (264)
T cd06274 1 TIGLIIPDLENRSFARIAKRLEALARE---R--GYQLL--IACSDDDPETERETVETLI-ARQVDALIVAGSLPPDDPY- 71 (264)
T ss_pred CEEEEeccccCchHHHHHHHHHHHHHH---C--CCEEE--EEeCCCCHHHHHHHHHHHH-HcCCCEEEEcCCCCchHHH-
Confidence 3899998642 2223333444433332 2 44444 4455556665556666666 6778866643332222223
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+ ....++ +..++...+..+++++.+.|-++++++..... .. ....+.+++.
T Consensus 72 ~~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~gf~~~ 141 (264)
T cd06274 72 YLCQKAGLPVVALDRP--GD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPS--RERLAGFRQA 141 (264)
T ss_pred HHHHhcCCCEEEecCc--cC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccch--HHHHHHHHHH
Confidence 3456689999988644 21 222333 55677777788899888889999999976543 22 4456788888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc---CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.| +.+.......... +. ..-...++++.+. .+++|++ .+...+..+++++++.|+.
T Consensus 142 ~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~ 203 (264)
T cd06274 142 LADAG-LPVQPDWIYAEGY---SP-ESGYQLMAELLARLGRLPRALFT--TSYTLLEGVLRFLRERPGL 203 (264)
T ss_pred HHHcC-CCCCcceeecCCC---Ch-HHHHHHHHHHHccCCCCCcEEEE--cChHHHHHHHHHHHHcCCC
Confidence 98887 5432211111111 11 2223344444322 4788776 4566677889999999985
No 166
>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=97.69 E-value=0.007 Score=59.53 Aligned_cols=202 Identities=9% Similarity=-0.029 Sum_probs=119.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC--CCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAG-METWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~ 111 (635)
+||+++|.. ..+...+..+++.+.++.| +++. +.+.. .+...-.+....++ ..++.+||- +.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g-----~~~~--~~~~~~~~~~~~~~~~i~~~~-~~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLG-----VSLK--LLEAGGYPNLAKQIAQLEDCA-AWGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcC-----CEEE--EecCCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChhhHH
Confidence 589999864 3444456667776666543 4444 44433 34445555666776 677876654 32222222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCC-----eEEEEEEEcCC--CCCCcc
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW-----RRVAAIYEDNV--YGGDSG 184 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w-----~~vaii~~~~~--~g~~~~ 184 (635)
....+...++|+|..... .. +. .....+..+....++.++++|...+- ++++++..... .. ..
T Consensus 73 -~~~~~~~~giPvV~~~~~--~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~--~~ 142 (268)
T cd06306 73 -EILQQVAASIPVIALVND--IN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWV--KA 142 (268)
T ss_pred -HHHHHHHCCCCEEEeccC--CC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchH--HH
Confidence 234466789999987533 11 11 12234677778888888898866654 79999975433 22 44
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCe
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDS 262 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~ 262 (635)
..+.+++.+++.+ +++... ..... ........++++.+. ++++|+. . ...+..+++.+++.|+ ++..
T Consensus 143 R~~g~~~~~~~~~-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~-~--d~~a~~~~~~l~~~g~-p~di 211 (268)
T cd06306 143 VEKGFRDALAGSA-IEISAI--KYGDT----GKEVQRKLVEEALEAHPDIDYIVG-S--AVAAEAAVGILRQRGL-TDQI 211 (268)
T ss_pred HHHHHHHHHhhcC-cEEeee--ccCCc----cHHHHHHHHHHHHHhCCCcCEEee-c--chhhhHHHHHHHhcCC-CCCe
Confidence 4677888898888 776542 11111 112333455555433 4677764 3 5667778889999997 3444
Q ss_pred EEEe
Q 006683 263 VWIV 266 (635)
Q Consensus 263 ~~i~ 266 (635)
..++
T Consensus 212 ~vig 215 (268)
T cd06306 212 KIVS 215 (268)
T ss_pred EEEe
Confidence 4444
No 167
>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=97.68 E-value=0.0066 Score=59.67 Aligned_cols=207 Identities=11% Similarity=0.103 Sum_probs=116.8
Q ss_pred EEEEeeC----CCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 37 IGAIVDA----NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 37 IG~i~p~----s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
||+++|. +..+......+++.+.++. |+++.+...|. +...-......++ ..++.+||....... .
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~--~~~~~~~~~~~l~-~~~vdgiii~~~~~~--~ 71 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY-----GYNLILKFVSD--EDEEEFELPSFLE-DGKVDGIILLGGIST--E 71 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc-----CCEEEEEeCCC--ChHHHHHHHHHHH-HCCCCEEEEeCCCCh--H
Confidence 8999987 2334455556665555542 45666555443 3322222233344 677887775332221 2
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 192 (635)
....+...++|+|..... .+ ....++ +..+....+...++++...|.++++++.............+.|.+.
T Consensus 72 ~~~~l~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~ 143 (268)
T cd06277 72 YIKEIKELGIPFVLVDHY--IP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKA 143 (268)
T ss_pred HHHHHhhcCCCEEEEccC--CC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHH
Confidence 245566789999987643 22 222233 5566677777778888888999999997654321003445678888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~ 268 (635)
+++.| +.+.....+.... .....+...++++.. .+++|++ .+...+..+++++.+.|+.. ++...++.+
T Consensus 144 ~~~~~-~~~~~~~~~~~~~---~~~~~~~~~l~~~~~-~~~ai~~--~~d~~a~g~~~a~~~~g~~~p~di~vig~d 213 (268)
T cd06277 144 LLDHG-IPFNEDYDITEKE---EDEEDIGKFIDELKP-LPTAFFC--SNDGVAFLLIKVLKEMGIRVPEDVSVIGFD 213 (268)
T ss_pred HHHcC-CCCCcceEEEcch---hHHHHHHHHHhcCCC-CCCEEEE--CCcHHHHHHHHHHHHcCCCCCCcceEEeec
Confidence 88888 6543222111111 111334444444322 4777765 55556677888888888852 334444433
No 168
>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=97.64 E-value=0.012 Score=58.07 Aligned_cols=183 Identities=10% Similarity=0.032 Sum_probs=109.8
Q ss_pred EEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEec
Q 006683 71 LSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS 149 (635)
Q Consensus 71 l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p 149 (635)
+.+.+.++..++..-.+....++ ..++.+||- +..+.........+...+||+|..... .+ ....+....+.+
T Consensus 30 ~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~--~~---~~~~~~~~~v~~ 103 (272)
T cd06313 30 VDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL--IA---PLQINVHSFLAP 103 (272)
T ss_pred CEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC--CC---CCCCceEEEECC
Confidence 44445666678877777788887 677776554 333333344445556679999988654 22 111122334678
Q ss_pred CcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhh
Q 006683 150 NDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV 227 (635)
Q Consensus 150 ~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l 227 (635)
++...+..++++|... |.++++++..+..........+.+++.+++.+..++... ..... + .......++++
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~---~-~~~~~~~~~~~ 177 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANW---D-VSKAARIWETW 177 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCC---C-HHHHHHHHHHH
Confidence 8888889999988665 888999997653321003456778888877641454331 11111 1 12234455554
Q ss_pred hhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 228 QDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 228 ~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
.+. .+++|++ .+...+..+++.+++.|+ .....++.+.
T Consensus 178 l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~--~di~vvgfd~ 217 (272)
T cd06313 178 LTKYPQLDGAFC--HNDSMALAAYQIMKAAGR--TKIVIGGVDG 217 (272)
T ss_pred HHhCCCCCEEEE--CCCcHHHHHHHHHHHcCC--CceEEEeecC
Confidence 433 4677665 555677778899999998 4445554444
No 169
>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=97.63 E-value=0.0037 Score=62.40 Aligned_cols=185 Identities=13% Similarity=0.244 Sum_probs=111.4
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
|||++...+...-.+...|++-++++..-.. ..+++.+.+...|+....+.+.++. ..++++|+. ..+..+..+.+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~--~~~~~~~~~a~~d~~~~~~~~~~l~-~~~~DlIi~-~gt~aa~~~~~ 76 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYDE--KNVEIEYKNAEGDPEKLRQIARKLK-AQKPDLIIA-IGTPAAQALAK 76 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT--C--CCEEEEEEE-TT-HHHHHHHHHHHC-CTS-SEEEE-ESHHHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCcc--ccEEEEEecCCCCHHHHHHHHHHHh-cCCCCEEEE-eCcHHHHHHHH
Confidence 6898888886655677788888887765442 4678888999999988888888776 678888875 34445555655
Q ss_pred hhccCCccEEeecCCCCCCCCCC----CCCc--eEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCC-CCCcchH
Q 006683 116 IASRVQVPILSFAAPAVTPLSMS----RRWP--YLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVY-GGDSGKL 186 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~~----~~~p--~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~-g~~~~~~ 186 (635)
..... +|+|..+.+ +|...+ ...| ++.-+. +.......+++++++ +-++++++|+++.- + ....
T Consensus 77 ~~~~~-iPVVf~~V~--dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~--~~~~ 149 (294)
T PF04392_consen 77 HLKDD-IPVVFCGVS--DPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNS--VAQI 149 (294)
T ss_dssp H-SS--S-EEEECES---TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHH--HHHH
T ss_pred hcCCC-cEEEEEecc--ChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccH--HHHH
Confidence 55443 999988775 554322 1222 443333 444456667777654 46899999987653 3 4557
Q ss_pred HHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCCh
Q 006683 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (635)
Q Consensus 187 ~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~ 242 (635)
+.+++.+++.| +++.... ++.. .++...++.+.+ +.|++++ ..+.
T Consensus 150 ~~~~~~a~~~g-~~l~~~~-v~~~-------~~~~~~~~~l~~-~~da~~~-~~~~ 194 (294)
T PF04392_consen 150 EQLRKAAKKLG-IELVEIP-VPSS-------EDLEQALEALAE-KVDALYL-LPDN 194 (294)
T ss_dssp HHHHHHHHHTT--EEEEEE-ESSG-------GGHHHHHHHHCT-T-SEEEE--S-H
T ss_pred HHHHHHHHHcC-CEEEEEe-cCcH-------hHHHHHHHHhhc-cCCEEEE-ECCc
Confidence 78888888899 8876543 3321 467788888764 6788888 5554
No 170
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.61 E-value=0.0063 Score=59.70 Aligned_cols=205 Identities=15% Similarity=0.127 Sum_probs=122.9
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ..+...+..++..+.++. |+.+ .+.++..++..-.+....++ ..++++||=..+...... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-----~~~~--~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~~~~-~ 71 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-----GYST--FVANTGDNPDAQRRAIEMLL-DRRVDGLILGDARSDDHF-L 71 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCChHH-H
Confidence 489999964 334445555666555553 3444 34555556655555555665 677876553222222233 3
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
..+...++|+|..... .+ ..++ +..+....+..++++|...|-++++++..+.. .. ....+.+.+.
T Consensus 72 ~~~~~~~iPvv~~~~~--~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~--~~R~~Gf~~~ 139 (265)
T cd06285 72 DELTRRGVPFVLVLRH--AG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTA--RDRLAGFRAA 139 (265)
T ss_pred HHHHHcCCCEEEEccC--CC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccH--HHHHHHHHHH
Confidence 4456689999987644 21 2333 56677788888899998889999999986543 23 4556778888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
+++.| +.+.....+.... +. ......++++.+. .+++|++ .+...+..+++.+++.|+. +++...++.+
T Consensus 140 ~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 140 LAEAG-IEVPPERIVYSGF---DI-EGGEAAAEKLLRSDSPPTAIFA--VNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred HHHcC-CCCChhhEEeCCC---CH-HHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 88888 6543221111111 11 2223445554332 4677775 5666777899999999985 3444455444
No 171
>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=97.60 E-value=0.017 Score=57.59 Aligned_cols=214 Identities=11% Similarity=0.030 Sum_probs=118.7
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
|||++.|.- ..+-..+..+++.+.++ . |+++.+ ..++..++..-.+....++ ..++++||= +.........
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~---~--g~~~~~-~~~~~~~~~~~~~~l~~~~-~~~~dgiii~~~~~~~~~~~ 73 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAK---L--GIEVVA-TTDAQFDPAKQVADIETTI-SQKPDIIISIPVDPVSTAAA 73 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHH---c--CCEEEE-ecCCCCCHHHHHHHHHHHH-HhCCCEEEEcCCCchhhhHH
Confidence 689888753 22222334444433333 2 455542 2356667776667777777 567775543 3332222344
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .+..... -.++..+..+....+..++++|... +-++++++..+.+........+.+.+
T Consensus 74 i~~~~~~~iPvV~~~~~--~~~~~~~-~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 74 YKKVAEAGIKLVFMDNV--PSGLEHG-KDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHcCCcEEEecCC--CcccccC-cceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 45566789999987654 2222211 1233446677777788888988665 77899999764432200334567777
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
.+++.+ ..+......... +. ......++++... .+++|+. .+...+..+++.+++.|+ .+...++.+.
T Consensus 151 ~l~~~~-~~~~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~--~di~vvg~d~ 220 (294)
T cd06316 151 TIKKNY-PDITIVAEKGID----GP-SKAEDIANAMLTQNPDLKGIYA--VWDVPAEGVIAALRAAGR--DDIKVTTVDL 220 (294)
T ss_pred HHHHhC-CCcEEEeecCCc----ch-hHHHHHHHHHHHhCCCeeEEEe--CCCchhHHHHHHHHHcCC--CCceEEEeCC
Confidence 777654 322211111111 00 1223344444332 5677765 445568889999999998 3345555554
No 172
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.60 E-value=0.011 Score=60.49 Aligned_cols=205 Identities=11% Similarity=0.094 Sum_probs=120.7
Q ss_pred CCeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 32 ~~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
+..-.||+++|.. ..+...+..+++.+.++ . |+.+- +.++..++..-.+....++ ..++.+||-.......
T Consensus 62 ~~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~--g~~~~--~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~ 133 (342)
T PRK10014 62 GQSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q--GRMVF--LLQGGKDGEQLAQRFSTLL-NQGVDGVVIAGAAGSS 133 (342)
T ss_pred CCCCEEEEEeCCCccchHHHHHHHHHHHHHH---c--CCEEE--EEeCCCCHHHHHHHHHHHH-hCCCCEEEEeCCCCCc
Confidence 3456899999863 33444555566655543 2 34443 3444456555455556665 6777766642222223
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
......+...++|+|..... . ....+++ +..++...+..++++|...|.+++++|..+..........+.++
T Consensus 134 ~~~~~~l~~~~iPvV~~~~~--~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~ 205 (342)
T PRK10014 134 DDLREMAEEKGIPVVFASRA--S---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYC 205 (342)
T ss_pred HHHHHHHhhcCCCEEEEecC--C---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHH
Confidence 34456667789999987533 1 1122233 66788888888999998889999999975433210023456788
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+.+++.| +.+.....+.... +. ......++++.+. .+++|++ .+...+..+++.+.+.|+.-
T Consensus 206 ~al~~~g-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~~l~~~g~~v 269 (342)
T PRK10014 206 ATLLKFG-LPFHSEWVLECTS---SQ-KQAAEAITALLRHNPTISAVVC--YNETIAMGAWFGLLRAGRQS 269 (342)
T ss_pred HHHHHcC-CCCCcceEecCCC---Ch-HHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCC
Confidence 8998888 6543222111111 11 2223344444333 4677775 55566777888899988753
No 173
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.58 E-value=0.023 Score=56.47 Aligned_cols=209 Identities=12% Similarity=0.100 Sum_probs=119.1
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
+||+++|.. ..+......+++.+.++. | +.+.+.++..++..-.+...+++ ..++.+||- +..+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~-----g--~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~~~~~~~~ 72 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL-----G--AEVIVQNANGDPAKQISQIENMI-AKGVDVLVIAPVDGEALASA 72 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc-----C--CEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecCChhhHHHH
Confidence 489999854 333445556666665552 2 34445666667776666777777 677876663 3333323344
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC------CCeEEEEEEEcCCCCCCcchHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGGDSGKLA 187 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~------~w~~vaii~~~~~~g~~~~~~~ 187 (635)
...+...++|+|..... .+. ...++ .+..+....+..++++|... |-++++++..+..........+
T Consensus 73 l~~l~~~~ipvV~~~~~--~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 73 VEKAADAGIPVIAYDRL--ILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHCCCCEEEECCC--CCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 45566789999988654 221 11222 34566666777777777544 7889999976443210033456
Q ss_pred HHHHHHhccC---CeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc---CceEEEEecCChhHHHHHHHHHHHcCCCCCC
Q 006683 188 LLAEALQNVS---SSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (635)
Q Consensus 188 ~~~~~l~~~g---~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (635)
.|++.+++.+ .+.+.... ..... + .......++++.+. .+++|+. .+...+..++.++++.|+.. .
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~~~---~-~~~~~~~~~~~l~~~~~~~~~I~~--~~d~~a~g~~~al~~~g~~~-d 217 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATPDW---D-PETAQKRMENALTANYNKVDGVLA--ANDGTAGGAIAALKAAGLAG-K 217 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccCCC---C-HHHHHHHHHHHHHhCCCCccEEEe--CCcHHHHHHHHHHHHcCCCC-C
Confidence 6788887765 02222211 11111 1 12223344444332 4677765 56667788899999999865 3
Q ss_pred eEEEee
Q 006683 262 SVWIVT 267 (635)
Q Consensus 262 ~~~i~~ 267 (635)
...++.
T Consensus 218 v~vvg~ 223 (288)
T cd01538 218 PPVTGQ 223 (288)
T ss_pred ceEEec
Confidence 343333
No 174
>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=97.58 E-value=0.013 Score=57.82 Aligned_cols=201 Identities=15% Similarity=0.146 Sum_probs=119.4
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCC-hh--hH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-MET-WE--ET 110 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~-s~--~~ 110 (635)
.||+++|.. ..+...+..+++.+.++. |+.+ .+.++..++..-.+....++ ..+++++|- +.. .. ..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~ 72 (273)
T cd06292 1 LVGLLVPELSNPIFPAFAEAIEAALAQY-----GYTV--LLCNTYRGGVSEADYVEDLL-ARGVRGVVFISSLHADTHAD 72 (273)
T ss_pred CEEEEeCCCcCchHHHHHHHHHHHHHHC-----CCEE--EEEeCCCChHHHHHHHHHHH-HcCCCEEEEeCCCCCcccch
Confidence 379999864 344455666666666652 4555 34555556665556667776 677876663 221 11 11
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
......+...++|+|..... .+. ....+ .+..++...+..+++.|...|-++++++.............+.++
T Consensus 73 ~~~i~~~~~~~ipvV~i~~~--~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 145 (273)
T cd06292 73 HSHYERLAERGLPVVLVNGR--APP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFR 145 (273)
T ss_pred hHHHHHHHhCCCCEEEEcCC--CCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHH
Confidence 22234456789999988654 221 11233 366788888899999998889999999975433210034567788
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+.+++.| +............ + .......++++.+.++++|++ .+...+..+++.+++.|+.
T Consensus 146 ~~~~~~~-~~~~~~~i~~~~~---~-~~~~~~~~~~~l~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ 206 (273)
T cd06292 146 AALEEAG-LEPPEALVARGMF---S-VEGGQAAAVELLGSGPTAIVA--ASDLMALGAIRAARRRGLR 206 (273)
T ss_pred HHHHHcC-CCCChhheEeCCC---C-HHHHHHHHHHHhcCCCCEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 8888887 5432111111111 0 122334445544444888776 5566677788999999875
No 175
>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=97.55 E-value=0.011 Score=58.07 Aligned_cols=192 Identities=17% Similarity=0.160 Sum_probs=113.3
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||++.|.. ..+-.....+++.+.++. |+++. +.++..++..-.+....++ ..++.++|-...... .
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~---~- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK-----GYKLI--LCNSDNDPEKEREYLEMLR-QNQVDGIIAGTHNLG---I- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC-----CCeEE--EecCCccHHHHHHHHHHHH-HcCCCEEEEecCCcC---H-
Confidence 478899853 444445555655555443 34443 4555556655555555555 667776653222222 1
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC---CCCCcchHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALLAE 191 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~---~g~~~~~~~~~~~ 191 (635)
..+...++|+|..... .+ ...++ +.++....+..++++|...|.++++++..... .. ....+.+++
T Consensus 69 ~~~~~~gipvv~~~~~--~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~~ 137 (265)
T cd06291 69 EEYENIDLPIVSFDRY--LS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPT--NLRYEGFLD 137 (265)
T ss_pred HHHhcCCCCEEEEeCC--CC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccch--HHHHHHHHH
Confidence 2445679999988755 22 22333 56777778888889887789999999975443 22 445677888
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
.+++.| +.+.... ..... +. ......++++.+. .+++|++ .+...+..+++.+.+.|+.
T Consensus 138 ~l~~~~-~~~~~~~-~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~~ 198 (265)
T cd06291 138 VLKENG-LEVRIIE-IQENF---DD-AEKKEEIKELLEEYPDIDGIFA--SNDLTAILVLKEAQQRGIR 198 (265)
T ss_pred HHHHcC-CCCChhe-eeccc---cc-hHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCC
Confidence 998888 6543211 11111 00 1123344444333 4577765 4455677889999999975
No 176
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.55 E-value=0.01 Score=58.37 Aligned_cols=210 Identities=12% Similarity=0.146 Sum_probs=119.0
Q ss_pred EEEEEeeC------CCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 36 KIGAIVDA------NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 36 ~IG~i~p~------s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
.||+++|. +..+...+..+++.+.++. |+++.+ .+... +..-.+.+.+++...++.+||-......
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~--~~~~~-~~~~~~~~~~~~~~~~~dgiii~~~~~~ 72 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-----GYDISL--ATGKN-EEELLEEVKKMIQQKRVDGFILLYSRED 72 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-----CCEEEE--ecCCC-cHHHHHHHHHHHHHcCcCEEEEecCcCC
Confidence 37999985 2334445566666666553 355554 34332 3334556666664556776554322111
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
......+...++|+|..... .+. ....+ .+..+....++.+++.+...|-++++++.....+.......+.|
T Consensus 73 -~~~~~~~~~~~ipvV~~~~~--~~~--~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf 144 (270)
T cd06294 73 -DPIIDYLKEEKFPFVVIGKP--EDD--KENIT---YVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGY 144 (270)
T ss_pred -cHHHHHHHhcCCCEEEECCC--CCC--CCCCC---eEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHH
Confidence 23344566789999988644 221 01223 35567777788888888777999999997544321003346778
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEe
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (635)
++.+++.| +.+.......... +. ......+.++.+. ++++|+. .+...+..+++++++.|+.- +...+++
T Consensus 145 ~~~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~iP~dv~vig 217 (270)
T cd06294 145 KQALEDHG-IPDRNEVIISLDF---SE-EGGYKALKKLLEQHPRPTAIVA--TDDLLALGVLKVLNELGLKVPEDLSIIG 217 (270)
T ss_pred HHHHHHcC-CCCCcceEEecCC---ch-HHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 88888887 5322111111111 11 2233445454333 4777775 56667888899999999853 3344454
Q ss_pred eC
Q 006683 267 TN 268 (635)
Q Consensus 267 ~~ 268 (635)
.+
T Consensus 218 ~d 219 (270)
T cd06294 218 FN 219 (270)
T ss_pred eC
Confidence 43
No 177
>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=97.53 E-value=0.028 Score=55.34 Aligned_cols=207 Identities=12% Similarity=0.075 Sum_probs=114.7
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (635)
+||++...+..+-..+..++..+.++. |+.+.+. .++..++..-.+....++ ..++.++|- |..........
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~-~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~l 73 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-----GVDVEFV-VPQQGTVNAQLRMLEDLI-AEGVDGIAISPIDPKAVIPAL 73 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-----CCeEEEe-CCCCCCHHHHHHHHHHHH-hcCCCEEEEecCChhHhHHHH
Confidence 478887655444445555555555552 3444433 234446655555666666 678886663 43332223333
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC--CCCCcchHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALLA 190 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~--~g~~~~~~~~~~ 190 (635)
..+.. ++|+|..... .+. ... +..+..+....+..++++|.+. +..+++++..... .. ....+.++
T Consensus 74 ~~~~~-~ipvV~~~~~--~~~--~~~---~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~--~~R~~gf~ 143 (271)
T cd06314 74 NKAAA-GIKLITTDSD--APD--SGR---YVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNA--KERIQGIK 143 (271)
T ss_pred HHHhc-CCCEEEecCC--CCc--cce---eEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCH--HHHHHHHH
Confidence 33455 9999987643 221 111 2235677777788888888553 3446666664332 22 45567789
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
+.+++.| +++.... . ... + ..+....++++.+. .+++|+. . +...+..++..+++.|+. +....++.+
T Consensus 144 ~~~~~~~-~~~~~~~-~-~~~---~-~~~~~~~~~~~l~~~~~~~~i~~-~-~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 144 DAIKDSK-IEIVDTR-G-DEE---D-FAKAKSNAEDALNAHPDLKCMFG-L-YAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HHHhcCC-cEEEEEe-c-Ccc---C-HHHHHHHHHHHHHhCCCccEEEe-c-CCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 9999988 8765421 1 111 1 12233455555433 4577765 3 334555678888888887 444444444
Q ss_pred c
Q 006683 269 T 269 (635)
Q Consensus 269 ~ 269 (635)
.
T Consensus 214 ~ 214 (271)
T cd06314 214 E 214 (271)
T ss_pred C
Confidence 3
No 178
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.51 E-value=0.011 Score=60.46 Aligned_cols=201 Identities=12% Similarity=0.120 Sum_probs=117.7
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-+||+++|.. ..+...+..+++.+.++. |+++ .+.++..++..-.+....++ ..++.+||-........
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~ 129 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQK-----GYTL--ILCNAWNNLEKQRAYLSMLA-QKRVDGLLVMCSEYPEP 129 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecCCCCHH
Confidence 345899999875 334445556666555543 2343 44555566666556666666 67777665322211222
Q ss_pred HHHHhhcc-CCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHH
Q 006683 112 VVAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 112 ~v~~~~~~-~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~ 188 (635)
....+.. .++|+|..... .+ +..++. .+.++....+...++.|...|-+++++|..... .. +...+.
T Consensus 130 -~~~~l~~~~~iPvV~~d~~--~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~G 199 (341)
T PRK10703 130 -LLAMLEEYRHIPMVVMDWG--EA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTG--AGRLAG 199 (341)
T ss_pred -HHHHHHhcCCCCEEEEecc--cC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccch--HHHHHH
Confidence 3344445 69999987643 21 111122 245565666788888887778899999965332 23 445678
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
|.+.+++.| +.+.......... + ..+....++++.+. .+++|++ .+...+..++.++.+.|..
T Consensus 200 f~~~l~~~g-i~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~~ 264 (341)
T PRK10703 200 FMKAMEEAN-IKVPEEWIVQGDF---E-PESGYEAMQQILSQKHRPTAVFC--GGDIMAMGAICAADEMGLR 264 (341)
T ss_pred HHHHHHHcC-CCCChHHeEeCCC---C-HHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCC
Confidence 888998888 7654321111111 0 12333455554433 5678776 5555667889999999974
No 179
>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=97.48 E-value=0.02 Score=55.83 Aligned_cols=195 Identities=12% Similarity=0.095 Sum_probs=118.5
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.. ..+...+..+++.+.++. |+.+.+ .++..++....+....+. ..++.++|=..+......+.
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~~~~~~ 72 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH-----GYKVVL--LQTNYDKEKELEYLELLK-TKQVDGLILCSRENDWEVIE 72 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCEEEE--EeCCCChHHHHHHHHHHH-HcCCCEEEEeCCCCCHHHHH
Confidence 488999864 445567777777777653 345544 455556665556666666 67777655322222233343
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~~~~~ 192 (635)
.+.+ .+ |+|..... .. ...+ .+.++....+..++++|...|-++++++..+.. .. ....+.+++.
T Consensus 73 ~~~~-~~-pvv~~~~~--~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~Gf~~~ 139 (260)
T cd06286 73 PYTK-YG-PIVLCEEY--DS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNS--QSRKKAYKDA 139 (260)
T ss_pred HHhc-CC-CEEEEecc--cC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchh--HHHHHHHHHH
Confidence 4333 44 88876533 11 2223 366788888888999998889999999976532 22 4456788888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
+++.| +.+.....+.... +. .+-...++++.+ ..+++|++ ++...+..+++.+++.|+.
T Consensus 140 l~~~~-~~~~~~~i~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~ 200 (260)
T cd06286 140 LEEYG-LTPDEEWIFEGCF---TI-EDGERIGHQLLKMKDRPDAIFT--GSDEVAAGIITEAKKQGIR 200 (260)
T ss_pred HHHcC-CCCChHheEeCCC---CH-HHHHHHHHHHHcCCCCCCEEEE--cchHHHHHHHHHHHHcCCC
Confidence 98888 6543211111111 00 222344455543 35787765 6666778899999999984
No 180
>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=97.47 E-value=0.035 Score=54.87 Aligned_cols=210 Identities=12% Similarity=0.054 Sum_probs=120.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
+||++.|.. ..+......+++.+.++. |+. +.+.+...++..-.+....++ ..++++||- +..+......
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-----g~~--v~~~~~~~~~~~~~~~i~~~~-~~~~Dgiii~~~~~~~~~~~ 72 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-----GYE--LISTDAQGDLTKQIADVEDLL-TRGVNVLIINPVDPEGLVPA 72 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-----CCE--EEEEcCCCCHHHHHHHHHHHH-HcCCCEEEEecCCccchHHH
Confidence 589999864 333344555555555542 344 445566667766666677776 677776553 3333222334
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH-CCCe--EEEEEEEcCC--CCCCcchHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWR--RVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~-~~w~--~vaii~~~~~--~g~~~~~~~~ 188 (635)
...+...++|+|..... .+ .. .+.+..+..+....+..++++|-. .|-+ +++++..+.. .+ ....+.
T Consensus 73 i~~~~~~~iPvV~~~~~--~~---~~-~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~--~~R~~g 144 (282)
T cd06318 73 VAAAKAAGVPVVVVDSS--IN---LE-AGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVG--QARRDG 144 (282)
T ss_pred HHHHHHCCCCEEEecCC--CC---CC-cCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchH--hHHHHh
Confidence 45566789999988643 21 10 123345777888888888988854 6754 8888875432 34 455677
Q ss_pred HHHHHhccCCeEE----EEE-eeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCC
Q 006683 189 LAEALQNVSSSEI----QSR-LVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (635)
Q Consensus 189 ~~~~l~~~g~~~v----~~~-~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (635)
+++.+++.| +.. ... ....... .+. .+....+.++... ++++|++ .+...+..+++++++.|+. .+
T Consensus 145 f~~~l~~~~-~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~-~d 217 (282)
T cd06318 145 FLLGVSEAQ-LRKYGKTNFTIVAQGYGD--WTR-EGGLKAMEDLLVAHPDINVVYS--ENDDMALGAMRVLAEAGKT-DD 217 (282)
T ss_pred HHHHHhhCc-ccccccCCeEEEecCCCC--CCH-HHHHHHHHHHHHhCCCcCEEEE--CCcchHHHHHHHHHHcCCC-CC
Confidence 888888876 421 000 0001111 011 2223344444322 4677775 5555667788999999985 34
Q ss_pred eEEEeeC
Q 006683 262 SVWIVTN 268 (635)
Q Consensus 262 ~~~i~~~ 268 (635)
...++.+
T Consensus 218 v~vvg~d 224 (282)
T cd06318 218 VKVAAAD 224 (282)
T ss_pred eEEEecC
Confidence 4444433
No 181
>PRK09492 treR trehalose repressor; Provisional
Probab=97.46 E-value=0.02 Score=57.80 Aligned_cols=192 Identities=14% Similarity=0.094 Sum_probs=114.1
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-+||+++|.- ..+......++. +++++. |+.+ .+.++..++....+....+. ..++.++|-...+...
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~---~~~~~~--gy~~--~~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~- 131 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTML---PAFYEQ--GYDP--IIMESQFSPEKVNEHLGVLK-RRNVDGVILFGFTGIT- 131 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHH---HHHHHc--CCeE--EEEecCCChHHHHHHHHHHH-hcCCCEEEEeCCCccc-
Confidence 446899999853 333334444444 344444 3444 45566666665555555555 6778877753222111
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEc-C--CCCCCcchHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-N--VYGGDSGKLAL 188 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~-~--~~g~~~~~~~~ 188 (635)
.......++|++..... .+ .++ .+.+++...+..++++|...|-++++++... . ..+ ....+.
T Consensus 132 --~~~l~~~~~pvv~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~--~~R~~G 197 (315)
T PRK09492 132 --EEMLAPWQDKLVLLARD--AK-----GFS---SVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTG--KRRHQA 197 (315)
T ss_pred --HHHHHhcCCCEEEEecc--CC-----CCc---EEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhH--HHHHHH
Confidence 12233456777765422 11 122 4566777778888899888899999999632 2 223 455778
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+++.+++.| +.+... ..... . ..-...++++.+.++++|++ .+...+..+++++++.|+
T Consensus 198 f~~al~~~g-~~~~~~--~~~~~----~-~~~~~~~~~~l~~~~~ai~~--~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 198 YLAFCKQHK-LTPVAA--LGGLS----M-QSGYELVAKVLTPETTALVC--ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHHcC-CCceee--cCCCC----c-hHHHHHHHHHhhcCCCEEEE--cCcHHHHHHHHHHHHcCC
Confidence 999999999 764321 11111 1 12233455554457898886 445677788999999998
No 182
>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=97.43 E-value=0.02 Score=55.96 Aligned_cols=203 Identities=14% Similarity=0.184 Sum_probs=118.1
Q ss_pred EEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|... ..-..+..+++.+.++ . |+++. +.++..++..-......+. ..++.++|-..+..... ..
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~---~--g~~~~--~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~~~-~~ 71 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR---A--GLRVI--LCNTDEDPEKEAMYLELME-EERVTGVIFAPTRATLR-RL 71 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH---C--CCEEE--EEeCCCCHHHHHHHHHHHH-hCCCCEEEEeCCCCCch-HH
Confidence 4899998763 3444556666666655 2 45554 4455556654444455555 56677555322221111 22
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-CCCCcchHHHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEAL 193 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~~~~l 193 (635)
. +...++|+|..... .+ ...+++ +..+....+..++++|...|-++++++..... .. ....+.+++.+
T Consensus 72 ~-~~~~~iPvV~~~~~--~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~--~~R~~gf~~~~ 140 (263)
T cd06280 72 A-ELRLSFPVVLIDRA--GP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTG--AERRAGYEDAM 140 (263)
T ss_pred H-HHhcCCCEEEECCC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCH--HHHHHHHHHHH
Confidence 2 34568999988644 22 223344 34677778888889998889999999876432 22 34467788888
Q ss_pred hccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 006683 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (635)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~ 268 (635)
++.| +...... ..... .+....++++... .+++|++ .+...+..+++.+.+.|+.- ++...++.+
T Consensus 141 ~~~~-~~~~~~~-~~~~~------~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig~d 208 (263)
T cd06280 141 RRHG-LAPDARF-VAPTA------EAAEAALAAWLAAPERPEALVA--SNGLLLLGALRAVRAAGLRIPQDLALAGFD 208 (263)
T ss_pred HHcC-CCCChhh-cccCH------HHHHHHHHHHhcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCcEEEEEeC
Confidence 8888 6543211 11111 2223344444322 5777765 66667778999999999853 344444433
No 183
>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=97.42 E-value=3e-05 Score=68.75 Aligned_cols=58 Identities=26% Similarity=0.641 Sum_probs=38.4
Q ss_pred CHhHHHHHHHHHHHHHHHhhhhhcccCCCCCC-------CcccccchhhHhHHHHhhccCCCCCC
Q 006683 577 TWEMWMVTAASFIYTMFIVWLLEHQSNPEFRG-------TLKDQISNILWFAFSTIFFSHSEYPL 634 (635)
Q Consensus 577 ~~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~w~~~~~~~~q~~~~~~ 634 (635)
+++||++++++++++++++|++++..+.+++. +...++.+++|++++++++||++..+
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 65 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRP 65 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH----
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccc
Confidence 57999999999999999999999987766544 23346999999999999999887654
No 184
>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=97.39 E-value=0.023 Score=55.61 Aligned_cols=208 Identities=14% Similarity=0.115 Sum_probs=116.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||+++|.. ..+...+..+++.+.+ +. |+.+. +.++..++..-.+....+. ..++.++|-..+......+.
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~---~~--gy~~~--~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~~~~~~ 72 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLN---GS--GYSPI--IATGHWNQSRELEALELLK-SRRVDALILLGGDLPEEEIL 72 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHH---HC--CCEEE--EEeCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCChHHHH
Confidence 488999864 3333344444444333 22 34443 4455566654445555565 67787666322221122222
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
.+ . .++|+|..... .+ ....++ +..++...+..++++|...|-++++++..+..........+.+++.+.
T Consensus 73 ~~-~-~~iPvV~i~~~--~~---~~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 73 AL-A-EEIPVLAVGRR--VP---GPGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HH-h-cCCCEEEECCC--cC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 22 3 48999988754 22 112233 557788888888888877799999999765332100345677888888
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~ 268 (635)
+.| +.+.....+.... +. ......++++.+. .+++|++ ++...+..+++.+++.|+.- .....++.+
T Consensus 143 ~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~aii~--~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 143 EAG-LEVQPDLIVQGDF---EE-ESGLEAVEELLQRGPDFTAIFA--ANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred HcC-CCCCHHHEEecCC---CH-HHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 877 6543211111111 00 1223445555432 4688775 56667788899999999853 334444443
No 185
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.39 E-value=0.031 Score=57.26 Aligned_cols=208 Identities=13% Similarity=0.102 Sum_probs=117.1
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-.||+++|.- ..+...+..+++.+.++ . |+.+ .+.++..++..-.+....++ ..++.++|-........
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~---~--g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~~~~~~ 129 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH---T--GNFL--LIGNGYHNEQKERQAIEQLI-RHRCAALVVHAKMIPDA 129 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH---c--CCEE--EEEeCCCCHHHHHHHHHHHH-hcCCCEEEEecCCCChH
Confidence 457899999853 33334445555555444 2 3343 44555556655555566666 67777666422211122
Q ss_pred HHHHhhccCCcc-EEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHH
Q 006683 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 112 ~v~~~~~~~~ip-~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~ 188 (635)
.+..+.+ ++| +|..... .+ +...++ +.+++...+..++++|...|.+++++|..... .. ....+.
T Consensus 130 ~~~~~~~--~~p~vV~i~~~--~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 197 (343)
T PRK10727 130 ELASLMK--QIPGMVLINRI--LP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDA--EDRLQG 197 (343)
T ss_pred HHHHHHh--cCCCEEEEecC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccch--HHHHHH
Confidence 3333333 677 6665432 11 112233 56677777788888888889999999975433 22 445678
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEE
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWI 265 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i 265 (635)
|++.+++.| +.+.......... +. ..-...++++.+. .+++|++ .+...+..+++++++.|+.- ++...+
T Consensus 198 f~~al~~~g-i~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 198 YYDALAESG-IPANDRLVTFGEP---DE-SGGEQAMTELLGRGRNFTAVAC--YNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHHHCC-CCCChhhEEeCCC---Ch-hHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 899999988 6543211111111 11 1222344554433 4677775 55566778899999999853 333444
Q ss_pred ee
Q 006683 266 VT 267 (635)
Q Consensus 266 ~~ 267 (635)
+.
T Consensus 271 gf 272 (343)
T PRK10727 271 GF 272 (343)
T ss_pred ee
Confidence 33
No 186
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.37 E-value=0.039 Score=55.98 Aligned_cols=209 Identities=12% Similarity=0.094 Sum_probs=119.2
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (635)
..-+||+++|.. ..+...+..+++.+.++ . |+++.+ .++..++..-.+....+. ..++.++|- +.... .
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~---~--g~~~~~--~~~~~~~~~~~~~~~~l~-~~~vdGiI~~~~~~~-~ 125 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE---R--GYSLVL--CNTEGDEQRMNRNLETLM-QKRVDGLLLLCTETH-Q 125 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH---c--CCEEEE--EeCCCCHHHHHHHHHHHH-HcCCCEEEEeCCCcc-h
Confidence 456899999864 33444555666655554 2 455543 455556655555566665 667776653 22211 1
Q ss_pred HHHHHhhcc-CCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHH
Q 006683 111 AVVAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLA 187 (635)
Q Consensus 111 ~~v~~~~~~-~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~ 187 (635)
.....+.. .++|+|..... .. ...++ .+..+...-+..++++|...|-+++++|..... .. ....+
T Consensus 126 -~~~~~l~~~~~iPvV~i~~~--~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~ 194 (327)
T PRK10423 126 -PSREIMQRYPSVPTVMMDWA--PF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPA--RLRLE 194 (327)
T ss_pred -hhHHHHHhcCCCCEEEECCc--cC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccch--HHHHH
Confidence 11122223 48999987633 11 11112 245555566788889998889999999975432 23 44567
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEE
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVW 264 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~ 264 (635)
.|++.+++.| +.+.....+.... +. ..-...++++.+. .+++|++ ++...+..+++.+.+.|+.- .+...
T Consensus 195 Gf~~al~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~~l~~~g~~vP~dvsv 267 (327)
T PRK10423 195 GYRAAMKRAG-LNIPDGYEVTGDF---EF-NGGFDAMQQLLALPLRPQAVFT--GNDAMAVGVYQALYQAGLSVPQDIAV 267 (327)
T ss_pred HHHHHHHHcC-CCCCcceEEeCCC---Ch-HHHHHHHHHHhcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 8899999888 6543221111111 00 1222344444332 4778776 55566778999999999853 33444
Q ss_pred EeeC
Q 006683 265 IVTN 268 (635)
Q Consensus 265 i~~~ 268 (635)
++.+
T Consensus 268 igfd 271 (327)
T PRK10423 268 IGYD 271 (327)
T ss_pred EEeC
Confidence 4443
No 187
>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=97.35 E-value=0.027 Score=55.01 Aligned_cols=199 Identities=12% Similarity=0.060 Sum_probs=105.5
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
|||+++|... ....+...+..++++.-++. |+. +.+.++. ++....+....+. ..++.+||-.... ....+..
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~-gy~--~~~~~~~-~~~~~~~~~~~l~-~~~vdgiii~~~~-~~~~~~~ 73 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL-GVE--VKYVESV-EDADYEPNLRQLA-AQGYDLIFGVGFG-FMDAVEK 73 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc-Cce--EEEEecC-CHHHHHHHHHHHH-HcCCCEEEECCcc-hhHHHHH
Confidence 6899998511 11123333333344332221 344 4444544 5554445555555 6778866543222 2233445
Q ss_pred hhcc-CCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-CCeEEEEEEEcCC-CCCCcchHHHHHHH
Q 006683 116 IASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (635)
Q Consensus 116 ~~~~-~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-~w~~vaii~~~~~-~g~~~~~~~~~~~~ 192 (635)
.+.. .++|++..... .+. ....+ .+..++..-+..++.++..+ |-+++++|..+.. .. ....+.|++.
T Consensus 74 ~~~~~~~ipvv~~~~~--~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~--~~R~~Gf~~~ 144 (260)
T cd06304 74 VAKEYPDVKFAIIDGV--VDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEV--NRFINGFAAG 144 (260)
T ss_pred HHHHCCCCEEEEecCc--cCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHH--HHHHHHHHHH
Confidence 4543 37898877543 211 01112 24445555555556666554 8899999975432 22 3346678888
Q ss_pred HhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcC
Q 006683 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
+++.| ............. .+. ..-...++++.+.++++|++ .+...+..++.++++.|
T Consensus 145 ~~~~~-~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~ai~~--~~d~~A~gv~~al~~~g 202 (260)
T cd06304 145 AKSVN-PDITVLVIYTGSF--FDP-AKGKEAALALIDQGADVIFA--AAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHHhC-CCcEEEEEEecCc--cCc-HHHHHHHHHHHhCCCCEEEE--cCCCCchHHHHHHHHcC
Confidence 98887 5433221111111 011 22334566655556788754 66667777889999988
No 188
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=97.34 E-value=0.017 Score=56.93 Aligned_cols=200 Identities=10% Similarity=0.150 Sum_probs=119.7
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChh---hH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWE---ET 110 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~---~~ 110 (635)
.||+++|.. ..+-.....+++.+.++. |+++ .+.++..++....+...+++ ..++.++|- +..+. ..
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~-~~~vdgii~~~~~~~~~~~~ 72 (273)
T cd01541 1 NIGVITTYISDYIFPSIIRGIESVLSEK-----GYSL--LLASTNNDPERERKCLENML-SQGIDGLIIEPTKSALPNPN 72 (273)
T ss_pred CeEEEeCCccchhHHHHHHHHHHHHHHc-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEecccccccccc
Confidence 378888754 333344455554444432 3444 45666777777777788887 678887763 32221 11
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-CCCCcchHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALL 189 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~ 189 (635)
......+...++|+|..... .+. .. +..+..++...+..+++++...|.++++++...+. .+ ....+.+
T Consensus 73 ~~~~~~~~~~~ipvV~~~~~--~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~--~~r~~g~ 142 (273)
T cd01541 73 IDLYLKLEKLGIPYVFINAS--YEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQG--VKRMKGF 142 (273)
T ss_pred HHHHHHHHHCCCCEEEEecC--CCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccH--HHHHHHH
Confidence 12334456679999988644 221 11 23477888888899999998889999998875432 22 3445678
Q ss_pred HHHHhccCCeEEEEE--eeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC
Q 006683 190 AEALQNVSSSEIQSR--LVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~--~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (635)
++.+++.| ..+... ..+.... ........++++.+. .+++|++ .+...+..+++++++.|+..+
T Consensus 143 ~~~l~~~~-~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~av~~--~~d~~a~g~~~al~~~g~~~p 210 (273)
T cd01541 143 IKAYREHG-IPFNPSNVITYTTEE----KEEKLFEKIKEILKRPERPTAIVC--YNDEIALRVIDLLKELGLKIP 210 (273)
T ss_pred HHHHHHcC-CCCChHHEEeccccc----hhhHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 88888887 543211 1111111 002234455555433 5787765 666677788999999998543
No 189
>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=97.31 E-value=0.00057 Score=66.73 Aligned_cols=98 Identities=12% Similarity=-0.004 Sum_probs=70.0
Q ss_pred CCCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccE
Q 006683 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDA 531 (635)
Q Consensus 452 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~ 531 (635)
.++|+||+. +.++|+ .+.+...++.+.+++++|.+++++... +|+.++..+.+|++|+
T Consensus 31 ~~~l~vg~~--~~~~~~-----------------~~~~~~~~l~~~l~~~~g~~v~~~~~~---~~~~~~~~l~~g~~Di 88 (254)
T TIGR01098 31 PKELNFGIL--PGENAS-----------------NLTRRWEPLADYLEKKLGIKVQLFVAT---DYSAVIEAMRFGRVDI 88 (254)
T ss_pred CCceEEEEC--CCCCHH-----------------HHHHHHHHHHHHHHHHhCCcEEEEeCC---CHHHHHHHHHcCCccE
Confidence 467999994 333322 345556799999999999986665432 4999999999999999
Q ss_pred EEecccccc---cccccccccccceee------eeEEEEeCCCCCCcce
Q 006683 532 AVGDLTILG---NRTEYVEFTQPYAES------GFSMIVPAKQEESTWM 571 (635)
Q Consensus 532 ~~~~~~~~~---~r~~~~~fs~p~~~~------~~~~~v~~~~~~~~~~ 571 (635)
++.+..... +|.+..+|+.||... ...++++++++...+.
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~~i~~~~ 137 (254)
T TIGR01098 89 AWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADSPIKSLK 137 (254)
T ss_pred EEECcHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCCCCCChH
Confidence 987654433 567778888876643 3578888876654333
No 190
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=97.29 E-value=0.1 Score=52.18 Aligned_cols=212 Identities=8% Similarity=-0.054 Sum_probs=118.8
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (635)
+||++.|.. ..+-..+..+++.+.++. |+++.+. .++..++....+....++ ..++.+||- +.........
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~-----g~~v~~~-~~~~~d~~~~~~~i~~~~-~~~~DgiIi~~~~~~~~~~~ 73 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL-----GVDAIYV-GPTTADAAGQVQIIEDLI-AQGVDAIAVVPNDPDALEPV 73 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh-----CCeEEEE-CCCCCCHHHHHHHHHHHH-hcCCCEEEEecCCHHHHHHH
Confidence 588888753 334445566666666652 3444432 244467766666677776 567776664 3333322344
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-CC-eEEEEEEEcCCCCCCcchHHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-~w-~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
...+...++|+|..... .+. .. ..++...+++...+..++++|... +- ++++++.............+.+++
T Consensus 74 ~~~~~~~~iPvV~v~~~--~~~-~~---~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 74 LKKAREAGIKVVTHDSD--VQP-DN---RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHCCCeEEEEcCC--CCC-Cc---ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 45567789999987643 211 01 123345577778888888888655 44 589998754332100334567888
Q ss_pred HHhccCCeE-EEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 192 ALQNVSSSE-IQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 192 ~l~~~g~~~-v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
.++++| .. +.......... +. ..-...++++.+. ++++|+. .+...+..+++.+++.|+. .....++.+
T Consensus 148 ~l~~~g-~~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al~~~g~~-~dv~vvG~D 219 (298)
T cd06302 148 YQKEKY-YPMLELVDRQYGDD---DA-DKSYQTAQELLKAYPDLKGIIG--PTSVGIPGAARAVEEAGLK-GKVAVTGLG 219 (298)
T ss_pred HHhhcC-CCCeEEeCcccCCC---CH-HHHHHHHHHHHHhCCCceEEEE--CCCcchhHHHHHHHhcCCC-CCEEEEEeC
Confidence 888875 22 21111111111 11 2222344444322 4667665 4556777889999999986 334444443
No 191
>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=97.24 E-value=0.033 Score=54.75 Aligned_cols=203 Identities=12% Similarity=0.065 Sum_probs=116.4
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
.||++.|.. ..+......+++.+.++. |+++.+...+ .+. ...+...+++...++.+||-...... ....
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~~-----gy~~~~~~~~--~~~-~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~ 71 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLEQ-----RYDLALFPLL--SLA-RLKRYLESTTLAYLTDGLLLASYDLT-ERLA 71 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHHC-----CCEEEEEeCC--CcH-HHHHHHHHHHHhcCCCEEEEecCccC-hHHH
Confidence 378999864 334445556666655553 3555554333 222 22344444343667776654332222 2344
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC--C------CCCCcchH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--V------YGGDSGKL 186 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~--~------~g~~~~~~ 186 (635)
..+...++|+|..... .+ ..++ +.++....+...++.|... .++++++.... . .. ....
T Consensus 72 ~~l~~~~iPvv~~~~~--~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~--~~R~ 138 (269)
T cd06297 72 ERRLPTERPVVLVDAE--NP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVF--AERR 138 (269)
T ss_pred HHHhhcCCCEEEEccC--CC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccH--HHHH
Confidence 5566789999988644 21 1233 4578788888888888666 78999986432 1 23 4457
Q ss_pred HHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC-CeE
Q 006683 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSV 263 (635)
Q Consensus 187 ~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~ 263 (635)
+.+++.+++.| +++.....+.... + ..+....++++.+. .+++|++ .+...+..+++.+.+.|+.-+ +..
T Consensus 139 ~gf~~~~~~~g-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vP~di~ 211 (269)
T cd06297 139 AGFQQALKDAG-RPFSPDLLAITDH---S-EEGGRLAMRHLLEKASPPLAVFA--SADQQALGALQEAVELGLTVGEDVR 211 (269)
T ss_pred HHHHHHHHHcC-CCCChhhEEeCCC---C-hhhHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceE
Confidence 78899998888 6543211111111 0 12334455555432 4678776 566677789999999997533 333
Q ss_pred EEee
Q 006683 264 WIVT 267 (635)
Q Consensus 264 ~i~~ 267 (635)
.++.
T Consensus 212 vvg~ 215 (269)
T cd06297 212 VVGF 215 (269)
T ss_pred EEEE
Confidence 4433
No 192
>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=97.24 E-value=0.036 Score=54.36 Aligned_cols=196 Identities=14% Similarity=0.119 Sum_probs=106.1
Q ss_pred EEEEEeeC----CCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDA----NSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~----s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
|||++.|. +..+......|++.+.++. |+++.+. +.. ++..-.+....++ ..++.+||-.... ...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~-----gy~~~i~--~~~-~~~~~~~~i~~l~-~~~vdgiI~~~~~-~~~ 70 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKEL-----GIEYKYV--ESK-SDADYEPNLEQLA-DAGYDLIVGVGFL-LAD 70 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHc-----CCeEEEE--ecC-CHHHHHHHHHHHH-hCCCCEEEEcCcc-hHH
Confidence 58999986 2334445555666665552 3455443 333 3433344455555 7888888753222 223
Q ss_pred HHHHhhccC-CccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH-CCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 112 VVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 112 ~v~~~~~~~-~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~-~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
.....+... ++|++..+.. .+. . +.+-++..+...-+..++.++.. .|-+++++|..+..... ....+.+
T Consensus 71 ~~~~~~~~~~~~PiV~i~~~--~~~--~---~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~-~~r~~gf 142 (265)
T cd06354 71 ALKEVAKQYPDQKFAIIDAV--VDD--P---PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLI-RRFEAGF 142 (265)
T ss_pred HHHHHHHHCCCCEEEEEecc--cCC--C---CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHH-HHHHHHH
Confidence 344555554 8999987643 211 0 11223445555555555566654 48899999975432110 2223577
Q ss_pred HHHHhccC---C-eEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcC
Q 006683 190 AEALQNVS---S-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 190 ~~~l~~~g---~-~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
++.+++.| - .+.... ..... .+. .+-...++++.+.++++|+. .+...+..+++++++.|
T Consensus 143 ~~~~~~~g~~~~~~~~~~~--~~~~~--~~~-~~~~~~~~~ll~~~pdaI~~--~nd~~A~gv~~al~~~g 206 (265)
T cd06354 143 EAGVKYVNPGVPDIEVLVQ--YAGSF--NDP-AKGKEIAQAMYDQGADVIFA--AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHHhccCCCceEEEE--EcCcc--cCH-HHHHHHHHHHHHCCCcEEEE--CCCCCchHHHHHHHhcC
Confidence 77777654 1 222111 11111 000 22334556665556888776 45666778889999988
No 193
>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=97.24 E-value=0.028 Score=55.06 Aligned_cols=204 Identities=10% Similarity=0.085 Sum_probs=117.4
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
+||++.|.+..+...+..+++.+.++.. |+.+-+ .+.. + .+....+. ..++.++|-...+. ....
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~~----g~~~~~--~~~~-~----~~~~~~l~-~~~vdGiI~~~~~~---~~~~ 65 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREHG----PWSIYL--EPRG-L----QEPLRWLK-DWQGDGIIARIDDP---EMAE 65 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhcC----CeEEEE--eccc-c----hhhhhhcc-ccccceEEEECCCH---HHHH
Confidence 5899999665555566666666655532 455544 2221 1 23334443 67888777433222 2224
Q ss_pred hhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhc
Q 006683 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~ 195 (635)
.+...++|+|..... .+. +.+-++..++...+..+++++...|-++++++........ ....+.+++.+++
T Consensus 66 ~l~~~~~PvV~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~-~~R~~gf~~~~~~ 136 (265)
T cd01543 66 ALQKLGIPVVDVSGS--REK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWS-DEREEAFRQLVAE 136 (265)
T ss_pred HHhhCCCCEEEEeCc--cCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHH-HHHHHHHHHHHHH
Confidence 455679999988644 221 1233577888888888899998889999999864433110 2335678888988
Q ss_pred cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 196 ~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
.| ..+.......... ..+. ......++++.+. .+++|++ ++...+..+++.+++.|+. +++...++.+
T Consensus 137 ~~-~~~~~~~~~~~~~-~~~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 137 AG-YECSFFYRGLSTD-AQSW-EEEQEELAQWLQSLPKPVGIFA--CTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred cC-CccccccCccccc-cccH-HHHHHHHHHHHhcCCCCcEEEe--cChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 88 6652111100000 0010 1223344444322 4677765 5666777888999998884 3445555544
No 194
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=97.21 E-value=0.064 Score=54.55 Aligned_cols=208 Identities=10% Similarity=0.057 Sum_probs=120.0
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-.||++.|.- ..+......+++.+.++ . |+++. +.+...++..-.+....++ ..++.+||-...... .
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~---~--g~~~~--~~~~~~~~~~~~~~~~~~~-~~~vdgiI~~~~~~~-~ 132 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDA---H--GYQTM--LAHYGYKPEMEQERLESML-SWNIDGLILTERTHT-P 132 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHH---C--CCEEE--EecCCCCHHHHHHHHHHHH-hcCCCEEEEcCCCCC-H
Confidence 345899999853 33444555566555554 2 34444 4455556654445555555 677877664222212 2
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-CCCCcchHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLA 190 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-~g~~~~~~~~~~ 190 (635)
.....+...++|+|..... .. .. ... .+.++...-+..++++|...|.++++++..... .. ....+.++
T Consensus 133 ~~~~~l~~~~iPvV~~~~~--~~--~~--~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~--~~R~~Gf~ 202 (331)
T PRK14987 133 RTLKMIEVAGIPVVELMDS--QS--PC--LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERT--IIKQKGYE 202 (331)
T ss_pred HHHHHHHhCCCCEEEEecC--CC--CC--CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccH--HHHHHHHH
Confidence 3334456789999976422 11 11 111 367788888888899998899999999964432 12 33467788
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEEee
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVT 267 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~~ 267 (635)
+.+++.| +.... ..+.... +. ..-...++++.+. .+++|++ .+...+..+++++++.|+.-+ +...++.
T Consensus 203 ~al~~~g-~~~~~-~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~g~~vP~disvigf 274 (331)
T PRK14987 203 QAMLDAG-LVPYS-VMVEQSS---SY-SSGIELIRQARREYPQLDGVFC--TNDDLAVGAAFECQRLGLKVPDDMAIAGF 274 (331)
T ss_pred HHHHHcC-CCccc-eeecCCC---Ch-hhHHHHHHHHHhcCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCccEEEee
Confidence 8998888 63211 1111111 11 1122344554433 4688776 566677788999999998643 3333433
No 195
>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=97.17 E-value=0.1 Score=52.10 Aligned_cols=203 Identities=12% Similarity=-0.006 Sum_probs=110.7
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhh-HHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEE-TAV 112 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~-~~~ 112 (635)
|||+++|.. ..+......+++.+.++ . |+.+.+...+...+...-.+....++ ..++.+||- +..... ...
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~---~--g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~~~~ 74 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH---L--GVELKVLEAGGYPNLDKQLAQIEQCK-SWGADAILLGTVSPEALNHD 74 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH---h--CCEEEEEcCCCCCCHHHHHHHHHHHH-HcCCCEEEEecCChhhhhHH
Confidence 589999854 22233444455444443 2 45555433333335555555666666 788887664 322222 123
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-C----CeEEEEEEEcCC--CCCCcch
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N----WRRVAAIYEDNV--YGGDSGK 185 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-~----w~~vaii~~~~~--~g~~~~~ 185 (635)
+.. +. .++|+|..... .. .. ..+..+..+....+..++++|... . -.+++++..... .. ...
T Consensus 75 l~~-~~-~~iPvV~~~~~--~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~--~~R 143 (295)
T TIGR02955 75 LAQ-LT-KSIPVFALVNQ--ID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGT--KPV 143 (295)
T ss_pred HHH-Hh-cCCCEEEEecC--CC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCch--hHH
Confidence 333 33 48999876422 11 11 123346677777777888877541 1 346999975543 23 445
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCCCeE
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (635)
.+.+++.+++.| +++... ..... + ...-...++++.+. ++++| + ++...+..+++++++.|+. ++..
T Consensus 144 ~~Gf~~al~~~g-~~~~~~--~~~~~---~-~~~~~~~~~~~L~~~~~~d~i-~--~~d~~a~g~l~al~~~g~~-~dv~ 212 (295)
T TIGR02955 144 TQGFRAALEGSD-VEISAI--LWADN---D-KELQRNLLQDLLKKHPDIDYL-V--GSAVAAEAAISELRSLHMT-QQIK 212 (295)
T ss_pred HHHHHHHHhcCC-cEEEEE--ecCCC---c-HHHHHHHHHHHHHhCCCcCEE-E--eccHHHHHHHHHHHhhCcc-CCeE
Confidence 778999999888 776532 11111 1 12233455555433 45764 3 3445577788888888774 3333
Q ss_pred EEe
Q 006683 264 WIV 266 (635)
Q Consensus 264 ~i~ 266 (635)
.++
T Consensus 213 vvg 215 (295)
T TIGR02955 213 LVS 215 (295)
T ss_pred EEE
Confidence 443
No 196
>PRK09526 lacI lac repressor; Reviewed
Probab=97.17 E-value=0.091 Score=53.71 Aligned_cols=208 Identities=13% Similarity=0.064 Sum_probs=116.8
Q ss_pred CeEEEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc--CCChhh
Q 006683 33 EVTKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--METWEE 109 (635)
Q Consensus 33 ~~i~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG--~~~s~~ 109 (635)
..-.||+++|... .....+..+++.+.++ . |+.+.+...+. .++..-.+....++ ..++++||- +..+..
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~---~--g~~~~i~~~~~-~~~~~~~~~l~~l~-~~~vdGiii~~~~~~~~ 134 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ---L--GYSVVISMVER-SGVEACQAAVNELL-AQRVSGVIINVPLEDAD 134 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH---C--CCEEEEEeCCC-ChHHHHHHHHHHHH-hcCCCEEEEecCCCcch
Confidence 4467999998642 2333455555555543 2 45665543322 23333334455555 677876664 333222
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHH
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~ 189 (635)
...+. ....++|+|..... + ....+ .+..++...+..++++|...|.++++++.............+.+
T Consensus 135 ~~~~~--~~~~~iPvV~~d~~---~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf 203 (342)
T PRK09526 135 AEKIV--ADCADVPCLFLDVS---P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGW 203 (342)
T ss_pred HHHHH--hhcCCCCEEEEecc---C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHH
Confidence 11211 12358999876532 1 11122 36677777788889999888999999997543321003446778
Q ss_pred HHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEEe
Q 006683 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIV 266 (635)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~ 266 (635)
++.+++.| +.+... +.... +. ..-...+.++.+. .+++|++ .+...+..+++.+++.|+.-+ +...++
T Consensus 204 ~~al~~~g-i~~~~~--~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~disvig 274 (342)
T PRK09526 204 LEYLTDYQ-LQPIAV--REGDW---SA-MSGYQQTLQMLREGPVPSAILV--ANDQMALGVLRALHESGLRVPGQISVIG 274 (342)
T ss_pred HHHHHHcC-CCcceE--EeCCC---ch-HHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 88998888 764322 11111 11 1222334444322 5677775 566677789999999998543 334444
Q ss_pred e
Q 006683 267 T 267 (635)
Q Consensus 267 ~ 267 (635)
.
T Consensus 275 ~ 275 (342)
T PRK09526 275 Y 275 (342)
T ss_pred e
Confidence 3
No 197
>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=97.16 E-value=0.037 Score=54.06 Aligned_cols=204 Identities=12% Similarity=0.157 Sum_probs=114.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+||+++|.. ..+...+..+++.+.++ . |+.+.+...+ +... ....+. ..++.+||-......... .
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~---~--g~~~~~~~~~---~~~~---~~~~l~-~~~vdgii~~~~~~~~~~-~ 67 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK---N--GYNMNVSITP---SLAE---AEDLFK-ENRFDGVIIFGESASDVE-Y 67 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH---c--CCEEEEEecc---cHHH---HHHHHH-HcCcCEEEEeCCCCChHH-H
Confidence 489999864 33444555565555543 2 3555554433 2222 223344 567776653222222222 2
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~ 194 (635)
..+...++|+|..... .+ ..+++ +..++...+..+++++...|-++++++.............+.+++.++
T Consensus 68 ~~~~~~~ipvV~~~~~--~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 68 LYKIKLAIPVVSYGVD--YD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHcCCCEEEEccc--CC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 4455789999987644 22 22333 567778888889999888899999999755431100334567888888
Q ss_pred ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
+.| +.+.......... +. ......++++.+. .+++|++ ++...+..+++.+++.|+. +++...++.+
T Consensus 139 ~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~dv~vvg~d 208 (261)
T cd06272 139 ENG-ISISDSHIDVDGL---SA-EGGDNAAKKLLKESDLPTAIIC--GSYDIALGVLSALNKQGISIPEDIEIISYD 208 (261)
T ss_pred HcC-CCCCHHHeeeCCC---CH-HHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 888 5432211111111 11 2233444554433 3677665 5556677888999999985 3344444443
No 198
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=97.16 E-value=0.066 Score=53.70 Aligned_cols=197 Identities=9% Similarity=0.010 Sum_probs=111.8
Q ss_pred EEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHHH
Q 006683 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (635)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (635)
||++.|.. ..+......+++.+.++. |+++ .+.++..++..-.+....++ ..++.+||- +..........
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~-----g~~v--~~~~~~~~~~~q~~~i~~l~-~~~vDgIIi~~~~~~~~~~~l 72 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL-----GAKV--FVQSANGNEAKQISQIENLI-ARGVDVLVIIPQNGQVLSNAV 72 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc-----CCEE--EEEeCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChhHHHHHH
Confidence 56777643 333334444444444433 3444 55677777776666777777 677775553 33333334455
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCe-EEEEEEEcCC--CCCCcchHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNV--YGGDSGKLALLAE 191 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~-~vaii~~~~~--~g~~~~~~~~~~~ 191 (635)
..+...++|+|..... .+ .. +....+..+....+..++++|...+-+ +++++..+.. .. ....+.+++
T Consensus 73 ~~~~~~~iPvV~~d~~--~~---~~--~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~--~~R~~g~~~ 143 (302)
T TIGR02634 73 QEAKDEGIKVVAYDRL--IN---DA--DIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNA--KLLRGGQMK 143 (302)
T ss_pred HHHHHCCCeEEEecCc--CC---CC--CccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcch--HHHHHHHHH
Confidence 5667789999987644 21 11 122346677788888889998666655 7888765422 22 233456677
Q ss_pred HHhcc----CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh---cCceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 192 ALQNV----SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 192 ~l~~~----g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~---~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
.+++. + +.+.... +.... ...+....++++.. ..+++|++ .+...+..+++++++.|+.
T Consensus 144 ~~~~~~~~~~-~~~~~~~-~~~~~----~~~~~~~~~~~ll~~~~~~~~aI~~--~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 144 VLQPAIDSGD-IKIVGDQ-WVDGW----LPENALRIMENALTANDNKVDAVVA--SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhhhccCCC-eEEecCc-CCCCC----CHHHHHHHHHHHHHhCCCCccEEEE--CCCchHHHHHHHHHHCCCC
Confidence 77653 3 4432211 11111 11233455555542 24788776 5555666889999999985
No 199
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=97.16 E-value=0.1 Score=53.42 Aligned_cols=209 Identities=11% Similarity=0.095 Sum_probs=118.2
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-.||+++|.. ..+...+..+++.+.++. |+.+ .+.++..++..-.+....+. ..++.++|-........
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~-----gy~~--~~~~~~~~~~~~~~~i~~l~-~~~vdGiIi~~~~~~~~ 129 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH-----QKYV--LIGNSYHEAEKERHAIEVLI-RQRCNALIVHSKALSDD 129 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEcCCCChHHHHHHHHHHH-hcCCCEEEEeCCCCChH
Confidence 456799999854 334445555666555543 3344 34455555555445555555 66777665422111122
Q ss_pred HHHHhhccCCcc-EEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC--CCCCcchHHH
Q 006683 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (635)
Q Consensus 112 ~v~~~~~~~~ip-~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~--~g~~~~~~~~ 188 (635)
.+..+.. ++| ++..... .+ +..+++ +..++..-+...+++|...|-+++++|..... .. ....+.
T Consensus 130 ~~~~~~~--~~p~vV~i~~~--~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 197 (346)
T PRK10401 130 ELAQFMD--QIPGMVLINRV--VP---GYAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDD--AMRRAG 197 (346)
T ss_pred HHHHHHh--cCCCEEEEecc--cC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcch--HHHHHH
Confidence 2334443 355 6655433 12 112233 55677777778888888889999999975433 23 455678
Q ss_pred HHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCCC-CeEEE
Q 006683 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWI 265 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i 265 (635)
|++.+++.| +.+.......... +. ..-...++++.+. .+++|++ .+...+..+++++++.|+.-+ +...+
T Consensus 198 f~~al~~~g-i~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 198 WMSALKEQG-IIPPESWIGTGTP---DM-QGGEAAMVELLGRNLQLTAVFA--YNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHHHHcC-CCCChhheecCCC---Ch-HHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999988 6543211111111 11 1222344454332 5788776 566677789999999998643 34444
Q ss_pred eeC
Q 006683 266 VTN 268 (635)
Q Consensus 266 ~~~ 268 (635)
+.+
T Consensus 271 gfD 273 (346)
T PRK10401 271 GFD 273 (346)
T ss_pred EeC
Confidence 443
No 200
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.10 E-value=0.048 Score=54.03 Aligned_cols=201 Identities=12% Similarity=0.134 Sum_probs=115.6
Q ss_pred EEEEeeCC------CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 37 IGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 37 IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
||++.|.. ..+...+..+++.+.++ . |+.+.+.. +.. .. +....++ ..++.++|-.......
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~---~--g~~~~~~~--~~~-~~---~~~~~~~-~~~~dgiii~~~~~~~ 69 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA---A--GVNLLLLP--ASS-ED---SDSALVV-SALVDGFIVYGVPRDD 69 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH---C--CCEEEEec--Ccc-HH---HHHHHHH-hcCCCEEEEeCCCCCh
Confidence 89999862 33344555566555554 2 45555543 322 11 2233444 6788877753332222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC-------------
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN------------- 177 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~------------- 177 (635)
.....+...++|+|..... .. .. .-.+..+....+..++++|...|-++++++..+.
T Consensus 70 -~~~~~~~~~~ipvV~~~~~--~~----~~---~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 70 -PLVAALLRRGLPVVVVDQP--LP----PG---VPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred -HHHHHHHHcCCCEEEEecC--CC----CC---CCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 3445567789999987644 21 11 2246778888889999999888999999997542
Q ss_pred ------CCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHH
Q 006683 178 ------VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLF 249 (635)
Q Consensus 178 ------~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l 249 (635)
... ....+.+.+.+++.| +.......+..... + .......++++.++ .+++|++ ++...+..++
T Consensus 140 ~~~~~~~~~--~~R~~gf~~~~~~~~-~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~ 211 (283)
T cd06279 140 LASATFSVA--RERLEGYLEALEEAG-IDISDVPIWEIPEN--D-RASGEEAARELLDASPRPTAILC--MSDVLALGAL 211 (283)
T ss_pred ccccccccH--HHHHHHHHHHHHHcC-CCCChheEEecCCC--c-hHHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHH
Confidence 112 234567888888877 55322111111110 1 12334455555433 4677665 5666777889
Q ss_pred HHHHHcCCCC-CCeEEEee
Q 006683 250 TEANRMGLVG-KDSVWIVT 267 (635)
Q Consensus 250 ~~a~~~g~~~-~~~~~i~~ 267 (635)
+++++.|+.- ++...++.
T Consensus 212 ~al~~~g~~ip~di~vig~ 230 (283)
T cd06279 212 QVARELGLRVPEDLSVVGF 230 (283)
T ss_pred HHHHHcCCCCCCceEEeee
Confidence 9999999853 33444443
No 201
>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=97.08 E-value=0.21 Score=49.17 Aligned_cols=213 Identities=13% Similarity=0.155 Sum_probs=116.4
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCChhhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (635)
|||++.|.. ..+...+..+++.+.++.+.. ...+.... ....++..-.+....+. . +++++| .+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~--~~~~~~~~-~~~~~~~~~~~~i~~~~-~-~vdgiii~~~~~~~~~~~ 75 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA--RIRVRIHF-VESFDPAALAAALLRLG-A-RSDGVALVAPDHPQVRAA 75 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc--CceEEEEE-ccCCCHHHHHHHHHHHH-h-cCCEEEEeCCCcHHHHHH
Confidence 589999864 334445566666666664433 12222222 23345554445555554 5 777665 33332322333
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHC-C--CeEEEEEEEcCCCCCCcchHHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N--WRRVAAIYEDNVYGGDSGKLALLA 190 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~-~--w~~vaii~~~~~~g~~~~~~~~~~ 190 (635)
...+...++|+|..... .+. ... +..+..+....+...+++|.+. | -++++++.............+.++
T Consensus 76 i~~~~~~~ipvV~~~~~--~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 76 VARLAAAGVPVVTLVSD--LPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHCCCcEEEEeCC--CCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 45556689999987643 221 111 2235566667777777777554 4 469999976433210034467788
Q ss_pred HHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeC
Q 006683 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (635)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~ 268 (635)
+.+++.+ ..+.......... +. .+....++++.+ .++++|+. ..+. ...+++.+++.|+.. ++..++.+
T Consensus 149 ~a~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~-~~d~--~~g~~~al~~~g~~~-di~Ivg~d 219 (275)
T cd06307 149 SVLREEF-PGLRVLETLEGLD---DP-ARAYEATRKLLARHPDLVGIYN-AGGG--NRGVIRALREAGRAG-KVVFVGHE 219 (275)
T ss_pred HHHHhhC-CCcEEEeeccCCC---Ch-HHHHHHHHHHHHhCCCceEEEE-CCCC--hHHHHHHHHHcCCCC-CcEEEEec
Confidence 8888776 5443322222111 11 223345555433 25788887 6554 368899999999863 44445444
Q ss_pred c
Q 006683 269 T 269 (635)
Q Consensus 269 ~ 269 (635)
.
T Consensus 220 ~ 220 (275)
T cd06307 220 L 220 (275)
T ss_pred C
Confidence 3
No 202
>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=97.07 E-value=0.089 Score=52.98 Aligned_cols=199 Identities=12% Similarity=0.017 Sum_probs=113.8
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EET 110 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~ 110 (635)
..-.||+++|.- .........++..+. .+. |+.+ .+.++..++....+....+. ..++.++|-.... ...
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~---~~~--gy~~--~i~~~~~~~~~~~~~~~~l~-~~~vdGvIi~~~~~~~~ 129 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVF---YTA--GYDP--IIMESQFSPQLTNEHLSVLQ-KRNVDGVILFGFTGCDE 129 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHH---HHC--CCeE--EEecCCCChHHHHHHHHHHH-hcCCCEEEEeCCCCCCH
Confidence 345799999853 222233333443333 333 3444 44455556654444444444 6677766632211 111
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEc-C--CCCCCcchHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-N--VYGGDSGKLA 187 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~-~--~~g~~~~~~~ 187 (635)
. .....++|+|..+.. .+ .++ .+.+++..-+..++++|...|-+++++|... . ..+ ....+
T Consensus 130 ~----~l~~~~~p~V~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~--~~R~~ 193 (311)
T TIGR02405 130 E----ILESWNHKAVVIARD--TG-----GFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTG--LMRHN 193 (311)
T ss_pred H----HHHhcCCCEEEEecC--CC-----Ccc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhH--HHHHH
Confidence 2 223457788876532 11 122 3667888888888999988899999999732 2 233 45567
Q ss_pred HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 188 ~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
.+++.+++.| +.... ..... +. ......++++.+.++++|++ ++...+..+++.+.+.|+ .+...++.
T Consensus 194 gf~~a~~~~g-i~~~~---~~~~~---~~-~~~~~~~~~~l~~~~tAi~~--~~D~~A~g~~~~l~~~g~--~dvsvvgf 261 (311)
T TIGR02405 194 AYLAYCESAN-LEPIY---QTGQL---SH-ESGYVLTDKVLKPETTALVC--ATDTLALGAAKYLQELDR--SDVQVSSV 261 (311)
T ss_pred HHHHHHHHcC-CCcee---eeCCC---CH-HHHHHHHHHHHhcCCCEEEE--CCcHHHHHHHHHHHHcCC--CCeEEEee
Confidence 8999999999 75321 11111 01 22234444443446888876 566677788999999997 33444433
No 203
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.98 E-value=0.12 Score=51.92 Aligned_cols=202 Identities=16% Similarity=0.117 Sum_probs=114.8
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (635)
..-+||++.|.. ..+...+..+++.+.++. |+.+. +.+...+...-......++ ..++++||--.+.....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~~~~~ 105 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH-----GYLVL--IGDCAHQNQQEKTFVNLII-TKQIDGMLLLGSRLPFD 105 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC-----CCEEE--EEeCCCChHHHHHHHHHHH-HcCCCEEEEecCCCChH
Confidence 457999999964 444556666776666653 34443 3455455554445555665 67787666322211111
Q ss_pred HHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 112 ~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
... .......|++..+.. .+ ...+++ +..+....+...+++|...|-+++++|.............+.|++
T Consensus 106 ~~~-~~~~~~~pvv~~~~~--~~---~~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~ 176 (309)
T PRK11041 106 ASK-EEQRNLPPMVMANEF--AP---ELELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQ 176 (309)
T ss_pred HHH-HHHhcCCCEEEEccc--cC---CCCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHH
Confidence 111 122223466665433 11 112333 567888888888898888899999999754332100345677888
Q ss_pred HHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
.+++.| +.+.......... +. ......++++.+. .+++|++ ++...+..+++++++.|+.
T Consensus 177 ~~~~~~-~~~~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~~al~~~g~~ 238 (309)
T PRK11041 177 ALRRCG-ITVDPQYIARGDF---TF-EAGAKALKQLLDLPQPPTAVFC--HSDVMALGALSQAKRMGLR 238 (309)
T ss_pred HHHHcC-CCCCHHHeEeCCC---CH-HHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 898888 7643211111111 11 2233455555433 4788776 4555666788889998874
No 204
>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=96.69 E-value=0.32 Score=48.05 Aligned_cols=204 Identities=12% Similarity=0.018 Sum_probs=106.6
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v 113 (635)
+||++.|.. ..+-..+..+++.+.++. |++ +.+.++..++..-.+....++ ..++.+||=.... ......
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~-----gy~--~~~~~~~~~~~~~~~~i~~l~-~~~vdgiil~~~~~~~~~~~ 73 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI-----GWN--LRILDGRGSEAGQAAALNQAI-ALKPDGIVLGGVDAAELQAE 73 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc-----CcE--EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEcCCCHHHHHHH
Confidence 589898854 333334445555444443 333 444566666666555666666 6777766643222 211223
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCc-eEEEEecCcHHHHHHHHHHHHHC--CCeEEEEEEEcCC-CCCCcchHHHH
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWP-YLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALL 189 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p-~~~r~~p~~~~~~~al~~~l~~~--~w~~vaii~~~~~-~g~~~~~~~~~ 189 (635)
...+...++|+|..... ... .....+ .+-.+..++...+..++++|... |-++++++..... .. ....+.+
T Consensus 74 ~~~~~~~~iPvV~~d~~--~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~--~~r~~~~ 148 (280)
T cd06315 74 LELAQKAGIPVVGWHAG--PEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIA--KAKANAM 148 (280)
T ss_pred HHHHHHCCCCEEEecCC--CCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccH--HHHHHHH
Confidence 34455689999987643 111 110011 13346677777888888888665 8889998864322 11 1012344
Q ss_pred HHHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc---CceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 190 ~~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+..++.. + ..+.......... + .......++++.+. .+++|+. ++...+..+++.+++.|+..
T Consensus 149 ~~~~~a~~~-~~~~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~ai~~--~~D~~A~g~~~~l~~~g~~~ 215 (280)
T cd06315 149 KEIIEACKG-CTVLSIEDVPISR---T-ATRMPALTARLLQRYGDKWTHSLA--INDLYFDYMAPPLASAGRKA 215 (280)
T ss_pred HHHHHhCCC-CEEEEecccCcch---h-hhhhHHHHHHHHHhcCcccceecc--cchhhhHHhHHHHHHhcccC
Confidence 4444433 2 2231111111110 0 01111334444332 3677765 66667778889999999864
No 205
>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=96.59 E-value=0.18 Score=49.42 Aligned_cols=196 Identities=13% Similarity=0.065 Sum_probs=109.4
Q ss_pred EEEEEeeCC------CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChh
Q 006683 36 KIGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWE 108 (635)
Q Consensus 36 ~IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~ 108 (635)
|||++.+.+ ..+...+..+++.+.++. |+.+.+... ..+. ... ..++.++|- +..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~--~~~~--------~~~-~~~vdgii~~~~~~~ 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL-----GIELTKFFR--DDDL--------LEI-LEDVDGIIAIGKFSQ 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc-----CCEEEEEec--cchh--------HHh-ccCcCEEEEecCCCH
Confidence 589999854 233344455555555442 455554433 2221 112 455665542 22222
Q ss_pred hHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC-------CCC
Q 006683 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-------YGG 181 (635)
Q Consensus 109 ~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~-------~g~ 181 (635)
.....+...++|+|..... . .+..+++ +..++...+..+++++.+.|-++++++..... ..
T Consensus 65 ---~~~~~~~~~~~pvV~~~~~--~---~~~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~- 132 (270)
T cd01544 65 ---EQLAKLAKLNPNLVFVDSN--P---APDGFDS---VVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIE- 132 (270)
T ss_pred ---HHHHHHHhhCCCEEEECCC--C---CCCCCCE---EEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhh-
Confidence 3334456678999987643 1 2222343 66788888888999998889999999986542 22
Q ss_pred CcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc----CceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 182 ~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~----~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+...+.+++.+.+.| .. .....+.... + ..+....++++.+. .+++|++ ++...+..+++.+++.|+
T Consensus 133 -~~R~~gf~~~~~~~~-~~-~~~~~~~~~~---~-~~~~~~~~~~~l~~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~ 203 (270)
T cd01544 133 -DPRETAFREYMKEKG-LY-DPELIYIGDF---T-VESGYQLMKEALKSLGDNLPTAFFI--ASDPMAIGALRALQEAGI 203 (270)
T ss_pred -hHHHHHHHHHHHHcC-CC-ChheEeeCCC---C-HHHHHHHHHHHHhccCCCCCCEEEE--cCcHHHHHHHHHHHHcCC
Confidence 334667888888887 42 1111111111 0 02223344443322 3677665 567778888999999998
Q ss_pred CC-CCeEEEeeC
Q 006683 258 VG-KDSVWIVTN 268 (635)
Q Consensus 258 ~~-~~~~~i~~~ 268 (635)
.- ++...++.+
T Consensus 204 ~vp~di~v~g~d 215 (270)
T cd01544 204 KVPEDVSVISFN 215 (270)
T ss_pred CCCCceEEEEEC
Confidence 53 334444443
No 206
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.30 E-value=0.51 Score=45.94 Aligned_cols=193 Identities=11% Similarity=0.060 Sum_probs=101.7
Q ss_pred EEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
|||+++|-. ..+......|++.+.++ . | +++.+.+...++....+.++++. +++..+||+.. .....+
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~----~-g--v~~~~~e~~~~~~~~~~~i~~~~-~~g~dlIi~~g-~~~~~~ 71 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKA----L-G--VEVTYVENVPEGADAERVLRELA-AQGYDLIFGTS-FGFMDA 71 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHh----c-C--CeEEEEecCCchHhHHHHHHHHH-HcCCCEEEECc-hhhhHH
Confidence 588888843 22333444555444443 2 3 44555565546777777888888 67899999843 334445
Q ss_pred HHHhhccC-CccEEeecCCCCCCCCCCCCCceEEEEecCcHH---HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHH
Q 006683 113 VAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE---QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 113 v~~~~~~~-~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~---~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~ 188 (635)
+...+..+ ++.++..... . . .|++......... ++-.++.++. +-.+|++|........ ......
T Consensus 72 ~~~vA~~~p~~~F~~~d~~--~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~kVG~I~g~~~~~~-~~~~~g 140 (258)
T cd06353 72 ALKVAKEYPDVKFEHCSGY--K---T---APNVGSYFARIYEGRYLAGVVAGKMT--KTNKVGYVAAFPIPEV-VRGINA 140 (258)
T ss_pred HHHHHHHCCCCEEEECCCC--C---C---CCCeeeEechhhHHHHHHHHHHHHhh--cCCcEEEEcCcccHHH-HHHHHH
Confidence 55555444 3333332222 1 1 1343333333322 2223333333 3358999976543110 334456
Q ss_pred HHHHHhccC-CeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 189 LAEALQNVS-SSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 189 ~~~~l~~~g-~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
|.+-++..+ .+++... +... ..|. ..-.+..+.+.++++|+|+. .+ ....+++++++.|.
T Consensus 141 F~~G~~~~~p~~~v~~~--~~g~--~~D~-~~a~~~a~~l~~~G~DvI~~-~~---~~~g~~~aa~~~g~ 201 (258)
T cd06353 141 FALGARSVNPDATVKVI--WTGS--WFDP-AKEKEAALALIDQGADVIYQ-HT---DSPGVIQAAEEKGV 201 (258)
T ss_pred HHHHHHHHCCCcEEEEE--EecC--CCCc-HHHHHHHHHHHHCCCcEEEe-cC---CChHHHHHHHHhCC
Confidence 666555433 1443332 2221 1121 23356667777889998887 65 23467888888763
No 207
>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=96.13 E-value=1.7 Score=43.43 Aligned_cols=202 Identities=11% Similarity=0.091 Sum_probs=103.3
Q ss_pred EEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCChhhHHHHH
Q 006683 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (635)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (635)
||++.|.. ..+......+++.+.++.+. ..+ +...++..++..-.+....++ .+++.+||- |..+.......
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~g~----~~~-i~~~~~~~d~~~q~~~i~~l~-~~~vdgiIi~~~~~~~~~~~l 74 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKELGS----VYI-IYTGPTGTTAEGQIEVVNSLI-AQKVDAIAISANDPDALVPAL 74 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHhCC----eeE-EEECCCCCCHHHHHHHHHHHH-HcCCCEEEEeCCChHHHHHHH
Confidence 57777753 33334455566655555431 122 112234567766667777777 667775543 33333333444
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEec-CcHHHHHHHHHHH-HHC-CCeEEEEEEEcCCCCCCcchHHHHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLA-RKY-NWRRVAAIYEDNVYGGDSGKLALLAE 191 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p-~~~~~~~al~~~l-~~~-~w~~vaii~~~~~~g~~~~~~~~~~~ 191 (635)
..+...+||+|..... .+. . +....+.. +....++..++.+ +++ +-.+|++|..+..........+.+++
T Consensus 75 ~~~~~~giPvV~~~~~--~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~ 147 (302)
T TIGR02637 75 KKAMKRGIKVVTWDSG--VAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKK 147 (302)
T ss_pred HHHHHCCCEEEEeCCC--CCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHH
Confidence 5567789999987644 221 1 12333444 3334444445544 333 22689998765332100233566777
Q ss_pred HHhccC--CeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 192 ALQNVS--SSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 192 ~l~~~g--~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
.++++| ..++.... .... + ...-.+.++++.+. ++++|++ .....+...++++++.|..+
T Consensus 148 ~~~~~~~~~~~~~~~~--~~~~---~-~~~~~~~~~~~L~~~~~~~ai~~--~~d~~a~ga~~al~~~g~~~ 211 (302)
T TIGR02637 148 ELKDPKYPKVKLVATV--YGDD---D-AQKSYQEAQGLLKSYPNLKGIIA--PTTVGIKAAAQAVSDAKLIG 211 (302)
T ss_pred HHhhccCCCCEEEeee--cCCc---h-HHHHHHHHHHHHHhCCCccEEEe--CCCchHHHHHHHHHhcCCCC
Confidence 776643 03332221 1111 1 12233445554433 4566665 34556677788888888754
No 208
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=96.03 E-value=1.6 Score=44.41 Aligned_cols=207 Identities=14% Similarity=0.124 Sum_probs=104.7
Q ss_pred CCeEEEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEec--CCCCHHHHHHHHHHHhhcCCeEEEEcCCC
Q 006683 32 EEVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAGMET 106 (635)
Q Consensus 32 ~~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D--~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (635)
.+..+++++.+-. ....+....|.+.+-++.+. +++..... ...+.....+...++. +++..+|++...
T Consensus 33 ~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~g~-----~~~~~~~~~~~~~~~~~~~~~~~~~a-~~g~~lI~~~gf 106 (345)
T COG1744 33 GKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKELGL-----KVETYYWEYVQSDSEADYERALRALA-EDGYDLIFGTGF 106 (345)
T ss_pred ccceEEEEEecCCCCccchhHHHHHHHHHHHHHhCC-----ceEeeeeeecCCcchhHHHHHHHHHH-hcCCCEEEEecc
Confidence 3456666666543 23455666676655555543 34443222 2233455556666676 677788887554
Q ss_pred hhhHHHHHHhhccC-CccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcC-CCCCCcc
Q 006683 107 WEETAVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSG 184 (635)
Q Consensus 107 s~~~~~v~~~~~~~-~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~-~~g~~~~ 184 (635)
. ...++..++.++ ++.++-..+. ....++-..+.||..-..-..+.+-+.+.+ -.+++.|..-+ +-- ..
T Consensus 107 ~-~~d~~~~va~~~Pd~~F~iid~~---~~~~~Nv~s~~f~~~egayL~G~~AA~~sk---~~~vG~vgg~~~p~v--~~ 177 (345)
T COG1744 107 A-FSDALEKVAAEYPDVKFVIIDGV---VKKEDNVASYVFREYEGAYLAGVAAAKMSK---SGKVGFVGGMDIPEV--NR 177 (345)
T ss_pred c-hhhHHHHHHHHCCCCEEEEecCc---cCCCCceEEEEeccccHHHHHHHHHHHhhc---CCceeEEecccchhh--HH
Confidence 3 344555555554 3333332221 111112234555554443222222222333 34556655433 222 45
Q ss_pred hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC
Q 006683 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 185 ~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (635)
+...|..-++..+ -.+.....+.. +..|+.. -.+....+.++++|||+- .+++... .++.+|++.+...
T Consensus 178 f~~gF~~Gak~~n-p~i~v~v~~~g--sf~D~~k-~k~~a~~li~~GaDVI~~-~ag~~~~-gv~~~A~~~~~~~ 246 (345)
T COG1744 178 FINGFLAGAKSVN-PDIKVKVVYVG--SFSDPAK-GKEAANALIDQGADVIYP-AAGGTGV-GVFQAAKELGAYA 246 (345)
T ss_pred HHHHHHHHHHhhC-CCccEEEEEec--CccChHH-HHHHHHHHHhcCCCEEEe-cCCCCcc-hHHHHHHHhCCCe
Confidence 5666777666655 33332222222 2233323 345888888999999998 6555433 3343677777654
No 209
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=95.85 E-value=0.011 Score=58.56 Aligned_cols=68 Identities=16% Similarity=0.129 Sum_probs=54.9
Q ss_pred CCcccEEEecCCCChhhHHHHHHcCcccEEEeccccccccccccccccc--ceeeeeEEEEeCCCCCCcceeec
Q 006683 503 NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQP--YAESGFSMIVPAKQEESTWMFTK 574 (635)
Q Consensus 503 ~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p--~~~~~~~~~v~~~~~~~~~~~l~ 574 (635)
+.+++++... |.+++..|.+|++|++++++..+.||.+.++|+.| |....++++++++.+......|+
T Consensus 43 ~~~ie~~~~~----~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~i~sl~DL~ 112 (287)
T PRK00489 43 DNPIEVLFLR----PDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSDWQGVEDLA 112 (287)
T ss_pred CCCEEEEEEC----cHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCCCCChHHhC
Confidence 4555555554 88999999999999999999999999999999997 78888999999887654344443
No 210
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=94.84 E-value=4.2 Score=39.55 Aligned_cols=205 Identities=10% Similarity=0.086 Sum_probs=113.4
Q ss_pred CCeEEEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCe-EEEEcCCChhh
Q 006683 32 EEVTKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKV-KVIAGMETWEE 109 (635)
Q Consensus 32 ~~~i~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v-~aiiG~~~s~~ 109 (635)
.+...||+..|--. ..-..-..++.-+.+.+ |.+..+ .+...+...-+..+..++ .+++ +.||++..+.+
T Consensus 23 ~~d~~IGis~~d~~~eRW~~D~~~~~~~~e~~-----g~k~~~--q~A~~~~~~Q~~qien~i-~qg~~vlvi~a~d~~~ 94 (341)
T COG4213 23 AKDGVIGISMPDLRSERWIKDRDAFVKKAEAL-----GAKVDV--QSADGDEEKQLAQIENMI-NQGVKVLVIGAIDGGV 94 (341)
T ss_pred ccCCeEEEEcCChhHhhhhhhhHHHHHHHHhc-----cchhhh--hhhccChhHHHHHHHHHH-hcCCCEEEEEeccchh
Confidence 35688999888642 11112223444344433 334433 344456666678899999 4555 46778999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHH----HHHHHHHHHHHCC---CeEEEEEEEc-CC-C-
Q 006683 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE----QMKCIADLARKYN---WRRVAAIYED-NV-Y- 179 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~----~~~al~~~l~~~~---w~~vaii~~~-~~-~- 179 (635)
...+.+.+...+||+|++. ....+....| -+..+... |+.++.+-++... -..+.++... ++ .
T Consensus 95 l~~~i~~A~~~gikViaYD-----RlI~n~dvd~--YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA 167 (341)
T COG4213 95 LSNAVEKAKSEGIKVIAYD-----RLINNADVDF--YVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNA 167 (341)
T ss_pred HHHHHHHHHHcCCeEEEee-----cccccCCccE--EEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcch
Confidence 8899999999999999884 4444433222 23444444 4444444443322 2345555432 22 1
Q ss_pred --CCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh---cCceEEEEecCChhHHHHHHHHHHH
Q 006683 180 --GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANR 254 (635)
Q Consensus 180 --g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~---~~~~vii~~~~~~~~~~~~l~~a~~ 254 (635)
-. .+..+-++..+ ..|.++++.....+.-. + +.....+.++.. .+.|.|+. ..+ ..+..++.++..
T Consensus 168 ~lf~-~G~m~VLkp~i-dsGkik~~Ge~~~d~W~----p-s~Aq~~men~lta~~~~vdaVvA-~nD-gtagGaI~aL~a 238 (341)
T COG4213 168 KLFF-AGAMKVLKPLI-DSGKIKVVGEQWTDGWL----P-SNAQQIMENLLTANYNDIDAVVA-PND-GTAGGAIAALKA 238 (341)
T ss_pred HHHH-hcHHHHHHHHh-hCCceEEeeeccccccC----H-HHHHHHHHHHHhcccCceeEEEc-CCC-chhHHHHHHHHh
Confidence 10 12233344344 44436665554433222 1 223344444442 36777776 444 677788888999
Q ss_pred cCCCCC
Q 006683 255 MGLVGK 260 (635)
Q Consensus 255 ~g~~~~ 260 (635)
.|+.++
T Consensus 239 ~Gl~g~ 244 (341)
T COG4213 239 QGLAGK 244 (341)
T ss_pred cccCCC
Confidence 999865
No 211
>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=94.75 E-value=0.061 Score=53.48 Aligned_cols=75 Identities=15% Similarity=0.057 Sum_probs=51.3
Q ss_pred HHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecc---cccccccccc--------cccccceeeeeEEEE
Q 006683 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDL---TILGNRTEYV--------EFTQPYAESGFSMIV 561 (635)
Q Consensus 493 dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~---~~~~~r~~~~--------~fs~p~~~~~~~~~v 561 (635)
.+.+.+++++|.++++.... +|.+++..+.+|++|+++.+. ....+|.+.. +++.||. ..+++
T Consensus 48 ~l~~~l~~~~g~~v~~~~~~---~~~~~~~al~~g~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~---~~lvv 121 (288)
T TIGR03431 48 PLADYLSKKLGVKVKLFFAT---DYAGVIEGMRFGKVDIAWYGPSSYAEAYQKANAEAFAIEVNADGSTGYY---SVLIV 121 (288)
T ss_pred HHHHHHHHHhCCcEEEEeCC---CHHHHHHHHHcCCccEEEEChHHHHHHHHhcCCeEEEEeccCCCCCceE---EEEEE
Confidence 47899999999986654322 599999999999999998653 2223565553 3455654 57778
Q ss_pred eCCCCCCcceee
Q 006683 562 PAKQEESTWMFT 573 (635)
Q Consensus 562 ~~~~~~~~~~~l 573 (635)
+++++.+.+..|
T Consensus 122 ~~ds~i~sl~DL 133 (288)
T TIGR03431 122 KKDSPIKSLEDL 133 (288)
T ss_pred eCCCCCCcHHHh
Confidence 887665444433
No 212
>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=94.59 E-value=4.3 Score=38.72 Aligned_cols=210 Identities=13% Similarity=0.090 Sum_probs=119.5
Q ss_pred eEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC--CCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhH
Q 006683 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAGMETW-EET 110 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~ 110 (635)
.++||++..-.+. +.+..+|++..+++--.. .|.-+++-+. .+-..+...+..|-++..+.+||-...- .++
T Consensus 2 ~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~~----~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt~ 76 (275)
T PF12683_consen 2 DYKIGIVTGTVSQ-SEDEYRGAEELIKKYGDV----MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGTA 76 (275)
T ss_dssp -EEEEEEE--TTT--HHHHHHHHHHHHHHHHH----EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---H
T ss_pred ceEEEEEeCCccc-ChHHHHHHHHHHHHhCcc----eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcchH
Confidence 5899998876543 456677777777765543 5665555443 4566777778888878899888854333 344
Q ss_pred HHHHHhh-ccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcch----
Q 006683 111 AVVAEIA-SRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK---- 185 (635)
Q Consensus 111 ~~v~~~~-~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~---- 185 (635)
.+...+= .+-+|.+|+..... +|..-..... +-+.++....+..++...+.+|.+.+.-+.....-+ ...
T Consensus 77 ~af~kIkekRpDIl~ia~~~~E-Dp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms--~~~l~~R 151 (275)
T PF12683_consen 77 EAFRKIKEKRPDILLIAGEPHE-DPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMS--YELLARR 151 (275)
T ss_dssp HHHHHHHHH-TTSEEEESS--S--HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGG--SHHHHHH
T ss_pred HHHHHHHhcCCCeEEEcCCCcC-CHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcc--hHHHHHH
Confidence 4444332 23578888765442 2222111112 345588888999999999999999999997665533 222
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHH-----HHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAV-----RGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~-----~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
.+.+++..+..| ++.+....-.+.... ..... ..+-+++++.+.++-+. +++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lG-i~fv~~taPDP~sd~--gv~gaqqfIlE~vp~~i~kYGkdtaff-~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLG-IKFVEVTAPDPTSDV--GVAGAQQFILEDVPKWIKKYGKDTAFF-CTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT---EEEEEE---SSTC--HHHHHHHHHHHHHHHHHHHH-S--EEE-ESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcC-CeEEEEeCCCCCCCC--CcHHHHHHHHHHHHHHHHHhCCceeEE-ecCccccHHHHHHHHHcCC
Confidence 344677788899 888876544333211 11111 22345666779999999 9999999999999998774
No 213
>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=94.31 E-value=0.34 Score=46.26 Aligned_cols=97 Identities=10% Similarity=0.046 Sum_probs=73.1
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCC--C-CchHHHHHHHHhhhhc
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSI--S-DPKEAVRGELKKVQDK 230 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~--~-d~~~~~~~~l~~l~~~ 230 (635)
-..++.+.|+++|.+||+++. +|- ....+.+++.+++.| ++|+....+...... . -+...+.+.++++...
T Consensus 107 ~~~A~~~AL~alg~~RIalvT---PY~--~~v~~~~~~~l~~~G-~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~ 180 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLT---PYT--PETSRPMAQYFAVRG-FEIVNFTCLGLTDDREMARISPDCIVEAALAAFDP 180 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEEC---CCc--HHHHHHHHHHHHhCC-cEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCC
Confidence 367889999999999999996 676 777899999999999 999876544442211 0 1113455666666667
Q ss_pred CceEEEEecCChhHHHHHHHHHHH-cCC
Q 006683 231 QSRVFIVLQASLDMTIHLFTEANR-MGL 257 (635)
Q Consensus 231 ~~~vii~~~~~~~~~~~~l~~a~~-~g~ 257 (635)
++|+|++ .|..-....++.++++ +|.
T Consensus 181 ~aDAifi-sCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 181 DADALFL-SCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred CCCEEEE-eCCCchhHHHHHHHHHHHCC
Confidence 9999999 8998888888888866 443
No 214
>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=93.80 E-value=8 Score=38.69 Aligned_cols=200 Identities=14% Similarity=0.172 Sum_probs=107.8
Q ss_pred EEEEEEeeCC---CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEcCCChhhH
Q 006683 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETWEET 110 (635)
Q Consensus 35 i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~-~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (635)
.+|+++.|-. ..+......|++.+.++. . + +++...+... ++......+.++. +++...||+.. ....
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~-~---~--i~~~~~e~~~~~~~~~~~~~~~~~-~~g~dlIi~~g-~~~~ 73 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL-D---G--IEIIYVENVPETDADYEEAIRQLA-DQGYDLIIGHG-FEYS 73 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC-T---T--EEEEEEES-S-TCHHHHHHHHHHH-HTT-SEEEEES-GGGH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc-C---C--ceEEEEecCCccHHHHHHHHHHHH-HcCCCEEEEcc-HHHH
Confidence 4778888766 344556667777776665 1 2 5555555544 4555566666776 78988888844 3445
Q ss_pred HHHHHhhccC-CccEEeecCCCCCCCCCCCCCceEEEEecCcHH---HHHHHHHHHHHCCCeEEEEEE---EcC-CCCCC
Q 006683 111 AVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE---QMKCIADLARKYNWRRVAAIY---EDN-VYGGD 182 (635)
Q Consensus 111 ~~v~~~~~~~-~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~---~~~al~~~l~~~~w~~vaii~---~~~-~~g~~ 182 (635)
.++..++..+ ++-++...+. ...- .|++......... ++-.++.++..- .++++|. ..+ +.-
T Consensus 74 ~~~~~vA~~yPd~~F~~~d~~--~~~~----~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~-- 143 (306)
T PF02608_consen 74 DALQEVAKEYPDTKFIIIDGY--IDAP----EPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPV-- 143 (306)
T ss_dssp HHHHHHHTC-TTSEEEEESS-----ST-----TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SCTT--
T ss_pred HHHHHHHHHCCCCEEEEEecC--cCCC----CCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcHhH--
Confidence 6666777776 5555554433 1111 1455555544433 333333444333 4788887 443 322
Q ss_pred cchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCC
Q 006683 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 183 ~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (635)
..+...|..-++..+ -.+.....+..+ ..|+ ..-++..+.+.+.++|+|+. .+. .....+++++++.|..
T Consensus 144 ~~~~~gF~~Ga~~~n-p~i~v~~~~~gs--~~D~-~~~~~~a~~li~~GaDvI~~-~ag-~~~~gv~~aa~e~g~~ 213 (306)
T PF02608_consen 144 NRFINGFIAGAKYVN-PDIKVNVSYTGS--FNDP-AKAKEAAEALIDQGADVIFP-VAG-GSGQGVIQAAKEAGVY 213 (306)
T ss_dssp HHHHHHHHHHHHHTT-TT-EEEEEE-SS--SS-H-HHHHHHHHHHHHTT-SEEEE-E-C-CCHHHHHHHHHHHTHE
T ss_pred HHHHHHHHHHHHHhC-cCceEEEEEcCC--cCch-HHHHHHHHHHhhcCCeEEEE-CCC-CCchHHHHHHHHcCCc
Confidence 455667777766655 333332223222 2232 34456667777789999987 444 4556678888888864
No 215
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=93.79 E-value=1.5 Score=39.72 Aligned_cols=94 Identities=16% Similarity=0.135 Sum_probs=66.6
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCC----CCchHHHHHHHHhhhhcC
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSI----SDPKEAVRGELKKVQDKQ 231 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~----~d~~~~~~~~l~~l~~~~ 231 (635)
.++++-|+.++.+++.++. +|- ....+...+.++.+| +.|+...-....++. .++ ...-...+++..-+
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~--~evn~~e~ef~~~~G-feiv~~~~Lgi~dn~eigr~~P-~~~y~lAk~~~~~~ 179 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYI--DEVNQREIEFLEANG-FEIVDFKGLGITDNLEIGRQEP-WAVYRLAKEVFTPD 179 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cch--hhhhhHHHHHHHhCC-eEEEEeeccCCcccchhcccCh-HHHHHHHHHhcCCC
Confidence 5678889999999999997 666 677888999999999 998876544332211 011 22345566677779
Q ss_pred ceEEEEecCChhHHHHHHHHHHH-cCC
Q 006683 232 SRVFIVLQASLDMTIHLFTEANR-MGL 257 (635)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~-~g~ 257 (635)
+|.|++ .|..-....++...++ .|.
T Consensus 180 ~DaiFi-SCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 180 ADAIFI-SCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred CCeEEE-EeeccccHHHHHHHHHHhCC
Confidence 999999 8887666666666654 443
No 216
>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=93.39 E-value=8.4 Score=37.63 Aligned_cols=148 Identities=11% Similarity=0.058 Sum_probs=88.0
Q ss_pred cCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEE
Q 006683 95 KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIY 174 (635)
Q Consensus 95 ~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~ 174 (635)
..+++++|-.........+ ..+...++|+|..... ... ...+++ +..++...+..+++.|...|-+++++|.
T Consensus 54 ~~~vdgiIi~~~~~~~~~~-~~l~~~~iPvV~i~~~--~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 54 ALDIDGAILVEPMADDPQV-ARLRQRGIPVVSIGRP--PGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred ccCcCeEEEecCCCCCHHH-HHHHHcCCCEEEeCCC--CCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 5677765532211112223 3345679999988644 210 122343 4467777778888888888999999997
Q ss_pred EcCC--CCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHH
Q 006683 175 EDNV--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFT 250 (635)
Q Consensus 175 ~~~~--~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~ 250 (635)
.... .. ....+.+++.+++.| +..... ...... +. .+-...++++.+. ++++|++ .+...+..+++
T Consensus 126 ~~~~~~~~--~~R~~gf~~a~~~~g-~~~~~~-~~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~gvl~ 195 (269)
T cd06287 126 GSARRNSY--LEAEAAYRAFAAEHG-MPPVVL-RVDEAG---GE-EAGYAACAQLLAQHPDLDALCV--PVDAFAVGAVR 195 (269)
T ss_pred CCcccccH--HHHHHHHHHHHHHcC-CCccee-EecCCC---Ch-HHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHH
Confidence 5432 22 345677888898888 653321 111111 11 2223445555433 5788876 56677888999
Q ss_pred HHHHcCCCCC
Q 006683 251 EANRMGLVGK 260 (635)
Q Consensus 251 ~a~~~g~~~~ 260 (635)
.+++.|+.-+
T Consensus 196 al~~~gl~vP 205 (269)
T cd06287 196 AATELGRAVP 205 (269)
T ss_pred HHHHcCCCCC
Confidence 9999998543
No 217
>TIGR00035 asp_race aspartate racemase.
Probab=92.64 E-value=1.2 Score=42.39 Aligned_cols=89 Identities=9% Similarity=0.103 Sum_probs=51.2
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHH
Q 006683 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (635)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~ 159 (635)
.++...+..+.+.+.+.++.+|+=+..+.... +..+-+..++|+|+.. ++.+
T Consensus 58 ~~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i~---------------------------~~~~ 109 (229)
T TIGR00035 58 DRPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISMI---------------------------EETA 109 (229)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEechH---------------------------HHHH
Confidence 34555555555555578898888766554433 4445555678888532 2223
Q ss_pred HHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEE
Q 006683 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQ 202 (635)
Q Consensus 160 ~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~ 202 (635)
+.++..+.++|+++.....-- ...+++.+++.| +++.
T Consensus 110 ~~~~~~~~~~VgvLaT~~T~~-----s~~y~~~l~~~g-~~v~ 146 (229)
T TIGR00035 110 EAVKEDGVKKAGLLGTKGTMK-----DGVYEREMKKHG-IEIV 146 (229)
T ss_pred HHHHHcCCCEEEEEecHHHHH-----hHHHHHHHHHCC-CEEE
Confidence 333445667777776554321 344666666667 5543
No 218
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.10 E-value=15 Score=37.12 Aligned_cols=154 Identities=16% Similarity=0.030 Sum_probs=86.9
Q ss_pred CCeEEEEc-CCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEE
Q 006683 96 EKVKVIAG-METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIY 174 (635)
Q Consensus 96 ~~v~aiiG-~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~ 174 (635)
.+++++|- +..+. .....+...++|+|..... . ....++ .+..++...+..++++|...|.++++++.
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~--~---~~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~ 181 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFH--E---PGSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIG 181 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCC--C---CCCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeC
Confidence 55665553 22221 2334455678999877533 1 112233 36677777778888999888999999996
Q ss_pred EcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhHHHHHHHHH
Q 006683 175 EDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEA 252 (635)
Q Consensus 175 ~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a 252 (635)
............+.+.+.++..| +. .....+.... .. ......++++.+. .+++|++ .+...+..+++++
T Consensus 182 ~~~~~~~~~~R~~gf~~~~~~~g-~~-~~~~~~~~~~-~~---~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al 253 (327)
T PRK10339 182 GEDEPGKADIREVAFAEYGRLKQ-VV-REEDIWRGGF-SS---SSGYELAKQMLAREDYPKALFV--ASDSIAIGVLRAI 253 (327)
T ss_pred CccccchhhHHHHHHHHHHHHcC-CC-ChhheeecCc-Ch---hHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHH
Confidence 54322100334567777787777 51 1111111111 00 1223444554432 4677775 5556678899999
Q ss_pred HHcCCCC-CCeEEEeeC
Q 006683 253 NRMGLVG-KDSVWIVTN 268 (635)
Q Consensus 253 ~~~g~~~-~~~~~i~~~ 268 (635)
++.|+.- .+...++.+
T Consensus 254 ~~~g~~vP~di~vigfD 270 (327)
T PRK10339 254 HERGLNIPQDISLISVN 270 (327)
T ss_pred HHcCCCCCCceEEEeeC
Confidence 9999853 344444444
No 219
>PRK10200 putative racemase; Provisional
Probab=91.72 E-value=5.4 Score=37.97 Aligned_cols=90 Identities=13% Similarity=0.041 Sum_probs=57.2
Q ss_pred CCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHH
Q 006683 78 HNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKC 157 (635)
Q Consensus 78 ~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~a 157 (635)
+..+|...+....+.+.+.++.+|+=|..+.... ...+-+..++|+|+- .++
T Consensus 56 ~~~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i---------------------------i~~ 107 (230)
T PRK10200 56 EWDKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI---------------------------ADA 107 (230)
T ss_pred CcchHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh---------------------------HHH
Confidence 3346777777777777789999888776665544 455555667888752 123
Q ss_pred HHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhcc-CCeEE
Q 006683 158 IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV-SSSEI 201 (635)
Q Consensus 158 l~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~-g~~~v 201 (635)
..+.++..+-++|+++......- ...+++.+.+. | +++
T Consensus 108 ~~~~~~~~~~~~VglLaT~~Ti~-----s~~Y~~~l~~~~g-~~~ 146 (230)
T PRK10200 108 TGRAITGAGMTRVALLGTRYTME-----QDFYRGRLTEQFS-INC 146 (230)
T ss_pred HHHHHHHcCCCeEEEeccHHHHH-----HhHHHHHHHHhcC-CeE
Confidence 33344455778899988765432 45566666544 7 655
No 220
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=91.41 E-value=3 Score=40.56 Aligned_cols=88 Identities=18% Similarity=0.184 Sum_probs=68.5
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (635)
+||+|.+...........|+...++..|. +.++...+..+..|+..+.+.+..|+ ++++++|++.. + ...+..
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~p---~~~v~~~~~g~~~D~~~a~~~a~~l~-~~G~DvI~~~~-~--~~g~~~ 194 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVNP---DATVKVIWTGSWFDPAKEKEAALALI-DQGADVIYQHT-D--SPGVIQ 194 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHCC---CcEEEEEEecCCCCcHHHHHHHHHHH-HCCCcEEEecC-C--ChHHHH
Confidence 79999988755555677899999998884 46777777777889999999999999 78999888765 2 245566
Q ss_pred hhccCCccEEeecCC
Q 006683 116 IASRVQVPILSFAAP 130 (635)
Q Consensus 116 ~~~~~~ip~Is~~~~ 130 (635)
.+++.++..|.....
T Consensus 195 aa~~~g~~~IG~d~d 209 (258)
T cd06353 195 AAEEKGVYAIGYVSD 209 (258)
T ss_pred HHHHhCCEEEeeccc
Confidence 777889999987643
No 221
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=90.39 E-value=9.5 Score=35.41 Aligned_cols=131 Identities=13% Similarity=0.169 Sum_probs=77.5
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHH-hhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHH
Q 006683 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE-IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCI 158 (635)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~-~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al 158 (635)
.++...+..+.+.+.+.|+..|+-|..+ +..+++ +-+..+||+|+. .++.
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~NT--~H~~~d~iq~~~~iPllhI---------------------------idaT 108 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPTNT--MHKVADDIQKAVGIPLLHI---------------------------IDAT 108 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeCCc--HHHHHHHHHHhcCCCeehH---------------------------HHHH
Confidence 5666666666666668899988865544 444444 344678888842 4566
Q ss_pred HHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc-CceEEEE
Q 006683 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIV 237 (635)
Q Consensus 159 ~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vii~ 237 (635)
+.-+++.|.++|+++.....-- ..-+++.+.++| ++++ +|.+. -++.+.++.-. =..-.+.
T Consensus 109 a~~ik~~g~kkvgLLgT~~Tm~-----~~fY~~~l~~~g-ievv----vPdd~--------~q~~v~~iIy~El~~G~~~ 170 (230)
T COG1794 109 AKAIKAAGAKKVGLLGTRFTME-----QGFYRKRLEEKG-IEVV----VPDDD--------EQAEVNRIIYEELCQGIVK 170 (230)
T ss_pred HHHHHhcCCceeEEeeccchHH-----hHHHHHHHHHCC-ceEe----cCCHH--------HHHHHHHHHHHHHhcccch
Confidence 6777888999999998764322 345677888888 7765 33221 22222222211 1122333
Q ss_pred ecCChhHHHHHHHHHHHcCCC
Q 006683 238 LQASLDMTIHLFTEANRMGLV 258 (635)
Q Consensus 238 ~~~~~~~~~~~l~~a~~~g~~ 258 (635)
..+.+-...+.+.+.+.|..
T Consensus 171 -~~sr~~~~~ii~~l~~~Gae 190 (230)
T COG1794 171 -DASRELYLAVIERLAERGAE 190 (230)
T ss_pred -HHHHHHHHHHHHHHHHcCCC
Confidence 44555556666666666553
No 222
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=90.39 E-value=17 Score=34.86 Aligned_cols=193 Identities=12% Similarity=0.103 Sum_probs=107.5
Q ss_pred EEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHh
Q 006683 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEI 116 (635)
Q Consensus 37 IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~ 116 (635)
|.+++|.-..+-.++..+++.++++. |+ ..+.+..+..+. .+.+.+.+ ..++.++|=-.+..........
T Consensus 2 ~~~~~~~~~~~~~~~~~~i~~~l~~~-----g~-~~l~~~~~~~~~---~~~~~~~~-~~~vdGvIi~~~~~~~~~~~~~ 71 (247)
T cd06276 2 ILLLLNKLSSFKEIIYNSFVNTLGKN-----AQ-VDLYFHHYNEDL---FKNIISNT-KGKYSGYVVMPHFKNEIQYFLL 71 (247)
T ss_pred EEEEEecCchHHHHHHHHHHHHHHhc-----Cc-EEEEEEcCchHH---HHHHHHHH-hcCCCEEEEecCCCCcHHHHHH
Confidence 55666654333334444544444332 31 344444443322 22334444 4666655531111111223445
Q ss_pred hccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH--CCCeEEEEEEEcCC-CCCCcchHHHHHHHH
Q 006683 117 ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNV-YGGDSGKLALLAEAL 193 (635)
Q Consensus 117 ~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~--~~w~~vaii~~~~~-~g~~~~~~~~~~~~l 193 (635)
+...++|++..... .+. ...+++ +..++...+..+++.|.+ .|-+++++|..... .+ +...+.+++.+
T Consensus 72 ~~~~~~PvV~i~~~--~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~--~~R~~gf~~~l 142 (247)
T cd06276 72 KKIPKEKLLILDHS--IPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIP--KEIKRGFERFC 142 (247)
T ss_pred hccCCCCEEEEcCc--CCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhH--HHHHHHHHHHH
Confidence 55578999987643 211 122333 566888888888899888 89999999975432 33 55677889999
Q ss_pred hccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCCCC-CCeEEEeeC
Q 006683 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (635)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~~~ 268 (635)
++.| +.... . ... .. .. + .++++|++ .+...+..+++.+++.|+.- .+...++.+
T Consensus 143 ~~~g-~~~~~---~-~~~------~~--~~---~--~~~~ai~~--~~d~~A~g~~~~l~~~g~~iP~disvigfd 198 (247)
T cd06276 143 KDYN-IETEI---I-NDY------EN--RE---I--EKGDLYII--LSDTDLVFLIKKARESGLLLGKDIGIISYN 198 (247)
T ss_pred HHcC-CCccc---c-ccc------ch--hh---c--cCCcEEEE--eCHHHHHHHHHHHHHcCCcCCceeEEEEec
Confidence 9999 65321 1 010 00 00 1 13477665 67778888999999999853 344444443
No 223
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=89.32 E-value=24 Score=36.05 Aligned_cols=151 Identities=13% Similarity=0.088 Sum_probs=92.1
Q ss_pred eEEEEEEeeCCCcCcHH-HHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 34 VTKIGAIVDANSQMGKQ-AITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~-~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
.++|-.|.|.++..-+. ..+-++...+.......+ ++.+.+....++....++++.+-+.+.+|.+.+=-.++.....
T Consensus 212 ~l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~~~-~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~e 290 (388)
T COG0426 212 LLKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQPKG-KVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPSE 290 (388)
T ss_pred ccCccEEEcCCCceeeCCHHHHHHHHHHHHccCCcc-eEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHHH
Confidence 37899999999654332 334455555555555434 6666666566788888888777776888877665444443333
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~ 192 (635)
+.......+-.+|. +|.+....+ |+ ...++..++..-.-++.+.+..+..|+ ......+++.
T Consensus 291 I~~~i~~a~~~vvG------sPT~~~~~~-------p~---i~~~l~~v~~~~~~~k~~~vfgS~GW~--g~av~~i~~~ 352 (388)
T COG0426 291 IVEEILDAKGLVVG------SPTINGGAH-------PP---IQTALGYVLALAPKNKLAGVFGSYGWS--GEAVDLIEEK 352 (388)
T ss_pred HHHHHhhcceEEEe------cCcccCCCC-------ch---HHHHHHHHHhccCcCceEEEEeccCCC--CcchHHHHHH
Confidence 33333333333442 344433322 22 233444444333445667788888887 7789999999
Q ss_pred HhccCCeEEEEE
Q 006683 193 LQNVSSSEIQSR 204 (635)
Q Consensus 193 l~~~g~~~v~~~ 204 (635)
++..| .++...
T Consensus 353 l~~~g-~~~~~~ 363 (388)
T COG0426 353 LKDLG-FEFGFD 363 (388)
T ss_pred HHhcC-cEEecc
Confidence 99999 777655
No 224
>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=88.55 E-value=3.1 Score=36.70 Aligned_cols=102 Identities=15% Similarity=0.153 Sum_probs=64.1
Q ss_pred HHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHH-HhhhhcCceEEEE
Q 006683 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL-KKVQDKQSRVFIV 237 (635)
Q Consensus 159 ~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l-~~l~~~~~~vii~ 237 (635)
+++|...|.+++++|.............+.+++.+++.| +............ ..+..... ..+++..+++||+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~-~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~pdaii~ 74 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHG-IEFEELIFFSDDD-----SEDAREAQLLWLRRLRPDAIIC 74 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTT-SEEEGEEEEESSS-----HHHHHHHHHHHHHTCSSSEEEE
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCC-CCCCeeEeecCCc-----chhHHHHHHHHHhcCCCcEEEE
Confidence 467888899999999943322100455677888999999 7765444333322 12222222 2334337788775
Q ss_pred ecCChhHHHHHHHHHHHcCCC-CCCeEEEeeC
Q 006683 238 LQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (635)
Q Consensus 238 ~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~~~ 268 (635)
.+...+..+++.+.+.|+. +.+...+..+
T Consensus 75 --~~~~~a~~~~~~l~~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 75 --SNDRLALGVLRALRELGIRVPQDISVVSFD 104 (160)
T ss_dssp --SSHHHHHHHHHHHHHTTSCTTTTSEEEEES
T ss_pred --cCHHHHHHHHHHHHHcCCcccccccEEEec
Confidence 7888999999999999994 4445555444
No 225
>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=88.39 E-value=7.8 Score=34.96 Aligned_cols=99 Identities=11% Similarity=-0.016 Sum_probs=62.3
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhcc--CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~--g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~ 231 (635)
....+.+.+...++ ++.++..+... ++.+.+.+++. | +.++....-+.+. .+...+++.|++++
T Consensus 36 l~~~l~~~~~~~~~-~ifllG~~~~~------~~~~~~~l~~~yP~-l~ivg~~~g~f~~------~~~~~i~~~I~~~~ 101 (172)
T PF03808_consen 36 LFPDLLRRAEQRGK-RIFLLGGSEEV------LEKAAANLRRRYPG-LRIVGYHHGYFDE------EEEEAIINRINASG 101 (172)
T ss_pred HHHHHHHHHHHcCC-eEEEEeCCHHH------HHHHHHHHHHHCCC-eEEEEecCCCCCh------hhHHHHHHHHHHcC
Confidence 45666666655554 88888766443 45555555554 5 7776553221111 56778999999999
Q ss_pred ceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
+|+|++ .........++.+..+..-.+ +|+..+..
T Consensus 102 pdiv~v-glG~PkQE~~~~~~~~~l~~~---v~i~vG~~ 136 (172)
T PF03808_consen 102 PDIVFV-GLGAPKQERWIARHRQRLPAG---VIIGVGGA 136 (172)
T ss_pred CCEEEE-ECCCCHHHHHHHHHHHHCCCC---EEEEECch
Confidence 999999 777666666666655433322 56666554
No 226
>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=85.91 E-value=4.1 Score=39.36 Aligned_cols=93 Identities=12% Similarity=0.096 Sum_probs=46.9
Q ss_pred CCchhHHHHHHHHHHHHhccccccccCCCCCCCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCC
Q 006683 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (635)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~ 80 (635)
|+|.+++++++++++++.+|++.++.. .....+++||+........-......+..+++ ++. |++++++...+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~vg~~~~~~~~~~~~~~~~l~~~l~---~~~-g~~v~~~~~~~-- 73 (254)
T TIGR01098 1 MKRLLALLAALLGASLAAACSKKAAEA-AAVPKELNFGILPGENASNLTRRWEPLADYLE---KKL-GIKVQLFVATD-- 73 (254)
T ss_pred ChhHHHHHHHHHHHHHHhhcCCchhhh-ccCCCceEEEECCCCCHHHHHHHHHHHHHHHH---HHh-CCcEEEEeCCC--
Confidence 788777666666555555565433221 13467899998765542111111122222222 221 56677654333
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCC
Q 006683 81 DPFQAATAAQELINKEKVKVIAGME 105 (635)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~~ 105 (635)
. ....+.+...++++++.+.
T Consensus 74 -~----~~~~~~l~~g~~Di~~~~~ 93 (254)
T TIGR01098 74 -Y----SAVIEAMRFGRVDIAWFGP 93 (254)
T ss_pred -H----HHHHHHHHcCCccEEEECc
Confidence 1 1223344467788777433
No 227
>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=85.06 E-value=14 Score=34.58 Aligned_cols=125 Identities=13% Similarity=0.180 Sum_probs=70.6
Q ss_pred hcCCeEEEEcCCChhhHHHHHHhh-ccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEE
Q 006683 94 NKEKVKVIAGMETWEETAVVAEIA-SRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA 172 (635)
Q Consensus 94 ~~~~v~aiiG~~~s~~~~~v~~~~-~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vai 172 (635)
.+.++.+|+-+.++. ...+...- ...++|+++.. .+.++-+++ +.+++++
T Consensus 62 ~~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~~---------------------------~a~~~~~~~-~~~ri~v 112 (216)
T PF01177_consen 62 EKAGVDAIVIACNSA-HPFVDELRKERVGIPVVGIV---------------------------EAALEAAKA-GGKRIGV 112 (216)
T ss_dssp HHTTESEEEESSHHH-HHHHHHHHHHHHSSEEEESH---------------------------HHHHHHHHH-TSSEEEE
T ss_pred HhCCCCEEEEcCCch-hhhHHHHhhhcCceEEEecc---------------------------HHHHHHHHh-cCCEEEE
Confidence 368999888744443 23333344 55688887643 222444555 8899999
Q ss_pred EEEcCCCCCCcchHHHHHHHHhcc-CCe--EEEEEe--eeC----CCCCCCCchHHHHHHHHhh-hhcCceEEEEecCCh
Q 006683 173 IYEDNVYGGDSGKLALLAEALQNV-SSS--EIQSRL--VLP----PISSISDPKEAVRGELKKV-QDKQSRVFIVLQASL 242 (635)
Q Consensus 173 i~~~~~~g~~~~~~~~~~~~l~~~-g~~--~v~~~~--~~~----~~~~~~d~~~~~~~~l~~l-~~~~~~vii~~~~~~ 242 (635)
+.... ......+.+.+++. | + .++... ... ...........+.+.++++ ++.++|+|++ .|..
T Consensus 113 l~t~~-----~~~~~~~~~~~~~~~g-i~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiL-gCt~ 185 (216)
T PF01177_consen 113 LTTYT-----TEKSPLYEEFIEEAAG-IDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIIL-GCTH 185 (216)
T ss_dssp EESHH-----HHHHTHHHHHHHHCTT-EECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEE-ESTT
T ss_pred EecCc-----ccchHHHHHHHHHhcC-CcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEE-CCCc
Confidence 98533 33356677777777 7 6 444421 111 1111000112345555555 3679999999 6665
Q ss_pred hHHH-HHHHHHHH
Q 006683 243 DMTI-HLFTEANR 254 (635)
Q Consensus 243 ~~~~-~~l~~a~~ 254 (635)
-... .....+.+
T Consensus 186 l~~~~~~~~~l~~ 198 (216)
T PF01177_consen 186 LPLLLGAIEALEE 198 (216)
T ss_dssp GGGGHHHHHHHHH
T ss_pred hHHHHHHHHhhcc
Confidence 4443 66666554
No 228
>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=84.25 E-value=4.5 Score=40.48 Aligned_cols=90 Identities=20% Similarity=0.193 Sum_probs=65.4
Q ss_pred EEEEEe---eCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 36 KIGAIV---DANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~---p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
+||.+. ....+.-.....|+...++..| |..++...+..+-.||..+.+.+..|+ .+++++|+. ........
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n---p~i~v~~~~~gs~~D~~~~~~~a~~li-~~GaDvI~~-~ag~~~~g 202 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN---PDIKVNVSYTGSFNDPAKAKEAAEALI-DQGADVIFP-VAGGSGQG 202 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT---TT-EEEEEE-SSSS-HHHHHHHHHHHH-HTT-SEEEE-E-CCCHHH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC---cCceEEEEEcCCcCchHHHHHHHHHHh-hcCCeEEEE-CCCCCchH
Confidence 566666 6665555678889999999999 457888877888899999999999999 699999997 33445667
Q ss_pred HHHhhccCCcc--EEeecCC
Q 006683 113 VAEIASRVQVP--ILSFAAP 130 (635)
Q Consensus 113 v~~~~~~~~ip--~Is~~~~ 130 (635)
+.+.+++.+.. .|.....
T Consensus 203 v~~aa~e~g~~~~~IG~d~d 222 (306)
T PF02608_consen 203 VIQAAKEAGVYGYVIGVDSD 222 (306)
T ss_dssp HHHHHHHHTHETEEEEEES-
T ss_pred HHHHHHHcCCceEEEEeccc
Confidence 77888888888 7876544
No 229
>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=83.64 E-value=2.8 Score=42.15 Aligned_cols=81 Identities=11% Similarity=-0.028 Sum_probs=50.3
Q ss_pred HHHHHHHHHHCC-CcccEEEecCCCChhhHHHHHHcCcccEEEecccccc------------cccccccccccceeeeeE
Q 006683 492 IELFRLVVDHLN-YDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILG------------NRTEYVEFTQPYAESGFS 558 (635)
Q Consensus 492 ~dl~~~la~~l~-~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~------------~r~~~~~fs~p~~~~~~~ 558 (635)
.++.+.++++++ ++ +++++. +.....+..|.+|++|+++....... .+.+.+....+++.....
T Consensus 48 ~~la~~~~~~~~~i~--v~~~~~-~~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~ 124 (320)
T TIGR02122 48 GAIAQLINKKSGKLR--VRVQST-GGSVENVNLLEAGEADLAIVQSDVAYYAYEGDGEFEFEGPVEKLRALASLYPEYIQ 124 (320)
T ss_pred HHHHHHHhccCCCee--EEEEeC-cchHHHHHHHhCCCCcEEEEcchhHHHHhcCcCccccCCCCccHHhHHHhccccEE
Confidence 567788888877 66 444442 23567889999999999987633211 112223322345566677
Q ss_pred EEEeCCCCCCcceeecC
Q 006683 559 MIVPAKQEESTWMFTKP 575 (635)
Q Consensus 559 ~~v~~~~~~~~~~~l~p 575 (635)
++++++.+...+..|++
T Consensus 125 lvv~~d~~i~sl~dL~g 141 (320)
T TIGR02122 125 IVVRKDSGIKTVADLKG 141 (320)
T ss_pred EEEECCCCCCcHHHcCC
Confidence 88988876655544433
No 230
>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=82.86 E-value=26 Score=35.08 Aligned_cols=41 Identities=12% Similarity=0.065 Sum_probs=22.8
Q ss_pred CCchhHHHHHHHHHHHHhccccccccCCCCCCCeEEEEEEeeCC
Q 006683 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDAN 44 (635)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~p~s 44 (635)
|||+++++.+.++++.+...+|.... ...+.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDG---GEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCC---CCCceEEEEeCCCCC
Confidence 78877666554444433333333222 225789999876654
No 231
>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=82.39 E-value=14 Score=33.36 Aligned_cols=99 Identities=15% Similarity=0.024 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhcc--CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc
Q 006683 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (635)
Q Consensus 153 ~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~--g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~ 230 (635)
.....+.+.+...+ .++.++....+. ++.+.+.+++. | +.++....-+... .+-..+++.|+++
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~~------~~~~~~~l~~~yp~-l~i~g~~~g~~~~------~~~~~i~~~I~~~ 98 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPEV------LEKAAERLRARYPG-LKIVGYHHGYFGP------EEEEEIIERINAS 98 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHHH------HHHHHHHHHHHCCC-cEEEEecCCCCCh------hhHHHHHHHHHHc
Confidence 45566666666554 588888655433 44444444443 5 7777543222211 3344589999999
Q ss_pred CceEEEEecCChhHHHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 231 ~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
+||+|++ .........++....+..-.+ +++..+.
T Consensus 99 ~pdiv~v-glG~PkQE~~~~~~~~~l~~~---v~~~vG~ 133 (171)
T cd06533 99 GADILFV-GLGAPKQELWIARHKDRLPVP---VAIGVGG 133 (171)
T ss_pred CCCEEEE-ECCCCHHHHHHHHHHHHCCCC---EEEEece
Confidence 9999999 777777777776665544222 5555443
No 232
>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=82.29 E-value=1.2 Score=44.49 Aligned_cols=76 Identities=7% Similarity=-0.080 Sum_probs=45.8
Q ss_pred HHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEeccccc-ccccccccc----cccceeeeeEEEEeCCCCCCcce
Q 006683 497 LVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTIL-GNRTEYVEF----TQPYAESGFSMIVPAKQEESTWM 571 (635)
Q Consensus 497 ~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~-~~r~~~~~f----s~p~~~~~~~~~v~~~~~~~~~~ 571 (635)
.+++++|++++++..+ ++..++..|..|++|++..+.+.. ..+.+..++ ...+......++++++++.+...
T Consensus 20 ~~~k~~Gl~Ve~~~~~---~~~~~~~al~~G~iD~~~~~~~~~~~a~~~g~~~~~v~~~~~~~~~~~lv~~~~s~I~s~~ 96 (300)
T TIGR01729 20 AAAKEAGATIDWRKFD---SGADISTALASGNVPIGVIGSSPLAAAASRGVPIELFWILDNIGKSEALVAREGSGIEKPE 96 (300)
T ss_pred chHHhcCCeeEEEecC---cHHHHHHHHHcCCCCEeccCCCHHHHHHHCCCCeEEEEEeccCCccceEEecCCCCCCChh
Confidence 4566789886665433 378899999999999987544332 223233332 22333344578888776554444
Q ss_pred eecC
Q 006683 572 FTKP 575 (635)
Q Consensus 572 ~l~p 575 (635)
.|+.
T Consensus 97 DLkG 100 (300)
T TIGR01729 97 DLKG 100 (300)
T ss_pred HcCC
Confidence 4443
No 233
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=82.12 E-value=7.1 Score=37.53 Aligned_cols=91 Identities=13% Similarity=0.215 Sum_probs=55.2
Q ss_pred HHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEE
Q 006683 157 CIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (635)
Q Consensus 157 al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii 236 (635)
.+.+++++++.+++.+|++...| ....+.+.+.++..| +++.......... ...+......+++..++|+|+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~---~~~g~~v~~~l~~~g-~~v~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~ii 80 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY---KAAGEKVEESLKSAG-IEVAVIEEFVGDA----DEDEVEKLVEALRPKDADLII 80 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH---HHHHHHHHHHHHTTT--EEEEEE-EE-------BHHHHHHHHTTS--TT--EEE
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH---HHHHHHHHHHHHHcC-CeEEEEecCCCCC----CHHHHHHHHHHhcccCCCEEE
Confidence 35677888888999999998876 555788999999999 8887433222222 124566667777767888888
Q ss_pred EecCChhHHHHHHH-HHHHcCC
Q 006683 237 VLQASLDMTIHLFT-EANRMGL 257 (635)
Q Consensus 237 ~~~~~~~~~~~~l~-~a~~~g~ 257 (635)
- .+.+ .+..+.+ .+.+.++
T Consensus 81 ~-vGgG-~i~D~~K~~A~~~~~ 100 (250)
T PF13685_consen 81 G-VGGG-TIIDIAKYAAFELGI 100 (250)
T ss_dssp E-EESH-HHHHHHHHHHHHHT-
T ss_pred E-eCCc-HHHHHHHHHHHhcCC
Confidence 7 5555 3444444 4666665
No 234
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=80.38 E-value=11 Score=38.68 Aligned_cols=80 Identities=13% Similarity=0.141 Sum_probs=60.6
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.+|++++-||.+..-.. ....+.+.+.+++.| +.+.....+.++. ..+....-++.+++.++|.
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~--~g~~~~v~~~L~~~~-i~~~if~~v~p~P----~~~~v~~~~~~~~~~~~D~ 89 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAK--LGLLDKVLDSLDAAG-IEYEVFDEVEPEP----TIETVEAGAEVAREFGPDT 89 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCcccc--chhHHHHHHHHHhcC-CeEEEecCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35567777889999999999887655 668899999999999 7776544444443 1256777889999999999
Q ss_pred EEEecCCh
Q 006683 235 FIVLQASL 242 (635)
Q Consensus 235 ii~~~~~~ 242 (635)
||. .+.+
T Consensus 90 iIa-lGGG 96 (377)
T COG1454 90 IIA-LGGG 96 (377)
T ss_pred EEE-eCCc
Confidence 998 5443
No 235
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=80.36 E-value=8.8 Score=39.79 Aligned_cols=76 Identities=14% Similarity=0.146 Sum_probs=53.6
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.+|.+++.++++..-.. ....+.+.+.+++.| +.+..-..+.+.. ..++..+.++.+++.++|+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~--~g~~~~v~~~L~~~~-i~~~~f~~v~~np----~~~~v~~~~~~~~~~~~D~ 91 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTK--LGMAGDVQKALEERN-IFSVIYDGTQPNP----TTENVAAGLKLLKENNCDS 91 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHHcCCCE
Confidence 34567788999999999998654332 346788999999998 7653222232222 1256778888899999999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||-
T Consensus 92 Iia 94 (383)
T PRK09860 92 VIS 94 (383)
T ss_pred EEE
Confidence 996
No 236
>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=80.36 E-value=45 Score=32.31 Aligned_cols=124 Identities=15% Similarity=0.074 Sum_probs=67.5
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
+.=+||++.+...........|++.++++.|......+..........+...+.+.+.+++ +.++.+|+.. ....+..
T Consensus 120 G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll-~~~pdaI~~~-nd~~A~g 197 (265)
T cd06354 120 KTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMY-DQGADVIFAA-AGGTGNG 197 (265)
T ss_pred CCCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHH-HCCCcEEEEC-CCCCchH
Confidence 3457887765332222233368898888876221122222222222223456667788888 4457888864 4455656
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
+...+.+.++.++++... .+.....|.+..+...-..++.-++..+
T Consensus 198 v~~al~~~gisIvGfD~~----~~~~~~~p~lttv~~~~~~~~~~~~~~~ 243 (265)
T cd06354 198 VFQAAKEAGVYAIGVDSD----QYYLAPGVVLTSMVKRVDVAVYDAIKSA 243 (265)
T ss_pred HHHHHHhcCCeEEEecCc----ccccCCCcEEEEEeehhHHHHHHHHHHH
Confidence 667777778777777644 3333334655555544444444333333
No 237
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=77.39 E-value=45 Score=33.97 Aligned_cols=92 Identities=17% Similarity=0.173 Sum_probs=67.2
Q ss_pred eEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
.-+||.+.-+..+.-.....|+.+.++..|.+ +++...+..+=.||..+.+.+..|+ ++++++|.....+.....+
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~---i~v~v~~~gsf~D~~k~k~~a~~li-~~GaDVI~~~ag~~~~gv~ 236 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD---IKVKVVYVGSFSDPAKGKEAANALI-DQGADVIYPAAGGTGVGVF 236 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC---ccEEEEEecCccChHHHHHHHHHHH-hcCCCEEEecCCCCcchHH
Confidence 35688888777655667888999999999976 6788888888899999999888898 8999999976655433332
Q ss_pred HHhhccCCccEEeecCC
Q 006683 114 AEIASRVQVPILSFAAP 130 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~ 130 (635)
..+.+.+.-.|...+.
T Consensus 237 -~~A~~~~~~~iGvdsD 252 (345)
T COG1744 237 -QAAKELGAYAIGVDSD 252 (345)
T ss_pred -HHHHHhCCCeEEEecc
Confidence 1233333333766544
No 238
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=76.78 E-value=13 Score=38.62 Aligned_cols=80 Identities=9% Similarity=-0.001 Sum_probs=54.5
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.+|.+++.++.+..-.. ....+.+.+.+++.| +.+.....+.++. ......+.++..++.++|+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~P----~~~~v~~~~~~~r~~~~D~ 109 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQ--AGMTAGLTRSLAVKG-IAMTLWPCPVGEP----CITDVCAAVAQLRESGCDG 109 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCcCE
Confidence 35567788889988888776544333 456788999999999 7764322222222 1145778888888999999
Q ss_pred EEEecCCh
Q 006683 235 FIVLQASL 242 (635)
Q Consensus 235 ii~~~~~~ 242 (635)
||- .+.+
T Consensus 110 Iia-vGGG 116 (395)
T PRK15454 110 VIA-FGGG 116 (395)
T ss_pred EEE-eCCh
Confidence 998 5544
No 239
>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=76.50 E-value=59 Score=29.38 Aligned_cols=129 Identities=19% Similarity=0.305 Sum_probs=75.0
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHH
Q 006683 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (635)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~ 160 (635)
+-..++..+.+++..+++.+||.-.. ++..+ -+..++|+|....+ .....+++.+
T Consensus 18 ~~e~~v~~a~~~~~~~g~dViIsRG~--ta~~l---r~~~~iPVV~I~~s--------------------~~Dil~al~~ 72 (176)
T PF06506_consen 18 SLEEAVEEARQLLESEGADVIISRGG--TAELL---RKHVSIPVVEIPIS--------------------GFDILRALAK 72 (176)
T ss_dssp -HHHHHHHHHHHHTTTT-SEEEEEHH--HHHHH---HCC-SS-EEEE-----------------------HHHHHHHHHH
T ss_pred cHHHHHHHHHHhhHhcCCeEEEECCH--HHHHH---HHhCCCCEEEECCC--------------------HhHHHHHHHH
Confidence 45678888999844899999996333 23333 34458888865433 2233344444
Q ss_pred HHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecC
Q 006683 161 LARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (635)
Q Consensus 161 ~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~ 240 (635)
. +. .-++++++...+... . ...+.+.+ | ..+..... .. ..++...++++++.+.++|+- ..
T Consensus 73 a-~~-~~~~Iavv~~~~~~~---~-~~~~~~ll---~-~~i~~~~~-~~-------~~e~~~~i~~~~~~G~~viVG-g~ 133 (176)
T PF06506_consen 73 A-KK-YGPKIAVVGYPNIIP---G-LESIEELL---G-VDIKIYPY-DS-------EEEIEAAIKQAKAEGVDVIVG-GG 133 (176)
T ss_dssp C-CC-CTSEEEEEEESS-SC---C-HHHHHHHH---T--EEEEEEE-SS-------HHHHHHHHHHHHHTT--EEEE-SH
T ss_pred H-Hh-cCCcEEEEecccccH---H-HHHHHHHh---C-CceEEEEE-CC-------HHHHHHHHHHHHHcCCcEEEC-CH
Confidence 2 22 337999998876532 1 66666665 5 55554332 11 268999999999999999886 32
Q ss_pred ChhHHHHHHHHHHHcCCCC
Q 006683 241 SLDMTIHLFTEANRMGLVG 259 (635)
Q Consensus 241 ~~~~~~~~l~~a~~~g~~~ 259 (635)
...+.|++.|+..
T Consensus 134 ------~~~~~A~~~gl~~ 146 (176)
T PF06506_consen 134 ------VVCRLARKLGLPG 146 (176)
T ss_dssp ------HHHHHHHHTTSEE
T ss_pred ------HHHHHHHHcCCcE
Confidence 2356688888854
No 240
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=76.11 E-value=15 Score=38.20 Aligned_cols=76 Identities=11% Similarity=0.214 Sum_probs=53.0
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.++.+++.++++..-.- ....+.+.+.+++.| +.+.....+.+.. ..+.....++.+++.++|+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 90 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVK--CGVVAKVTDVLDAAG-LAYEIYDGVKPNP----TIEVVKEGVEVFKASGADY 90 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhh--CcchHHHHHHHHHCC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 44577888889999999988765432 346788999999988 7654321222221 1256777888888889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||-
T Consensus 91 IIa 93 (382)
T PRK10624 91 LIA 93 (382)
T ss_pred EEE
Confidence 986
No 241
>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=76.11 E-value=14 Score=38.82 Aligned_cols=80 Identities=10% Similarity=0.089 Sum_probs=55.6
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.++++.++.+++.+|++..... ....+.+.+.+++.| +.+..-..+.+.. ..+...+.++.+++.++|+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~ 83 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQ--LPPVKVVLDSLEAAG-INFEVYDDVRVEP----TDESFKDAIAFAKKGQFDA 83 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhh--cchHHHHHHHHHHcC-CcEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 34567788899999999998776543 445788899998888 7664322222222 1256778888888889999
Q ss_pred EEEecCCh
Q 006683 235 FIVLQASL 242 (635)
Q Consensus 235 ii~~~~~~ 242 (635)
||- .+.+
T Consensus 84 IIa-iGGG 90 (414)
T cd08190 84 FVA-VGGG 90 (414)
T ss_pred EEE-eCCc
Confidence 988 5444
No 242
>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=75.31 E-value=8.7 Score=37.05 Aligned_cols=79 Identities=14% Similarity=0.173 Sum_probs=57.2
Q ss_pred EEEEEEcC--CCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~~--~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+. +|. ..+.+.+++.+++.| ..+... .+... |. ....+.++++.+.++|.||+...+......
T Consensus 1 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~--~~~~~---d~-~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFW--QQVIKGAKAAAKELG-YEVEIV--FDAQN---DP-EEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHH--HHHHHHHHHHHHHHT-CEEEEE--EESTT---TH-HHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEe--CCCCC---CH-HHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 45555443 365 677888999999999 777664 12222 11 456678888888899999985677778889
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
+++.+.+.|+
T Consensus 72 ~l~~~~~~gI 81 (257)
T PF13407_consen 72 FLEKAKAAGI 81 (257)
T ss_dssp HHHHHHHTTS
T ss_pred HHHHHhhcCc
Confidence 9999999987
No 243
>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=74.77 E-value=25 Score=36.33 Aligned_cols=76 Identities=16% Similarity=0.202 Sum_probs=52.9
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.++-+++.+|++..... ....+.+.+.+++.| +.+.....+.+.. ..+...+.++.+++.++|+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 86 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVK--LGLLDKVLEALEGAG-IEYAVYDGVPPDP----TIENVEAGLALYRENGCDA 86 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhh--cccHHHHHHHHHhcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 44567788888888999998765443 345778899999888 7654322222222 1256778888888889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||-
T Consensus 87 IIa 89 (374)
T cd08189 87 ILA 89 (374)
T ss_pred EEE
Confidence 996
No 244
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=74.67 E-value=16 Score=37.67 Aligned_cols=76 Identities=14% Similarity=0.139 Sum_probs=53.1
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.++++.++.+++.+|++..... ....+.+.+.+++.| +++.....+.+.. ..+...+.++..++.++|.
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~--~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 84 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAA--LGLVARVLALLEDAG-LAAALFDEVPPNP----TEAAVEAGLAAYRAGGCDG 84 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 34567788888989999988765432 335788999999888 7764322232222 1256778888888889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||-
T Consensus 85 IIa 87 (370)
T cd08192 85 VIA 87 (370)
T ss_pred EEE
Confidence 996
No 245
>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=74.22 E-value=18 Score=37.27 Aligned_cols=76 Identities=11% Similarity=0.159 Sum_probs=53.5
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.++++.++.+++.+|++...+. ....+.+.+.+++.| +++.....+.... ..++..+.++.+++.++|+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~ 83 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVK--TGVLDKVIDSLKEAG-IEVVIFDGVEPNP----TLSNVDAAVAAYREEGCDG 83 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35677778888989999998765542 256778899999888 7654222222222 1256888888898889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||-
T Consensus 84 Iia 86 (370)
T cd08551 84 VIA 86 (370)
T ss_pred EEE
Confidence 987
No 246
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=73.88 E-value=75 Score=30.96 Aligned_cols=115 Identities=10% Similarity=0.162 Sum_probs=65.7
Q ss_pred cHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHHHHhhccCCccEEe
Q 006683 48 GKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPILS 126 (635)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v~~~~~~~~ip~Is 126 (635)
|..=..++...+.++|.. .+++. ++..-++. ...+++ ..+.+.||-...+ ..-..+...|...++|+|+
T Consensus 82 G~~Kve~~~~rl~~INP~---~~V~~--i~~~i~~e----~~~~ll-~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip~I~ 151 (268)
T PRK15116 82 GLAKAEVMAERIRQINPE---CRVTV--VDDFITPD----NVAEYM-SAGFSYVIDAIDSVRPKAALIAYCRRNKIPLVT 151 (268)
T ss_pred ChHHHHHHHHHHHhHCCC---cEEEE--EecccChh----hHHHHh-cCCCCEEEEcCCCHHHHHHHHHHHHHcCCCEEE
Confidence 443344666666677643 44443 34333332 234455 4567777766555 4556688899999999998
Q ss_pred ecCCCCCCCCCCCCCceEEEEecCcH----HHHHHHHHHHHH-CCCe-------EEEEEEEcCC
Q 006683 127 FAAPAVTPLSMSRRWPYLIRMASNDS----EQMKCIADLARK-YNWR-------RVAAIYEDNV 178 (635)
Q Consensus 127 ~~~~~~~~~l~~~~~p~~~r~~p~~~----~~~~al~~~l~~-~~w~-------~vaii~~~~~ 178 (635)
.+.. ...+ -|.-+++.--.. -+++.+-..|++ +|.. .+-+||+...
T Consensus 152 ~gGa--g~k~----dp~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E~ 209 (268)
T PRK15116 152 TGGA--GGQI----DPTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTEA 209 (268)
T ss_pred ECCc--ccCC----CCCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCCc
Confidence 8766 3333 355555443222 345555556655 5654 3667776653
No 247
>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=73.69 E-value=17 Score=37.53 Aligned_cols=79 Identities=13% Similarity=0.141 Sum_probs=54.2
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++.+++.+|++..-.. ....+.+.+.+++.| +.+.....+.+.. ..+...+.++.+++.++|.|
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 87 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILK--AGLIDPLLASLEAAG-IEVTVFDDVEADP----PEAVVEAAVEAARAAGADGV 87 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 4567778888889999888765332 345788889999888 7654322222222 12567888888888899999
Q ss_pred EEecCCh
Q 006683 236 IVLQASL 242 (635)
Q Consensus 236 i~~~~~~ 242 (635)
|- .+.+
T Consensus 88 Ia-iGGG 93 (376)
T cd08193 88 IG-FGGG 93 (376)
T ss_pred EE-eCCc
Confidence 88 5443
No 248
>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=73.39 E-value=52 Score=31.69 Aligned_cols=127 Identities=16% Similarity=0.093 Sum_probs=73.1
Q ss_pred eEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
.-+||.+.+........-..|+..++++.+.. .+..........+...+.+.+.+++ +.+..+|+.. +...+..+
T Consensus 120 ~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~ai~~~-~d~~A~gv 194 (260)
T cd06304 120 TGKVGFVGGMPIPEVNRFINGFAAGAKSVNPD---ITVLVIYTGSFFDPAKGKEAALALI-DQGADVIFAA-AGGTGPGV 194 (260)
T ss_pred CCceEEEeccccHHHHHHHHHHHHHHHHhCCC---cEEEEEEecCccCcHHHHHHHHHHH-hCCCCEEEEc-CCCCchHH
Confidence 35677775432222334456888888775532 2332222333334556667778887 4445788764 44455556
Q ss_pred HHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeE
Q 006683 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRR 169 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~ 169 (635)
...+...++-++++... .+..-..|-+-.+..+....+...++.+..-.|+.
T Consensus 195 ~~al~~~gv~vigfD~~----~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~ 246 (260)
T cd06304 195 IQAAKEAGVYAIGVDSD----QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKG 246 (260)
T ss_pred HHHHHHcCCEEEeecCc----hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCC
Confidence 66666777666665533 33333346666777777777777777766555543
No 249
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=73.11 E-value=14 Score=37.59 Aligned_cols=83 Identities=14% Similarity=0.029 Sum_probs=58.1
Q ss_pred CCeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh
Q 006683 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (635)
Q Consensus 166 ~w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~ 243 (635)
.-.+++++... ++|. ..+.+.+++.+++.| +++... -+... +. ..-..+++.+.+++++.|++...+..
T Consensus 22 ~~~~i~~v~k~~~~pf~--~~~~~Gi~~aa~~~G-~~v~~~--~~~~~---d~-~~q~~~i~~li~~~vdgIiv~~~d~~ 92 (336)
T PRK15408 22 AAERIAFIPKLVGVGFF--TSGGNGAKEAGKELG-VDVTYD--GPTEP---SV-SGQVQLINNFVNQGYNAIIVSAVSPD 92 (336)
T ss_pred CCcEEEEEECCCCCHHH--HHHHHHHHHHHHHhC-CEEEEE--CCCCC---CH-HHHHHHHHHHHHcCCCEEEEecCCHH
Confidence 44688888753 4566 777888999999999 887642 12111 11 22346778888889999999455666
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
.....++++.+.|+
T Consensus 93 al~~~l~~a~~~gI 106 (336)
T PRK15408 93 GLCPALKRAMQRGV 106 (336)
T ss_pred HHHHHHHHHHHCCC
Confidence 66788899998886
No 250
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=73.04 E-value=18 Score=37.43 Aligned_cols=79 Identities=9% Similarity=0.164 Sum_probs=54.0
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.+|.+++.+|++....- ....+.+.+.+++.| +.+.....+.+.. ..+...+..+.+++.++|+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~--~g~~~~v~~~L~~~~-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 89 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIK--FGVADKVTDLLDEAG-IAYELFDEVKPNP----TITVVKAGVAAFKASGADY 89 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--ccchHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 34566778888989999988765432 336788999999888 7654321122221 1256777888888889999
Q ss_pred EEEecCC
Q 006683 235 FIVLQAS 241 (635)
Q Consensus 235 ii~~~~~ 241 (635)
||. .+.
T Consensus 90 Iia-iGG 95 (379)
T TIGR02638 90 LIA-IGG 95 (379)
T ss_pred EEE-eCC
Confidence 997 444
No 251
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=72.94 E-value=20 Score=35.43 Aligned_cols=96 Identities=13% Similarity=0.133 Sum_probs=70.2
Q ss_pred CCCceEEEEecCcHHHHHHHH----HHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCC
Q 006683 139 RRWPYLIRMASNDSEQMKCIA----DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSIS 214 (635)
Q Consensus 139 ~~~p~~~r~~p~~~~~~~al~----~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~ 214 (635)
+.-+|.|-+.|+....+.+.. ..++..|.+++.++.+.+--- ....+..++.|+++| +.+..-..+.+.. +
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~--~~~~~~a~~~L~~~~-I~~~vyD~v~~eP--t 112 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAK--LGLVKVAQDSLEENG-INVEVYDKVQPEP--T 112 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhh--cccHHHHHHHHHHcC-CceEEecCccCCC--c
Confidence 344788888999887776554 346889999999999887644 556788889999999 8876433333332 1
Q ss_pred CchHHHHHHHHhhhhcCceEEEEecCCh
Q 006683 215 DPKEAVRGELKKVQDKQSRVFIVLQASL 242 (635)
Q Consensus 215 d~~~~~~~~l~~l~~~~~~vii~~~~~~ 242 (635)
+ .++...++-.|+.+.|.++. .+.+
T Consensus 113 v--~s~~~alefak~~~fDs~va-iGGG 137 (465)
T KOG3857|consen 113 V--GSVTAALEFAKKKNFDSFVA-IGGG 137 (465)
T ss_pred h--hhHHHHHHHHHhcccceEEE-EcCc
Confidence 1 57889999999999999887 4443
No 252
>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=72.89 E-value=20 Score=37.09 Aligned_cols=79 Identities=13% Similarity=0.095 Sum_probs=54.6
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.++++.++.+++.+|++...+. ....+.+.+.+++.| +.+.....+.+.. ......+.++.+++.++|+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 83 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVK--LGLVDKLTDSLKKEG-IESAIFDDVVSEP----TDESVEEGVKLAKEGGCDV 83 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--cchHHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 34556777778889999998665443 446788999999988 7764322233322 1256778888888889999
Q ss_pred EEEecCC
Q 006683 235 FIVLQAS 241 (635)
Q Consensus 235 ii~~~~~ 241 (635)
||- .+.
T Consensus 84 IIa-iGG 89 (375)
T cd08194 84 IIA-LGG 89 (375)
T ss_pred EEE-eCC
Confidence 997 444
No 253
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=72.33 E-value=5.3 Score=38.39 Aligned_cols=73 Identities=14% Similarity=0.097 Sum_probs=44.8
Q ss_pred HHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEeccccc-cc--ccccccccccce-----eeeeEEEEeC
Q 006683 492 IELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTIL-GN--RTEYVEFTQPYA-----ESGFSMIVPA 563 (635)
Q Consensus 492 ~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~-~~--r~~~~~fs~p~~-----~~~~~~~v~~ 563 (635)
-.+.+.|.+.+|.+++++... ++..++..+.+|++|+++.+-..- .. +....-+..+.. .....|+|++
T Consensus 17 ~~l~~~L~~~~g~~v~~~~~~---~~~~~~~~l~~g~~D~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~~~~ivv~~ 93 (243)
T PF12974_consen 17 APLADYLSKQLGVPVELVPAD---DYAEFIEALRSGEIDLAFMGPLPYVQARQRAGVEPLATPVGPDGSPSYRSVIVVRA 93 (243)
T ss_dssp HHHHHHHHHHHTSEEEEE--S---SHHHHHHHHHTTS-SEEE--HHHHHHHHHHSSEEEEEEEEETTT-SCEEEEEEEET
T ss_pred HHHHHHHHHHhCCCEEEEEcC---CHHHHHHHHHcCCccEEEECcHHHHHHhhcCcEEEEEEecccCCCcceeEEEEEEC
Confidence 478889999999996666554 489999999999999997743321 11 112222222222 3466788888
Q ss_pred CCCC
Q 006683 564 KQEE 567 (635)
Q Consensus 564 ~~~~ 567 (635)
+++.
T Consensus 94 ds~i 97 (243)
T PF12974_consen 94 DSPI 97 (243)
T ss_dssp TSS-
T ss_pred CCCC
Confidence 8754
No 254
>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=72.00 E-value=36 Score=32.32 Aligned_cols=116 Identities=14% Similarity=0.202 Sum_probs=67.1
Q ss_pred CcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHHHHhhccCCccEE
Q 006683 47 MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPIL 125 (635)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v~~~~~~~~ip~I 125 (635)
.|..=..++...+.++|.. .+ +..++..-++. ...+++ ..+.+.||....+ ..-..+...|...++|+|
T Consensus 62 iG~~Kae~~~~~l~~inP~---~~--V~~~~~~i~~~----~~~~l~-~~~~D~VvdaiD~~~~k~~L~~~c~~~~ip~I 131 (231)
T cd00755 62 VGKPKVEVMAERIRDINPE---CE--VDAVEEFLTPD----NSEDLL-GGDPDFVVDAIDSIRAKVALIAYCRKRKIPVI 131 (231)
T ss_pred CCCcHHHHHHHHHHHHCCC---cE--EEEeeeecCHh----HHHHHh-cCCCCEEEEcCCCHHHHHHHHHHHHHhCCCEE
Confidence 3444445666677777743 34 44444433332 244555 4557777766544 444567889999999999
Q ss_pred eecCCCCCCCCCCCCCceEEEEecCcHH----HHHHHHHHHHHCCCe-EEEEEEEcCC
Q 006683 126 SFAAPAVTPLSMSRRWPYLIRMASNDSE----QMKCIADLARKYNWR-RVAAIYEDNV 178 (635)
Q Consensus 126 s~~~~~~~~~l~~~~~p~~~r~~p~~~~----~~~al~~~l~~~~w~-~vaii~~~~~ 178 (635)
+..+. .-.+ .|.-+++.--..+ +++.+-..|++.+.. .+-+||+...
T Consensus 132 ~s~g~--g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E~ 183 (231)
T cd00755 132 SSMGA--GGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTEP 183 (231)
T ss_pred EEeCC--cCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCCC
Confidence 97766 3333 2444554433322 345555555555654 5777777654
No 255
>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=71.57 E-value=17 Score=35.31 Aligned_cols=79 Identities=10% Similarity=0.138 Sum_probs=51.4
Q ss_pred EEEEEEE--cCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~--~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
+|+++.. +++|. ..+.+.+.+.+++.| .++.... ... +. ......++.+...++|.||+.........
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~---~~~---~~-~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFD--QAYLAGTKAEAEALG-GDLRVYD---AGG---DD-AKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHH--HHHHHHHHHHHHHcC-CEEEEEC---CCC---CH-HHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 3667765 34565 677888999999999 8776532 111 11 33456777777778999998223444456
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..++.+.+.|+
T Consensus 71 ~~i~~~~~~~i 81 (273)
T cd06305 71 PWVKRALDAGI 81 (273)
T ss_pred HHHHHHHHcCC
Confidence 66777887775
No 256
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=71.51 E-value=5.3 Score=40.13 Aligned_cols=77 Identities=9% Similarity=0.037 Sum_probs=44.8
Q ss_pred HHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEeccccccccc--cccc----ccccceeeeeEEEEeCCC
Q 006683 493 ELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRT--EYVE----FTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 493 dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~--~~~~----fs~p~~~~~~~~~v~~~~ 565 (635)
+....+.++. +++++++..+ +...++..|.+|++|+++.. .....+. ..++ .+.++......++++++.
T Consensus 44 ~~~~~~~~~~p~v~ie~~~~~---~~~~~~~aL~~G~iDia~~~-~~~~~~~~~~g~~~~~v~~~~~~~~~~~lvv~~~s 119 (314)
T PRK11553 44 KSHQLLEKRFPQTKISWVEFP---AGPQMLEALNVGSIDLGSTG-DIPPIFAQAAGADLVYVGVEPPKPKAEVILVAENS 119 (314)
T ss_pred HhhCHHHHhCCCCeeEEEECC---CcHHHHHHHHcCCCCEEccC-CHHHHHHHhCCCCEEEEEEecCCCcceEEEEeCCC
Confidence 4444555554 5664444332 24689999999999998764 2223322 1111 145565566788898876
Q ss_pred CCCcceee
Q 006683 566 EESTWMFT 573 (635)
Q Consensus 566 ~~~~~~~l 573 (635)
+...+..|
T Consensus 120 ~i~s~~dL 127 (314)
T PRK11553 120 PIKTVADL 127 (314)
T ss_pred CCCCHHHh
Confidence 65444333
No 257
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=70.71 E-value=14 Score=38.06 Aligned_cols=78 Identities=15% Similarity=0.183 Sum_probs=56.8
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.+| ++.+|++..-.. ....+.+.+.+++.| +.+.....+.... +..+..+.++.+++.++|+
T Consensus 11 l~~l~~~l~~~g--r~lvVt~~~~~~--~~~~~~v~~~L~~~~-i~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~ 81 (366)
T PF00465_consen 11 LEELGEELKRLG--RVLVVTDPSLSK--SGLVDRVLDALEEAG-IEVQVFDGVGPNP----TLEDVDEAAEQARKFGADC 81 (366)
T ss_dssp GGGHHHHHHCTT--EEEEEEEHHHHH--HTHHHHHHHHHHHTT-CEEEEEEEESSS-----BHHHHHHHHHHHHHTTSSE
T ss_pred HHHHHHHHHhcC--CEEEEECchHHh--CccHHHHHHHHhhCc-eEEEEEecCCCCC----cHHHHHHHHHHHHhcCCCE
Confidence 345667788887 999999873332 336888999999999 8876554455443 2367889999999999999
Q ss_pred EEEecCCh
Q 006683 235 FIVLQASL 242 (635)
Q Consensus 235 ii~~~~~~ 242 (635)
||. .+.+
T Consensus 82 IIa-iGGG 88 (366)
T PF00465_consen 82 IIA-IGGG 88 (366)
T ss_dssp EEE-EESH
T ss_pred EEE-cCCC
Confidence 998 5554
No 258
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=70.68 E-value=22 Score=34.12 Aligned_cols=47 Identities=17% Similarity=0.193 Sum_probs=29.3
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHH
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAAT 87 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~ 87 (635)
.+|+||+.--.+ +..++..++.+.++ -|++|+++.+++...|..|+.
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 579999763332 22222244444333 278999999998888877653
No 259
>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=70.05 E-value=82 Score=28.50 Aligned_cols=85 Identities=14% Similarity=0.102 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhcc--CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc
Q 006683 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (635)
Q Consensus 153 ~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~--g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~ 230 (635)
.....+.+.....+ .++.++.... ..++.+.+.+++. | ++++.. ..... + .+-..++++|.++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~------~v~~~~~~~l~~~yP~-l~i~g~--~g~f~---~--~~~~~i~~~I~~s 99 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKP------DVLQQLKVKLIKEYPK-LKIVGA--FGPLE---P--EERKAALAKIARS 99 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCH------HHHHHHHHHHHHHCCC-CEEEEE--CCCCC---h--HHHHHHHHHHHHc
Confidence 45666666666666 4788886443 3345555555443 5 777654 11111 1 3446789999999
Q ss_pred CceEEEEecCChhHHHHHHHHHH
Q 006683 231 QSRVFIVLQASLDMTIHLFTEAN 253 (635)
Q Consensus 231 ~~~vii~~~~~~~~~~~~l~~a~ 253 (635)
++|+|++ .........++.+..
T Consensus 100 ~~dil~V-glG~PkQE~~~~~~~ 121 (177)
T TIGR00696 100 GAGIVFV-GLGCPKQEIWMRNHR 121 (177)
T ss_pred CCCEEEE-EcCCcHhHHHHHHhH
Confidence 9999999 777766666665543
No 260
>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=69.78 E-value=93 Score=31.78 Aligned_cols=175 Identities=14% Similarity=0.171 Sum_probs=92.9
Q ss_pred CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccE
Q 006683 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPI 124 (635)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~ 124 (635)
+..|.....+.+++ . .+ .+.+.+.|.-.+-..+.....++- +.. .. .-+........+.+.+.+.+||+
T Consensus 6 Gf~gD~~~a~~~l~----~-~g---~~d~l~~d~LaE~tma~~~~~~~~-~p~-~g-Y~~~~~~~L~~~L~~~~~~gIkv 74 (362)
T PF07287_consen 6 GFWGDRPDAAVRLA----R-GG---DVDYLVGDYLAERTMAILARAKRK-DPT-KG-YAPDFVRDLRPLLPAAAEKGIKV 74 (362)
T ss_pred ccccCcHHHHHHHH----h-cC---CCCEEEEecHHHHHHHHHHHHHhh-CCC-CC-chHHHHHHHHHHHHHHHhCCCCE
Confidence 44555656565555 1 21 588888887766655555544442 221 11 11122234566778888899999
Q ss_pred EeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCe-EEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEE
Q 006683 125 LSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQS 203 (635)
Q Consensus 125 Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~-~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~ 203 (635)
|+-++. . + | ...++.+.+++++.|.+ ||++|+.|+.. +.+.+.+. .| ..+..
T Consensus 75 I~NaGg--~---n----p---------~~~a~~v~eia~e~Gl~lkvA~V~gDd~~-------~~v~~~~~-~g-~~~~~ 127 (362)
T PF07287_consen 75 ITNAGG--L---N----P---------AGCADIVREIARELGLSLKVAVVYGDDLK-------DEVKELLA-EG-ETIRP 127 (362)
T ss_pred EEeCCC--C---C----H---------HHHHHHHHHHHHhcCCCeeEEEEECccch-------HhHHHHHh-CC-CCCcc
Confidence 986544 1 1 1 12678888888887775 89999977763 22333332 11 11110
Q ss_pred EeeeCCCCCCCC------chHHHHHHHHhhhhcCceEEEEecCChhHHHHHHH-HHHHcCCCCC
Q 006683 204 RLVLPPISSISD------PKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFT-EANRMGLVGK 260 (635)
Q Consensus 204 ~~~~~~~~~~~d------~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~-~a~~~g~~~~ 260 (635)
-..-++.....+ ----...+++.|+ .++|+||. +...+...++- .+.+.|+...
T Consensus 128 l~~~~~l~~~~~~~~~a~aylGa~pI~~AL~-~GADIVI~--GR~~D~Al~~a~~~~~~GW~~~ 188 (362)
T PF07287_consen 128 LDTGPPLSEWDDRIVSANAYLGAEPIVEALE-AGADIVIT--GRVADPALFAAPAIHEFGWSED 188 (362)
T ss_pred CCCCCCcchhccccceEEEecChHHHHHHHH-cCCCEEEe--CcccchHHHHhHHHHHcCCCcc
Confidence 000000000000 0011345667666 48999986 55555555544 4556776543
No 261
>PRK00865 glutamate racemase; Provisional
Probab=69.25 E-value=57 Score=31.72 Aligned_cols=34 Identities=12% Similarity=0.255 Sum_probs=24.4
Q ss_pred hhcCCeEEEEcCCChhhHHHHHHhhccCCccEEe
Q 006683 93 INKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (635)
Q Consensus 93 i~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is 126 (635)
+.+.++.+|+=+..+.++..+..+-+..++|+|+
T Consensus 63 L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 63 LLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 3378899888766666555555666667899997
No 262
>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=68.92 E-value=18 Score=35.23 Aligned_cols=80 Identities=10% Similarity=0.065 Sum_probs=51.5
Q ss_pred EEEEEEEc---CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHH
Q 006683 169 RVAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (635)
Q Consensus 169 ~vaii~~~---~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (635)
+|++|..+ ++|. ..+.+.+.+.+++.| ..+..... ... + .......++++...++|.+|+........
T Consensus 1 ~i~~i~~~~~~~~~~--~~~~~g~~~~~~~~g-~~v~~~~~--~~~---~-~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFW--TVVKNGAEDAAKDLG-VDVEYRGP--ETF---D-VADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHH--HHHHHHHHHHHHHhC-CEEEEECC--CCC---C-HHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 46676654 3566 777888999999999 77754321 110 1 13455777788888999998833343434
Q ss_pred HHHHHHHHHcCC
Q 006683 246 IHLFTEANRMGL 257 (635)
Q Consensus 246 ~~~l~~a~~~g~ 257 (635)
...++.+.+.|+
T Consensus 72 ~~~l~~~~~~~i 83 (271)
T cd06312 72 DPAIKRAVAAGI 83 (271)
T ss_pred HHHHHHHHHCCC
Confidence 556777777664
No 263
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=67.89 E-value=4.8 Score=38.93 Aligned_cols=65 Identities=12% Similarity=0.158 Sum_probs=42.3
Q ss_pred HHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEeccc---ccccccc-----cccccccceeeeeEEEEeCC
Q 006683 496 RLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLT---ILGNRTE-----YVEFTQPYAESGFSMIVPAK 564 (635)
Q Consensus 496 ~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~---~~~~r~~-----~~~fs~p~~~~~~~~~v~~~ 564 (635)
+.+.++.|++++++..+ ++..++..|..|++|++.. .. .-..+-. .+..-......+..++++.+
T Consensus 27 ~g~f~~~G~~ve~~~~~---~g~~~~~al~~G~iD~a~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~lvv~~~ 99 (252)
T PF13379_consen 27 KGLFEKEGLDVEWVQFA---SGADILEALAAGEIDIAFV-LAPALIAIAKGAGGPDVDIVVLAGLSQNGNALVVRND 99 (252)
T ss_dssp TTHHHHTTSCEEEEEES---SHHHHHHHHHCTSSSEEEE-CTHHHHHHHTTTTT----EEEEEECSBSSEEEEECGG
T ss_pred cChHHHcCCEEEEEEcC---CHHHHHHHHHcCCCCEEEe-chHHHHHHHcCCCCcccceEEeeccCCCceEEEEcCc
Confidence 44667779996666554 4899999999999999887 22 1122222 22222345566788888865
No 264
>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=67.19 E-value=31 Score=35.71 Aligned_cols=74 Identities=12% Similarity=0.110 Sum_probs=51.3
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCC-CCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVY-GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~-g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
..+.++++.++ +++.+|++.... . ....+.+.+.+++.| +++.....+.+.. ..++..+.++.+++.++|+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~--~g~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 86 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKK--TGYLDRVIELLKQAG-VEVVVFDKVEPNP----TTTTVMEGAALAREEGCDF 86 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhh--ccHHHHHHHHHHHcC-CeEEEeCCccCCC----CHHHHHHHHHHHHHcCCCE
Confidence 44667777777 899888876542 3 456788999999888 7664322233222 1156778888888889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||-
T Consensus 87 Iia 89 (380)
T cd08185 87 VVG 89 (380)
T ss_pred EEE
Confidence 996
No 265
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=67.14 E-value=56 Score=31.30 Aligned_cols=87 Identities=10% Similarity=0.032 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh-ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC
Q 006683 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ-NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (635)
Q Consensus 153 ~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~-~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~ 231 (635)
+....+.+.....+ .+|.++..+. ..++.+.+.++ +.| +.++.... +... .++-..++++|.+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~------~v~~~a~~~l~~~y~-l~i~g~~~---Gyf~---~~e~~~i~~~I~~s~ 157 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKP------EVLAQTEAKLRTQWN-VNIVGSQD---GYFT---PEQRQALFERIHASG 157 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCH------HHHHHHHHHHHHHhC-CEEEEEeC---CCCC---HHHHHHHHHHHHhcC
Confidence 35566666666666 6788886443 33444444443 246 77765431 1111 134567899999999
Q ss_pred ceEEEEecCChhHHHHHHHHHHH
Q 006683 232 SRVFIVLQASLDMTIHLFTEANR 254 (635)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~ 254 (635)
+|+|++ .........++....+
T Consensus 158 ~dil~V-glG~PkQE~~~~~~~~ 179 (243)
T PRK03692 158 AKIVTV-AMGSPKQEIFMRDCRL 179 (243)
T ss_pred CCEEEE-ECCCcHHHHHHHHHHH
Confidence 999999 7776666666655444
No 266
>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=66.94 E-value=20 Score=34.83 Aligned_cols=79 Identities=13% Similarity=0.124 Sum_probs=51.8
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhc-cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~-~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (635)
+|++|..+ ++|. ..+.+.+.+.+++ .| ..+..... .. + .......++.+.+.++|.+|+........
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~~~-~~~~~~~~---~~---~-~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 70 (272)
T cd06301 1 KIGVSMANFDDNFL--TLLRNAMKEHAKVLGG-VELQFEDA---KN---D-VATQLSQVENFIAQGVDAIIVVPVDTAAT 70 (272)
T ss_pred CeeEeecccCCHHH--HHHHHHHHHHHHHcCC-cEEEEeCC---CC---C-HHHHHHHHHHHHHcCCCEEEEecCchhhh
Confidence 46777764 4566 7777888889998 88 77765321 11 1 13455778888888999998823333334
Q ss_pred HHHHHHHHHcCC
Q 006683 246 IHLFTEANRMGL 257 (635)
Q Consensus 246 ~~~l~~a~~~g~ 257 (635)
...+.++.+.++
T Consensus 71 ~~~~~~l~~~~i 82 (272)
T cd06301 71 APIVKAANAAGI 82 (272)
T ss_pred HHHHHHHHHCCC
Confidence 566777777665
No 267
>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=65.80 E-value=34 Score=35.35 Aligned_cols=80 Identities=18% Similarity=0.175 Sum_probs=53.3
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.++++.++.+++.+|++..... ....+.+.+.+++.| +.+.....+.... ...+..+.++.+++.++|+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 88 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIK--AGWVDRVIESLEEAG-LEYVVFSDVSPNP----RDEEVMAGAELYLENGCDV 88 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 34567778888889999998755432 335778888998888 6654221122211 1145777888888889999
Q ss_pred EEEecCCh
Q 006683 235 FIVLQASL 242 (635)
Q Consensus 235 ii~~~~~~ 242 (635)
||- .+.+
T Consensus 89 IIa-iGGG 95 (377)
T cd08188 89 IIA-VGGG 95 (377)
T ss_pred EEE-eCCc
Confidence 997 4443
No 268
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=65.48 E-value=1.3e+02 Score=32.87 Aligned_cols=134 Identities=17% Similarity=0.279 Sum_probs=81.3
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHH
Q 006683 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (635)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~ 160 (635)
.-..+++.+.+.+...++++||.-.++ +..+. +...||+|....+ .....+++ .
T Consensus 48 ~~~~~v~~~~~~~~~~~~dviIsrG~t--a~~i~---~~~~iPVv~i~~s--------------------~~Dil~al-~ 101 (538)
T PRK15424 48 GFEKAVTYIRKRLATERCDAIIAAGSN--GAYLK---SRLSVPVILIKPS--------------------GFDVMQAL-A 101 (538)
T ss_pred hHHHHHHHHHHHHhhCCCcEEEECchH--HHHHH---hhCCCCEEEecCC--------------------HhHHHHHH-H
Confidence 344677777554447799999975544 23333 3468999966433 11123443 2
Q ss_pred HHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecC
Q 006683 161 LARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (635)
Q Consensus 161 ~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~ 240 (635)
.++.++ .++++|...... ..++.+.+.+ + +.+..... .. . .+....++++++.+.++||. .+
T Consensus 102 ~a~~~~-~~iavv~~~~~~----~~~~~~~~~l---~-~~i~~~~~-~~-~------~e~~~~v~~lk~~G~~~vvG-~~ 163 (538)
T PRK15424 102 RARKLT-SSIGVVTYQETI----PALVAFQKTF---N-LRIEQRSY-VT-E------EDARGQINELKANGIEAVVG-AG 163 (538)
T ss_pred HHHhcC-CcEEEEecCccc----HHHHHHHHHh---C-CceEEEEe-cC-H------HHHHHHHHHHHHCCCCEEEc-Cc
Confidence 235554 578887655432 1255566554 4 55554332 21 1 67899999999999999887 32
Q ss_pred ChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 241 SLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 241 ~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
. ....|.+.|+.+ .++.+
T Consensus 164 ~------~~~~A~~~g~~g---~~~~s 181 (538)
T PRK15424 164 L------ITDLAEEAGMTG---IFIYS 181 (538)
T ss_pred h------HHHHHHHhCCce---EEecC
Confidence 2 356688999987 55543
No 269
>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=65.03 E-value=39 Score=35.09 Aligned_cols=78 Identities=15% Similarity=0.218 Sum_probs=50.8
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++ +++.+|++..... ....+.+.+.+++.| +++.. |..... ..+..+....++..++.++|+|
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~---f~~v~~-~~~~~~v~~~~~~~~~~~~D~I 83 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAG--TPVFAELVQALAAAG-VEVEV---FDGVLP-DLPRSELCDAASAAARAGPDVI 83 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhh--cchHHHHHHHHHHcC-CeEEE---ECCCCC-CcCHHHHHHHHHHHHhcCCCEE
Confidence 44667788888 8888888654432 356788888999888 76542 222110 1122456667777888899999
Q ss_pred EEecCCh
Q 006683 236 IVLQASL 242 (635)
Q Consensus 236 i~~~~~~ 242 (635)
|- .+.+
T Consensus 84 Ia-iGGG 89 (386)
T cd08191 84 IG-LGGG 89 (386)
T ss_pred EE-eCCc
Confidence 87 4443
No 270
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=64.90 E-value=50 Score=29.58 Aligned_cols=43 Identities=12% Similarity=0.182 Sum_probs=33.2
Q ss_pred cCCeEEEEcCCCh---hhHHHHHHhhccCCccEEeecCCCCCCCCCCC
Q 006683 95 KEKVKVIAGMETW---EETAVVAEIASRVQVPILSFAAPAVTPLSMSR 139 (635)
Q Consensus 95 ~~~v~aiiG~~~s---~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~ 139 (635)
.++++.++|.... .....+.++++..++|+++.... ...|..+
T Consensus 34 AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~--~~~~~~k 79 (171)
T PRK00945 34 AKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGS--YKGLIDK 79 (171)
T ss_pred CCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccc--ccccccC
Confidence 5889999998664 35677899999999999987765 4555553
No 271
>PRK07475 hypothetical protein; Provisional
Probab=64.86 E-value=71 Score=30.70 Aligned_cols=47 Identities=21% Similarity=0.193 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEe
Q 006683 79 NRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (635)
Q Consensus 79 ~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is 126 (635)
..++...+..+.+.+.+.++.+|+.+. .........+.+..++|+++
T Consensus 60 ~~~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 60 DPSLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVAT 106 (245)
T ss_pred CccHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEec
Confidence 345666666666666588999999855 33334445566668899884
No 272
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=64.76 E-value=1.5e+02 Score=32.30 Aligned_cols=135 Identities=15% Similarity=0.232 Sum_probs=81.8
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHH
Q 006683 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (635)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~ 159 (635)
.+-..+++.+.+.+..+++++||.-..+ +..+.. ...+|+|....+ .....+++
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~t--a~~i~~---~~~iPVv~i~~s--------------------~~Dil~al- 90 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGSN--GAYLKS---RLSLPVIVIKPT--------------------GFDVMQAL- 90 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECchH--HHHHHH---hCCCCEEEecCC--------------------hhhHHHHH-
Confidence 3455677777564447789999975543 333333 458999866433 11123443
Q ss_pred HHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEec
Q 006683 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQ 239 (635)
Q Consensus 160 ~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~ 239 (635)
..++.++ .++++|...... ..++.+.+.+ + +.+.... +.. . .+....++++++.+.++||. .
T Consensus 91 ~~a~~~~-~~ia~vg~~~~~----~~~~~~~~ll---~-~~i~~~~-~~~-~------~e~~~~~~~l~~~G~~~viG-~ 152 (526)
T TIGR02329 91 ARARRIA-SSIGVVTHQDTP----PALRRFQAAF---N-LDIVQRS-YVT-E------EDARSCVNDLRARGIGAVVG-A 152 (526)
T ss_pred HHHHhcC-CcEEEEecCccc----HHHHHHHHHh---C-CceEEEE-ecC-H------HHHHHHHHHHHHCCCCEEEC-C
Confidence 2335554 578887755431 1255566555 4 5554432 211 1 67899999999999999886 3
Q ss_pred CChhHHHHHHHHHHHcCCCCCCeEEEee
Q 006683 240 ASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (635)
Q Consensus 240 ~~~~~~~~~l~~a~~~g~~~~~~~~i~~ 267 (635)
. .....|++.|+.+ +.|.+
T Consensus 153 ~------~~~~~A~~~gl~~---ili~s 171 (526)
T TIGR02329 153 G------LITDLAEQAGLHG---VFLYS 171 (526)
T ss_pred h------HHHHHHHHcCCce---EEEec
Confidence 2 2356789999976 55544
No 273
>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=63.54 E-value=25 Score=31.08 Aligned_cols=70 Identities=16% Similarity=0.264 Sum_probs=45.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.++++.+.++. +.+ +.+... ....++..|.+|++|+++..... ..+.+. ..+.....+.++++++.+
T Consensus 13 ~~l~~~i~~~~~~~p~i~--i~~~~~--~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~~ 83 (197)
T cd05466 13 YLLPPLLAAFRQRYPGVE--LSLVEG--GSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPPDHP 83 (197)
T ss_pred HHhHHHHHHHHHHCCCCE--EEEEEC--ChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecCCCC
Confidence 34467777777665 344 444431 25679999999999999875543 223333 346677788888877654
No 274
>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=63.31 E-value=34 Score=35.43 Aligned_cols=79 Identities=11% Similarity=0.179 Sum_probs=53.0
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.++-+++.+|++..... ....+.+.+.+++.| +.+.....+.+.. ..+...+.++.+++.++|+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~ 88 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVK--IGVVEKVTDVLDEAG-IDYVIYDGVKPNP----TITNVKDGLAVFKKEGCDF 88 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhh--cCcHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 34566778888888888887654432 246778899999888 7654322222222 1156778888888889999
Q ss_pred EEEecCC
Q 006683 235 FIVLQAS 241 (635)
Q Consensus 235 ii~~~~~ 241 (635)
||- .+.
T Consensus 89 IIa-vGG 94 (377)
T cd08176 89 IIS-IGG 94 (377)
T ss_pred EEE-eCC
Confidence 997 444
No 275
>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=63.05 E-value=41 Score=34.52 Aligned_cols=79 Identities=10% Similarity=0.040 Sum_probs=51.8
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++ +++.+|++...+-. ....+.+.+.+++.| +++.....+.+.. ..++..+.++.+++.++|+|
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~-~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 87 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKK-NGSLDDVTKALEELG-IEYEIFDEVEENP----SLETIMEAVEIAKKFNADFV 87 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhh-cCcHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 34567778888 88888886654210 234677888999888 7654322222222 12567788888899999999
Q ss_pred EEecCCh
Q 006683 236 IVLQASL 242 (635)
Q Consensus 236 i~~~~~~ 242 (635)
|- .+.+
T Consensus 88 Ia-vGGG 93 (357)
T cd08181 88 IG-IGGG 93 (357)
T ss_pred EE-eCCc
Confidence 98 4443
No 276
>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=62.56 E-value=27 Score=33.87 Aligned_cols=81 Identities=10% Similarity=0.100 Sum_probs=49.5
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
||++|..+ ++|. ..+.+.+.+.+++.| .++.....-... + .....+.++++...+.|.||+.........
T Consensus 1 ~Igvi~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~~~~~~----~-~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFW--QAVKAGAEAAAKELG-VKVTFQGPASET----D-VAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHH--HHHHHHHHHHHHHcC-CEEEEecCccCC----C-HHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 46777755 3455 677788888999999 776643210011 1 133456677777778999988233333334
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..+..+.+.++
T Consensus 73 ~~l~~~~~~~i 83 (273)
T cd06310 73 PPLKEAKDAGI 83 (273)
T ss_pred HHHHHHHHCCC
Confidence 56677766654
No 277
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=62.55 E-value=51 Score=31.24 Aligned_cols=92 Identities=13% Similarity=0.194 Sum_probs=62.7
Q ss_pred cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHHHHhhccCCccE
Q 006683 46 QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPI 124 (635)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v~~~~~~~~ip~ 124 (635)
..|+.=..+++..+.+||-. .++...+.--+ .+...+++ ..+.+.||-...+ ..-..+..+|..+++|+
T Consensus 80 ~iGk~Kv~vm~eri~~InP~-----c~V~~~~~f~t----~en~~~~~-~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki~v 149 (263)
T COG1179 80 DIGKPKVEVMKERIKQINPE-----CEVTAINDFIT----EENLEDLL-SKGFDYVIDAIDSVRAKVALIAYCRRNKIPV 149 (263)
T ss_pred hcccHHHHHHHHHHHhhCCC-----ceEeehHhhhC----HhHHHHHh-cCCCCEEEEchhhhHHHHHHHHHHHHcCCCE
Confidence 55666677888888888865 45555554433 44577777 5689999987666 33455778899999999
Q ss_pred EeecCCCCCCCCCCCCCceEEEEecCcHH
Q 006683 125 LSFAAPAVTPLSMSRRWPYLIRMASNDSE 153 (635)
Q Consensus 125 Is~~~~~~~~~l~~~~~p~~~r~~p~~~~ 153 (635)
|+.++. ...+ .|+-+++.--..+
T Consensus 150 Iss~Ga--g~k~----DPTri~v~DiskT 172 (263)
T COG1179 150 ISSMGA--GGKL----DPTRIQVADISKT 172 (263)
T ss_pred Eeeccc--cCCC----CCceEEeeechhh
Confidence 998877 3333 3666666544333
No 278
>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=62.49 E-value=28 Score=34.52 Aligned_cols=79 Identities=13% Similarity=0.088 Sum_probs=50.1
Q ss_pred EEEEEE--cCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~--~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|.. +++|. ..+.+.+++.+++.| ..+.... +... | .....+.++.+...++|.||+..........
T Consensus 2 I~vi~~~~~~~f~--~~i~~gi~~~a~~~g-~~v~~~~--~~~~---d-~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~ 72 (298)
T cd06302 2 IAFVPKVTGIPYF--NRMEEGAKEAAKELG-VDAIYVG--PTTA---D-AAGQVQIIEDLIAQGVDAIAVVPNDPDALEP 72 (298)
T ss_pred EEEEEcCCCChHH--HHHHHHHHHHHHHhC-CeEEEEC--CCCC---C-HHHHHHHHHHHHhcCCCEEEEecCCHHHHHH
Confidence 566664 34565 677888999999999 7765321 1111 1 1345567777777789999983333344466
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++++.+.++
T Consensus 73 ~~~~~~~~~i 82 (298)
T cd06302 73 VLKKAREAGI 82 (298)
T ss_pred HHHHHHHCCC
Confidence 7777777765
No 279
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=62.14 E-value=23 Score=34.62 Aligned_cols=56 Identities=23% Similarity=0.250 Sum_probs=29.8
Q ss_pred CCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE
Q 006683 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (635)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii 102 (635)
.++|+||..--.. .. ..+++.+.+-+. .|++++++..++...+..+ + ....+++-.
T Consensus 30 ~~~I~IG~~~~~~----~~---~~~~~~~~l~~~-~G~~Vel~~f~~~~~~~~A------L-a~GdID~~~ 85 (271)
T PRK11063 30 PNHIKVGVIVGAE----QQ---VAEVAQKVAKEK-YGLDVELVTFNDYVLPNEA------L-SKGDIDANA 85 (271)
T ss_pred CCcEEEEeCCCCh----HH---HHHHHHHHHHHh-cCCeEEEEEecCcHHHHHH------H-HcCCcceec
Confidence 3469999873211 11 233344444333 2689999988765443322 2 256666643
No 280
>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=60.87 E-value=34 Score=31.03 Aligned_cols=68 Identities=16% Similarity=0.152 Sum_probs=47.0
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-.+++..+.++. +.++++... +...++..|.+|++|+++..... ....+. ..++....++++++++.
T Consensus 20 ~l~~~l~~~~~~~P~i~i~~~~~----~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~ 88 (209)
T PF03466_consen 20 LLPPLLAEFRERHPNIRIEIREG----DSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVVSPDH 88 (209)
T ss_dssp THHHHHHHHHHHSTTEEEEEEEE----SHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEEETTS
T ss_pred HHHHHHHHHHHHCCCcEEEEEec----cchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeeeeccc
Confidence 3467888887765 455444432 36789999999999999876554 222222 35788889999998875
No 281
>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=60.84 E-value=36 Score=33.48 Aligned_cols=78 Identities=10% Similarity=0.104 Sum_probs=52.7
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+..... .. + .......++.+.+.++|.|++..++......
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~~---~~---~-~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~ 71 (288)
T cd01538 2 IGLSLPTKTEERW--IRDRPNFEAALKELG-AEVIVQNA---NG---D-PAKQISQIENMIAKGVDVLVIAPVDGEALAS 71 (288)
T ss_pred eEEEEeCCCcHHH--HHHHHHHHHHHHHcC-CEEEEECC---CC---C-HHHHHHHHHHHHHcCCCEEEEecCChhhHHH
Confidence 6777754 3456 677888999999999 77665321 11 1 1345577888888899999883344555567
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++++.+.|.
T Consensus 72 ~l~~l~~~~i 81 (288)
T cd01538 72 AVEKAADAGI 81 (288)
T ss_pred HHHHHHHCCC
Confidence 7888887775
No 282
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=59.50 E-value=1.3e+02 Score=30.40 Aligned_cols=123 Identities=12% Similarity=0.066 Sum_probs=70.3
Q ss_pred CCeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEe-cCCCCHHHHHHHHHHHhhc---CCeEEEEcCCC
Q 006683 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINK---EKVKVIAGMET 106 (635)
Q Consensus 32 ~~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~-D~~~~~~~a~~~~~~li~~---~~v~aiiG~~~ 106 (635)
.+.++|+++.... ......-..|++.++++.+- ++..... ....+...+.+.+.+++.+ .++.+|+...+
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~-----~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~~d 234 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGI-----KTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIANND 234 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcCC-----CeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEECCc
Confidence 3567777765432 22233456788888876542 2322222 2334566777888888854 35889997443
Q ss_pred hhhHHHHHHhhccC---CccEEeecCCCCCCCCCC---CCCceEEEEecCcHHHHHHHHHHHHH
Q 006683 107 WEETAVVAEIASRV---QVPILSFAAPAVTPLSMS---RRWPYLIRMASNDSEQMKCIADLARK 164 (635)
Q Consensus 107 s~~~~~v~~~~~~~---~ip~Is~~~~~~~~~l~~---~~~p~~~r~~p~~~~~~~al~~~l~~ 164 (635)
..+..+...+++. .+|++++... .... ..-|.+..+..+...++...++++.+
T Consensus 235 -~~A~gvl~al~~~Gl~~vpVvg~D~~----~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 235 -AMAMGAVEALKAHNKSSIPVFGVDAL----PEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred -hHHHHHHHHHHhcCCCCCeEEeeCCC----HHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 4444555555544 5588877644 2221 11144556667777788877777643
No 283
>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=59.42 E-value=1.2e+02 Score=29.39 Aligned_cols=122 Identities=8% Similarity=0.017 Sum_probs=66.9
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHH
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETA 111 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~ 111 (635)
+.=+|+++..........-..|++.++++.+ +.++.. ......+...+.+.+.++++. .++.+|+... +..+.
T Consensus 130 g~~~i~~l~~~~~~~~~~R~~gf~~al~~~~----~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n-d~~A~ 203 (280)
T cd06303 130 NHARYAMLYFSPGYISTARGDTFIDCVHARN----NWTLTS-EFYTDATRQKAYQATSDILSNNPDVDFIYACS-TDIAL 203 (280)
T ss_pred CCcEEEEEECCCCcchhHHHHHHHHHHHhCC----CceEEE-eecCCCCHHHHHHHHHHHHHhCCCCcEEEECC-cHHHH
Confidence 3457787755432233455678888887632 334333 233455666777888888854 4588999744 44455
Q ss_pred HHHHhhccCCc----cEEeecCCCCCCCCCC--CCCceEEEEecCcHHHHHHHHHHHH
Q 006683 112 VVAEIASRVQV----PILSFAAPAVTPLSMS--RRWPYLIRMASNDSEQMKCIADLAR 163 (635)
Q Consensus 112 ~v~~~~~~~~i----p~Is~~~~~~~~~l~~--~~~p~~~r~~p~~~~~~~al~~~l~ 163 (635)
.+...+.+.++ .++++... ...+.. ...+. ..+..+...++...++.+.
T Consensus 204 g~l~al~~~G~~~dv~vvg~d~~--~~~~~~~~~g~~~-~tv~~~~~~~g~~~~~~~~ 258 (280)
T cd06303 204 GASDALKELGREDDILINGWGGG--SAELDAIQQGELD-VTVMRMNDDTGVAMAEAIK 258 (280)
T ss_pred HHHHHHHHcCCCCCcEEEecCCC--HHHHHHHHcCCce-EEEecCchHhHHHHHHHHH
Confidence 55556665654 46666544 221222 11121 2233334566777777653
No 284
>PRK07377 hypothetical protein; Provisional
Probab=59.21 E-value=25 Score=31.47 Aligned_cols=45 Identities=20% Similarity=0.226 Sum_probs=35.5
Q ss_pred ceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecc
Q 006683 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDL 536 (635)
Q Consensus 489 G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~ 536 (635)
+-.++.++.+.+..+.+.+++.-+ +-+.+.+.+.+|++|++++.-
T Consensus 93 ~~l~~~l~~~~~~y~~rlElv~y~---~~~~l~~aL~~~eVh~~c~~~ 137 (184)
T PRK07377 93 DQLIDQLRTILDKYHLRLELVVYP---DLQALEQALRDKEVHAICLES 137 (184)
T ss_pred HHHHHHHHHHHHHhCceeeEEecC---CHHHHHHHHhcCCccEEecCC
Confidence 345688899999999996665544 478899999999999877643
No 285
>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=58.88 E-value=42 Score=34.34 Aligned_cols=84 Identities=12% Similarity=0.096 Sum_probs=55.0
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++ +++.+|++...+ ....+.+.+.+++.| +.+.+.. +.... ...+..+.++.+++.++|+|
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~---~~~~~~v~~~L~~~~-i~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~D~I 81 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL---DLVGAKIEESLAAAG-IDARFEV-FGGEC----TRAEIERLAEIARDNGADVV 81 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHHhCC-CeEEEEE-eCCcC----CHHHHHHHHHHHhhcCCCEE
Confidence 34666777776 888888854433 456777888899888 7765432 44332 12567788888888899999
Q ss_pred EEecCChhHHHHHHHH
Q 006683 236 IVLQASLDMTIHLFTE 251 (635)
Q Consensus 236 i~~~~~~~~~~~~l~~ 251 (635)
|. .+.+ ......+.
T Consensus 82 Ia-vGGG-S~iD~aK~ 95 (351)
T cd08170 82 IG-IGGG-KTLDTAKA 95 (351)
T ss_pred EE-ecCc-hhhHHHHH
Confidence 87 4443 33333333
No 286
>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=58.80 E-value=35 Score=30.98 Aligned_cols=73 Identities=12% Similarity=0.095 Sum_probs=45.8
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++.++.++. +.+++++ . ++...++..|.+|++|+++........-.+.+.+ .+.......++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~v~i~~~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~hp 86 (202)
T cd08468 13 AVMPRLMARLEELAPSVRLNLV--H--AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASRDHP 86 (202)
T ss_pred HHhHHHHHHHHhhCCCCEEEEE--E--CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeCCCC
Confidence 44578888888876 4554444 3 2367799999999999988643221100122322 46666777777776654
No 287
>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=58.38 E-value=21 Score=33.35 Aligned_cols=84 Identities=13% Similarity=0.057 Sum_probs=51.8
Q ss_pred eeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecccccc-ccccccccc---ccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILG-NRTEYVEFT---QPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~-~r~~~~~fs---~p~~~~~~~~~v~~~~ 565 (635)
+-+-.-+-+-++-|++++++... ....++..|..|++|++++....-. .|.+-.++. ..+......+++++++
T Consensus 7 ~~vA~~~G~f~~~gl~ve~~~~~---~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~g~~~~~i~~~~~~~~~~l~~~~~s 83 (216)
T PF09084_consen 7 LYVAQEKGYFKEEGLDVEIVFFG---GGGDVLEALASGKADIAVAGPDAVLFARAKGADIKIIAASYQSSPNALVVRKDS 83 (216)
T ss_dssp HHHHHHTTHHHHTTEEEEEEEES---SHHHHHHHHHTTSHSEEEEECHHHHHHHHTTSTEEEEEEEEEECCEEEEEETTT
T ss_pred HHHHHHcCCCccCeEEEEEEEec---ChhHHHHHHhcCCceEEeccchHHHHHHhcCCeeEEEEEecCCCceEEEEeccC
Confidence 33333344445667776555543 4788999999999999988765322 444444443 2333456778888877
Q ss_pred CCCcceeecCC
Q 006683 566 EESTWMFTKPF 576 (635)
Q Consensus 566 ~~~~~~~l~pf 576 (635)
....++.|+--
T Consensus 84 ~i~~~~DLkGK 94 (216)
T PF09084_consen 84 GIKSPADLKGK 94 (216)
T ss_dssp S-SSGGGGTTS
T ss_pred CCCCHHHhCCC
Confidence 76656555444
No 288
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=58.29 E-value=30 Score=33.09 Aligned_cols=77 Identities=18% Similarity=0.138 Sum_probs=51.0
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++... ++|. ..+.+.+++.+++.| +.+.... ... + .....+.++++.+.+++.|++ .........
T Consensus 2 i~~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~---~~~---~-~~~~~~~~~~~~~~~~d~iii-~~~~~~~~~ 70 (264)
T cd06267 2 IGVIVPDISNPFF--AELLRGIEEAAREAG-YSVLLCN---SDE---D-PEKEREALELLLSRRVDGIIL-APSRLDDEL 70 (264)
T ss_pred EEEEECCCCCHHH--HHHHHHHHHHHHHcC-CEEEEEc---CCC---C-HHHHHHHHHHHHHcCcCEEEE-ecCCcchHH
Confidence 5666655 5566 777888999998888 7776432 111 1 134567788888889999998 554444444
Q ss_pred HHHHHHHcCCC
Q 006683 248 LFTEANRMGLV 258 (635)
Q Consensus 248 ~l~~a~~~g~~ 258 (635)
++.+.+.++.
T Consensus 71 -~~~~~~~~ip 80 (264)
T cd06267 71 -LEELAALGIP 80 (264)
T ss_pred -HHHHHHcCCC
Confidence 7777777763
No 289
>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=58.28 E-value=40 Score=33.48 Aligned_cols=79 Identities=8% Similarity=0.051 Sum_probs=50.8
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhc--cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~--~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~ 244 (635)
+|++|..+ ++|. ..+.+.+.+.+++ .| .++.... ... + .....+.++++...+++.|++...+...
T Consensus 1 ~Igviv~~~~~~~~--~~~~~gi~~~a~~~~~g-~~~~~~~---~~~---~-~~~q~~~i~~l~~~~vdgiii~~~~~~~ 70 (303)
T cd01539 1 KIGVFLYKFDDTFI--SLVRKNLEDIQKENGGK-VEFTFYD---AKN---N-QSTQNEQIDTALAKGVDLLAVNLVDPTA 70 (303)
T ss_pred CeEEEeeCCCChHH--HHHHHHHHHHHHhhCCC-eeEEEec---CCC---C-HHHHHHHHHHHHHcCCCEEEEecCchhh
Confidence 46777654 3455 6667788888888 67 6655432 111 1 1334567888888899988883445444
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....++++.+.|+
T Consensus 71 ~~~~~~~~~~~gi 83 (303)
T cd01539 71 AQTVINKAKQKNI 83 (303)
T ss_pred HHHHHHHHHHCCC
Confidence 5677788877776
No 290
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=57.48 E-value=2.1e+02 Score=28.46 Aligned_cols=80 Identities=13% Similarity=0.176 Sum_probs=43.3
Q ss_pred cCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH-----HCCCeE
Q 006683 95 KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR-----KYNWRR 169 (635)
Q Consensus 95 ~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~-----~~~w~~ 169 (635)
...-+.|||+.- .++......++..|+++.-.++. +.. .-+..++..++ .|+-.+
T Consensus 75 npd~VLIIGGp~-AVs~~yE~~Lks~GitV~RigG~--nR~-----------------ETa~~v~~~~~~~yp~af~n~k 134 (337)
T COG2247 75 NPDLVLIIGGPI-AVSPNYENALKSLGITVKRIGGA--NRY-----------------ETAEKVAKFFREDYPNAFKNVK 134 (337)
T ss_pred CCceEEEECCCC-cCChhHHHHHHhCCcEEEEecCc--chH-----------------HHHHHHHHHHHhhchhhhcCeE
Confidence 456666776432 33444455566777777655544 211 12334455553 344457
Q ss_pred EEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEE
Q 006683 170 VAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQS 203 (635)
Q Consensus 170 vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~ 203 (635)
++++|.=| | ...+.+.+++ | ++.+.
T Consensus 135 vvvv~GwD-y------~~~~~e~~k~-~-~~p~~ 159 (337)
T COG2247 135 VVVVYGWD-Y------ADALMELMKE-G-IVPVI 159 (337)
T ss_pred EEEEeccc-c------HHHHHHHHhc-C-cceeE
Confidence 77776332 2 3377888887 8 77654
No 291
>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=57.37 E-value=41 Score=32.20 Aligned_cols=79 Identities=10% Similarity=0.078 Sum_probs=49.8
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
+|++|..+ +.|. ..+.+.+++.+++.| +++..... .. + .......++++...+.|.||+.........
T Consensus 1 ~ig~i~p~~~~~~~--~~~~~~~~~~a~~~g-~~~~~~~~---~~---~-~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFW--QAMNKGAEAAAKELG-VELIVLDA---QN---D-VSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHH--HHHHHHHHHHHHhcC-ceEEEECC---CC---C-HHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 46777764 3465 677888889999888 77765321 11 1 133456777777778999887233333334
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..+..+.+.+.
T Consensus 71 ~~~~~l~~~~i 81 (267)
T cd01536 71 PALKKANAAGI 81 (267)
T ss_pred HHHHHHHHCCC
Confidence 46666666554
No 292
>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=57.14 E-value=1.1e+02 Score=27.14 Aligned_cols=42 Identities=17% Similarity=0.340 Sum_probs=32.1
Q ss_pred cCCeEEEEcCCCh--hhHHHHHHhhccCCccEEeecCCCCCCCCCC
Q 006683 95 KEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMS 138 (635)
Q Consensus 95 ~~~v~aiiG~~~s--~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~ 138 (635)
.++++.++|.... .....+..+++..++|+++.... ...+.+
T Consensus 27 AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~--~~~~~~ 70 (162)
T TIGR00315 27 AKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADT--YRALIE 70 (162)
T ss_pred CCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcc--cccccc
Confidence 4899999998654 67788899999999999976644 344444
No 293
>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=56.98 E-value=35 Score=33.27 Aligned_cols=78 Identities=9% Similarity=0.061 Sum_probs=49.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ ++|. ..+...+.+.+++.| ..+.... ... + .......++.+...++|.||+.....+....
T Consensus 2 igv~~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~~---~~~---~-~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~ 71 (282)
T cd06318 2 IGFSQYTLNSPFF--AALTEAAKAHAKALG-YELISTD---AQG---D-LTKQIADVEDLLTRGVNVLIINPVDPEGLVP 71 (282)
T ss_pred eeEEeccccCHHH--HHHHHHHHHHHHHcC-CEEEEEc---CCC---C-HHHHHHHHHHHHHcCCCEEEEecCCccchHH
Confidence 5666643 3455 677888999999999 7765432 111 1 1334567888888899999882333333345
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++.+.+.|+
T Consensus 72 ~i~~~~~~~i 81 (282)
T cd06318 72 AVAAAKAAGV 81 (282)
T ss_pred HHHHHHHCCC
Confidence 6677777665
No 294
>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=56.77 E-value=44 Score=32.22 Aligned_cols=78 Identities=8% Similarity=0.086 Sum_probs=49.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ ++|. ..+.+.+.+.+++.| ..+.... ... + .....+.++++.+.++|.+++..........
T Consensus 2 i~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~i~~---~~~---~-~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFY--IELANAMKEEAKKQK-VNLIVSI---ANQ---D-LNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHH--HHHHHHHHHHHHhcC-CEEEEec---CCC---C-HHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 4555554 3455 677888999999999 7765431 111 1 1345567777777899999883333333455
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++++.+.|+
T Consensus 72 ~~~~~~~~~i 81 (267)
T cd06322 72 AIAKAKKAGI 81 (267)
T ss_pred HHHHHHHCCC
Confidence 6777777665
No 295
>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=56.76 E-value=30 Score=32.96 Aligned_cols=78 Identities=15% Similarity=0.141 Sum_probs=49.4
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
+++++... .+++ ..+.+.+++.+++.| +++..... .. + .....+.++++.+.+++.||+ ........
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~l~~~~~---~~---~-~~~~~~~~~~~~~~~~d~ii~-~~~~~~~~ 69 (264)
T cd01537 1 TIGVLVPDLDNPFF--AQVLKGIEEAAKAAG-YQVLLANS---QN---D-AEKQLSALENLIARGVDGIII-APSDLTAP 69 (264)
T ss_pred CeEEEEcCCCChHH--HHHHHHHHHHHHHcC-CeEEEEeC---CC---C-HHHHHHHHHHHHHcCCCEEEE-ecCCCcch
Confidence 36777765 4566 777888888999999 77654321 11 1 134567777777778998888 44433333
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..+..+.+.++
T Consensus 70 ~~~~~l~~~~i 80 (264)
T cd01537 70 TIVKLARKAGI 80 (264)
T ss_pred hHHHHhhhcCC
Confidence 35666666555
No 296
>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=56.66 E-value=33 Score=33.84 Aligned_cols=80 Identities=8% Similarity=0.175 Sum_probs=48.5
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
||++|..+ ++|. ..+...+.+.+++.| ..+.... .... + .......++.+.+.++|.||+...+.....
T Consensus 1 ~i~~i~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~--~~~~---~-~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWS--NAQVRGAKDEFAKLG-IEVVATT--DAQF---D-PAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHH--HHHHHHHHHHHHHcC-CEEEEec--CCCC---C-HHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 46666644 2344 566777888899999 7765321 1111 1 123446677777778998888233333345
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..++++.+.|+
T Consensus 72 ~~i~~~~~~~i 82 (294)
T cd06316 72 AAYKKVAEAGI 82 (294)
T ss_pred HHHHHHHHcCC
Confidence 67788887775
No 297
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=56.59 E-value=54 Score=33.77 Aligned_cols=77 Identities=8% Similarity=0.077 Sum_probs=52.5
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.+.++.++ +++.+|++...+ ....+.+.+.++..| +.+.+.. +.... ..+...+.++.+++.++|+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~---~~~~~~v~~~l~~~~-~~~~~~~-~~~ep----~~~~v~~~~~~~~~~~~d~ 87 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL---GIVGDRVEASLKEAG-LTVVFEV-FNGEC----SDNEIDRLVAIAEENGCDV 87 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH---HHHHHHHHHHHHhCC-CeEEEEE-eCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 345667788888 898888855443 335677888888888 7764432 43332 1256778888888889999
Q ss_pred EEEecCCh
Q 006683 235 FIVLQASL 242 (635)
Q Consensus 235 ii~~~~~~ 242 (635)
||. .+.+
T Consensus 88 IIa-vGGG 94 (366)
T PRK09423 88 VIG-IGGG 94 (366)
T ss_pred EEE-ecCh
Confidence 987 4443
No 298
>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=55.86 E-value=32 Score=33.73 Aligned_cols=77 Identities=8% Similarity=0.131 Sum_probs=50.3
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecC-ChhHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMT 245 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~-~~~~~ 245 (635)
+|++|..+ ++|. ..+.+.+.+.+++.| ..+.... ... . ......++++...++|.||+ .. +....
T Consensus 1 ~Ig~v~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~---~~~----~-~~~~~~i~~~~~~~~dgiii-~~~~~~~~ 68 (289)
T cd01540 1 KIGFIVKQPEEPWF--QTEWKFAKKAAKEKG-FTVVKID---VPD----G-EKVLSAIDNLGAQGAKGFVI-CVPDVKLG 68 (289)
T ss_pred CeeeecCCCCCcHH--HHHHHHHHHHHHHcC-CEEEEcc---CCC----H-HHHHHHHHHHHHcCCCEEEE-ccCchhhh
Confidence 35666654 3455 667788889999999 7765321 111 1 33456777788888999998 54 33345
Q ss_pred HHHHHHHHHcCC
Q 006683 246 IHLFTEANRMGL 257 (635)
Q Consensus 246 ~~~l~~a~~~g~ 257 (635)
...++++.+.|+
T Consensus 69 ~~~~~~~~~~~i 80 (289)
T cd01540 69 PAIVAKAKAYNM 80 (289)
T ss_pred HHHHHHHHhCCC
Confidence 667788887775
No 299
>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=55.60 E-value=54 Score=33.40 Aligned_cols=76 Identities=18% Similarity=0.191 Sum_probs=49.7
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++ +|+.+|++...+ ....+.+.+.+++.| +.+.....+.... ..+...+..+..++.++|+|
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~---~~~~~~v~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~i 82 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL---AAAKDKIKAALEQSG-IEITDFIWYGGES----TYENVERLKKNPAVQEADMI 82 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH---HHHHHHHHHHHHHCC-CeEEEEEecCCCC----CHHHHHHHHHHHhhcCCCEE
Confidence 44666777777 888888765443 334667888888888 7665333333322 12556777777888899999
Q ss_pred EEecCC
Q 006683 236 IVLQAS 241 (635)
Q Consensus 236 i~~~~~ 241 (635)
|- .+.
T Consensus 83 ia-vGG 87 (345)
T cd08171 83 FA-VGG 87 (345)
T ss_pred EE-eCC
Confidence 97 444
No 300
>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=55.32 E-value=91 Score=26.08 Aligned_cols=63 Identities=10% Similarity=0.058 Sum_probs=42.1
Q ss_pred chHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCCh----hHHHHHHHHHHHcCCC
Q 006683 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL----DMTIHLFTEANRMGLV 258 (635)
Q Consensus 184 ~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~----~~~~~~l~~a~~~g~~ 258 (635)
-....+...++..| .++.+-.. . ......++.+++.++++|.+ ++.. ..+..+++++++.+..
T Consensus 14 lG~~~~~~~l~~~G-~~vi~lG~---~-------vp~e~~~~~a~~~~~d~V~i-S~~~~~~~~~~~~~~~~L~~~~~~ 80 (122)
T cd02071 14 RGAKVIARALRDAG-FEVIYTGL---R-------QTPEEIVEAAIQEDVDVIGL-SSLSGGHMTLFPEVIELLRELGAG 80 (122)
T ss_pred HHHHHHHHHHHHCC-CEEEECCC---C-------CCHHHHHHHHHHcCCCEEEE-cccchhhHHHHHHHHHHHHhcCCC
Confidence 33667777888999 87765432 1 12446777788889999999 6643 4455666677777664
No 301
>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=54.59 E-value=64 Score=33.46 Aligned_cols=77 Identities=14% Similarity=0.244 Sum_probs=50.5
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCC-CCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVY-GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~-g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
..+.+.++.++ +++.+|.+...+ . ....+.+.+.+++.| +++.....+.++. ..+.....++.+++.++|+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~--~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 89 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKK--NGLYDRVIASLKEAG-IEVVELGGVEPNP----RLETVREGIELCKEEKVDF 89 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHh--cCcHHHHHHHHHHcC-CeEEEECCccCCC----CHHHHHHHHHHHHHcCCCE
Confidence 44566777775 888888765332 1 234678899999888 7654322222222 1156778888888899999
Q ss_pred EEEecCC
Q 006683 235 FIVLQAS 241 (635)
Q Consensus 235 ii~~~~~ 241 (635)
||- .+.
T Consensus 90 IIa-iGG 95 (382)
T cd08187 90 ILA-VGG 95 (382)
T ss_pred EEE-eCC
Confidence 997 444
No 302
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=53.86 E-value=49 Score=34.91 Aligned_cols=24 Identities=17% Similarity=0.293 Sum_probs=19.0
Q ss_pred HHHHHHHHhHhcCCCCeEEEEEEe
Q 006683 53 TAMKIAVQNFNSDSRNHKLSLQIR 76 (635)
Q Consensus 53 ~a~~~Av~~iN~~~~g~~l~~~~~ 76 (635)
..++..+++.|+..++++|++...
T Consensus 48 ~~~~~~~~~F~~~~~~i~V~~~~~ 71 (437)
T TIGR03850 48 KMWEEVVEAFEKSHEGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHCCCceEEEEeC
Confidence 456778899999878899988754
No 303
>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=53.75 E-value=1.2e+02 Score=26.21 Aligned_cols=118 Identities=14% Similarity=0.152 Sum_probs=65.0
Q ss_pred EEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+|+++.+.. .........|++.|+++.+-. .....................++.+.++.+||. .+...+..+.
T Consensus 11 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~-~~~~~a~~~~ 84 (160)
T PF13377_consen 11 RIAFIGGPPNSSVSRERLEGFREALKEHGIE-----FEELIFFSDDDSEDAREAQLLWLRRLRPDAIIC-SNDRLALGVL 84 (160)
T ss_dssp SEEEEESSTTSHHHHHHHHHHHHHHHHTTSE-----EEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEE-SSHHHHHHHH
T ss_pred eEEEEecCCCChhHHHHHHHHHHHHHHCCCC-----CCeeEeecCCcchhHHHHHHHHHhcCCCcEEEE-cCHHHHHHHH
Confidence 567777333 344456678888888776543 333333333333333333333443346778887 4445556666
Q ss_pred HhhccCC------ccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH
Q 006683 115 EIASRVQ------VPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (635)
Q Consensus 115 ~~~~~~~------ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~ 163 (635)
..+...+ +.+++.... +. ....+|-+-.+..+....+...+++|.
T Consensus 85 ~~l~~~g~~vP~di~vv~~~~~---~~-~~~~~p~it~i~~~~~~~g~~a~~~l~ 135 (160)
T PF13377_consen 85 RALRELGIRVPQDISVVSFDDS---PL-LEFFSPPITTIDQDPREMGREAVELLL 135 (160)
T ss_dssp HHHHHTTSCTTTTSEEEEESSS---GH-HHCSSSTSEEEEE-HHHHHHHHHHHHH
T ss_pred HHHHHcCCcccccccEEEecCc---HH-HHHHcCCCceecCCHHHHHHHHHHHHH
Confidence 6666554 456766533 22 233345555566677778888887763
No 304
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=53.72 E-value=53 Score=33.37 Aligned_cols=82 Identities=9% Similarity=0.024 Sum_probs=52.6
Q ss_pred CeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhH
Q 006683 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (635)
Q Consensus 167 w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~ 244 (635)
-++|++|..+ ++|. ....+.+.+.+++.| ..+......... + .....+.++.+.+.++|.||+.......
T Consensus 46 t~~Igvv~p~~~~~f~--~~~~~gi~~aa~~~G-~~l~i~~~~~~~----~-~~~q~~~i~~l~~~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 46 AWKLCALYPHLKDSYW--LSVNYGMVEEAKRLG-VDLKVLEAGGYY----N-LAKQQQQLEQCVAWGADAILLGAVTPDG 117 (343)
T ss_pred CeEEEEEecCCCchHH--HHHHHHHHHHHHHhC-CEEEEEcCCCCC----C-HHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 3688888865 3455 667788999999999 777654221111 1 1334567788888899999983434444
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....+ ++.+.|+
T Consensus 118 ~~~~l-~~~~~gi 129 (343)
T PRK10936 118 LNPDL-ELQAANI 129 (343)
T ss_pred hHHHH-HHHHCCC
Confidence 44555 6666665
No 305
>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=53.15 E-value=15 Score=31.52 Aligned_cols=56 Identities=14% Similarity=0.318 Sum_probs=39.0
Q ss_pred HHHHHh-hcCCeEEEEcCCCh--hhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEE
Q 006683 88 AAQELI-NKEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR 146 (635)
Q Consensus 88 ~~~~li-~~~~v~aiiG~~~s--~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r 146 (635)
.+.+++ +.+++.+++|.... .....+.++++..++|++..... ...-+..+|++.-
T Consensus 3 ~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~---kg~i~~~hp~~~G 61 (137)
T PF00205_consen 3 EAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG---KGVIPEDHPLFLG 61 (137)
T ss_dssp HHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG---TTSSTTTSTTEEE
T ss_pred HHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc---ccccCCCCchhcc
Confidence 344444 45899999998766 77899999999999999987655 3333445577654
No 306
>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=53.11 E-value=41 Score=32.61 Aligned_cols=80 Identities=6% Similarity=0.035 Sum_probs=50.3
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
+|++|..+ ++|. ..+...+.+.+++.| ..+..... ... .+ .......++.+.+.++|.||+ .....+..
T Consensus 1 ~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~~~~~~~--~~~--~~-~~~~~~~i~~~~~~~vdgiI~-~~~~~~~~ 71 (268)
T cd06306 1 KLCVLYPHLKDAYW--LSVNYGMVEEAKRLG-VSLKLLEA--GGY--PN-LAKQIAQLEDCAAWGADAILL-GAVSPDGL 71 (268)
T ss_pred CeEEEcCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEecC--CCC--CC-HHHHHHHHHHHHHcCCCEEEE-cCCChhhH
Confidence 46777754 4566 677888999999999 77765321 111 01 133456777777889999998 54333322
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..+..+.+.|+
T Consensus 72 ~~~~~~~~~gi 82 (268)
T cd06306 72 NEILQQVAASI 82 (268)
T ss_pred HHHHHHHHCCC
Confidence 25677777776
No 307
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=52.80 E-value=69 Score=30.83 Aligned_cols=75 Identities=12% Similarity=0.148 Sum_probs=46.8
Q ss_pred EEEEEEc-----CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhH
Q 006683 170 VAAIYED-----NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (635)
Q Consensus 170 vaii~~~-----~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~ 244 (635)
|+++..+ ++|. ..+.+.+.+.+++.| .++..... .... ......++.+.+.++|.|++ ......
T Consensus 2 vgv~~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~-~~~~------~~~~~~~~~l~~~~vdgiii-~~~~~~ 70 (268)
T cd06277 2 IGLIASKRILNSPAFY--SEIYRAIEEEAKKYG-YNLILKFV-SDED------EEEFELPSFLEDGKVDGIIL-LGGIST 70 (268)
T ss_pred eEEEEeccccccCCcH--HHHHHHHHHHHHHcC-CEEEEEeC-CCCh------HHHHHHHHHHHHCCCCEEEE-eCCCCh
Confidence 5666655 5566 777888999999999 77665421 1111 23345556677778999998 443322
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
..+..+.+.+.
T Consensus 71 --~~~~~l~~~~i 81 (268)
T cd06277 71 --EYIKEIKELGI 81 (268)
T ss_pred --HHHHHHhhcCC
Confidence 23666666665
No 308
>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=52.63 E-value=49 Score=29.49 Aligned_cols=69 Identities=9% Similarity=0.081 Sum_probs=45.7
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.+++.++.++. +.+ +.+.. +....+...|.+|++|+++...... .+.+ .+.|+....+.++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~~~ 82 (196)
T cd08415 13 SLLPRAIARFRARHPDVR--ISLHT--LSSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRAVCVLPPGH 82 (196)
T ss_pred cccHHHHHHHHHHCCCcE--EEEEe--cchHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccceEEEEcCCC
Confidence 34568888888765 555 44443 2356799999999999998643222 2222 355777788888887654
No 309
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=52.42 E-value=53 Score=31.57 Aligned_cols=77 Identities=16% Similarity=0.143 Sum_probs=48.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ ++|. ..+.+.+.+.+++.| .++... .... + ...-...++++.+.++|.|++ .........
T Consensus 2 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~---~~~~---~-~~~~~~~i~~~~~~~vdgiii-~~~~~~~~~ 70 (268)
T cd06289 2 IGLVINDLTNPFF--AELAAGLEEVLEEAG-YTVFLA---NSGE---D-VERQEQLLSTMLEHGVAGIIL-CPAAGTSPD 70 (268)
T ss_pred EEEEecCCCcchH--HHHHHHHHHHHHHcC-CeEEEe---cCCC---C-hHHHHHHHHHHHHcCCCEEEE-eCCCCccHH
Confidence 5666653 4455 667788888889988 776432 1111 1 133456778888888999988 443333334
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++.+.+.|+
T Consensus 71 ~~~~~~~~~i 80 (268)
T cd06289 71 LLKRLAESGI 80 (268)
T ss_pred HHHHHHhcCC
Confidence 6677777665
No 310
>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=52.15 E-value=54 Score=31.57 Aligned_cols=78 Identities=13% Similarity=0.105 Sum_probs=46.9
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ ++|. ..+.+.+.+.+++.| ..+..... .... .......++.+...++|.||+ .........
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~~~-----~~~~~~~~~~l~~~~vdgiii-~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYV--SEIQLGALDACRDTG-YQLVIEPC-DSGS-----PDLAERVRALLQRSRVDGVIL-TPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccH--HHHHHHHHHHHHhCC-CeEEEEeC-CCCc-----hHHHHHHHHHHHHCCCCEEEE-eCCCCCccH
Confidence 5666644 3566 777888999999999 77664421 1111 123445566676778898888 432222345
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++.+.+.++
T Consensus 72 ~~~~~~~~~i 81 (270)
T cd01545 72 LLDLLDEAGV 81 (270)
T ss_pred HHHHHHhcCC
Confidence 5666666664
No 311
>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=52.14 E-value=71 Score=32.87 Aligned_cols=75 Identities=9% Similarity=0.083 Sum_probs=49.3
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++.+++.+|++...+ ..+.+.+.+++.| +.+.....+.+.. ..+...+.++.+++.++|+|
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~-----~~~~~~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~I 81 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA-----IASGLTDILKPLG-TLVVVFDDVQPNP----DLEDLAAGIRLLREFGPDAV 81 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH-----HHHHHHHHHHHcC-CeEEEEcCcCCCc----CHHHHHHHHHHHHhcCcCEE
Confidence 456677888888999999855432 2456777788877 6654322232222 11557778888888899999
Q ss_pred EEecCC
Q 006683 236 IVLQAS 241 (635)
Q Consensus 236 i~~~~~ 241 (635)
|- .+.
T Consensus 82 Ia-vGG 86 (367)
T cd08182 82 LA-VGG 86 (367)
T ss_pred EE-eCC
Confidence 87 443
No 312
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=51.87 E-value=91 Score=27.35 Aligned_cols=105 Identities=19% Similarity=0.237 Sum_probs=65.8
Q ss_pred cHHHHHHHHHHHHhHhcCC-CCeEEEEEEec--CCCCHHHHHHHHHHHhhcCCeEEEEcCCC-hhhHHHHHHhhccCCcc
Q 006683 48 GKQAITAMKIAVQNFNSDS-RNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAGMET-WEETAVVAEIASRVQVP 123 (635)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~-~g~~l~~~~~D--~~~~~~~a~~~~~~li~~~~v~aiiG~~~-s~~~~~v~~~~~~~~ip 123 (635)
|.+..+-+.-|+.+..+.. .|-+|.+.... ..-+-.+|+++..+|- +-++.++-|... ...+.++..+-++++||
T Consensus 92 GAqVsqVA~GAIsEADRHNiRGERISvDTiPlVGEE~laEAVkAV~rLp-Rv~iLVLAGslMGGkIteaVk~lr~~hgI~ 170 (218)
T COG1707 92 GAQVSQVARGAISEADRHNIRGERISVDTIPLVGEEELAEAVKAVARLP-RVGILVLAGSLMGGKITEAVKELREEHGIP 170 (218)
T ss_pred chhHHHHHHhhcchhhhcccccceeeeecccccChHHHHHHHHHHhccc-cceeEEEecccccchHHHHHHHHHHhcCCe
Confidence 4455555666666665554 35555554443 2345567788888776 778888888754 46788888888999999
Q ss_pred EEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHH
Q 006683 124 ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADL 161 (635)
Q Consensus 124 ~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~ 161 (635)
+||..-. -+. |-+--++-+|..|+..++-+
T Consensus 171 VISL~M~---GSV-----pdVADlVvtDPvqAGvlaVM 200 (218)
T COG1707 171 VISLNMF---GSV-----PDVADLVVTDPVQAGVLAVM 200 (218)
T ss_pred EEEeccC---CCC-----cchhheeecCchHhhhhhhh
Confidence 9997644 111 22233445555566655443
No 313
>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=51.74 E-value=60 Score=31.40 Aligned_cols=81 Identities=11% Similarity=0.102 Sum_probs=48.5
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhcc---CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~---g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~ 243 (635)
||+++..+ ++|- ..+.+.+.+.+++. | .++..... .... | .......++++...++|.||+...+..
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~~i~~~~~~~~~~g-~~~~l~i~-~~~~---~-~~~~~~~~~~~~~~~vdgiIi~~~~~~ 72 (272)
T cd06300 1 KIGLSNSYAGNTWR--AQMLDEFKAQAKELKKAG-LISEFIVT-SADG---D-VAQQIADIRNLIAQGVDAIIINPASPT 72 (272)
T ss_pred CeEEeccccCChHH--HHHHHHHHHHHHhhhccC-CeeEEEEe-cCCC---C-HHHHHHHHHHHHHcCCCEEEEeCCChh
Confidence 46666643 2344 56777888888888 8 64332221 1111 1 144567888888889999998333333
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
.....+..+.+.|.
T Consensus 73 ~~~~~l~~~~~~~i 86 (272)
T cd06300 73 ALNPVIEEACEAGI 86 (272)
T ss_pred hhHHHHHHHHHCCC
Confidence 34456677777665
No 314
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=51.53 E-value=2.5e+02 Score=29.88 Aligned_cols=90 Identities=16% Similarity=0.127 Sum_probs=54.1
Q ss_pred EEEEEeeCCC----cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEcCCCh-hh
Q 006683 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETW-EE 109 (635)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~-~~~~a~~~~~~li~~~~v~aiiG~~~s-~~ 109 (635)
+||++.-... ..........+..++.+|..+ ++++..+.-. ++..+.+++.++- .+++++||-...+ ..
T Consensus 2 ~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~vv~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~tf~~ 76 (452)
T cd00578 2 KIGFVTGSQHLYGEELLEQVEEYAREVADLLNELP----VEVVDKPEVTGTPDEARKAAEEFN-EANCDGLIVWMHTFGP 76 (452)
T ss_pred EEEEEEecccccChhHHHHHHHHHHHHHHHHhcCC----ceEEecCcccCCHHHHHHHHHHHh-hcCCcEEEEccccccc
Confidence 5665554433 112244555666667777652 4555555444 6655555555444 5678877765444 33
Q ss_pred HHHHHHhhccCCccEEeecCC
Q 006683 110 TAVVAEIASRVQVPILSFAAP 130 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is~~~~ 130 (635)
...+...+...++|++-++..
T Consensus 77 ~~~~~~~~~~~~~Pvll~a~~ 97 (452)
T cd00578 77 AKMWIAGLSELRKPVLLLATQ 97 (452)
T ss_pred HHHHHHHHHhcCCCEEEEeCC
Confidence 455677778899999988766
No 315
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=51.30 E-value=1.4e+02 Score=30.07 Aligned_cols=88 Identities=14% Similarity=0.148 Sum_probs=51.1
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC--C--CHHHHHHHHHHHhhcC----CeEE--EE
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--R--DPFQAATAAQELINKE----KVKV--IA 102 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~--~~~~a~~~~~~li~~~----~v~a--ii 102 (635)
-+-+||+|.+.++. |+..-+..++...|.. ++.++.+. + -+...+++..++- .. ++++ |+
T Consensus 13 ~p~~I~vITs~~gA-------a~~D~~~~~~~r~~~~--~~~~~p~~vQG~~A~~~I~~al~~~~-~~~~~~~~Dviii~ 82 (319)
T PF02601_consen 13 FPKRIAVITSPTGA-------AIQDFLRTLKRRNPIV--EIILYPASVQGEGAAASIVSALRKAN-EMGQADDFDVIIII 82 (319)
T ss_pred CCCEEEEEeCCchH-------HHHHHHHHHHHhCCCc--EEEEEeccccccchHHHHHHHHHHHH-hccccccccEEEEe
Confidence 46799999999853 5555566666665544 44445432 2 2333333333332 22 2443 33
Q ss_pred -cCCChh-----hHHHHHHhhccCCccEEeecCC
Q 006683 103 -GMETWE-----ETAVVAEIASRVQVPILSFAAP 130 (635)
Q Consensus 103 -G~~~s~-----~~~~v~~~~~~~~ip~Is~~~~ 130 (635)
|+++-+ ....++.......+|+||.-+.
T Consensus 83 RGGGs~eDL~~FN~e~varai~~~~~PvisaIGH 116 (319)
T PF02601_consen 83 RGGGSIEDLWAFNDEEVARAIAASPIPVISAIGH 116 (319)
T ss_pred cCCCChHHhcccChHHHHHHHHhCCCCEEEecCC
Confidence 444322 3466777777889999998877
No 316
>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=51.11 E-value=57 Score=31.29 Aligned_cols=78 Identities=9% Similarity=-0.014 Sum_probs=48.6
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ ++|. ..+.+.+.+.+++.| ..+..... ..+. ....+.++++...++|.||+..+.. ....
T Consensus 2 igvv~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~-~~~~------~~~~~~~~~l~~~~vdgiii~~~~~-~~~~ 70 (266)
T cd06282 2 VGVVLPSLANPVF--AECVQGIQEEARAAG-YSLLLATT-DYDA------EREADAVETLLRQRVDGLILTVADA-ATSP 70 (266)
T ss_pred eEEEeCCCCcchH--HHHHHHHHHHHHHCC-CEEEEeeC-CCCH------HHHHHHHHHHHhcCCCEEEEecCCC-CchH
Confidence 4566643 3455 677788889999999 77765321 1111 3345677777777899998823333 2234
Q ss_pred HHHHHHHcCCC
Q 006683 248 LFTEANRMGLV 258 (635)
Q Consensus 248 ~l~~a~~~g~~ 258 (635)
.++.+.+.|+.
T Consensus 71 ~~~~~~~~~ip 81 (266)
T cd06282 71 ALDLLDAERVP 81 (266)
T ss_pred HHHHHhhCCCC
Confidence 66777777753
No 317
>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=51.08 E-value=57 Score=31.62 Aligned_cols=80 Identities=8% Similarity=0.110 Sum_probs=48.8
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC-hhHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMT 245 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~-~~~~ 245 (635)
++++|..+ ++|. ..+.+.+.+.+++.| ..+..... +... + ...-.+.++++...+++.||+ ... ....
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~~~---~-~~~~~~~i~~l~~~~vdgiIi-~~~~~~~~ 71 (275)
T cd06320 1 KYGVVLKTLSNEFW--RSLKEGYENEAKKLG-VSVDIQAA-PSEG---D-QQGQLSIAENMINKGYKGLLF-SPISDVNL 71 (275)
T ss_pred CeeEEEecCCCHHH--HHHHHHHHHHHHHhC-CeEEEEcc-CCCC---C-HHHHHHHHHHHHHhCCCEEEE-CCCChHHh
Confidence 35666653 3455 677788889999999 77664321 1111 1 123446677777778998887 443 3334
Q ss_pred HHHHHHHHHcCC
Q 006683 246 IHLFTEANRMGL 257 (635)
Q Consensus 246 ~~~l~~a~~~g~ 257 (635)
...++.+.+.+.
T Consensus 72 ~~~~~~~~~~~i 83 (275)
T cd06320 72 VPAVERAKKKGI 83 (275)
T ss_pred HHHHHHHHHCCC
Confidence 455677777665
No 318
>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=50.86 E-value=31 Score=32.24 Aligned_cols=80 Identities=11% Similarity=0.083 Sum_probs=46.5
Q ss_pred eeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcC-cccEEEeccccccccc---cccccccc--ceeeeeEEEEeC
Q 006683 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK-TYDAAVGDLTILGNRT---EYVEFTQP--YAESGFSMIVPA 563 (635)
Q Consensus 490 ~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g-~~D~~~~~~~~~~~r~---~~~~fs~p--~~~~~~~~~v~~ 563 (635)
..-++++++.++.|++++++.-. -..++..+.+| ++|+.++.=....++. ..++-..+ |....+++++++
T Consensus 7 ~~~~~~~~f~~~~gi~V~~~~~g----s~~l~~~l~~~~~aDv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~l~~~~ 82 (216)
T TIGR01256 7 ALKEIAKQFEKRTGNKVVFSFGS----SGTLYTQIENGAPADLFISADNKWPKKLVDKGLVVAGSRFTYAGNKLVLISPK 82 (216)
T ss_pred HHHHHHHHHHHhhCCeEEEEeCC----hHHHHHHHHcCCCCcEEEECCHHHHHHHHHCCCCCCCchheEEccEEEEEEEC
Confidence 34577888888889875554322 34577778776 4999887533222221 22222223 666677888877
Q ss_pred CCCCCcceee
Q 006683 564 KQEESTWMFT 573 (635)
Q Consensus 564 ~~~~~~~~~l 573 (635)
+...+.|..|
T Consensus 83 ~~~~~s~~dL 92 (216)
T TIGR01256 83 NRVVDDLDIL 92 (216)
T ss_pred CCCcCcHHHH
Confidence 6433334333
No 319
>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=50.51 E-value=76 Score=32.91 Aligned_cols=76 Identities=16% Similarity=0.168 Sum_probs=49.4
Q ss_pred HHHHHHHHHC---CCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCc
Q 006683 156 KCIADLARKY---NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (635)
Q Consensus 156 ~al~~~l~~~---~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~ 232 (635)
..+.++++.+ |.+++.+|++...... ....+.+.+.+++.| +.+.....+.+.. ..+.....++.+++.++
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~-~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~ 85 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKK-SGAWDKVEPALDEHG-IEYVLYNKVTPNP----TVDQVDEAAKLGREFGA 85 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhh-cChHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHHcCC
Confidence 4456667766 7789998886543210 234678888999888 7654221122221 12567788888888899
Q ss_pred eEEEE
Q 006683 233 RVFIV 237 (635)
Q Consensus 233 ~vii~ 237 (635)
|+||.
T Consensus 86 D~IIa 90 (383)
T cd08186 86 QAVIA 90 (383)
T ss_pred CEEEE
Confidence 99987
No 320
>PRK09701 D-allose transporter subunit; Provisional
Probab=50.05 E-value=69 Score=31.94 Aligned_cols=86 Identities=9% Similarity=0.072 Sum_probs=54.6
Q ss_pred HCCCeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC
Q 006683 164 KYNWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS 241 (635)
Q Consensus 164 ~~~w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~ 241 (635)
.+--..|++|..+ ++|. ..+.+.+.+.+++.| ..+..... +... + .......++.+...++|.||+....
T Consensus 21 ~~~~~~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~v~~~~~-~~~~---~-~~~~~~~i~~l~~~~vDgiIi~~~~ 92 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFW--VDMKKGIEDEAKTLG-VSVDIFAS-PSEG---D-FQSQLQLFEDLSNKNYKGIAFAPLS 92 (311)
T ss_pred hccCCeEEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CeEEEecC-CCCC---C-HHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 3455689999864 4466 677888999999999 77764311 1111 1 1344567778888889999983333
Q ss_pred hhHHHHHHHHHHHcCC
Q 006683 242 LDMTIHLFTEANRMGL 257 (635)
Q Consensus 242 ~~~~~~~l~~a~~~g~ 257 (635)
.......+.++.+.|+
T Consensus 93 ~~~~~~~l~~~~~~gi 108 (311)
T PRK09701 93 SVNLVMPVARAWKKGI 108 (311)
T ss_pred hHHHHHHHHHHHHCCC
Confidence 3334445666677665
No 321
>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=49.92 E-value=1.3e+02 Score=26.49 Aligned_cols=81 Identities=9% Similarity=0.075 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
.++.+..+.++++.+++.++-+.-. . ..+.+.+.+.+.-.| +++..... .+..+.+++-+..+.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A-~--D~~~k~~lkma~P~g-vk~~i~sv-----------e~a~~~l~~~~~~~~~ 77 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVNDDVA-N--DEVRQTLMGIVAPTG-FKVRFVSL-----------EKTINVIHKPAYHDQT 77 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEccccc-C--CHHHHHHHHhhCCCC-CEEEEEEH-----------HHHHHHHhCcCCCCce
Confidence 4677788899999999888865544 3 556677776666677 77664321 3455666655555678
Q ss_pred EEEEecCChhHHHHHHH
Q 006683 234 VFIVLQASLDMTIHLFT 250 (635)
Q Consensus 234 vii~~~~~~~~~~~~l~ 250 (635)
++++ .-++.++..+++
T Consensus 78 v~vl-~k~~~da~~l~~ 93 (151)
T TIGR00854 78 IFLL-FRNPQDVLTLVE 93 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999999888754
No 322
>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=49.91 E-value=1.1e+02 Score=27.35 Aligned_cols=67 Identities=12% Similarity=0.156 Sum_probs=43.7
Q ss_pred CeEEEEEEEcCCCCCC-cchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh-cCceEEEEecCC
Q 006683 167 WRRVAAIYEDNVYGGD-SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIVLQAS 241 (635)
Q Consensus 167 w~~vaii~~~~~~g~~-~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~-~~~~vii~~~~~ 241 (635)
.-++++|...|.-+.. ......+...+++.| ..+.....++.+. ..+.+.+++..+ .++|+|+. .+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G-~~v~~~~iv~Dd~------~~i~~~l~~~~~~~~~DlVIt-tGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAG-HRLADRAIVKDDI------YQIRAQVSAWIADPDVQVILI-TGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCC-CeEEEEEEcCCCH------HHHHHHHHHHHhcCCCCEEEE-CCC
Confidence 3578887766632200 222456777889999 8887766665443 667777777643 57999998 554
No 323
>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=49.89 E-value=85 Score=30.86 Aligned_cols=87 Identities=16% Similarity=0.132 Sum_probs=41.6
Q ss_pred CCchhHHHHHHHHHHHHhccccccccCCCCCCCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCC
Q 006683 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (635)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~ 80 (635)
|+|++++...++ +.+.+|+..+++. +.+++||+..+.+.. .....++.-.+++.+.. |.++++....+
T Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~~----~~~l~vg~~~~~~~~---~~~~~~~~l~~~l~~~~-g~~v~~~~~~~-- 68 (288)
T TIGR03431 1 MLRRLILSLVAA--FMLISSNAQAEDW----PKELNFGIIPTENAS---DLKQRWEPLADYLSKKL-GVKVKLFFATD-- 68 (288)
T ss_pred ChhhHHHHHHHH--HHHHhcchhhhcC----CCeEEEEEcCCCCHH---HHHHHHHHHHHHHHHHh-CCcEEEEeCCC--
Confidence 666654443332 3344444332222 367999997765432 11222222223344332 56777654432
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcC
Q 006683 81 DPFQAATAAQELINKEKVKVIAGM 104 (635)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~ 104 (635)
. ....+.+...++++++..
T Consensus 69 -~----~~~~~al~~g~~D~~~~~ 87 (288)
T TIGR03431 69 -Y----AGVIEGMRFGKVDIAWYG 87 (288)
T ss_pred -H----HHHHHHHHcCCccEEEEC
Confidence 1 223344436788888743
No 324
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=49.21 E-value=34 Score=31.04 Aligned_cols=30 Identities=17% Similarity=0.285 Sum_probs=25.8
Q ss_pred EEEEcCCChhhHHHHHHhhccCCccEEeec
Q 006683 99 KVIAGMETWEETAVVAEIASRVQVPILSFA 128 (635)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~ 128 (635)
++|+||..+.=+.....+++.+++|+|+.+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstg 32 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTG 32 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHh
Confidence 579999999888888888888999999854
No 325
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=49.18 E-value=1.9e+02 Score=27.91 Aligned_cols=126 Identities=11% Similarity=0.198 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhh-cCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHH
Q 006683 83 FQAATAAQELIN-KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADL 161 (635)
Q Consensus 83 ~~a~~~~~~li~-~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~ 161 (635)
..-+....+.+. +.++.+|+=+..+.++.....+-+..++|+|+.. -.++-..
T Consensus 46 ~~~~~~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~ii--------------------------e~~v~~a 99 (251)
T TIGR00067 46 LEYVLELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVI--------------------------EPAIKAA 99 (251)
T ss_pred HHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeec--------------------------HHHHHHH
Q ss_pred HHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEE-------eeeCCCCCCCC--chHHHHHHHHhhhhcCc
Q 006683 162 ARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSR-------LVLPPISSISD--PKEAVRGELKKVQDKQS 232 (635)
Q Consensus 162 l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~-------~~~~~~~~~~d--~~~~~~~~l~~l~~~~~ 232 (635)
.+.-.-++|+++......- ...+++.+++.| ..+... ...-......+ ....+...++.+++.++
T Consensus 100 ~~~~~~~~IgvLAT~~Ti~-----s~~y~~~i~~~~-~~~~v~~~~~~~lv~~Ie~g~~~~~~~~~~l~~~l~~l~~~~~ 173 (251)
T TIGR00067 100 IRLTANGRVLVIATNATIK-----SNAYHEALKEIA-NDLLVEMLACPELVPLAEAGLLGEDYALECLKRYLRPLLDTLP 173 (251)
T ss_pred HHhCCCCeEEEEeCHHHHh-----hhHHHHHHHHhC-CCCEEEecCCHHHHHHHHcCCcCCHHHHHHHHHHHHHHhcCCC
Q ss_pred eEEEEecCC
Q 006683 233 RVFIVLQAS 241 (635)
Q Consensus 233 ~vii~~~~~ 241 (635)
|.||+ .|.
T Consensus 174 d~lIL-GCT 181 (251)
T TIGR00067 174 DTVVL-GCT 181 (251)
T ss_pred CEEEE-CcC
No 326
>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=48.66 E-value=40 Score=34.26 Aligned_cols=73 Identities=10% Similarity=0.071 Sum_probs=47.8
Q ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 155 ~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
...+.++++.++.+++.+|++...+ +...+.+.+.+++.+ ..+ +. .+.+.. ..+...+.++.+++.++|.
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~---~~~~~~v~~~l~~~~-~~~-~~-~~~~~p----~~~~v~~~~~~~~~~~~d~ 80 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLA---TKLAERVASALGDRV-AGT-FD-GAVMHT----PVEVTEAAVAAAREAGADG 80 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHH---HHHHHHHHHHhccCC-cEE-eC-CCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 3557788899999999988865544 235666777777665 432 21 111111 1246777888888889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||.
T Consensus 81 IIa 83 (337)
T cd08177 81 IVA 83 (337)
T ss_pred EEE
Confidence 987
No 327
>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=48.43 E-value=54 Score=31.75 Aligned_cols=78 Identities=12% Similarity=0.095 Sum_probs=47.7
Q ss_pred EEEEEE-cCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHH
Q 006683 170 VAAIYE-DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHL 248 (635)
Q Consensus 170 vaii~~-~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~ 248 (635)
|++|.. .++|. ..+...+.+.+++.| ..+.... +... + .......++.+...++|.+|+...........
T Consensus 2 i~~v~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~--~~~~---~-~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 72 (271)
T cd06314 2 IAVVTNGASPFW--KIAEAGVKAAGKELG-VDVEFVV--PQQG---T-VNAQLRMLEDLIAEGVDGIAISPIDPKAVIPA 72 (271)
T ss_pred eEEEcCCCcHHH--HHHHHHHHHHHHHcC-CeEEEeC--CCCC---C-HHHHHHHHHHHHhcCCCEEEEecCChhHhHHH
Confidence 455553 23455 677888889999999 7766431 1111 1 13345677778888999998833333334566
Q ss_pred HHHHHHcCC
Q 006683 249 FTEANRMGL 257 (635)
Q Consensus 249 l~~a~~~g~ 257 (635)
++++.+ +.
T Consensus 73 l~~~~~-~i 80 (271)
T cd06314 73 LNKAAA-GI 80 (271)
T ss_pred HHHHhc-CC
Confidence 666655 54
No 328
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=48.02 E-value=27 Score=34.66 Aligned_cols=45 Identities=13% Similarity=0.033 Sum_probs=36.4
Q ss_pred cceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEec
Q 006683 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGD 535 (635)
Q Consensus 488 ~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 535 (635)
...-.-|.+.|.+.+|+++++...+ ++.++++.+..|++|++..+
T Consensus 51 ~~~~~pl~~~L~~~lG~~V~~~~a~---dy~~vieal~~g~~D~A~~~ 95 (299)
T COG3221 51 IPAWAPLADYLEKELGIPVEFFVAT---DYAAVIEALRAGQVDIAWLG 95 (299)
T ss_pred HHHHHHHHHHHHHHhCCceEEEecc---cHHHHHHHHhCCCeeEEecC
Confidence 3344567799999999997777766 48999999999999987654
No 329
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=47.85 E-value=1.4e+02 Score=26.39 Aligned_cols=80 Identities=8% Similarity=-0.007 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh-ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCc
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ-NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~-~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~ 232 (635)
.++.+..++++++.+++.++-+.-. . ..+.+.+.+.+. -.| +++.... . .+..+.+++ +..+-
T Consensus 17 HGQV~~~W~~~~~~~~IiVvdD~vA-~--D~~~k~~lkma~~P~g-vk~~i~s---v--------~~a~~~l~~-~~~~~ 80 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVDDVVA-N--DDIQQKLMGITAETYG-FGIRFFT---I--------EKTINVIGK-AAPHQ 80 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEcchhc-C--CHHHHHHHHhcCCCCC-CEEEEEE---H--------HHHHHHHHh-ccCCc
Confidence 5777888999999999988865544 3 455666665554 467 6766332 1 345566666 55566
Q ss_pred eEEEEecCChhHHHHHHH
Q 006683 233 RVFIVLQASLDMTIHLFT 250 (635)
Q Consensus 233 ~vii~~~~~~~~~~~~l~ 250 (635)
+++++ .-++.++..+++
T Consensus 81 ~vlvl-~~~~~da~~l~~ 97 (158)
T PRK09756 81 KIFLI-CRTPQTVRKLVE 97 (158)
T ss_pred eEEEE-ECCHHHHHHHHH
Confidence 78888 999999888755
No 330
>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=47.76 E-value=97 Score=30.18 Aligned_cols=79 Identities=10% Similarity=0.021 Sum_probs=50.2
Q ss_pred eEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC-hhH
Q 006683 168 RRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDM 244 (635)
Q Consensus 168 ~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~-~~~ 244 (635)
++|++|..+ ++|. ..+.+.+.+.+++.| ..+.... ... + .+...+.++.+...++|.||+ ... ...
T Consensus 1 ~~ig~i~~~~~~~~~--~~~~~gi~~~a~~~g-y~~~~~~---~~~---~-~~~~~~~i~~l~~~~vdgiil-~~~~~~~ 69 (280)
T cd06315 1 KNIIFVASDLKNGGI--LGVGEGVREAAKAIG-WNLRILD---GRG---S-EAGQAAALNQAIALKPDGIVL-GGVDAAE 69 (280)
T ss_pred CeEEEEecccCCcHH--HHHHHHHHHHHHHcC-cEEEEEC---CCC---C-HHHHHHHHHHHHHcCCCEEEE-cCCCHHH
Confidence 467777765 3454 567788889999999 7765432 111 1 134557888888889999999 543 232
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....++.+.+.++
T Consensus 70 ~~~~~~~~~~~~i 82 (280)
T cd06315 70 LQAELELAQKAGI 82 (280)
T ss_pred HHHHHHHHHHCCC
Confidence 2344566666554
No 331
>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=47.61 E-value=61 Score=29.29 Aligned_cols=70 Identities=14% Similarity=0.114 Sum_probs=44.6
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.++++++.++. +.+ +.+.. ++...++..|.+|++|+++..-. . ....+. +.+.....+.++++++.+
T Consensus 14 ~~l~~~l~~f~~~~P~v~--i~i~~--~~~~~l~~~l~~g~~D~~~~~~~--~-~~~~~~-~~~l~~~~~~lv~~~~h~ 84 (198)
T cd08486 14 RSLPLLLRAFLTSTPTAT--VSLTH--MTKDEQVEGLLAGTIHVGFSRFF--P-RHPGIE-IVNIAQEDLYLAVHRSQS 84 (198)
T ss_pred HHHHHHHHHHHHhCCCeE--EEEEE--CCHHHHHHHHHcCCceEEEecCC--C-CCCceE-EEEEeeccEEEEecCCCc
Confidence 34467778887765 555 44333 24788999999999999885321 1 122232 346667788888876543
No 332
>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=47.60 E-value=74 Score=29.37 Aligned_cols=75 Identities=20% Similarity=0.188 Sum_probs=46.5
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..++..++.. -++|+++..|.-. .+..+.++...+..| +.+.... .. .|+.......+++.++.+.|+|
T Consensus 19 aKLAa~~~~~-~~~v~lis~D~~R---~ga~eQL~~~a~~l~-vp~~~~~---~~---~~~~~~~~~~l~~~~~~~~D~v 87 (196)
T PF00448_consen 19 AKLAARLKLK-GKKVALISADTYR---IGAVEQLKTYAEILG-VPFYVAR---TE---SDPAEIAREALEKFRKKGYDLV 87 (196)
T ss_dssp HHHHHHHHHT-T--EEEEEESTSS---THHHHHHHHHHHHHT-EEEEESS---TT---SCHHHHHHHHHHHHHHTTSSEE
T ss_pred HHHHHHHhhc-cccceeecCCCCC---ccHHHHHHHHHHHhc-cccchhh---cc---hhhHHHHHHHHHHHhhcCCCEE
Confidence 3445555444 6789999987543 566788899999888 6654321 11 1222345567778877789999
Q ss_pred EEecCCh
Q 006683 236 IVLQASL 242 (635)
Q Consensus 236 i~~~~~~ 242 (635)
++ ...+
T Consensus 88 lI-DT~G 93 (196)
T PF00448_consen 88 LI-DTAG 93 (196)
T ss_dssp EE-EE-S
T ss_pred EE-ecCC
Confidence 99 7664
No 333
>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=47.55 E-value=75 Score=30.76 Aligned_cols=81 Identities=14% Similarity=0.103 Sum_probs=48.6
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeee-CCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVL-PPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~-~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (635)
+|+++..+ ++|. ..+.+.+.+.+++.| ..+...... .... +. ......++.+.. ++|.+++........
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~~---~~-~~~~~~i~~~~~-~vdgiii~~~~~~~~ 72 (275)
T cd06307 1 RLGFLLPKGSNAFY--RELAAALEAAAAAFP-DARIRVRIHFVESF---DP-AALAAALLRLGA-RSDGVALVAPDHPQV 72 (275)
T ss_pred CeEEEeCCCCChHH--HHHHHHHHHHHhhhh-ccCceEEEEEccCC---CH-HHHHHHHHHHHh-cCCEEEEeCCCcHHH
Confidence 46777755 3455 667788888888887 543332221 1111 11 334567777777 899888833333444
Q ss_pred HHHHHHHHHcCC
Q 006683 246 IHLFTEANRMGL 257 (635)
Q Consensus 246 ~~~l~~a~~~g~ 257 (635)
...++++.+.|.
T Consensus 73 ~~~i~~~~~~~i 84 (275)
T cd06307 73 RAAVARLAAAGV 84 (275)
T ss_pred HHHHHHHHHCCC
Confidence 567788877665
No 334
>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=47.54 E-value=31 Score=32.62 Aligned_cols=77 Identities=16% Similarity=0.104 Sum_probs=54.4
Q ss_pred cccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcC-cccEEEeccccccccc---cccc--ccccceeeeeEE
Q 006683 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK-TYDAAVGDLTILGNRT---EYVE--FTQPYAESGFSM 559 (635)
Q Consensus 486 ~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g-~~D~~~~~~~~~~~r~---~~~~--fs~p~~~~~~~~ 559 (635)
.+.+..-++++.+.++.|++++++..+ -..+...|..| ++|+.+..-....++. ..+. -..|+..+.+++
T Consensus 8 ~~~~~~~~l~~~f~~~~g~~v~v~~~~----s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~vl 83 (230)
T PF13531_consen 8 GLAPALEELAEAFEKQPGIKVEVSFGG----SGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSPLVL 83 (230)
T ss_dssp GGHHHHHHHHHHHHHHHCEEEEEEEEC----HHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEEEEE
T ss_pred cHHHHHHHHHHHHHhccCCeEEEEECC----hHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCceEE
Confidence 355666789999988999887777665 45688888776 8999887643332322 2333 456899999999
Q ss_pred EEeCCCC
Q 006683 560 IVPAKQE 566 (635)
Q Consensus 560 ~v~~~~~ 566 (635)
+++++.+
T Consensus 84 ~~~~~~~ 90 (230)
T PF13531_consen 84 AVPKGNP 90 (230)
T ss_dssp EEETTST
T ss_pred EeccCcc
Confidence 9999875
No 335
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=47.49 E-value=20 Score=33.79 Aligned_cols=92 Identities=17% Similarity=0.240 Sum_probs=55.5
Q ss_pred cccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecccc-------cccccccccccccceeeeeE
Q 006683 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTI-------LGNRTEYVEFTQPYAESGFS 558 (635)
Q Consensus 486 ~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~-------~~~r~~~~~fs~p~~~~~~~ 558 (635)
+|+|+..-|.+.+.+ .++.+.+-++. | =..-+..|.+|++|+|+.+-.- ..+.+-.++|..--+.+.-+
T Consensus 25 ~YEGLATGl~~~f~~-~~ip~~~aymR--G-a~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~~sYvs~Hv 100 (232)
T PF14503_consen 25 RYEGLATGLYEQFEE-SGIPLNFAYMR--G-AENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGPGSYVSEHV 100 (232)
T ss_dssp HHHHHHHHHHCTTT---TS-EEEEE-S----HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--TTSSS--EE
T ss_pred hhHHHHHHHHHHhcc-CCCceEEEeec--c-chHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCCCCcccceE
Confidence 899999998877776 88887777766 3 4568999999999999987322 23445567787766677778
Q ss_pred EEEeCCCCCCc----ceeecCCCHhHH
Q 006683 559 MIVPAKQEEST----WMFTKPFTWEMW 581 (635)
Q Consensus 559 ~~v~~~~~~~~----~~~l~pf~~~~W 581 (635)
++.+++..... --=+.|.|..=-
T Consensus 101 li~~~~~~~~i~dGmRVGiD~~S~Dq~ 127 (232)
T PF14503_consen 101 LIFRDGEKKEIEDGMRVGIDPSSIDQK 127 (232)
T ss_dssp EEEETT-GGG-----EEEE-TT-HHHH
T ss_pred EEEecCCccceeeeeEeecCCCCccHH
Confidence 88887765433 344567765543
No 336
>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=47.31 E-value=1.4e+02 Score=26.13 Aligned_cols=81 Identities=11% Similarity=0.141 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
.++.+..+.++++.+++.++-+.-. . ..+.+.+.+.+.-.| +++..... ++....+++-+..+-+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvdD~~A-~--D~~~k~~l~ma~P~g-vk~~i~sv-----------e~a~~~l~~~~~~~~~ 76 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVNDEVA-N--DELRKTLLKLAAPPG-VKLRIFTV-----------EKAIEAINSPKYDKQR 76 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEccccc-C--CHHHHHHHHhhCCCC-CeEEEEEH-----------HHHHHHHhCcCCCCce
Confidence 5678888999999999888865544 3 556666666666667 77664321 3455666665555678
Q ss_pred EEEEecCChhHHHHHHH
Q 006683 234 VFIVLQASLDMTIHLFT 250 (635)
Q Consensus 234 vii~~~~~~~~~~~~l~ 250 (635)
++++ .-++.++..+++
T Consensus 77 v~il-~k~~~~~~~l~~ 92 (151)
T cd00001 77 VFLL-FKNPQDVLRLVE 92 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999999888755
No 337
>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=46.93 E-value=70 Score=32.67 Aligned_cols=75 Identities=17% Similarity=0.171 Sum_probs=49.3
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++ +++.+|++...+ +...+.+.+.+++.| +.+.... +.... ......+.++.+++.++|.|
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~---~~~~~~v~~~l~~~~-i~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~d~I 81 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL---KKSRPRFEAALAKSI-IVVDVIV-FGGEC----STEEVVKALCGAEEQEADVI 81 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH---HHHHHHHHHHHHhcC-CeeEEEE-cCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 44667788888 888787755443 344677888888888 7554332 33221 11457777888888899998
Q ss_pred EEecCC
Q 006683 236 IVLQAS 241 (635)
Q Consensus 236 i~~~~~ 241 (635)
|- .+.
T Consensus 82 Ia-vGG 86 (349)
T cd08550 82 IG-VGG 86 (349)
T ss_pred EE-ecC
Confidence 86 443
No 338
>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=46.89 E-value=2.5e+02 Score=27.14 Aligned_cols=120 Identities=14% Similarity=0.047 Sum_probs=67.3
Q ss_pred EEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHH
Q 006683 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (635)
Q Consensus 35 i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~ 112 (635)
=+||.+.... ......-..|++.|+++.+-. ..+.......+...+.+.+.+++.+ .++.+|+.. +...+..
T Consensus 119 ~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g 192 (269)
T cd06287 119 RQIALIVGSARRNSYLEAEAAYRAFAAEHGMP-----PVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVP-VDAFAVG 192 (269)
T ss_pred CcEEEEeCCcccccHHHHHHHHHHHHHHcCCC-----cceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHH
Confidence 4677775432 223345567888888764332 1122223333445667777888743 357899964 4455666
Q ss_pred HHHhhccCCc--cE-EeecC-CCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 113 VAEIASRVQV--PI-LSFAA-PAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 113 v~~~~~~~~i--p~-Is~~~-~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
+...+.+.++ |- |+..+ . +........|.+-.+..+....++..+++|
T Consensus 193 vl~al~~~gl~vP~dvsvig~~--d~~~~~~~~p~ltti~~~~~~~g~~A~~~l 244 (269)
T cd06287 193 AVRAATELGRAVPDQLRVVTRY--DGLRARTSEPPLTAVDLHLDEVAEQAVDLL 244 (269)
T ss_pred HHHHHHHcCCCCCCceEEEecc--CchhhccCCCCcccccCCHHHHHHHHHHHH
Confidence 6666666554 42 22222 2 233333334656666777777888777765
No 339
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=46.69 E-value=1.1e+02 Score=26.74 Aligned_cols=65 Identities=17% Similarity=0.258 Sum_probs=40.8
Q ss_pred EEEEEEEcCC--CCCC-cchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc-CceEEEEecCC
Q 006683 169 RVAAIYEDNV--YGGD-SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQAS 241 (635)
Q Consensus 169 ~vaii~~~~~--~g~~-~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vii~~~~~ 241 (635)
++++|...++ .|.- ......+.+.+++.| .++.....++.+. .++.+.+++..+. ++|+||. .+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G-~~v~~~~~v~Dd~------~~i~~~l~~~~~~~~~DlVit-tGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAG-HEVVAYEIVPDDK------DEIREALIEWADEDGVDLILT-TGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcC-CeeeeEEEcCCCH------HHHHHHHHHHHhcCCCCEEEE-CCC
Confidence 5677665553 2210 122446788899999 8877766555443 5677777766543 7899998 544
No 340
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=46.68 E-value=63 Score=32.08 Aligned_cols=154 Identities=12% Similarity=0.069 Sum_probs=69.8
Q ss_pred CCchhHHHH-HHHHHHHHhccccccccC-CCCCCCeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecC
Q 006683 1 MNRFFFLVL-IIASELVFVSPGVESAST-NVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (635)
Q Consensus 1 m~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~ 78 (635)
|.++.++++ ++++..+..+|+.+.+.. .+...++++||++-..+...-......+.-.+++ +- |++++..+.-+
T Consensus 1 m~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~gi~p~e~~~~~~~~~~pl~~~L~~---~l-G~~V~~~~a~d 76 (299)
T COG3221 1 MKKKKLLLASAAAVLALAGCCGSSESDAPAAEDPKELRVGIVPTENPTNLIPAWAPLADYLEK---EL-GIPVEFFVATD 76 (299)
T ss_pred CchHHHHHHHHHHHHHHHHhccCCccccccccCCcceEEEEcCCCChHHHHHHHHHHHHHHHH---Hh-CCceEEEeccc
Confidence 444444444 334444444444333222 2233568999988887753223333333333333 32 56677655433
Q ss_pred CCCHHHHHHHHHHHhhcCCeE-EEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHH
Q 006683 79 NRDPFQAATAAQELINKEKVK-VIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKC 157 (635)
Q Consensus 79 ~~~~~~a~~~~~~li~~~~v~-aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~a 157 (635)
. ..+.+.+...+++ +.+||. ....+.. . .-..-|+...... +. + ..|-.++=+..+..
T Consensus 77 y-------~~vieal~~g~~D~A~~~~~--a~~~a~~-~-~~~~e~~~~~~~~--dg--~-~~Y~S~~i~~~ds~----- 135 (299)
T COG3221 77 Y-------AAVIEALRAGQVDIAWLGPS--AYVEAVD-R-ALAGEPLAQTVQK--DG--S-PGYYSVIIVRADSP----- 135 (299)
T ss_pred H-------HHHHHHHhCCCeeEEecCch--hHHHHHh-h-cccccceeeeecc--CC--C-cceeEEEEEeCCCC-----
Confidence 2 1233433367777 566655 1112211 1 1123333332111 10 1 13333333333322
Q ss_pred HHHHHHHCCCeEEEEEEEcCCCC
Q 006683 158 IADLARKYNWRRVAAIYEDNVYG 180 (635)
Q Consensus 158 l~~~l~~~~w~~vaii~~~~~~g 180 (635)
.+-++..+.+++++--.+...|
T Consensus 136 -i~sl~dlkgk~~af~d~~StSG 157 (299)
T COG3221 136 -IKSLEDLKGKRFAFGDPDSTSG 157 (299)
T ss_pred -cchHHHhcCCeEeccCCCcchh
Confidence 2223477888999877666555
No 341
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=46.58 E-value=67 Score=31.00 Aligned_cols=78 Identities=10% Similarity=0.089 Sum_probs=49.2
Q ss_pred EEEEEEc---CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 170 vaii~~~---~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
|++|..+ ++|. ..+.+.+.+.+++.| +.+.... ... +. ....+.++.+...++|.|++.....+...
T Consensus 2 i~vi~p~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~---~~~---~~-~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (275)
T cd06317 2 IGYTQNNVGSHSYQ--TTYNKAFQAAAEEDG-VEVIVLD---ANG---DV-ARQAAQVEDLIAQKVDGIILWPTDGQAYI 71 (275)
T ss_pred eEEEecccCCCHHH--HHHHHHHHHHHHhcC-CEEEEEc---CCc---CH-HHHHHHHHHHHHcCCCEEEEecCCccccH
Confidence 5566643 4566 777888998999999 7766432 111 11 33456677777778999888233333345
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..++.+.+.++
T Consensus 72 ~~l~~~~~~~i 82 (275)
T cd06317 72 PGLRKAKQAGI 82 (275)
T ss_pred HHHHHHHHCCC
Confidence 56677777665
No 342
>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=46.54 E-value=72 Score=30.12 Aligned_cols=78 Identities=17% Similarity=0.153 Sum_probs=49.9
Q ss_pred EEEEEEEcC---CCCCCcchHHHHHHHHhc--cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh
Q 006683 169 RVAAIYEDN---VYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (635)
Q Consensus 169 ~vaii~~~~---~~g~~~~~~~~~~~~l~~--~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~ 243 (635)
+|++|.... .++ ....+.+++.+++ .+ +++.... ... + ..+....++++...++++|++ .....
T Consensus 1 ~Ig~i~~~~~~~~~~--~~~~~~~~~~~~~~g~~-~~~~~~~---~~~---~-~~~~~~~~~~~~~~~~d~ii~-~~~~~ 69 (269)
T cd01391 1 KIGVLLPLSGSAPFG--AQLLAGIELAAEEIGRG-LEVILAD---SQS---D-PERALEALRDLIQQGVDGIIG-PPSSS 69 (269)
T ss_pred CceEEeecCCCcHHH--HHHHHHHHHHHHHhCCc-eEEEEec---CCC---C-HHHHHHHHHHHHHcCCCEEEe-cCCCH
Confidence 467777643 466 6777788888888 66 6655332 111 1 135667777888778999998 55554
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
....+...+.+.++
T Consensus 70 ~~~~~~~~~~~~~i 83 (269)
T cd01391 70 SALAVVELAAAAGI 83 (269)
T ss_pred HHHHHHHHHHHcCC
Confidence 44446666777665
No 343
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=46.51 E-value=3e+02 Score=29.53 Aligned_cols=143 Identities=15% Similarity=0.133 Sum_probs=76.7
Q ss_pred EEcCCChhhHHHHHHhhc-cCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCC
Q 006683 101 IAGMETWEETAVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (635)
Q Consensus 101 iiG~~~s~~~~~v~~~~~-~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~ 179 (635)
|++|.+.....++..+.+ ...+-+|.++-. -++| .......+.-.++++...-+++.|+|.+- |
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~HG------------~i~r--~~~~~~l~~Y~~~~~~~~~~kv~IvY~S~-~ 262 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSHG------------VVWR--DNPTQIVELYLKWAADYQEDRITIFYDTM-S 262 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCCC------------ceEe--CCHHHHHHHHHHHhhccCcCcEEEEEECC-c
Confidence 556666654445555443 234444443311 1244 22222223333334433447899998764 3
Q ss_pred CCCcchHHHHHHHHhcc--CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCCh------hHHHHHHHH
Q 006683 180 GGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL------DMTIHLFTE 251 (635)
Q Consensus 180 g~~~~~~~~~~~~l~~~--g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~------~~~~~~l~~ 251 (635)
|.-+.+++.+.+.+++. | +.+.... +.. .+...++..+. +++.|++ .+.. .....++..
T Consensus 263 GnTe~mA~~ia~gl~~~g~g-v~v~~~~-v~~--------~~~~~i~~~~~--~ad~vil-GspT~~~~~~p~~~~fl~~ 329 (479)
T PRK05452 263 NNTRMMADAIAQGIAEVDPR-VAVKIFN-VAR--------SDKNEILTNVF--RSKGVLV-GSSTMNNVMMPKIAGLLEE 329 (479)
T ss_pred cHHHHHHHHHHHHHHhhCCC-ceEEEEE-CCC--------CCHHHHHhHHh--hCCEEEE-ECCccCCcchHHHHHHHHH
Confidence 32177888899988876 4 4444322 221 22444555554 5677777 5542 346677777
Q ss_pred HHHcCCCCCCeEEEeeCchh
Q 006683 252 ANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 252 a~~~g~~~~~~~~i~~~~~~ 271 (635)
.....+.++....+++..|.
T Consensus 330 l~~~~l~gK~~~vFGSygw~ 349 (479)
T PRK05452 330 ITGLRFRNKRASAFGSHGWS 349 (479)
T ss_pred hhccCcCCCEEEEEECCCcC
Confidence 77777777655566666553
No 344
>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=46.19 E-value=2.1e+02 Score=29.33 Aligned_cols=76 Identities=11% Similarity=0.083 Sum_probs=49.3
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce--
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR-- 233 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~-- 233 (635)
..+.++++.++-+++.+|++...+ ....+.+.+.+++.| +.+... .++..... ...+.....+..+++.++|
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~---~~~~~~l~~~L~~~g-~~~~~~-~~~~~e~~-k~~~~v~~~~~~~~~~~~dr~ 85 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE---DLYGHRLLEYLREAG-APVELL-SVPSGEEH-KTLSTLSDLVERALALGATRR 85 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH---HHHHHHHHHHHHhcC-CceEEE-EeCCCCCC-CCHHHHHHHHHHHHHcCCCCC
Confidence 345567777777899888876654 335677888898888 665332 24433211 1125677788888888887
Q ss_pred -EEEE
Q 006683 234 -VFIV 237 (635)
Q Consensus 234 -vii~ 237 (635)
+||.
T Consensus 86 ~~IIA 90 (355)
T cd08197 86 SVIVA 90 (355)
T ss_pred cEEEE
Confidence 6665
No 345
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=46.16 E-value=1.6e+02 Score=26.11 Aligned_cols=80 Identities=8% Similarity=0.005 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
.++.+..+.++++.+++.++-+.-. . ..+.+.+.+.+.-.| +++.... . ++..+.+++ ...+-+
T Consensus 15 HGQV~~~W~~~~~~~~IvVvdD~~A-~--D~~~k~~l~ma~P~g-vk~~i~s---v--------~~a~~~l~~-~~~~~~ 78 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVANDEVA-E--DPVQQNLMEMVLAEG-IAVRFWT---L--------QKVIDNIHR-AADRQK 78 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEcchhc-C--CHHHHHHHHhhCCCC-CeEEEEE---H--------HHHHHHHhc-cCCCce
Confidence 5777888999999999777754443 3 456666666666677 7766432 1 446667776 555667
Q ss_pred EEEEecCChhHHHHHHH
Q 006683 234 VFIVLQASLDMTIHLFT 250 (635)
Q Consensus 234 vii~~~~~~~~~~~~l~ 250 (635)
++++ .-++.++..+++
T Consensus 79 v~il-~k~~~d~~~l~~ 94 (157)
T PRK11425 79 ILLV-CKTPADFLTLVK 94 (157)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999999887754
No 346
>PRK10991 fucI L-fucose isomerase; Provisional
Probab=46.12 E-value=4.3e+02 Score=28.81 Aligned_cols=60 Identities=12% Similarity=0.051 Sum_probs=42.1
Q ss_pred CCeEEEEEEecCC-CCHHHHHHHHHHHhhcCCeEEEE-cCCC-hhhHHHHHHhhccCCccEEeecCC
Q 006683 67 RNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIA-GMET-WEETAVVAEIASRVQVPILSFAAP 130 (635)
Q Consensus 67 ~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aii-G~~~-s~~~~~v~~~~~~~~ip~Is~~~~ 130 (635)
.|..++.++.|+. +++..+..++.++- +.+|.++| .+.| ...+..+ ....++|.+-++..
T Consensus 47 ~g~~ve~viad~~I~~~~eA~~~aekFk-~e~Vd~~I~vt~cw~fG~Et~---d~~~~~PvllWg~~ 109 (588)
T PRK10991 47 CGEPVECVIADTCIGGVAEAAACEEKFS-SENVGLTITVTPCWCYGSETI---DMDPTRPKAIWGFN 109 (588)
T ss_pred CCCeEEEEeCccccCCHHHHHHHHHHHh-hcCCCEEEEecCcccchhHHH---hcCCCCCEEEeCCC
Confidence 3678899999976 67777777777776 78888887 5555 2222232 33378999988766
No 347
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=46.05 E-value=1.1e+02 Score=28.93 Aligned_cols=93 Identities=13% Similarity=0.160 Sum_probs=61.1
Q ss_pred ecCcHHHHHHHHHHHH-HCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHh
Q 006683 148 ASNDSEQMKCIADLAR-KYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (635)
Q Consensus 148 ~p~~~~~~~al~~~l~-~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~ 226 (635)
.|.....+..+++.+. ...-+++.++..+.. ...+.+.+++.| ..+.....|.. . .........+.
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~-------~~~l~~~L~~~g-~~v~~~~vY~~-~----~~~~~~~~~~~ 163 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEGG-------RPDLPEKLREAG-IEVTEVIVYET-P----PEELSPELKEA 163 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSSS-------CHHHHHHHHHTT-EEEEEEECEEE-E----EHHHHHHHHHH
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCc-------cHHHHHHHHHCC-CeEEEEEEeec-c----cccchHHHHHH
Confidence 5654555788888886 455578777764432 456778888899 88876655554 2 11234455666
Q ss_pred hhhcCceEEEEecCChhHHHHHHHHHHHc
Q 006683 227 VQDKQSRVFIVLQASLDMTIHLFTEANRM 255 (635)
Q Consensus 227 l~~~~~~vii~~~~~~~~~~~~l~~a~~~ 255 (635)
++....++|++ .++..+..+++.+.+.
T Consensus 164 l~~~~~~~v~f--tS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 164 LDRGEIDAVVF--TSPSAVRAFLELLKKN 190 (231)
T ss_dssp HHHTTTSEEEE--SSHHHHHHHHHHSSGH
T ss_pred HHcCCCCEEEE--CCHHHHHHHHHHhHhh
Confidence 66668888876 7888888888776653
No 348
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=45.93 E-value=92 Score=29.82 Aligned_cols=76 Identities=13% Similarity=0.108 Sum_probs=49.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+..... .. + .....+.++.+.+.++|.||+ ....... .
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~---~~---~-~~~~~~~~~~l~~~~vdgiIi-~~~~~~~-~ 69 (265)
T cd06299 2 IGVIVPDIRNPYF--ASLATAIQDAASAAG-YSTIIGNS---DE---N-PETENRYLDNLLSQRVDGIIV-VPHEQSA-E 69 (265)
T ss_pred EEEEecCCCCccH--HHHHHHHHHHHHHcC-CEEEEEeC---CC---C-HHHHHHHHHHHHhcCCCEEEE-cCCCCCh-H
Confidence 5666653 4565 677788888899999 77664321 11 1 134556778888889999998 5433222 3
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++++.+.+.
T Consensus 70 ~~~~l~~~~i 79 (265)
T cd06299 70 QLEDLLKRGI 79 (265)
T ss_pred HHHHHHhCCC
Confidence 4677777765
No 349
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=45.90 E-value=1e+02 Score=30.89 Aligned_cols=81 Identities=15% Similarity=0.108 Sum_probs=49.9
Q ss_pred CCeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh
Q 006683 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (635)
Q Consensus 166 ~w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~ 243 (635)
+-+.|+++..+ ++|. ..+.+.+.+.+++.| ..+..... ... .......++.+...++|.||+ .....
T Consensus 60 ~~~~Igvv~~~~~~~~~--~~l~~gi~~~~~~~g-~~~~~~~~--~~~-----~~~~~~~~~~l~~~~vdgiIi-~~~~~ 128 (328)
T PRK11303 60 RTRSIGLIIPDLENTSY--ARIAKYLERQARQRG-YQLLIACS--DDQ-----PDNEMRCAEHLLQRQVDALIV-STSLP 128 (328)
T ss_pred CCceEEEEeCCCCCchH--HHHHHHHHHHHHHcC-CEEEEEeC--CCC-----HHHHHHHHHHHHHcCCCEEEE-cCCCC
Confidence 34578888754 3455 667788888999999 77764321 111 123345677777778999988 54322
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
.....++++.+.++
T Consensus 129 ~~~~~~~~l~~~~i 142 (328)
T PRK11303 129 PEHPFYQRLQNDGL 142 (328)
T ss_pred CChHHHHHHHhcCC
Confidence 22344566666654
No 350
>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=45.56 E-value=84 Score=32.08 Aligned_cols=78 Identities=12% Similarity=0.239 Sum_probs=48.5
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++.+++.+|++...+ +...+.+.+.+++.| +.+........... . ........++.+++ ++|+|
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~---~~~~~~v~~~l~~~~-i~~~~~~~~~~~~~-p-t~~~v~~~~~~~~~-~~d~I 84 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY---AAAGKKVEALLKRAG-VVVLLIVLPAGDLI-A-DEKAVGRVLKELER-DTDLI 84 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH---HHHHHHHHHHHHHCC-CeeEEeecCCCccc-C-CHHHHHHHHHHhhc-cCCEE
Confidence 446677888888899888855433 223567888898888 76543222222210 1 12456667777776 88998
Q ss_pred EEecCC
Q 006683 236 IVLQAS 241 (635)
Q Consensus 236 i~~~~~ 241 (635)
|. .+.
T Consensus 85 Ia-IGG 89 (348)
T cd08175 85 IA-VGS 89 (348)
T ss_pred EE-ECC
Confidence 87 443
No 351
>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=45.14 E-value=76 Score=31.35 Aligned_cols=73 Identities=12% Similarity=0.063 Sum_probs=43.2
Q ss_pred CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcC
Q 006683 177 NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 177 ~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
++|. ..+.+.+.+.+++.| ....... .+... + .....+.++.+.+.++|.|++...+.......++++.+.|
T Consensus 10 ~~f~--~~~~~gi~~~a~~~g-~~~~i~~-~~~~~---d-~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~g 81 (302)
T TIGR02637 10 NPFF--EAANKGAEEAAKELG-SVYIIYT-GPTGT---T-AEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRG 81 (302)
T ss_pred CHHH--HHHHHHHHHHHHHhC-CeeEEEE-CCCCC---C-HHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCC
Confidence 3455 566777888888888 4322111 11111 1 1334567778877888988883333445556677777776
Q ss_pred C
Q 006683 257 L 257 (635)
Q Consensus 257 ~ 257 (635)
+
T Consensus 82 i 82 (302)
T TIGR02637 82 I 82 (302)
T ss_pred C
Confidence 5
No 352
>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=45.03 E-value=73 Score=30.79 Aligned_cols=79 Identities=11% Similarity=0.062 Sum_probs=48.3
Q ss_pred EEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 169 ~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
+|++|..+ ++|. ..+.+.+.+.+++.| .++... .... +. ......++++.+.++|.|++.........
T Consensus 1 ~i~vi~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~---~~~~---~~-~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFW--QIMGRGVKSKAKALG-YDAVEL---SAEN---SA-KKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHH--HHHHHHHHHHHHhcC-CeEEEe---cCCC---CH-HHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 35666643 4455 677788888899999 777532 1111 11 23446677777778999987233333344
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..++.+.+.+.
T Consensus 71 ~~l~~~~~~~i 81 (277)
T cd06319 71 TLLKLAAQAKI 81 (277)
T ss_pred HHHHHHHHCCC
Confidence 56677777665
No 353
>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=44.53 E-value=86 Score=28.06 Aligned_cols=72 Identities=14% Similarity=0.110 Sum_probs=44.4
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-..++.++.++. +.+ +.+.. +....+...|.+|++|+++.......+....+ -+.+.....+.++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~hp 86 (200)
T cd08453 14 VLPELVRRFREAYPDVE--LQLRE--ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPAAWA 86 (200)
T ss_pred HHHHHHHHHHHhCCCce--EEEEe--CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEECCCc
Confidence 4567788887765 555 44443 23667899999999999886422211112222 2346667777888776543
No 354
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=44.34 E-value=2e+02 Score=29.42 Aligned_cols=90 Identities=17% Similarity=0.199 Sum_probs=54.9
Q ss_pred ceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHH
Q 006683 142 PYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVR 221 (635)
Q Consensus 142 p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~ 221 (635)
|+-+...+.. ...+.++++.++.+++.+|++...+ ....+.+.+.+++.| +.+... .++...... ..+...
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~~---~~~~~~v~~~L~~~g-i~~~~~-~~~~~e~~~-~~~~v~ 79 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETVA---PLYLEKLRASLEAAG-FEVDVV-VLPDGEQYK-SLETLE 79 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCchH---HHHHHHHHHHHHhcC-CceEEE-EeCCCCCCC-CHHHHH
Confidence 4444444442 3456667777788899999866543 456777888888888 665422 233322111 125677
Q ss_pred HHHHhhhhcCc---eEEEEecCC
Q 006683 222 GELKKVQDKQS---RVFIVLQAS 241 (635)
Q Consensus 222 ~~l~~l~~~~~---~vii~~~~~ 241 (635)
..++.+++.++ |.||. .+.
T Consensus 80 ~~~~~~~~~~~~r~d~IIa-vGG 101 (358)
T PRK00002 80 KIYDALLEAGLDRSDTLIA-LGG 101 (358)
T ss_pred HHHHHHHHcCCCCCCEEEE-EcC
Confidence 77777776654 88886 443
No 355
>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=44.32 E-value=78 Score=28.01 Aligned_cols=69 Identities=12% Similarity=0.154 Sum_probs=44.6
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.+++..+.++. +.+ +.+.. ++...+...|.+|++|+++..... ..+.+. +.++....+.++++++.
T Consensus 13 ~~l~~~l~~~~~~~p~v~--i~i~~--~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~ 82 (197)
T cd08440 13 TLLPPVLAAFRRRHPGIR--VRLRD--VSAEQVIEAVRSGEVDFGIGSEPE---ADPDLE-FEPLLRDPFVLVCPKDH 82 (197)
T ss_pred hHHHHHHHHHHHhCCCcE--EEEEe--CChHHHHHHHHcCCccEEEEeCCC---CCCCee-EEEeecccEEEEecCCC
Confidence 34568888887765 455 44433 235679999999999999864322 222222 24677778888887654
No 356
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=44.30 E-value=1.1e+02 Score=30.87 Aligned_cols=81 Identities=15% Similarity=0.092 Sum_probs=51.5
Q ss_pred CCeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh
Q 006683 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (635)
Q Consensus 166 ~w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~ 243 (635)
.-+.++++..+ ++|. ..+.+.+.+.+++.| ..+.... ... + .......++.+.+.++|.||+ .....
T Consensus 63 ~~~~Igvv~~~~~~~~~--~~i~~gi~~~a~~~g-~~~~~~~---~~~---~-~~~~~~~~~~l~~~~vdgiIi-~~~~~ 131 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFY--AELTAGLTEALEAQG-RMVFLLQ---GGK---D-GEQLAQRFSTLLNQGVDGVVI-AGAAG 131 (342)
T ss_pred CCCEEEEEeCCCccchH--HHHHHHHHHHHHHcC-CEEEEEe---CCC---C-HHHHHHHHHHHHhCCCCEEEE-eCCCC
Confidence 33578888864 4565 677788889999999 6654321 111 1 134557778888888999998 54333
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
.....+..+.+.+.
T Consensus 132 ~~~~~~~~l~~~~i 145 (342)
T PRK10014 132 SSDDLREMAEEKGI 145 (342)
T ss_pred CcHHHHHHHhhcCC
Confidence 33455666666664
No 357
>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=44.19 E-value=75 Score=30.48 Aligned_cols=77 Identities=10% Similarity=0.135 Sum_probs=48.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC-hhHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMTI 246 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~-~~~~~ 246 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+... .... + ..+....++++...+++.|++ ... .....
T Consensus 2 I~vv~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~---~~~~---~-~~~~~~~~~~~~~~~~dgii~-~~~~~~~~~ 70 (268)
T cd06323 2 IGLSVSTLNNPFF--VTLKDGAQKEAKELG-YELTVL---DAQN---D-AAKQLNDIEDLITRGVDAIII-NPTDSDAVV 70 (268)
T ss_pred eeEecccccCHHH--HHHHHHHHHHHHHcC-ceEEec---CCCC---C-HHHHHHHHHHHHHcCCCEEEE-cCCChHHHH
Confidence 4555543 4455 677788889999999 777532 1111 1 134557777777788999887 433 23334
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..++.+.+.+.
T Consensus 71 ~~l~~l~~~~i 81 (268)
T cd06323 71 PAVKAANEAGI 81 (268)
T ss_pred HHHHHHHHCCC
Confidence 56777776664
No 358
>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=44.18 E-value=65 Score=28.74 Aligned_cols=69 Identities=14% Similarity=0.198 Sum_probs=43.9
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-.++++++.++. +.+ +.+.. ++.+.+...+.+|++|+++...... ....+ -+.+.+...++++++++.
T Consensus 15 ~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~~ 84 (199)
T cd08451 15 LVPGLIRRFREAYPDVE--LTLEE--ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAGH 84 (199)
T ss_pred ccHHHHHHHHHHCCCcE--EEEec--CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCCC
Confidence 3467788888775 455 44433 2367789999999999998643221 11222 335677777888876554
No 359
>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=43.90 E-value=75 Score=28.45 Aligned_cols=70 Identities=11% Similarity=0.071 Sum_probs=45.3
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++...+..+|.+|++|+++.... .....+ -+.++....+.++++++.+
T Consensus 13 ~~l~~~l~~f~~~~P~v~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~~~~ 83 (200)
T cd08466 13 LLLPRLLARLKQLAPNIS--LRESP--SSEEDLFEDLRLQEVDLVIDYVP---FRDPSF-KSELLFEDELVCVARKDHP 83 (200)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEec--CchHhHHHHHHcCCccEEEeccc---CCCCCc-eeeeecccceEEEEeCCCC
Confidence 34467788887775 555 44433 23667999999999999885321 222222 2347777888888876654
No 360
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=43.87 E-value=69 Score=31.53 Aligned_cols=70 Identities=9% Similarity=0.058 Sum_probs=45.7
Q ss_pred eeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++.. .+.+.+.. +....++..|.+|++|+++..... +.+. -.+.++....++++++++.+
T Consensus 105 ~l~~~l~~~~~~~p-~~~i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~-l~~~~l~~~~~~~~~~~~~p 174 (296)
T PRK11242 105 LIGPLIDAFHARYP-GITLTIRE--MSQERIEALLADDELDVGIAFAPV---HSPE-IEAQPLFTETLALVVGRHHP 174 (296)
T ss_pred hhHHHHHHHHHHCC-CCEEEEEe--CCHHHHHHHHHCCCCcEEEEecCC---CCcc-eeEEEeeeccEEEEEcCCCc
Confidence 45688888888752 33344433 225678999999999999864322 2222 23467778888888877643
No 361
>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=43.86 E-value=83 Score=27.93 Aligned_cols=69 Identities=9% Similarity=0.031 Sum_probs=45.1
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.+++..+.++. +.+ +.+.. ++..++...+.+|++|+++.... .....+. +.+.....+.++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~h 82 (197)
T cd08448 13 RGLPRILRAFRAEYPGIE--VALHE--MSSAEQIEALLRGELDLGFVHSR---RLPAGLS-ARLLHREPFVCCLPAGH 82 (197)
T ss_pred HHHHHHHHHHHHHCCCCe--EEEEe--CCHHHHHHHHHcCCcceEEEeCC---CCCcCce-EEEEecCcEEEEeeCCC
Confidence 34568888887776 555 44433 23678999999999999886322 2223332 34677778888877664
No 362
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=43.68 E-value=1.4e+02 Score=29.41 Aligned_cols=81 Identities=7% Similarity=0.084 Sum_probs=52.0
Q ss_pred CeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhH
Q 006683 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (635)
Q Consensus 167 w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~ 244 (635)
-+.++++..+ ++|. ..+.+.+.+.+++.| +.+.... ... |. ......++++...+++.+++.......
T Consensus 26 ~~~I~vi~~~~~~~f~--~~~~~~i~~~~~~~G-~~~~~~~---~~~---d~-~~~~~~~~~l~~~~~dgiii~~~~~~~ 95 (295)
T PRK10653 26 KDTIALVVSTLNNPFF--VSLKDGAQKEADKLG-YNLVVLD---SQN---NP-AKELANVQDLTVRGTKILLINPTDSDA 95 (295)
T ss_pred CCeEEEEecCCCChHH--HHHHHHHHHHHHHcC-CeEEEec---CCC---CH-HHHHHHHHHHHHcCCCEEEEcCCChHH
Confidence 4678888864 3455 677888999999999 7776432 111 11 334567777777789988772333333
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....++.+.+.|+
T Consensus 96 ~~~~l~~~~~~~i 108 (295)
T PRK10653 96 VGNAVKMANQANI 108 (295)
T ss_pred HHHHHHHHHHCCC
Confidence 3456677777665
No 363
>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=43.63 E-value=83 Score=28.09 Aligned_cols=69 Identities=12% Similarity=0.106 Sum_probs=44.3
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++.++.++. +.+ +.+.. +.+..+...|.+|++|+++..... ....+ -+.++....+.++++++.+
T Consensus 15 ~l~~~i~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~~p 84 (198)
T cd08446 15 TVPRLLRAFLTARPDVT--VSLHN--MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPKSHP 84 (198)
T ss_pred HHHHHHHHHHHHCCCeE--EEEee--CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeCCCC
Confidence 4467777777765 445 44433 347789999999999999863322 12222 2346777788888776543
No 364
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=43.60 E-value=1.1e+02 Score=30.98 Aligned_cols=80 Identities=8% Similarity=0.160 Sum_probs=54.0
Q ss_pred CeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCCh-h
Q 006683 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL-D 243 (635)
Q Consensus 167 w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~-~ 243 (635)
-.+|+++..+ ++|. ..+.+.+.+.+++.| ..+.... ... + .....+.++.+.+.++|.||+ .... .
T Consensus 25 ~~~Ig~i~~~~~~~f~--~~~~~gi~~~a~~~g-~~l~i~~---~~~---~-~~~~~~~i~~l~~~~vDGiIi-~~~~~~ 93 (330)
T PRK10355 25 EVKIGMAIDDLRLERW--QKDRDIFVKKAESLG-AKVFVQS---ANG---N-EETQMSQIENMINRGVDVLVI-IPYNGQ 93 (330)
T ss_pred CceEEEEecCCCchHH--HHHHHHHHHHHHHcC-CEEEEEC---CCC---C-HHHHHHHHHHHHHcCCCEEEE-eCCChh
Confidence 3578888753 4577 788899999999999 7766432 111 1 134667788888889999998 5432 3
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
.....++.+.+.+.
T Consensus 94 ~~~~~l~~~~~~~i 107 (330)
T PRK10355 94 VLSNVIKEAKQEGI 107 (330)
T ss_pred hHHHHHHHHHHCCC
Confidence 33455667766664
No 365
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=43.54 E-value=1.1e+02 Score=29.41 Aligned_cols=97 Identities=12% Similarity=0.096 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccC-CeEEEEEe--eeCCCCCCCCchHHHHHHHHhhhh
Q 006683 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVS-SSEIQSRL--VLPPISSISDPKEAVRGELKKVQD 229 (635)
Q Consensus 153 ~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g-~~~v~~~~--~~~~~~~~~d~~~~~~~~l~~l~~ 229 (635)
+...++.+.+... -++|.++..... .++...+.+++.. ..+|+... ++... +. ..++++|.+
T Consensus 95 Dl~~~Ll~~a~~~-~~~vfllGgkp~------V~~~a~~~l~~~~p~l~ivg~h~GYf~~~-------e~-~~i~~~I~~ 159 (253)
T COG1922 95 DLVEALLKRAAEE-GKRVFLLGGKPG------VAEQAAAKLRAKYPGLKIVGSHDGYFDPE-------EE-EAIVERIAA 159 (253)
T ss_pred HHHHHHHHHhCcc-CceEEEecCCHH------HHHHHHHHHHHHCCCceEEEecCCCCChh-------hH-HHHHHHHHh
Confidence 3556666665444 357777764433 2333333343332 14555432 22222 23 589999999
Q ss_pred cCceEEEEecCChhHHHHHHHHH-HHcCCCCCCeEEEeeCc
Q 006683 230 KQSRVFIVLQASLDMTIHLFTEA-NRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 230 ~~~~vii~~~~~~~~~~~~l~~a-~~~g~~~~~~~~i~~~~ 269 (635)
+++|++++ ......-..++.+- .... .+ ++|+.+.
T Consensus 160 s~pdil~V-gmG~P~QE~wi~~~~~~~~-~~---v~igVGg 195 (253)
T COG1922 160 SGPDILLV-GMGVPRQEIWIARNRQQLP-VA---VAIGVGG 195 (253)
T ss_pred cCCCEEEE-eCCCchhHHHHHHhHHhcC-Cc---eEEeccc
Confidence 99999999 66655555554443 3333 22 5665544
No 366
>COG0107 HisF Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]
Probab=43.23 E-value=35 Score=31.89 Aligned_cols=48 Identities=21% Similarity=0.272 Sum_probs=37.8
Q ss_pred cccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEec
Q 006683 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGD 535 (635)
Q Consensus 486 ~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 535 (635)
.-.||++++++.+++..+.. +...---|+-..+...+..+++|.+++.
T Consensus 182 tk~GyDl~l~~~v~~~v~iP--vIASGGaG~~ehf~eaf~~~~adAaLAA 229 (256)
T COG0107 182 TKAGYDLELTRAVREAVNIP--VIASGGAGKPEHFVEAFTEGKADAALAA 229 (256)
T ss_pred cccCcCHHHHHHHHHhCCCC--EEecCCCCcHHHHHHHHHhcCccHHHhh
Confidence 55899999999999999887 5443334566778889999999987653
No 367
>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=43.21 E-value=84 Score=28.01 Aligned_cols=68 Identities=12% Similarity=0.123 Sum_probs=43.6
Q ss_pred eHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 491 SIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 491 ~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
-.+++..+.++. +.+ +.+.. +....+...|.+|++|+++..... ....+ .+.++....+.++++++.+
T Consensus 16 l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~~p 84 (197)
T cd08425 16 IGPLIDRFHARYPGIA--LSLRE--MPQERIEAALADDRLDLGIAFAPV---RSPDI-DAQPLFDERLALVVGATHP 84 (197)
T ss_pred hHHHHHHHHHHCCCcE--EEEEE--CcHHHHHHHHHcCCccEEEEecCC---CCCCc-EEEEeccccEEEEecCCCc
Confidence 467788887765 344 44443 125678899999999999864322 22223 2356777788888876643
No 368
>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold. AlsR is responsible for activating the expression of the acetoin operon (alsSD) in response to inducing signals such as glucose and acetate. Like many other LysR family proteins, AlsR is transcribed divergently from the alsSD operon. The alsS gene encodes acetolactate synthase, an enzyme involved in the production of acetoin in cells of stationary-phase. AlsS catalyzes the conversion of two pyruvate molecules to acetolactate and carbon dioxide. Acetolactate is then converted to acetoin at low pH by acetolactate decarboxylase which encoded by the alsD gene. Acetoin is an important physiological metabolite excreted by many microorganisms grown on glucose or other fermentable carbon sources. This substrate-binding domain shows significant homology to the type 2 perip
Probab=42.86 E-value=92 Score=27.91 Aligned_cols=69 Identities=10% Similarity=0.072 Sum_probs=43.8
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.+ +.+.. ++...+...|.+|++|+++... ....+.+. +.++....+.++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~~hp 83 (197)
T cd08452 14 FLPPIVREYRKKFPSVK--VELRE--LSSPDQVEELLKGRIDIGFLHP---PIQHTALH-IETVQSSPCVLALPKQHP 83 (197)
T ss_pred HHHHHHHHHHHHCCCcE--EEEEe--cChHHHHHHHHCCCccEEEeeC---CCCCCCee-EEEeeeccEEEEEeCCCc
Confidence 3467777877765 455 44433 2366799999999999988532 22222333 346677777888776543
No 369
>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=42.84 E-value=77 Score=28.78 Aligned_cols=72 Identities=17% Similarity=0.157 Sum_probs=46.1
Q ss_pred cceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 488 ~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
..+-.+++.++.++. +.+ +.+... ++.+.+...|.+|++|+++..... ..+.+.+ .++.....+++++++.+
T Consensus 12 ~~~~~~~l~~~~~~~P~~~--v~~~~~-~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~~-~~l~~~~~~lv~~~~h~ 84 (203)
T cd08463 12 ALFLPELVARFRREAPGAR--LEIHPL-GPDFDYERALASGELDLVIGNWPE---PPEHLHL-SPLFSDEIVCLMRADHP 84 (203)
T ss_pred HHHhHHHHHHHHHHCCCCE--EEEEeC-CcchhHHHHHhcCCeeEEEecccc---CCCCcEE-eEeecCceEEEEeCCCC
Confidence 345578888888765 345 444431 235679999999999999863221 1122333 46777788888876654
No 370
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=42.56 E-value=2.4e+02 Score=24.79 Aligned_cols=127 Identities=17% Similarity=0.151 Sum_probs=74.0
Q ss_pred HHHHHhh-cCCeEEEEcCCCh--hhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH
Q 006683 88 AAQELIN-KEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (635)
Q Consensus 88 ~~~~li~-~~~v~aiiG~~~s--~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~ 164 (635)
.+..+++ .+....|+||..- +.-..+..+.++.++|.+..+++ ...+.++.-. +......++..+++.
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~--~~~~~~~~i~-------~~~~~lh~it~~l~D 97 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASS--MGNLIGRGIG-------SEYINLHAITQYLTD 97 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchh--hcchhhcccc-------cchhHHHHHHHHhcC
Confidence 3445554 3789999999654 45667788999999999988777 5666654311 334456788888887
Q ss_pred CCCe---------EEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCC---CCchHHHHHHHHhhh
Q 006683 165 YNWR---------RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSI---SDPKEAVRGELKKVQ 228 (635)
Q Consensus 165 ~~w~---------~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~---~d~~~~~~~~l~~l~ 228 (635)
-+|. -|.++.+-..|. ..++..++... += .+|.....+.+.... .-.+.++-+.|+++.
T Consensus 98 p~w~G~dg~g~yDlviflG~~~yy~--sq~Ls~lKhFs--~i-~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 98 PNWPGFDGNGNYDLVIFLGSIYYYL--SQVLSGLKHFS--NI-KTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCCCCcCCCCCcceEEEEeccHHHH--HHHHHHhhhhh--cc-eEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 5553 355555554555 44444444332 11 344444444443311 112245556665553
No 371
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=42.45 E-value=59 Score=31.49 Aligned_cols=71 Identities=14% Similarity=0.251 Sum_probs=40.1
Q ss_pred HHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecccc-cc-cccccccccccceeeeeEEEEeCCCC
Q 006683 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTI-LG-NRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 493 dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~-~~-~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+.+....+..+.+.+++..+ +....+.+|..|++|.+++.-.. .. ...+......++...+++++++++++
T Consensus 161 ~~l~~~~~~~~~~~~~~~~~---~~~~~~~~l~~GrvDa~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~k~~~ 233 (259)
T PRK11917 161 KAIGEAAKKIGIDVKFSEFP---DYPSIKAALDAKRVDAFSVDKSILLGYVDDKSEILPDSFEPQSYGIVTKKDDP 233 (259)
T ss_pred HHHHHhhHhcCCceeEEecC---CHHHHHHHHHcCCCcEEEecHHHHHHhhhcCCeecCCcCCCCceEEEEeCCCH
Confidence 33444555555554344333 37788999999999998876442 11 11111222234555566777776643
No 372
>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=42.44 E-value=82 Score=27.96 Aligned_cols=70 Identities=14% Similarity=0.217 Sum_probs=44.7
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++-..+..+|.+|++|+++...... .+.+. +.+.....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~~~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~~ 83 (201)
T cd08420 13 YLLPRLLARFRKRYPEVR--VSLTI--GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPPDHP 83 (201)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecCCCC
Confidence 34467888887775 455 44433 1245688999999999988643322 22222 246777788888876654
No 373
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=42.38 E-value=1.8e+02 Score=28.63 Aligned_cols=86 Identities=16% Similarity=0.168 Sum_probs=49.9
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHH-HHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATA-AQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~-~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
+++++.--+-. ......+..++.+.+.+ ++..+.|+=|++..--+. +.+|..+-.+..|||+..|+.+..+.
T Consensus 156 kv~vvsQTT~~--~~~~~~i~~~l~~~~~~-----~~~~~~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~ 228 (281)
T PF02401_consen 156 KVAVVSQTTQS--VEKFEEIVEALKKRFPE-----LEGPVFNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLA 228 (281)
T ss_dssp CEEEEE-TTS---HHHHHHHHHHHHHHSTC-----EE-SCC-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHH
T ss_pred eEEEEEeeccc--HHHHHHHHHHHHHhCcc-----ccCCCCCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHH
Confidence 56655544421 22233344444443322 444578888888665554 55666556788999999999999999
Q ss_pred HhhccCCccEEeec
Q 006683 115 EIASRVQVPILSFA 128 (635)
Q Consensus 115 ~~~~~~~ip~Is~~ 128 (635)
++|+..+.|.+-.-
T Consensus 229 eia~~~~~~t~~Ie 242 (281)
T PF02401_consen 229 EIAKEHGKPTYHIE 242 (281)
T ss_dssp HHHHHCTTCEEEES
T ss_pred HHHHHhCCCEEEeC
Confidence 99999887766443
No 374
>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=42.00 E-value=2.6e+02 Score=26.64 Aligned_cols=117 Identities=15% Similarity=0.126 Sum_probs=60.7
Q ss_pred EEEEEeeCCC--cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHH
Q 006683 36 KIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (635)
Q Consensus 36 ~IG~i~p~s~--~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~ 112 (635)
+|+++..... .....-..|++.++++.+-. +.........+...+.+.+.+++.+ ..+.+|+..... .+..
T Consensus 114 ~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~a~~ 187 (265)
T cd06291 114 HIAHIGGPNNTVSPTNLRYEGFLDVLKENGLE-----VRIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDL-TAIL 187 (265)
T ss_pred EEEEEccCcccccchHHHHHHHHHHHHHcCCC-----CChheeeccccchHHHHHHHHHHhCCCCCCEEEECChH-HHHH
Confidence 6777765432 33445567888887764322 1111122222233356677777744 357888874433 4445
Q ss_pred HHHhhccCCc------cEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 113 VAEIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 113 v~~~~~~~~i------p~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
+...+...++ .+++.... + ......|.+..+..+...++...++.|
T Consensus 188 ~~~al~~~g~~vp~di~v~g~d~~---~-~~~~~~~~~~tv~~~~~~~g~~a~~~l 239 (265)
T cd06291 188 VLKEAQQRGIRVPEDLQIIGYDGT---K-LTRLYTPELTTIRQPIEEIAKTAVDLL 239 (265)
T ss_pred HHHHHHHcCCCCCcceEEeccCCh---H-HHhhcCCCceeecCCHHHHHHHHHHHH
Confidence 5555555443 33443322 1 222223445556666667777666665
No 375
>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=41.52 E-value=88 Score=27.79 Aligned_cols=69 Identities=14% Similarity=0.209 Sum_probs=43.6
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.++++.+.++. +.+ +.+.. ++...+...|.+|++|+++...... ...+. +.+.....+.++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08450 13 QWLPEVLPILREEHPDLD--VELSS--LFSPQLAEALMRGKLDVAFMRPEIQ---SDGID-YQLLLKEPLIVVLPADH 82 (196)
T ss_pred hhHHHHHHHHHhhCCCcE--EEEEe--cChHHHHHHHhcCCccEEEEeCCCC---CCCcE-EEEEEccceEEEecCCC
Confidence 34467777777765 455 44443 2356789999999999988543221 12222 35667777888877654
No 376
>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=41.31 E-value=85 Score=27.84 Aligned_cols=70 Identities=16% Similarity=0.214 Sum_probs=45.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.++++.+.++. +.+ +.+.. ++...+...|.+|++|+++..... ..+.+. ..++....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~p~v~--i~i~~--~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (197)
T cd08438 13 LLFAPLLAAFRQRYPNIE--LELVE--YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPRGHP 83 (197)
T ss_pred hhcHHHHHHHHHHCcCeE--EEEEE--cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecCCCC
Confidence 34578888888775 444 44443 235678999999999999864332 122232 246677788888876643
No 377
>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=41.17 E-value=80 Score=28.02 Aligned_cols=69 Identities=13% Similarity=0.243 Sum_probs=44.3
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.++++. . +....++.+|.+|++|+++....... ..+ -+.+.....+.++++++.+
T Consensus 13 ~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~~~~~~~~~ 82 (197)
T cd08419 13 FAPRLLGAFCRRHPGVEVSLR--V--GNREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLVVIAPPDHP 82 (197)
T ss_pred HhhHHHHHHHHHCCCceEEEE--E--CCHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEEEEecCCCC
Confidence 4467777887775 5554443 3 23667899999999999985432211 112 2456777788888876643
No 378
>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=41.14 E-value=84 Score=28.31 Aligned_cols=69 Identities=19% Similarity=0.238 Sum_probs=44.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.+++..+.++. +.+ +.+.. ++...++..+.+|++|+++...... ...+. +.++....+.++++++.
T Consensus 14 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~h 83 (203)
T cd08445 14 GLLPELIRRFRQAAPDVE--IELIE--MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPAGH 83 (203)
T ss_pred hHHHHHHHHHHHHCCCeE--EEEEe--CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeCCC
Confidence 45567888887765 445 44433 2367899999999999998533221 12232 34677778888887654
No 379
>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=41.00 E-value=1.8e+02 Score=26.83 Aligned_cols=88 Identities=8% Similarity=-0.011 Sum_probs=52.9
Q ss_pred EEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC----hhH
Q 006683 169 RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS----LDM 244 (635)
Q Consensus 169 ~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~----~~~ 244 (635)
+|.+....++.- .-...-+...++..| +++.+-- .+ ......++.+++.++|+|.+ .+. ...
T Consensus 86 ~vv~~t~~gd~H--~lG~~~v~~~l~~~G-~~vi~LG---~~-------vp~e~~v~~~~~~~pd~v~l-S~~~~~~~~~ 151 (197)
T TIGR02370 86 KVVCGVAEGDVH--DIGKNIVVTMLRANG-FDVIDLG---RD-------VPIDTVVEKVKKEKPLMLTG-SALMTTTMYG 151 (197)
T ss_pred eEEEEeCCCchh--HHHHHHHHHHHHhCC-cEEEECC---CC-------CCHHHHHHHHHHcCCCEEEE-ccccccCHHH
Confidence 454444444432 333666777788888 7766432 11 22456777777778888877 554 355
Q ss_pred HHHHHHHHHHcCCCCCCeEEEeeCch
Q 006683 245 TIHLFTEANRMGLVGKDSVWIVTNTV 270 (635)
Q Consensus 245 ~~~~l~~a~~~g~~~~~~~~i~~~~~ 270 (635)
...+++++++.+.......|++....
T Consensus 152 ~~~~i~~l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 152 QKDINDKLKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHHHHHHHHcCCCCCCEEEEEChhc
Confidence 67777778888776544455555443
No 380
>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=40.77 E-value=96 Score=29.90 Aligned_cols=77 Identities=9% Similarity=0.035 Sum_probs=47.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhc--cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC-hhH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDM 244 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~--~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~-~~~ 244 (635)
|++|..+ ++|. ..+.+.+.+.+++ .| .++.... ... +. ......++.+...++|.||+ ... ...
T Consensus 2 Ig~v~~~~~~~~~--~~~~~gi~~~~~~~~~~-~~~~~~~---~~~---~~-~~~~~~i~~~~~~~~dgiIi-~~~~~~~ 70 (271)
T cd06321 2 IGVSVGDLGNPFF--VALAKGAEAAAKKLNPG-VKVTVVS---ADY---DL-NKQVSQIDNFIAAKVDLILL-NAVDSKG 70 (271)
T ss_pred eEEEecccCCHHH--HHHHHHHHHHHHHhCCC-eEEEEcc---CCC---CH-HHHHHHHHHHHHhCCCEEEE-eCCChhH
Confidence 5666654 4565 6778888899998 66 5554321 111 11 33456677777778998888 443 333
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....++.+.+.+.
T Consensus 71 ~~~~i~~~~~~~i 83 (271)
T cd06321 71 IAPAVKRAQAAGI 83 (271)
T ss_pred hHHHHHHHHHCCC
Confidence 4556677777664
No 381
>PRK10481 hypothetical protein; Provisional
Probab=40.67 E-value=1.5e+02 Score=28.00 Aligned_cols=83 Identities=16% Similarity=0.153 Sum_probs=48.2
Q ss_pred EEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
=+||++.|.... .....++.... |..+.+..... ..++....+++.++. .+++.+|+-....-.+...
T Consensus 130 ~riGVitP~~~q--------i~~~~~kw~~~--G~~v~~~~aspy~~~~~~l~~aa~~L~-~~gaD~Ivl~C~G~~~~~~ 198 (224)
T PRK10481 130 HQVGVIVPVEEQ--------LAQQAQKWQVL--QKPPVFALASPYHGSEEELIDAGKELL-DQGADVIVLDCLGYHQRHR 198 (224)
T ss_pred CeEEEEEeCHHH--------HHHHHHHHHhc--CCceeEeecCCCCCCHHHHHHHHHHhh-cCCCCEEEEeCCCcCHHHH
Confidence 489999998632 11122223333 33444433332 245556666677776 6888877754433334556
Q ss_pred HHhhccCCccEEeec
Q 006683 114 AEIASRVQVPILSFA 128 (635)
Q Consensus 114 ~~~~~~~~ip~Is~~ 128 (635)
..+-+..++|+|.+.
T Consensus 199 ~~le~~lg~PVI~~n 213 (224)
T PRK10481 199 DLLQKALDVPVLLSN 213 (224)
T ss_pred HHHHHHHCcCEEcHH
Confidence 667778999999754
No 382
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=40.63 E-value=2.8e+02 Score=29.54 Aligned_cols=67 Identities=9% Similarity=0.112 Sum_probs=45.6
Q ss_pred chHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 184 ~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
...+.+.+.+++.+ .+++....+.. +..+.....+++++.++|.||++.........++..++..+.
T Consensus 23 ~~~~~~~~~l~~~~-~~vv~~~~~~~------~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~ 89 (452)
T cd00578 23 EYAREVADLLNELP-VEVVDKPEVTG------TPDEARKAAEEFNEANCDGLIVWMHTFGPAKMWIAGLSELRK 89 (452)
T ss_pred HHHHHHHHHHhcCC-ceEEecCcccC------CHHHHHHHHHHHhhcCCcEEEEcccccccHHHHHHHHHhcCC
Confidence 34556677777777 77765443321 226788889999988999999856666666667777766543
No 383
>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=40.41 E-value=2.9e+02 Score=26.41 Aligned_cols=119 Identities=13% Similarity=0.043 Sum_probs=61.7
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEE---EecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHH
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQ---IRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETA 111 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~---~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~ 111 (635)
+|+++.+........-..|++.++++.+-. +... ..+...+...+.+.+.+++.. .++.+|+.. +...+.
T Consensus 111 ~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~ 184 (265)
T cd01543 111 HFAFYGLPGARWSDEREEAFRQLVAEAGYE-----CSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFAC-TDARAR 184 (265)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHcCCc-----cccccCccccccccHHHHHHHHHHHHhcCCCCcEEEec-ChHHHH
Confidence 566665544322334456777777664322 2111 111222344566677777743 357888874 434455
Q ss_pred HHHHhhccCCc------cEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH
Q 006683 112 VVAEIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (635)
Q Consensus 112 ~v~~~~~~~~i------p~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~ 163 (635)
.+...+...++ -++++... +.+..-..|.+-....+...+++..+++|.
T Consensus 185 g~~~~l~~~g~~vp~di~vigfd~~---~~~~~~~~~~ltti~~~~~~~g~~a~~~l~ 239 (265)
T cd01543 185 QLLEACRRAGIAVPEEVAVLGVDND---ELICELSRPPLSSVEQNAERIGYEAAKLLD 239 (265)
T ss_pred HHHHHHHHhCCCCCCceEEEeeCCc---hhhhccCCCCCceeecCHHHHHHHHHHHHH
Confidence 55555555444 34555433 222222224444566666777777777663
No 384
>PF12916 DUF3834: Protein of unknown function (DUF3834); InterPro: IPR024533 This family is likely to be related to solute-binding lipo-proteins.; PDB: 3MST_A.
Probab=40.40 E-value=39 Score=30.63 Aligned_cols=45 Identities=13% Similarity=0.234 Sum_probs=29.0
Q ss_pred cceeHHHH-HHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEec
Q 006683 488 DGFSIELF-RLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGD 535 (635)
Q Consensus 488 ~G~~~dl~-~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~ 535 (635)
.|=..|++ +.+++.-|.+.|++..+ .|..++.++..|++|.|+-+
T Consensus 76 kGsaADvl~Ral~d~~~~~~EvVytd---D~~~i~~Ml~~g~vdsAVv~ 121 (201)
T PF12916_consen 76 KGSAADVLTRALLDLKGIKAEVVYTD---DMSEIVKMLNEGEVDSAVVG 121 (201)
T ss_dssp TTSHHHHHHHHHHHHH--T-EEEE------HHHHHHHHHTT-E--EEEE
T ss_pred cccHHHHHHHHHHhhccccceeEEec---CHHHHHHHHhcCceeeeeec
Confidence 45566766 66777779898888765 49999999999999988765
No 385
>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=40.12 E-value=77 Score=28.45 Aligned_cols=70 Identities=20% Similarity=0.156 Sum_probs=45.1
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++.+.+...|.+|++|+++...... .+.+ .+.|.....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~v~--v~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~---~~~l-~~~~l~~~~~~~v~~~~~~ 83 (201)
T cd08459 13 YFLPRLLAALREVAPGVR--IETVR--LPVDELEEALESGEIDLAIGYLPDL---GAGF-FQQRLFRERYVCLVRKDHP 83 (201)
T ss_pred HHHHHHHHHHHHHCCCCe--EEEEe--cCccCHHHHhhCCCceEEEEcCCCC---cccc-eEEEeecCceEEEEcCCCc
Confidence 34467788877765 445 44433 2245689999999999998643322 2233 3457778888888876644
No 386
>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=40.06 E-value=93 Score=27.67 Aligned_cols=70 Identities=17% Similarity=0.132 Sum_probs=45.7
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.++++. . ++...++..|.+|++|+++..... ..+.+ .+.|+....++++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~-~~~~l~~~~~~~~~~~~~~ 83 (198)
T cd08412 13 YYLPGLLRRFREAYPGVEVRVV--E--GNQEELEEGLRSGELDLALTYDLD---LPEDI-AFEPLARLPPYVWLPADHP 83 (198)
T ss_pred hhhHHHHHHHHHHCCCcEEEEE--E--CCHHHHHHHHHcCCCcEEEEcCCC---CCccc-ceeeeeccceEEEecCCCC
Confidence 44568888887765 4554443 3 235678999999999998864322 22333 2367888888888876543
No 387
>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=40.05 E-value=97 Score=27.52 Aligned_cols=69 Identities=6% Similarity=-0.011 Sum_probs=43.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.+++..+.++. +.+ +.+.. +....+..++.+|++|+++...... ...+. +.+.....+.++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~i~--~~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08456 13 SFLPRAIKAFLQRHPDVT--ISIHT--RDSPTVEQWLSAQQCDLGLVSTLHE---PPGIE-RERLLRIDGVCVLPPGH 82 (196)
T ss_pred hhHHHHHHHHHHHCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEEecCCC---CCCee-EEEeeccCeEEEecCCC
Confidence 45568888888876 455 44443 2356788999999999998643221 22222 34666677777776543
No 388
>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=39.88 E-value=84 Score=28.27 Aligned_cols=68 Identities=13% Similarity=0.131 Sum_probs=43.0
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-..++..+.++. +.+ +.+.. ++- .++..|.+|++|+++..-... ...+. ..|.....++++++++.+
T Consensus 14 ~l~~~i~~~~~~~P~i~--l~i~~--~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~hp 82 (200)
T cd08462 14 LLPPVIERVAREAPGVR--FELLP--PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWADNP 82 (200)
T ss_pred HHHHHHHHHHHHCCCCE--EEEec--CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcCCCC
Confidence 3456777777765 455 44443 223 799999999999998643221 12232 346777788888776654
No 389
>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=39.87 E-value=77 Score=28.32 Aligned_cols=70 Identities=10% Similarity=0.068 Sum_probs=44.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.++++... +.+.+...+.+|++|+++..... ..+.+ -+.++....+.++++++.+
T Consensus 13 ~~l~~~l~~f~~~~P~v~i~i~~~----~~~~~~~~l~~~~~Di~i~~~~~---~~~~~-~~~~l~~~~~~lv~~~~~p 83 (198)
T cd08461 13 AILPPLLAALRQEAPGVRVAIRDL----ESDNLEAQLERGEVDLALTTPEY---APDGL-RSRPLFEERYVCVTRRGHP 83 (198)
T ss_pred HHhHHHHHHHHHHCCCcEEEEeeC----CcccHHHHHhcCCCcEEEecCcc---CCccc-eeeeeecCcEEEEEcCCCh
Confidence 34567888887765 455444322 24568999999999998853221 12222 2457777888888776643
No 390
>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=39.80 E-value=93 Score=30.84 Aligned_cols=77 Identities=10% Similarity=0.174 Sum_probs=47.6
Q ss_pred EEEEEEc---CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc--CceEEEEecCChhH
Q 006683 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDM 244 (635)
Q Consensus 170 vaii~~~---~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~--~~~vii~~~~~~~~ 244 (635)
|+++..+ ++|. ..+.+.+++.+++.| ..+..... .. + .......++.+.+. ++|.||+ ......
T Consensus 2 Igvi~~~~~~~~~~--~~~~~gi~~~~~~~g-~~v~~~~~---~~---~-~~~~~~~i~~~~~~~~~vdgiIi-~~~~~~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFW--NSVARFMQAAADDLG-IELEVLYA---ER---D-RFLMLQQARTILQRPDKPDALIF-TNEKSV 70 (305)
T ss_pred eEEecCCCCCCcHH--HHHHHHHHHHHHhcC-CeEEEEeC---CC---C-HHHHHHHHHHHHHhccCCCEEEE-cCCccc
Confidence 5566533 3455 666778888888888 77654321 11 1 13345677778777 8999888 543333
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....++.+.+.|+
T Consensus 71 ~~~~~~~~~~~gi 83 (305)
T cd06324 71 APELLRLAEGAGV 83 (305)
T ss_pred hHHHHHHHHhCCC
Confidence 4455677777665
No 391
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=39.79 E-value=63 Score=24.47 Aligned_cols=41 Identities=15% Similarity=0.221 Sum_probs=32.5
Q ss_pred HHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEE
Q 006683 158 IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQ 202 (635)
Q Consensus 158 l~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~ 202 (635)
..++++.+ .++|.+.+++|.-| ....+.+.+.+.+.| ..+.
T Consensus 35 ~~~~L~~~-~~~vii~~D~D~aG--~~a~~~~~~~l~~~g-~~~~ 75 (79)
T cd03364 35 QAELLKRL-AKEVILAFDGDEAG--QKAALRALELLLKLG-LNVR 75 (79)
T ss_pred HHHHHHhc-CCeEEEEECCCHHH--HHHHHHHHHHHHHCC-CeEE
Confidence 35566655 68899999999888 888888999999888 6654
No 392
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=39.48 E-value=2.2e+02 Score=30.14 Aligned_cols=91 Identities=14% Similarity=0.142 Sum_probs=52.0
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCH--HHHHHHHHHHhhcCCeEEE--E-cCCCh
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDP--FQAATAAQELINKEKVKVI--A-GMETW 107 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~--~~a~~~~~~li~~~~v~ai--i-G~~~s 107 (635)
-+-+||+|.+.++. |++.-+..++...|..++.+...--+++. ...+++...+-....+++| . |+.+-
T Consensus 128 ~p~~i~vits~~~a-------a~~D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~ 200 (432)
T TIGR00237 128 FPKRVGVITSQTGA-------ALADILHILKRRDPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSL 200 (432)
T ss_pred CCCEEEEEeCCccH-------HHHHHHHHHHhhCCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCH
Confidence 47899999999863 56666777777766555544333333322 2222223222211223333 3 33332
Q ss_pred h-----hHHHHHHhhccCCccEEeecCC
Q 006683 108 E-----ETAVVAEIASRVQVPILSFAAP 130 (635)
Q Consensus 108 ~-----~~~~v~~~~~~~~ip~Is~~~~ 130 (635)
+ ....++.......+|+||.-+.
T Consensus 201 eDL~~Fn~e~~~rai~~~~~Pvis~iGH 228 (432)
T TIGR00237 201 EDLWSFNDEKVARAIFLSKIPIISAVGH 228 (432)
T ss_pred HHhhhcCcHHHHHHHHcCCCCEEEecCc
Confidence 2 3356677778899999998877
No 393
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=39.34 E-value=2.1e+02 Score=26.94 Aligned_cols=82 Identities=16% Similarity=0.135 Sum_probs=51.5
Q ss_pred EEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC-CCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHH
Q 006683 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (635)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (635)
-+||++.|... +.....+ +...- +.++.+...... ++.....+++.+|. +++..+|+-..-..+...=
T Consensus 126 ~~vGVivP~~e----Q~~~~~~----kW~~l--~~~~~~a~asPy~~~~~~l~~Aa~~L~-~~gadlIvLDCmGYt~~~r 194 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAE----KWQPL--GNPVVVAAASPYEGDEEELAAAARELA-EQGADLIVLDCMGYTQEMR 194 (221)
T ss_pred CeEEEEecCHH----HHHHHHH----HHHhc--CCCeEEEEeCCCCCCHHHHHHHHHHHH-hcCCCEEEEECCCCCHHHH
Confidence 68999999962 2222222 22222 245666666654 67777777777776 7888888865444444444
Q ss_pred HHhhccCCccEEee
Q 006683 114 AEIASRVQVPILSF 127 (635)
Q Consensus 114 ~~~~~~~~ip~Is~ 127 (635)
..+.+..++|+|-.
T Consensus 195 ~~~~~~~g~PVlLs 208 (221)
T PF07302_consen 195 DIVQRALGKPVLLS 208 (221)
T ss_pred HHHHHHhCCCEEeH
Confidence 45566789999864
No 394
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.31 E-value=1.2e+02 Score=29.09 Aligned_cols=77 Identities=10% Similarity=0.073 Sum_probs=46.5
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+..... ... .......++.+.+.+.+.||+ .........
T Consensus 2 Igvv~~~~~~~~~--~~~~~~i~~~a~~~g-~~~~~~~~--~~~-----~~~~~~~i~~l~~~~vdgii~-~~~~~~~~~ 70 (269)
T cd06281 2 IGCLVSDITNPLL--AQLFSGAEDRLRAAG-YSLLIANS--LND-----PERELEILRSFEQRRMDGIII-APGDERDPE 70 (269)
T ss_pred EEEEecCCccccH--HHHHHHHHHHHHHcC-CEEEEEeC--CCC-----hHHHHHHHHHHHHcCCCEEEE-ecCCCCcHH
Confidence 5666654 3455 667788888888888 77654321 111 133456777777778888888 443333344
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
+++.+.+.+.
T Consensus 71 ~~~~~~~~~i 80 (269)
T cd06281 71 LVDALASLDL 80 (269)
T ss_pred HHHHHHhCCC
Confidence 5666666554
No 395
>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=39.18 E-value=91 Score=27.54 Aligned_cols=69 Identities=19% Similarity=0.314 Sum_probs=44.3
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-..++.++.++. +.+ +.+.. +....+..++.+|++|+++.... ...+.+. +.++....++++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~~~ 83 (195)
T cd08434 14 LVPDLIRAFRKEYPNVT--FELHQ--GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPKDHP 83 (195)
T ss_pred hhHHHHHHHHHhCCCeE--EEEec--CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecCCCc
Confidence 4457777777765 555 44433 23567899999999999886432 2233333 246777788888776643
No 396
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=38.92 E-value=87 Score=30.54 Aligned_cols=70 Identities=6% Similarity=0.040 Sum_probs=46.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.++++... ....++..|.+|++|+++...... . ..+ ...|+....+.++++++.+
T Consensus 102 ~~l~~~l~~f~~~~P~v~v~~~~~----~~~~~~~~l~~g~~Dl~i~~~~~~--~-~~l-~~~~l~~~~~~~v~~~~~~ 172 (275)
T PRK03601 102 CMLTPWLGRLYQNQEALQFEARIA----QRQSLVKQLHERQLDLLITTEAPK--M-DEF-SSQLLGHFTLALYTSAPSK 172 (275)
T ss_pred HHHHHHHHHHHHhCCCcEEEEEEC----ChHHHHHHHHcCCCCEEEEcCCCc--c-CCc-cEEEecceeEEEEecCchh
Confidence 44567777776653 555434332 256799999999999999754332 2 223 4458888888999887654
No 397
>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=38.76 E-value=1e+02 Score=27.61 Aligned_cols=70 Identities=13% Similarity=0.138 Sum_probs=45.1
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.+ +.+.. +....+...|.+|++|+++..... .....+. +.+.....+.++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~i~--v~~~~--~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~hp 84 (198)
T cd08413 14 VLPPVIAAFRKRYPKVK--LSLHQ--GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPPGHP 84 (198)
T ss_pred hccHHHHHHHHhCCceE--EEEEe--CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecCCCc
Confidence 4467888887775 344 44433 236779999999999999853221 1122233 357777888888876654
No 398
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=38.72 E-value=1.9e+02 Score=28.44 Aligned_cols=95 Identities=13% Similarity=0.123 Sum_probs=64.7
Q ss_pred ceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHH
Q 006683 142 PYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVR 221 (635)
Q Consensus 142 p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~ 221 (635)
.++++-..+ +..++++.++.+++|.+.+.+|-+.++ .+.+++.|+..| -..+.++.-- ..
T Consensus 162 D~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~~-------ieel~~~Lk~lG-A~~ViTeeel-----------~~ 221 (354)
T KOG0025|consen 162 DSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRPN-------IEELKKQLKSLG-ATEVITEEEL-----------RD 221 (354)
T ss_pred CeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCcc-------HHHHHHHHHHcC-CceEecHHHh-----------cc
Confidence 466665554 456899999999999999999976543 677888899898 5555443211 11
Q ss_pred HHHHhh--hhcCceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 222 GELKKV--QDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 222 ~~l~~l--~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
.-.++. ...+++.-+- +..+..+..+.+.+.+-|.
T Consensus 222 ~~~~k~~~~~~~prLalN-cVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 222 RKMKKFKGDNPRPRLALN-CVGGKSATEIARYLERGGT 258 (354)
T ss_pred hhhhhhhccCCCceEEEe-ccCchhHHHHHHHHhcCce
Confidence 122222 2336777777 7778888888888877554
No 399
>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=38.64 E-value=1e+02 Score=27.28 Aligned_cols=72 Identities=18% Similarity=0.239 Sum_probs=46.0
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++.+.++..|.+|++|+++...... ...+.+ .+.+.....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~~~p 85 (195)
T cd08427 13 GLLPRALARLRRRHPDLE--VHIVP--GLSAELLARVDAGELDAAIVVEPPF-PLPKDL-VWTPLVREPLVLIAPAELA 85 (195)
T ss_pred HHhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCCCEEEEcCCCC-ccccCc-eEEEcccCcEEEEECCCCC
Confidence 34567888887766 555 44433 2367799999999999998642211 102223 2456777888888877654
No 400
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=38.62 E-value=1.4e+02 Score=31.33 Aligned_cols=90 Identities=14% Similarity=0.132 Sum_probs=57.4
Q ss_pred EEEEEEeeCCCcCcHHHHHHHHHHHHh--HhcCCC-CeEEEEEEecCCCCHHHHHHH-HHHHh-hcCCeEEEEcCCChhh
Q 006683 35 TKIGAIVDANSQMGKQAITAMKIAVQN--FNSDSR-NHKLSLQIRDHNRDPFQAATA-AQELI-NKEKVKVIAGMETWEE 109 (635)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~--iN~~~~-g~~l~~~~~D~~~~~~~a~~~-~~~li-~~~~v~aiiG~~~s~~ 109 (635)
-+||++..-+ ..-.+ ...+--+++. .+..+| +..-++.+.|+=|++..--+. +.+|. .+-.+.+|||+..|+.
T Consensus 299 ~kvgvvnQTT-m~~~e-t~~I~~~l~~~~~~k~gp~~~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSN 376 (460)
T PLN02821 299 VKVGIANQTT-MLKGE-TEEIGKLLEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSN 376 (460)
T ss_pred ccEEEEECCC-CcHHH-HHHHHHHHHHhhhhhcCCcccCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCcc
Confidence 5688666433 22122 2233333433 233332 333556778988888665555 55665 3567889999999999
Q ss_pred HHHHHHhhccCCccEEe
Q 006683 110 TAVVAEIASRVQVPILS 126 (635)
Q Consensus 110 ~~~v~~~~~~~~ip~Is 126 (635)
+..++++|...++|..-
T Consensus 377 T~~L~eIa~~~g~~sy~ 393 (460)
T PLN02821 377 TSHLQEIAEHKGIPSYW 393 (460)
T ss_pred HHHHHHHHHHhCCCEEE
Confidence 99999999999988653
No 401
>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=38.61 E-value=1e+02 Score=27.42 Aligned_cols=68 Identities=15% Similarity=0.200 Sum_probs=45.1
Q ss_pred eHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 491 SIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 491 ~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
-.+++..+.++. +.+ +.+.. ++...++..|.+|++|+++.... ...+.+. ..+.....+.++++++.+
T Consensus 15 l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~~p 83 (198)
T cd08421 15 LPEDLASFLAAHPDVR--IDLEE--RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPRDHP 83 (198)
T ss_pred hHHHHHHHHHHCCCce--EEEEe--cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCCCCC
Confidence 457888887765 455 44433 23567899999999999886432 2233343 357778888888876653
No 402
>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=38.56 E-value=94 Score=28.03 Aligned_cols=69 Identities=17% Similarity=0.168 Sum_probs=43.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
++-.+++..+.++. +.+ +.+.. ++...++..|.+|++|+++...... .+.+.. .+.....++++++++.
T Consensus 13 ~~l~~~l~~f~~~~P~i~--l~i~~--~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~~h 82 (200)
T cd08465 13 LVLPALMRQLRAEAPGID--LAVSQ--ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADRAT 82 (200)
T ss_pred HhhhHHHHHHHHHCCCcE--EEEec--CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeCCC
Confidence 44567777776653 444 44443 3477899999999999988633221 222332 3566677778776654
No 403
>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=38.40 E-value=1e+02 Score=27.41 Aligned_cols=72 Identities=15% Similarity=0.219 Sum_probs=44.7
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-..++..+.++. +.+ +.+.. ++...+...|.+|++|+++...... ...+.+. +.+.....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~~~~ 85 (201)
T cd08418 13 TLMPAVINRFKEQFPDVQ--ISIYE--GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARKDHP 85 (201)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEe--CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCCCCc
Confidence 34467777777765 455 44433 2367899999999999998643221 1122332 246667778888876643
No 404
>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=38.39 E-value=61 Score=31.18 Aligned_cols=98 Identities=10% Similarity=0.188 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHh---ccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh
Q 006683 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ---NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (635)
Q Consensus 153 ~~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~---~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~ 229 (635)
...++.-++++.||-..|..++-.+.+. ...-..+.+.+. .-. ++... +.... ....+.++++|+
T Consensus 17 d~~r~Ae~l~~~Yg~~~I~h~tyPdnf~--~e~EttIskI~~lAdDp~-mKaIV---v~q~v------pGt~~af~kIke 84 (275)
T PF12683_consen 17 DEYRGAEELIKKYGDVMIKHVTYPDNFM--SEQETTISKIVSLADDPD-MKAIV---VSQAV------PGTAEAFRKIKE 84 (275)
T ss_dssp HHHHHHHHHHHHHHHHEEEEEE--TTGG--GCHHHHHHHHHGGGG-TT-EEEEE---EE-SS---------HHHHHHHHH
T ss_pred HHHHHHHHHHHHhCcceEEEEeCCCccc--chHHHHHHHHHHhccCCC-ccEEE---EeCCC------cchHHHHHHHHh
Confidence 3445555666777765666555556666 555556666555 233 44332 22222 335689999999
Q ss_pred cCceEEEEecCChhH--------------------HHHHHHHHHHcCCCCCCeEEE
Q 006683 230 KQSRVFIVLQASLDM--------------------TIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 230 ~~~~vii~~~~~~~~--------------------~~~~l~~a~~~g~~~~~~~~i 265 (635)
+.+|++++ .+.+.+ ...+...|+++|-.. ++.+
T Consensus 85 kRpDIl~i-a~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mGAkt--FVh~ 137 (275)
T PF12683_consen 85 KRPDILLI-AGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMGAKT--FVHY 137 (275)
T ss_dssp H-TTSEEE-ESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT-S---EEEE
T ss_pred cCCCeEEE-cCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcCCce--EEEE
Confidence 99999998 777543 456677788888744 4444
No 405
>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=38.33 E-value=1e+02 Score=27.47 Aligned_cols=69 Identities=17% Similarity=0.175 Sum_probs=43.5
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-.+++..+.++. +.+++++ . +++..+..+|.+|++|+++...... ....+. +.++....+.++++++.
T Consensus 14 ~l~~~l~~~~~~~P~v~l~~~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~~~ 83 (199)
T cd08430 14 FLPPILERFRAQHPQVEIKLH--T--GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPNIA 83 (199)
T ss_pred eccHHHHHHHHHCCCceEEEE--e--CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeCCc
Confidence 3457888888887 5664443 3 2367789999999999988642211 111222 34566667777776653
No 406
>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=38.24 E-value=50 Score=27.42 Aligned_cols=86 Identities=15% Similarity=0.186 Sum_probs=47.8
Q ss_pred eEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCC-CCCchHHHHHHHHhhh--hcCceEEEEecCChhH
Q 006683 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISS-ISDPKEAVRGELKKVQ--DKQSRVFIVLQASLDM 244 (635)
Q Consensus 168 ~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~-~~d~~~~~~~~l~~l~--~~~~~vii~~~~~~~~ 244 (635)
|++++|..++..+ .....+.+.+.+.| .++... .+... ..+ ......+. ...+|.+++ ...+..
T Consensus 1 ksiAVvGaS~~~~---~~g~~v~~~l~~~G-~~v~~V---np~~~~i~G-----~~~y~sl~e~p~~iDlavv-~~~~~~ 67 (116)
T PF13380_consen 1 KSIAVVGASDNPG---KFGYRVLRNLKAAG-YEVYPV---NPKGGEILG-----IKCYPSLAEIPEPIDLAVV-CVPPDK 67 (116)
T ss_dssp -EEEEET--SSTT---SHHHHHHHHHHHTT--EEEEE---STTCSEETT-----EE-BSSGGGCSST-SEEEE--S-HHH
T ss_pred CEEEEEcccCCCC---ChHHHHHHHHHhCC-CEEEEE---CCCceEECc-----EEeeccccCCCCCCCEEEE-EcCHHH
Confidence 5788888766543 33455555666677 665432 22210 000 01223333 358999999 999999
Q ss_pred HHHHHHHHHHcCCCCCCeEEEeeCc
Q 006683 245 TIHLFTEANRMGLVGKDSVWIVTNT 269 (635)
Q Consensus 245 ~~~~l~~a~~~g~~~~~~~~i~~~~ 269 (635)
...+++++.++|.. .+|+.++.
T Consensus 68 ~~~~v~~~~~~g~~---~v~~~~g~ 89 (116)
T PF13380_consen 68 VPEIVDEAAALGVK---AVWLQPGA 89 (116)
T ss_dssp HHHHHHHHHHHT-S---EEEE-TTS
T ss_pred HHHHHHHHHHcCCC---EEEEEcch
Confidence 99999999999854 48988874
No 407
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=38.10 E-value=1.5e+02 Score=29.94 Aligned_cols=47 Identities=9% Similarity=0.092 Sum_probs=29.4
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC--CCHHH
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQ 84 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~~~~~ 84 (635)
..++.+...|.+. ....++....+.++...+| +|++.++.+. ++...
T Consensus 28 ~~l~~~~~~~~~~----p~~~~~~~fa~~v~ekt~G-~l~i~vfP~~qLG~~~~ 76 (332)
T COG1638 28 LVLRFSHVTPEGH----PKGKAAKKFAELVEEKTGG-RLKIEVFPNSQLGGEAE 76 (332)
T ss_pred eEEeecccCCCCC----cHHHHHHHHHHHHHHHhCC-eEEEEECCCcccCcHHH
Confidence 4577777775554 4456777777888877644 5666666643 44433
No 408
>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=38.07 E-value=98 Score=27.79 Aligned_cols=71 Identities=13% Similarity=0.179 Sum_probs=45.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
++-.+++.++.++. +.++++. . ++...++..|.+|++|+++..... .....+ -+.+.....+.+++++..+
T Consensus 13 ~~l~~~l~~~~~~~P~v~l~i~--~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~~hp 84 (198)
T cd08444 13 YALPWVVQAFKEQFPNVHLVLH--Q--GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVPVGHP 84 (198)
T ss_pred hhhhHHHHHHHHHCCCeEEEEE--e--CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEecCCCc
Confidence 45578888888875 4554443 3 236679999999999998863221 112223 2457777778888766543
No 409
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=37.95 E-value=1.2e+02 Score=30.13 Aligned_cols=71 Identities=7% Similarity=0.126 Sum_probs=46.5
Q ss_pred CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcC
Q 006683 177 NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 177 ~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
.++. ....+.+.+.+++.| ..+.... ... + .....+.++.+.+.++|.|++...........++.+.+.+
T Consensus 10 ~~~~--~~~~~~i~~~a~~~g-~~v~~~~---~~~---~-~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~ 79 (302)
T TIGR02634 10 LERW--QKDRDIFVAAAESLG-AKVFVQS---ANG---N-EAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEG 79 (302)
T ss_pred hhhH--HHHHHHHHHHHHhcC-CEEEEEe---CCC---C-HHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCC
Confidence 3455 677788889999999 7775431 111 1 1344577888888899998883333444566777777766
Q ss_pred C
Q 006683 257 L 257 (635)
Q Consensus 257 ~ 257 (635)
+
T Consensus 80 i 80 (302)
T TIGR02634 80 I 80 (302)
T ss_pred C
Confidence 5
No 410
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=37.57 E-value=1.8e+02 Score=28.95 Aligned_cols=81 Identities=11% Similarity=0.114 Sum_probs=49.8
Q ss_pred CCeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh
Q 006683 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (635)
Q Consensus 166 ~w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~ 243 (635)
.-+.|+++..+ ++|. ..+.+.+.+.+.+.| ..+..... ..+. ......++.+...+.|.||+ .....
T Consensus 59 ~~~~Igvi~~~~~~~~~--~~~~~~i~~~~~~~g-y~~~i~~~-~~~~------~~~~~~~~~l~~~~vdgiIi-~~~~~ 127 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSY--ARIAKELEQQCREAG-YQLLIACS-DDNP------DQEKVVIENLLARQVDALIV-ASCMP 127 (327)
T ss_pred CCceEEEEeCCCCCccH--HHHHHHHHHHHHHCC-CEEEEEeC-CCCH------HHHHHHHHHHHHcCCCEEEE-eCCCC
Confidence 34578888764 4455 677888999999999 77654321 1111 23446677777788999888 43322
Q ss_pred HHHHHHHHHHHcCC
Q 006683 244 MTIHLFTEANRMGL 257 (635)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (635)
.....+..+.+.++
T Consensus 128 ~~~~~~~~l~~~~i 141 (327)
T TIGR02417 128 PEDAYYQKLQNEGL 141 (327)
T ss_pred CChHHHHHHHhcCC
Confidence 12344556666554
No 411
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=37.37 E-value=97 Score=30.68 Aligned_cols=69 Identities=9% Similarity=0.087 Sum_probs=45.2
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-..++..+.+.. +.+ +.+.. ++-+.++..|.+|++|+++.......+ . -.+.++....+++++++..+
T Consensus 105 ~~~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~---~-l~~~~l~~~~~~~~~~~~hp 174 (305)
T PRK11151 105 LLPHIIPMLHQTFPKLE--MYLHE--AQTHQLLAQLDSGKLDCAILALVKESE---A-FIEVPLFDEPMLLAVYEDHP 174 (305)
T ss_pred HHHHHHHHHHHHCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEEecCCCCC---C-eEEEEeccCcEEEEecCCCC
Confidence 3456777777654 444 54443 225679999999999999864322211 2 24568888899999876653
No 412
>PRK09492 treR trehalose repressor; Provisional
Probab=37.31 E-value=2.2e+02 Score=28.21 Aligned_cols=115 Identities=6% Similarity=-0.013 Sum_probs=63.6
Q ss_pred EEEEEEeeC-C-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 35 TKIGAIVDA-N-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 35 i~IG~i~p~-s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
=+||++... + ...+..-..|++.|+++.+- ++.. .....+...+.+.+.+++ +.++.+|+... ...+..
T Consensus 176 ~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~-----~~~~--~~~~~~~~~~~~~~~~~l-~~~~~ai~~~~-D~~A~g 246 (315)
T PRK09492 176 RHISYLGVDHSDVTTGKRRHQAYLAFCKQHKL-----TPVA--ALGGLSMQSGYELVAKVL-TPETTALVCAT-DTLALG 246 (315)
T ss_pred CeEEEEcCCcccchhHHHHHHHHHHHHHHcCC-----Ccee--ecCCCCchHHHHHHHHHh-hcCCCEEEEcC-cHHHHH
Confidence 367777522 2 12234556788888776532 2222 122234445666777777 46788998644 445555
Q ss_pred HHHhhccC---CccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 113 VAEIASRV---QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 113 v~~~~~~~---~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
+...+.+. +|.++++... .+.....|-+..+..+....++..+++|
T Consensus 247 ~~~al~~~g~~disvig~d~~----~~~~~~~p~lttv~~~~~~~g~~A~~~l 295 (315)
T PRK09492 247 ASKYLQEQGRDDIQVAGVGNT----PLLKFLFPNILSVDPGYAEAGRQAAQQL 295 (315)
T ss_pred HHHHHHHcCCCceEEEeeCch----hHhhhcCCCCceecccHHHHHHHHHHHH
Confidence 55555554 4555655432 2333334555556667677777777766
No 413
>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=37.28 E-value=3.2e+02 Score=27.52 Aligned_cols=72 Identities=15% Similarity=0.257 Sum_probs=45.3
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~v 234 (635)
..+.++++.++.+++.+|++...+ +...+.+.+.+++. . ..+ +. ...+.. ..++..+.+..+++.++|+
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~---~~~~~~v~~~l~~~~~-~~~-~~-~~~~~p----~~~~v~~~~~~~~~~~~d~ 81 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVV---KGVGEKVADSLKKLIA-VHI-FD-GVGPNP----TFEEVKEAVERARAAEVDA 81 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchh---hhHHHHHHHHHHhcCc-EEE-eC-CcCCCc----CHHHHHHHHHHHHhcCcCE
Confidence 345667788888999999865442 44566777777652 2 211 11 111111 1256778888888889999
Q ss_pred EEE
Q 006683 235 FIV 237 (635)
Q Consensus 235 ii~ 237 (635)
||.
T Consensus 82 IIa 84 (332)
T cd07766 82 VIA 84 (332)
T ss_pred EEE
Confidence 986
No 414
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=37.23 E-value=4.5e+02 Score=26.51 Aligned_cols=122 Identities=15% Similarity=0.022 Sum_probs=74.2
Q ss_pred eEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcC-C-eEEEEcCCChhhH
Q 006683 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE-K-VKVIAGMETWEET 110 (635)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~-~-v~aiiG~~~s~~~ 110 (635)
-=+||++.... ...+..-..|+..|+++.+-... ...+.....+...+.+.+.+++... . +.+|+- .+...+
T Consensus 175 ~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~----~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~-~nD~~A 249 (333)
T COG1609 175 HRRIAFIGGPLDSSASRERLEGYRAALREAGLPIN----PEWIVEGDFSEESGYEAAERLLARGEPRPTAIFC-ANDLMA 249 (333)
T ss_pred CceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCC----cceEEecCCChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHH
Confidence 35688887763 34445667788888887665421 3333444447778888888888533 3 789986 444555
Q ss_pred HHHHHhhccCC--ccE-EeecCCCCCC-CCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 111 AVVAEIASRVQ--VPI-LSFAAPAVTP-LSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 111 ~~v~~~~~~~~--ip~-Is~~~~~~~~-~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
..+...+.+.+ +|- |+..+. +. .+..-..|-+-.+..+....++..+++|
T Consensus 250 lg~l~~~~~~g~~vP~disviGf--Dd~~~~~~~~P~LTTv~~~~~~~G~~A~~~L 303 (333)
T COG1609 250 LGALRALRELGLRVPEDLSVIGF--DDIELARFLTPPLTTVRQPIEELGRRAAELL 303 (333)
T ss_pred HHHHHHHHHcCCCCCCeeEEEEe--cChhhhhhCCCCCeeecCCHHHHHHHHHHHH
Confidence 55555555544 553 444333 22 2333344666667777777777777765
No 415
>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=37.06 E-value=92 Score=28.04 Aligned_cols=70 Identities=19% Similarity=0.222 Sum_probs=44.0
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. +....++..|.+|++|+++..... . ...+. ..+.....++++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~~-~~~l~~~~~~~v~~~~h~ 83 (200)
T cd08467 13 ALLPRLAPRLRERAPGLD--LRLCP--IGDDLAERGLEQGTIDLAVGRFAV--P-PDGLV-VRRLYDDGFACLVRHGHP 83 (200)
T ss_pred HHHHHHHHHHHhhCCCCE--EEEec--CCcccHHHHhhCCCcCEEEecCCC--C-Cccce-eEEeeeccEEEEEcCCCc
Confidence 44567777877764 455 44443 235579999999999998853221 1 22233 346777777888766543
No 416
>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=37.02 E-value=83 Score=30.49 Aligned_cols=55 Identities=18% Similarity=0.167 Sum_probs=30.2
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aii 102 (635)
.+||||....... . -++.+.+.+-++ -|++++++..++...+..|+ ....+++-+
T Consensus 18 ~~l~vG~~~~~~~---~----~~~~~~~~~~~~-~G~~Ve~~~f~d~~~~~~Al-------~~G~ID~~~ 72 (258)
T TIGR00363 18 LHIKVGVISGAEQ---Q----VAEVAAKVAKEK-YGLDVELVEFNDYALPNEAV-------SKGDLDANA 72 (258)
T ss_pred CcEEEEeCCCChH---H----HHHHHHHHHHHh-cCCEEEEEEeCCcHHHHHHH-------HcCCCCeEe
Confidence 5799997654321 1 233333333222 26899999888765443322 256666643
No 417
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=36.83 E-value=94 Score=23.26 Aligned_cols=41 Identities=5% Similarity=-0.078 Sum_probs=29.6
Q ss_pred CCeEEEE---EEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChh
Q 006683 67 RNHKLSL---QIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (635)
Q Consensus 67 ~g~~l~~---~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~ 108 (635)
||++|.+ +.. ...|+..|++.+.+-..+.+..||||-..+.
T Consensus 10 ~G~ei~yl~iv~~-~~~d~d~Al~eM~e~A~~lGAnAVVGvr~d~ 53 (74)
T TIGR03884 10 PGLQLYYLGIVST-ESDNVDEIVENLREKVKAKGGMGLIAFRITC 53 (74)
T ss_pred CCeEEEEEEEEEE-ecCCHHHHHHHHHHHHHHcCCCEEEEEEEEc
Confidence 5766643 332 3349999999988888789999999965443
No 418
>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=36.79 E-value=1.4e+02 Score=28.72 Aligned_cols=77 Identities=14% Similarity=0.069 Sum_probs=46.2
Q ss_pred CeEEEEEEEc---------CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEE
Q 006683 167 WRRVAAIYED---------NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (635)
Q Consensus 167 w~~vaii~~~---------~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~ 237 (635)
.+.|++|..+ ++|. ..+.+.+.+.+++.| +.+.... ... .+.....+.+.+.++|.||+
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~v~~---~~~------~~~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFF--LSLLGGIADALAERG-YDLLLSF---VSS------PDRDWLARYLASGRADGVIL 70 (275)
T ss_pred ceEEEEEecCccccccccCCchH--HHHHHHHHHHHHHcC-CEEEEEe---CCc------hhHHHHHHHHHhCCCCEEEE
Confidence 4678888853 2344 566777888899999 7765432 111 11233444555668998887
Q ss_pred ecCChhHHHHHHHHHHHcCC
Q 006683 238 LQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 238 ~~~~~~~~~~~l~~a~~~g~ 257 (635)
...... ...++.+.+.|.
T Consensus 71 -~~~~~~-~~~~~~~~~~~i 88 (275)
T cd06295 71 -IGQHDQ-DPLPERLAETGL 88 (275)
T ss_pred -eCCCCC-hHHHHHHHhCCC
Confidence 433222 234677777665
No 419
>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=36.77 E-value=1.1e+02 Score=27.20 Aligned_cols=71 Identities=11% Similarity=0.099 Sum_probs=45.0
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++.++.++. +.+ +.+.. ++...+...|.+|++|+++.... .....+.+. ..+.....+.++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~~~~~~hp 85 (198)
T cd08437 14 YFPKLAKDLIKTGLMIQ--IDTYE--GGSAELLEQLLQGDLDIALLGSL-TPLENSALH-SKIIKTQHFMIIVSKDHP 85 (198)
T ss_pred HhHHHHHHHHHhCCceE--EEEEE--cCHHHHHHHHHcCCCCEEEecCC-CCCCcccce-EEEeecceEEEEecCCCc
Confidence 4467788888775 344 44433 23677999999999999885321 111223333 357777788888776643
No 420
>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=36.68 E-value=1.6e+02 Score=28.25 Aligned_cols=76 Identities=9% Similarity=0.058 Sum_probs=47.1
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+..... ... ...-...++.+.+.++|.||+ ....... .
T Consensus 2 igvi~p~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~~~--~~~-----~~~~~~~i~~~~~~~vdgii~-~~~~~~~-~ 69 (268)
T cd06270 2 IGLVVSDLDGPFF--GPLLSGVESVARKAG-KHLIITAG--HHS-----AEKEREAIEFLLERRCDALIL-HSKALSD-D 69 (268)
T ss_pred EEEEEccccCcch--HHHHHHHHHHHHHCC-CEEEEEeC--CCc-----hHHHHHHHHHHHHcCCCEEEE-ecCCCCH-H
Confidence 4555543 4565 677888899999999 77764321 111 133456777777889999998 5432222 2
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++++.+.|.
T Consensus 70 ~~~~~~~~~i 79 (268)
T cd06270 70 ELIELAAQVP 79 (268)
T ss_pred HHHHHhhCCC
Confidence 2666776665
No 421
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=36.67 E-value=1.1e+02 Score=30.59 Aligned_cols=71 Identities=14% Similarity=0.263 Sum_probs=44.9
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.+.. +.+ +.+.. +....++..|.+|++|+++....... ..+.+ -..|+....+.++++++.+
T Consensus 111 ~l~~~l~~~~~~~p~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~-~~~~l-~~~~l~~~~~~lv~~~~~p 182 (312)
T PRK10341 111 FMSDMINKFKEVFPKAQ--VSMYE--AQLSSFLPAIRDGRLDFAIGTLSNEM-KLQDL-HVEPLFESEFVLVASKSRT 182 (312)
T ss_pred hHHHHHHHHHHhCCCCE--EEEEe--CCHHHHHHHHHcCCCcEEEecCCccc-ccCCe-eEEEEecccEEEEEcCCCc
Confidence 3457777777654 344 44443 23678999999999999986432211 11222 3457778888888876644
No 422
>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=36.64 E-value=2.6e+02 Score=26.66 Aligned_cols=117 Identities=11% Similarity=0.069 Sum_probs=65.4
Q ss_pred EEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHHH
Q 006683 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (635)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~v 113 (635)
=+|+++.+........-..|++.++++.+-.. ..... ..++..+.+.+.+++.+ ..+.+|+. .+...+..+
T Consensus 116 ~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~-----~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~ 187 (263)
T cd06280 116 RRIGGLFGNASTTGAERRAGYEDAMRRHGLAP-----DARFV--APTAEAAEAALAAWLAAPERPEALVA-SNGLLLLGA 187 (263)
T ss_pred ceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCC-----Chhhc--ccCHHHHHHHHHHHhcCCCCCcEEEE-CCcHHHHHH
Confidence 35676655333233455677887777654321 11111 13455667777787743 35788886 344445555
Q ss_pred HHhhccCCc--c----EEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH
Q 006683 114 AEIASRVQV--P----ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (635)
Q Consensus 114 ~~~~~~~~i--p----~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~ 163 (635)
...+.+.++ | ++++... .+.....|.+..+..+...+++..+++|.
T Consensus 188 ~~~l~~~g~~~p~di~iig~d~~----~~~~~~~p~lt~i~~~~~~~g~~a~~~l~ 239 (263)
T cd06280 188 LRAVRAAGLRIPQDLALAGFDND----PWTELVGPGITVIEQPVEEIGRAAMSLLL 239 (263)
T ss_pred HHHHHHcCCCCCCcEEEEEeCCh----hHHHhcCCCceEecCCHHHHHHHHHHHHH
Confidence 566655553 3 4444433 22332335566677777888888888763
No 423
>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=36.63 E-value=1.2e+02 Score=26.82 Aligned_cols=71 Identities=18% Similarity=0.134 Sum_probs=44.6
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++...+...|.+|++|+++..... +..+.+. ..+.....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~~~~ 84 (194)
T cd08436 13 VDLPELLARFHRRHPGVD--IRLRQ--AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAPDHP 84 (194)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEec--CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecCCCc
Confidence 34567777777765 445 44443 235678999999999999864332 1223332 346677778888776643
No 424
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=36.55 E-value=23 Score=30.13 Aligned_cols=23 Identities=9% Similarity=0.543 Sum_probs=12.1
Q ss_pred HhHHHHHHHHHHHHHHHhhhhhc
Q 006683 578 WEMWMVTAASFIYTMFIVWLLEH 600 (635)
Q Consensus 578 ~~~W~~~~~~~~~~~~~~~~~~~ 600 (635)
|-+|+++++.++++.++++.+.+
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNR 24 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHH
Confidence 45566555555555555544444
No 425
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=36.46 E-value=2.9e+02 Score=28.58 Aligned_cols=97 Identities=14% Similarity=0.124 Sum_probs=59.1
Q ss_pred HHHHHHHHHHH--CCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcC
Q 006683 154 QMKCIADLARK--YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (635)
Q Consensus 154 ~~~al~~~l~~--~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~ 231 (635)
.+..+++.+.. ...++|.+.......| ......+.+.+++.| ..+.....|.... .+........+..+.+..
T Consensus 127 ~~e~L~~~l~~~~~~g~~vli~~~~~~~~--~~~~~~L~~~L~~~G-~~V~~~~vY~~~~--~~~~~~~~~~~~~l~~~~ 201 (381)
T PRK07239 127 SSAEVLEYLLEEGVAGKRIAVQLHGATDE--WEPLPEFLEALRAAG-AEVVPVPVYRWVP--PPDPGPLDRLVDAIASRG 201 (381)
T ss_pred ccHHHHHHHhcCCCCCCEEEEEcCCCccc--cCchHHHHHHHHHCC-CEEEEeCcEEEcC--CCChhHHHHHHHHHHcCC
Confidence 46777777754 3456766654332223 233456888999999 8877655443221 011122345566666667
Q ss_pred ceEEEEecCChhHHHHHHHHHHHcCC
Q 006683 232 SRVFIVLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (635)
.|+|++ .++..+..|+..+.+.++
T Consensus 202 ~d~v~F--tS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 202 LDAVTF--TSAPAVAALLERAREMGL 225 (381)
T ss_pred ccEEEE--cCHHHHHHHHHHHHHcCC
Confidence 888876 778888989888876553
No 426
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=36.37 E-value=1.1e+02 Score=30.59 Aligned_cols=83 Identities=8% Similarity=0.089 Sum_probs=55.5
Q ss_pred eEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHH
Q 006683 168 RRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (635)
Q Consensus 168 ~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (635)
.++++++.. ++|. ..+.+.+++..++.| ...... ..+... |. ..-...++.+..+++|.|++...++...
T Consensus 34 ~~i~~~~~~~~~~f~--~~~~~g~~~~a~~~g-~~~~~~-~~~~~~---d~-~~Q~~~i~~~ia~~~daIiv~~~d~~~~ 105 (322)
T COG1879 34 KTIGVVVPTLGNPFF--QAVRKGAEAAAKKLG-VVVAVV-IADAQN---DV-AKQIAQIEDLIAQGVDAIIINPVDPDAL 105 (322)
T ss_pred ceEEEEeccCCChHH--HHHHHHHHHHHHHcC-CcEEEE-eccccc---Ch-HHHHHHHHHHHHcCCCEEEEcCCChhhh
Confidence 567777754 3466 677778888888888 522211 111111 11 2234556666677999999978889999
Q ss_pred HHHHHHHHHcCCC
Q 006683 246 IHLFTEANRMGLV 258 (635)
Q Consensus 246 ~~~l~~a~~~g~~ 258 (635)
...++.|.+.|+.
T Consensus 106 ~~~v~~a~~aGIp 118 (322)
T COG1879 106 TPAVKKAKAAGIP 118 (322)
T ss_pred HHHHHHHHHCCCc
Confidence 9999999999873
No 427
>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=36.29 E-value=74 Score=27.91 Aligned_cols=84 Identities=14% Similarity=0.156 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
.++.+..++++++.+++.++-+.-. . ..+.+.+.+.+.-.| +++.... . .+..+.+++....+.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A-~--D~~~k~~l~ma~P~g-vk~~i~s---v--------~~a~~~l~~~~~~~~~ 77 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVVDDEVA-N--DPFQKMILKMAAPAG-VKLSIFS---V--------EEAIEKLKKPEYSKKR 77 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE-HHHH-H--SHHHHHHHHHTSHTT-SEEEEE----H--------HHHHHHHCGGGGTTEE
T ss_pred eeeeeEEEhhhcccCEEEEECHHHh-c--CHHHHHHHHHhhcCC-CceEEEE---H--------HHHHHHHHhcccCCce
Confidence 4667888999999999988855433 3 455666666666667 7776432 1 4566677777766788
Q ss_pred EEEEecCChhHHHHHHHHHH
Q 006683 234 VFIVLQASLDMTIHLFTEAN 253 (635)
Q Consensus 234 vii~~~~~~~~~~~~l~~a~ 253 (635)
++++ .-++.++..++++-.
T Consensus 78 v~ii-~k~~~d~~~l~~~g~ 96 (151)
T PF03830_consen 78 VLII-VKSPEDALRLVEAGV 96 (151)
T ss_dssp EEEE-ESSHHHHHHHHHTT-
T ss_pred EEEE-ECCHHHHHHHHhcCC
Confidence 9988 999999888765443
No 428
>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=35.95 E-value=1.1e+02 Score=27.35 Aligned_cols=69 Identities=9% Similarity=0.053 Sum_probs=44.0
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.+ +.+.. ++...+...+.+|++|+++...... ...+. +.+.....+.++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~hp 83 (199)
T cd08426 14 LLPSLIARFRQRYPGVF--FTVDV--ASTADVLEAVLSGEADIGLAFSPPP---EPGIR-VHSRQPAPIGAVVPPGHP 83 (199)
T ss_pred HHHHHHHHHHHhCCCeE--EEEEe--CCcHHHHHHHHCCCccEEEecCCCC---CCCeE-EEeeccCcEEEEecCCCC
Confidence 4467777777664 445 44433 2356789999999999998643222 12222 357777888888876543
No 429
>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=35.91 E-value=87 Score=27.95 Aligned_cols=70 Identities=20% Similarity=0.202 Sum_probs=45.5
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++...+...|.+|++|+++.... ...+.+ -..+.....+.++++++.+
T Consensus 13 ~~~~~~i~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~~~ 83 (200)
T cd08417 13 LLLPPLLARLRQEAPGVR--LRFVP--LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARKDHP 83 (200)
T ss_pred HHHHHHHHHHHhhCCCeE--EEecc--CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecCCCc
Confidence 44567777777765 344 44433 24678999999999999986432 222333 2357778888888876643
No 430
>COG0503 Apt Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]
Probab=35.80 E-value=3.4e+02 Score=24.60 Aligned_cols=109 Identities=16% Similarity=0.111 Sum_probs=63.2
Q ss_pred HHHHHHhhcCCeEEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCC
Q 006683 87 TAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN 166 (635)
Q Consensus 87 ~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~ 166 (635)
..+.+.....++..|+|+....... .+.++.+.++|++-.--. ..+....+...+.+... ........+.++ .
T Consensus 43 ~~~~~~~~~~~id~Iv~iea~Gi~~-a~~vA~~Lgvp~v~vRK~---~kl~~~~~~~~~~~~~~-~~~l~~~~~~l~--~ 115 (179)
T COG0503 43 DELAERYKDDGIDKIVTIEARGIPL-AAAVALELGVPFVPVRKK---GKLPEESVVETYYLEYG-SETLELHKDALK--P 115 (179)
T ss_pred HHHHHHhcccCCCEEEEEccccchh-HHHHHHHhCCCEEEEEec---CCCCCcceeEEEEEecc-ceEEEEEhhhCC--C
Confidence 3455555567899999988776433 346777889999865432 23333333333333333 111111111222 5
Q ss_pred CeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEee
Q 006683 167 WRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLV 206 (635)
Q Consensus 167 w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~ 206 (635)
.++|.||-+=-.-| .. +.++.+.+++.| .+++....
T Consensus 116 G~rVlIVDDllaTG--gT-~~a~~~Ll~~~g-a~vvg~~~ 151 (179)
T COG0503 116 GDRVLIVDDLLATG--GT-ALALIELLEQAG-AEVVGAAF 151 (179)
T ss_pred CCEEEEEecchhcC--hH-HHHHHHHHHHCC-CEEEEEEE
Confidence 67888875444455 33 778899999999 77776543
No 431
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=35.78 E-value=1.3e+02 Score=28.76 Aligned_cols=76 Identities=13% Similarity=0.186 Sum_probs=47.3
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
++++..+ ++|. ..+.+.+.+.+++.| .++..... ... .....+.++.+.+.++|.|++....... .
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~--~~~-----~~~~~~~i~~l~~~~~dgiii~~~~~~~--~ 69 (270)
T cd06296 2 IGLVFPDLDSPWA--SEVLRGVEEAAAAAG-YDVVLSES--GRR-----TSPERQWVERLSARRTDGVILVTPELTS--A 69 (270)
T ss_pred eEEEECCCCCccH--HHHHHHHHHHHHHcC-CeEEEecC--CCc-----hHHHHHHHHHHHHcCCCEEEEecCCCCh--H
Confidence 4566643 4566 777888989999999 77754321 111 1334567778888889988872333222 3
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++.+.+.+.
T Consensus 70 ~~~~~~~~~i 79 (270)
T cd06296 70 QRAALRRTGI 79 (270)
T ss_pred HHHHHhcCCC
Confidence 4666666554
No 432
>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=35.73 E-value=1.3e+02 Score=29.00 Aligned_cols=78 Identities=9% Similarity=0.073 Sum_probs=45.9
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhcc-CCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~-g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (635)
|+++..+ ++|. ..+.+.+.+.+.+. | ..+..... ..+. ....+.++.+...++|.|++.........
T Consensus 2 ig~~~~~~~~~~~--~~~~~~i~~~~~~~~g-~~~~~~~~-~~~~------~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 2 IGFSQCNLADPWR--AAMNDEIQREASNYPD-VELIIADA-ADDN------SKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred EEEEeeCCCCHHH--HHHHHHHHHHHHhcCC-cEEEEEcC-CCCH------HHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 5666644 2344 56677888888875 7 77654321 1111 33456677777778998888233333334
Q ss_pred HHHHHHHHcCC
Q 006683 247 HLFTEANRMGL 257 (635)
Q Consensus 247 ~~l~~a~~~g~ 257 (635)
..+..+.+.++
T Consensus 72 ~~~~~~~~~~i 82 (270)
T cd06308 72 PVVEEAYRAGI 82 (270)
T ss_pred HHHHHHHHCCC
Confidence 55666666665
No 433
>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=35.66 E-value=98 Score=27.76 Aligned_cols=70 Identities=19% Similarity=0.228 Sum_probs=44.6
Q ss_pred cceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 488 ~G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
..+-.+++..+.++. +.+ +.+.. ++. .++..|.+|++|+++..... ....+. ..|.....+.++++++.+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--v~l~~--~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~hp 82 (200)
T cd08460 12 AAFGPALLAAVAAEAPGVR--LRFVP--ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVRAGHP 82 (200)
T ss_pred HHHHHHHHHHHHHHCCCCE--EEEec--Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEeCCCC
Confidence 345577888887775 444 54443 224 68899999999999863322 122233 356777778888766543
No 434
>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=35.57 E-value=2e+02 Score=29.73 Aligned_cols=74 Identities=22% Similarity=0.232 Sum_probs=49.3
Q ss_pred HHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEE
Q 006683 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (635)
Q Consensus 156 ~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vi 235 (635)
..+.++++.++ +++.+|++... . ..+.+.+.+++.| +.+.... +.... ..+...+.++.+++.++|+|
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~----~-~~~~v~~~L~~~g-~~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~D~I 79 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASS----L-RAAWLIEALRAAG-IEVTHVV-VAGEP----SVELVDAAVAEARNAGCDVV 79 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCch----H-HHHHHHHHHHHcC-CeEEEec-CCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 34666777775 88888875432 2 4677888888888 7654322 22221 12567788888888899999
Q ss_pred EEecCCh
Q 006683 236 IVLQASL 242 (635)
Q Consensus 236 i~~~~~~ 242 (635)
|- .+.+
T Consensus 80 Ia-iGGG 85 (374)
T cd08183 80 IA-IGGG 85 (374)
T ss_pred EE-ecCc
Confidence 98 5444
No 435
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=35.50 E-value=4.6e+02 Score=26.14 Aligned_cols=137 Identities=10% Similarity=0.140 Sum_probs=77.1
Q ss_pred EEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
-.|+.+|-..+ ......++.|+.++.. ..+.+...++.-.-.+.++-..+.++.-++++|+-=.. .-..+.
T Consensus 46 k~~~~lF~~pS---TRTR~SFe~A~~~LGg----~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~~--~~~~~~ 116 (305)
T PRK00856 46 KTVANLFFEPS---TRTRLSFELAAKRLGA----DVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRHP--QSGAAR 116 (305)
T ss_pred cEEEEEeccCC---cchHHHHHHHHHHcCC----cEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeCC--ChHHHH
Confidence 45777776543 3557789999988753 34444333333222344555555554444555553211 223456
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH---HHCC---CeEEEEEEEcCCCCCCcchHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l---~~~~---w~~vaii~~~~~~g~~~~~~~~ 188 (635)
.+++..++|+|+.+.. . ...|. +++++++ +++| ..+|+++.+ ..++ ..+..
T Consensus 117 ~~a~~~~vPVINa~~g----~---~~HPt------------Q~LaDl~Ti~e~~G~l~g~kv~~vGD-~~~~---~v~~S 173 (305)
T PRK00856 117 LLAESSDVPVINAGDG----S---HQHPT------------QALLDLLTIREEFGRLEGLKVAIVGD-IKHS---RVARS 173 (305)
T ss_pred HHHHHCCCCEEECCCC----C---CCCcH------------HHHHHHHHHHHHhCCCCCCEEEEECC-CCCC---cHHHH
Confidence 6677789999987532 1 11232 5566654 5554 246777752 2233 34677
Q ss_pred HHHHHhccCCeEEEEE
Q 006683 189 LAEALQNVSSSEIQSR 204 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~ 204 (635)
+...+...| ..+...
T Consensus 174 l~~~~~~~g-~~~~~~ 188 (305)
T PRK00856 174 NIQALTRLG-AEVRLI 188 (305)
T ss_pred HHHHHHHcC-CEEEEE
Confidence 777888888 766543
No 436
>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=35.41 E-value=1.2e+02 Score=26.72 Aligned_cols=69 Identities=12% Similarity=0.112 Sum_probs=43.8
Q ss_pred eeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-.+++..+.++. -.+++.+.. ++...+...|.+|++|+++...... .+.+. ..+.....+.++++++.
T Consensus 14 ~l~~~l~~~~~~~-p~i~i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~ 82 (197)
T cd08414 14 LLPRLLRRFRARY-PDVELELRE--MTTAEQLEALRAGRLDVGFVRPPPD---PPGLA-SRPLLREPLVVALPADH 82 (197)
T ss_pred HHHHHHHHHHHHC-CCcEEEEec--CChHHHHHHHHcCCccEEEEcCCCC---CCCee-EEEEeeccEEEEecCCC
Confidence 4467777777765 223354443 2356799999999999998643222 22232 35677788888887654
No 437
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=35.30 E-value=1.5e+02 Score=30.89 Aligned_cols=93 Identities=15% Similarity=0.199 Sum_probs=54.5
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC--CC--HHHHHHHHHHHhhcCCeEEEE---cCC
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RD--PFQAATAAQELINKEKVKVIA---GME 105 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~~--~~~a~~~~~~li~~~~v~aii---G~~ 105 (635)
-+=+||+|.+.++. +++.-+..+....|. ++++++.+. ++ +.+.+++...+=....++++| |+.
T Consensus 134 ~p~~IGVITS~tgA-------airDIl~~~~rR~P~--~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGG 204 (440)
T COG1570 134 FPKKIGVITSPTGA-------ALRDILHTLSRRFPS--VEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGG 204 (440)
T ss_pred CCCeEEEEcCCchH-------HHHHHHHHHHhhCCC--CeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcc
Confidence 36789999999853 566667777777665 555555542 32 223333333222123366555 222
Q ss_pred Chh-----hHHHHHHhhccCCccEEeecCCCCCCCC
Q 006683 106 TWE-----ETAVVAEIASRVQVPILSFAAPAVTPLS 136 (635)
Q Consensus 106 ~s~-----~~~~v~~~~~~~~ip~Is~~~~~~~~~l 136 (635)
+-+ .-+.++......++|+||..+. .+++
T Consensus 205 SiEDLW~FNdE~vaRAi~~s~iPvISAVGH--EtD~ 238 (440)
T COG1570 205 SIEDLWAFNDEIVARAIAASRIPVISAVGH--ETDF 238 (440)
T ss_pred hHHHHhccChHHHHHHHHhCCCCeEeeccc--CCCc
Confidence 222 2356677777889999998877 4544
No 438
>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=35.13 E-value=41 Score=33.95 Aligned_cols=61 Identities=8% Similarity=0.068 Sum_probs=38.4
Q ss_pred CCEEEEecCCCCccceEEeecCCCCCCCCCCCccccceeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEE
Q 006683 453 EPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAA 532 (635)
Q Consensus 453 ~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~ 532 (635)
.+|||++..-+.|.|+..-.+.| ++++-.+..|++++++ +++ +....+.++..|++|++
T Consensus 2 ~~~~i~~~~w~G~~p~~lA~~~G------------------~fe~~l~~~Gl~Ve~~--~f~-~~~~~l~Al~aG~iD~~ 60 (328)
T TIGR03427 2 DKFKVCWSIYAGWMPWGYAAQQG------------------IVDKWADKYGITIEVV--QIN-DYVESINQYTAGKFDGC 60 (328)
T ss_pred CceEEEecCCccHHHHHHHHHcC------------------chhhhHHHcCCeEEEE--ECC-ChHHHHHHHHcCCCCEE
Confidence 46899987666666665433222 2222234568885554 443 37788899999999986
Q ss_pred Ee
Q 006683 533 VG 534 (635)
Q Consensus 533 ~~ 534 (635)
..
T Consensus 61 ~~ 62 (328)
T TIGR03427 61 TM 62 (328)
T ss_pred ee
Confidence 43
No 439
>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=35.05 E-value=1.2e+02 Score=31.73 Aligned_cols=66 Identities=15% Similarity=0.138 Sum_probs=44.0
Q ss_pred CCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEE
Q 006683 165 YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (635)
Q Consensus 165 ~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~ 237 (635)
.+.+++.+|++..-.. ....+.+.+.+++.| +.+.....+.+.. ..+...+.+..+++.++|+||-
T Consensus 19 ~~~~k~liVtd~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~IIa 84 (398)
T cd08178 19 KGKKRAFIVTDRFMVK--LGYVDKVIDVLKRRG-VETEVFSDVEPDP----SLETVRKGLELMNSFKPDTIIA 84 (398)
T ss_pred cCCCeEEEEcChhHHh--CccHHHHHHHHHHCC-CeEEEecCCCCCc----CHHHHHHHHHHHHhcCCCEEEE
Confidence 4568888888654332 336778899999988 7664322222222 1145778888888889999996
No 440
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=35.01 E-value=1.7e+02 Score=24.91 Aligned_cols=47 Identities=15% Similarity=0.270 Sum_probs=31.9
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS 241 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~ 241 (635)
...+.+.+++.| .++.....++.+. ..+.+.+++..+. +|+|+. .+.
T Consensus 21 ~~~l~~~l~~~G-~~v~~~~~v~Dd~------~~i~~~i~~~~~~-~Dlvit-tGG 67 (133)
T cd00758 21 GPALEALLEDLG-CEVIYAGVVPDDA------DSIRAALIEASRE-ADLVLT-TGG 67 (133)
T ss_pred HHHHHHHHHHCC-CEEEEeeecCCCH------HHHHHHHHHHHhc-CCEEEE-CCC
Confidence 456777888899 8877655444332 5677777777653 899988 443
No 441
>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=34.92 E-value=1.5e+02 Score=26.27 Aligned_cols=70 Identities=9% Similarity=-0.022 Sum_probs=44.2
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-..++..+.++. +.+ +.+.. +....++..|.+|++|+++...... .+...+. ..+.....+.++++++.
T Consensus 14 ~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~~~ 84 (197)
T cd08449 14 GLGPALRRFKRQYPNVT--VRFHE--LSPEAQKAALLSKRIDLGFVRFADT-LNDPPLA-SELLWREPMVVALPEEH 84 (197)
T ss_pred hHHHHHHHHHHHCCCeE--EEEEE--CCHHHHHHHHhCCCccEEEeccccc-CCCCCce-EEEEEEeeEEEEecCCC
Confidence 4467778887765 444 44443 2367789999999999988633221 0122232 35677778888876654
No 442
>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=34.71 E-value=1.2e+02 Score=26.65 Aligned_cols=70 Identities=16% Similarity=0.146 Sum_probs=45.1
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.++++. . ++...+...+.+|++|+++.... .....+ -..+.....+.++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~--~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~~~ 83 (193)
T cd08442 13 VRLPPLLAAYHARYPKVDLSLS--T--GTTGALIQAVLEGRLDGAFVAGP---VEHPRL-EQEPVFQEELVLVSPKGHP 83 (193)
T ss_pred hhhHHHHHHHHHHCCCceEEEE--e--CCcHHHHHHHHCCCccEEEEeCC---CCCCCc-EEEEeecCcEEEEecCCCc
Confidence 34468888887765 5664443 3 23567999999999999885422 222222 2346677778888877654
No 443
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=34.67 E-value=1.2e+02 Score=30.17 Aligned_cols=72 Identities=14% Similarity=0.201 Sum_probs=45.0
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.++++. . +....++..|.+|++|+++..-....+..+.+ ...++....+.++++++.+
T Consensus 109 ~~~~~l~~~~~~~P~v~i~~~--~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~~p 181 (305)
T CHL00180 109 LMPRLIGLFRQRYPQINVQLQ--V--HSTRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALIIPKSHP 181 (305)
T ss_pred HHHHHHHHHHHHCCCceEEEE--e--CCHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEECCCCc
Confidence 3457777777664 4454343 2 23678999999999999986322221111222 3467778888888877654
No 444
>cd08439 PBP2_LrhA_like The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold. This CD represents the LrhA subfamily of LysR-like bacterial transcriptional regulators, including LrhA, HexA, PecT, and DgdR. LrhA is involved in control of the transcription of flagellar, motility, and chemotaxis genes by regulating the synthesis and concentration of FlhD(2)C(2), the master regulator for the expression of flagellar and chemotaxis genes. The LrhA protein has strong homology to HexA and PecT from plant pathogenic bacteria, in which HexA and PecT act as repressors of motility and of virulence factors, such as exoenzymes required for lytic reactions. DgdR also shares similar characteristics to those of LrhA, HexA and PecT. 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 vari
Probab=34.60 E-value=1.4e+02 Score=26.38 Aligned_cols=66 Identities=9% Similarity=-0.155 Sum_probs=42.4
Q ss_pred eHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 491 SIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 491 ~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
-.+++..+.++. +.++++. . +....+..+|.+|++|+++.... . ..+ -+.+.....+.++++++.+
T Consensus 15 l~~~l~~~~~~~P~v~i~~~--~--~~~~~~~~~l~~~~~Dl~i~~~~----~-~~~-~~~~l~~~~~~~v~~~~~~ 81 (185)
T cd08439 15 LPFLLNRFASVYPRLAIEVV--C--KRTPRLMEMLERGEVDLALITHP----P-PGA-SATILRRSPTVWYCAAGYI 81 (185)
T ss_pred HHHHHHHHHHHCCCeEEEEE--E--CChHHHHHHHHCCCCcEEEEecc----C-CCC-CceEEEEecCEEEECCCCc
Confidence 457777777654 5564443 3 22567899999999999886321 1 112 2467777888888876643
No 445
>PRK02929 L-arabinose isomerase; Provisional
Probab=34.51 E-value=6.2e+02 Score=27.32 Aligned_cols=75 Identities=11% Similarity=0.105 Sum_probs=51.2
Q ss_pred HHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHHHHhhccCCccEEeecC
Q 006683 54 AMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPILSFAA 129 (635)
Q Consensus 54 a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v~~~~~~~~ip~Is~~~ 129 (635)
-.+.-++.+|.++ ..+++++....-.++..+.+.+.+.-.++++++||-..++ ..+..+.+.++..++|++-...
T Consensus 30 ~~~~i~~~l~~~~-~~~~~vv~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~~~i~~~~~l~~PvL~~~~ 105 (499)
T PRK02929 30 HAEEIVDGLNASG-KLPVKIVLKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPAKMWIRGLSALQKPLLHLHT 105 (499)
T ss_pred HHHHHHHHhcccC-CCCeEEEEcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchHHHHHHHHHHcCCCEEEEec
Confidence 3344455667654 4567777666667777666544444336788888877666 4466788889999999998876
No 446
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=34.26 E-value=3.5e+02 Score=25.28 Aligned_cols=85 Identities=20% Similarity=0.228 Sum_probs=48.5
Q ss_pred HHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEE
Q 006683 157 CIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (635)
Q Consensus 157 al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii 236 (635)
-+.+.++.. -++|++|=.-.....+....+.+++.+++.| ..+..-..... +...+-+.+. ++|+|+
T Consensus 23 ~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg-~~v~~L~l~~~---------~~~~Ie~~l~--~~d~Iy 89 (224)
T COG3340 23 FIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLG-LEVSELHLSKP---------PLAAIENKLM--KADIIY 89 (224)
T ss_pred HHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcC-CeeeeeeccCC---------CHHHHHHhhh--hccEEE
Confidence 344444443 4588887543321100336889999999999 77765443322 1223333343 567887
Q ss_pred EecCChhHHHHHHHHHHHcCC
Q 006683 237 VLQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 237 ~~~~~~~~~~~~l~~a~~~g~ 257 (635)
+ .+.....++++.++-|+
T Consensus 90 V---gGGNTF~LL~~lke~gl 107 (224)
T COG3340 90 V---GGGNTFNLLQELKETGL 107 (224)
T ss_pred E---CCchHHHHHHHHHHhCc
Confidence 7 34455666777776665
No 447
>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=34.20 E-value=4.1e+02 Score=25.25 Aligned_cols=119 Identities=12% Similarity=0.075 Sum_probs=64.2
Q ss_pred EEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHH
Q 006683 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (635)
Q Consensus 35 i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~ 112 (635)
-+|+++.... ......-..|++.++++.+-.. .- ..+.+...+...+.+.+.+++.. ..+.+|+.... ..+..
T Consensus 115 ~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~a~g 189 (265)
T cd06285 115 RRIAVLAGPDYASTARDRLAGFRAALAEAGIEV---PP-ERIVYSGFDIEGGEAAAEKLLRSDSPPTAIFAVND-FAAIG 189 (265)
T ss_pred ccEEEEeCCcccccHHHHHHHHHHHHHHcCCCC---Ch-hhEEeCCCCHHHHHHHHHHHHcCCCCCCEEEEcCc-HHHHH
Confidence 4677776433 2334455678888877644221 10 11123344566666777777743 35788887543 44556
Q ss_pred HHHhhccCCcc------EEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 113 VAEIASRVQVP------ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 113 v~~~~~~~~ip------~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
+...+...++. ++++..+ .......|.+-.+..+...++...+++|
T Consensus 190 ~~~~l~~~g~~~p~di~iig~d~~----~~~~~~~p~~t~i~~~~~~~g~~a~~~l 241 (265)
T cd06285 190 VMGAARDRGLRVPDDVALVGYNDI----PLVARLPVPLTTVRSPFHQIGRTALRLL 241 (265)
T ss_pred HHHHHHHcCCCCCcceEEEeecCc----HHHhcCCCCceeEeCCHHHHHHHHHHHH
Confidence 66666665642 4544433 2222223445555556556666666655
No 448
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=34.16 E-value=26 Score=27.93 Aligned_cols=20 Identities=25% Similarity=0.428 Sum_probs=7.8
Q ss_pred CCchhH-HHHHHHHHHHHhcc
Q 006683 1 MNRFFF-LVLIIASELVFVSP 20 (635)
Q Consensus 1 m~~~~~-~~~~~~~~~~~~~~ 20 (635)
|..+.+ +|++++++++|+++
T Consensus 1 MaSK~~llL~l~LA~lLlisS 21 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLISS 21 (95)
T ss_pred CchhHHHHHHHHHHHHHHHHh
Confidence 444433 33333333344443
No 449
>COG3919 Predicted ATP-grasp enzyme [General function prediction only]
Probab=34.08 E-value=4.7e+02 Score=25.76 Aligned_cols=91 Identities=16% Similarity=0.098 Sum_probs=57.7
Q ss_pred EEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCC--CCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEc
Q 006683 99 KVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTP--LSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED 176 (635)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~--~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~ 176 (635)
+.|+|... .+.+++.-....+||+.-.++. +| .++.----..---.|.++.....+.++...-+-+..-+|.+.
T Consensus 6 viilGgah--gtlalARSfg~~~vpv~~ls~d--~plPt~Sr~vr~t~~w~gphd~gaiafLrd~Aekhglkg~LLva~G 81 (415)
T COG3919 6 VIILGGAH--GTLALARSFGEEFVPVLALSAD--GPLPTYSRIVRVTTHWNGPHDEGAIAFLRDFAEKHGLKGYLLVACG 81 (415)
T ss_pred eEEEcccc--hhHHHHHhhccccceEEEEecC--CCCcchhhhheeeeccCCCCcccHHHHHHHHHhhcCcCceEEEecC
Confidence 45666443 3566777777778999776655 33 232210011222347777777778888876688889999888
Q ss_pred CCCCCCcchHHHHHHHHhcc
Q 006683 177 NVYGGDSGKLALLAEALQNV 196 (635)
Q Consensus 177 ~~~g~~~~~~~~~~~~l~~~ 196 (635)
|.+ ..++...++++.+.
T Consensus 82 Dge---v~lvSq~reeLSa~ 98 (415)
T COG3919 82 DGE---VLLVSQYREELSAF 98 (415)
T ss_pred Cce---eeehHhhHHHHHHH
Confidence 876 45566677777654
No 450
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=33.90 E-value=1.8e+02 Score=27.66 Aligned_cols=75 Identities=24% Similarity=0.255 Sum_probs=47.1
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ ++|. ..+.+.+.+.+++.| ..+.... ... + .+..+.++++.+.++|.|++..+.... .
T Consensus 2 I~~i~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~---~~~---~--~~~~~~i~~~~~~~vdgiii~~~~~~~--~ 68 (266)
T cd06278 2 IGVVVADLDNPFY--SELLEALSRALQARG-YQPLLIN---TDD---D--EDLDAALRQLLQYRVDGVIVTSGTLSS--E 68 (266)
T ss_pred EEEEeCCCCCchH--HHHHHHHHHHHHHCC-CeEEEEc---CCC---C--HHHHHHHHHHHHcCCCEEEEecCCCCH--H
Confidence 4555543 3565 667788888999999 7765432 111 1 245567788888899988883333322 3
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++.+.+.|+
T Consensus 69 ~~~~~~~~~i 78 (266)
T cd06278 69 LAEECRRNGI 78 (266)
T ss_pred HHHHHhhcCC
Confidence 4666766665
No 451
>cd07372 2A5CPDO_B The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active 2A5CPDO enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the beta subunit, which contains a putative metal binding site with two conserved histidines; these residues are equivalent to two out of three Fe(II) bindin
Probab=33.90 E-value=3.8e+02 Score=26.55 Aligned_cols=88 Identities=18% Similarity=0.194 Sum_probs=53.4
Q ss_pred CCCHHHHHHHHHHHhhcCCeEEEE-----cCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHH
Q 006683 79 NRDPFQAATAAQELINKEKVKVIA-----GMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE 153 (635)
Q Consensus 79 ~~~~~~a~~~~~~li~~~~v~aii-----G~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~ 153 (635)
.+|+.-|...+..+. +.++.+.. -+..-.+..++.-+....++|+|..+.. .+ |..+.+.++...
T Consensus 95 ~gd~eLA~~i~~~~~-~~Gi~~~~~~~~~~~LDHGt~vPL~fl~p~~~~pvV~is~~----~l-----~~~~~~~~~~~~ 164 (294)
T cd07372 95 NVDVELAEACCEEGR-KAGLVTKMMRNPRFRVDYGTITTLHMIRPQWDIPVVGISAN----NT-----PYYLNTKEGLGE 164 (294)
T ss_pred CCCHHHHHHHHHHHH-HCCCCeeeccCCCCCCCchHHHHHHHhCCCCCCcEEEEecC----cc-----cccccccCCHHH
Confidence 467766666555554 67777653 1234456666666666678888866533 11 111111233333
Q ss_pred ---HHHHHHHHHHHCCCeEEEEEEEcC
Q 006683 154 ---QMKCIADLARKYNWRRVAAIYEDN 177 (635)
Q Consensus 154 ---~~~al~~~l~~~~w~~vaii~~~~ 177 (635)
.++++.+.++..+ +||++|.+-+
T Consensus 165 ~~~lG~ai~~al~~~~-~RV~vIaSG~ 190 (294)
T cd07372 165 MDVLGKATREAIRKTG-RRAVLLASNT 190 (294)
T ss_pred HHHHHHHHHHHHHhcC-CeEEEEEeCc
Confidence 7888888888886 8899998765
No 452
>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=33.81 E-value=93 Score=30.06 Aligned_cols=71 Identities=10% Similarity=0.119 Sum_probs=46.4
Q ss_pred cCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC-hhHHHHHHHHHHH
Q 006683 176 DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMTIHLFTEANR 254 (635)
Q Consensus 176 ~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~-~~~~~~~l~~a~~ 254 (635)
+++|- ..+.+.+.+.+++.| .++.... ... + .....+.++.+...++|.||+ ... .......++++.+
T Consensus 10 ~~~~~--~~~~~~~~~~a~~~g-~~~~~~~---~~~---~-~~~~~~~i~~l~~~~vdgiIi-~~~~~~~~~~~i~~~~~ 78 (273)
T cd06309 10 ESPWR--TAETKSIKDAAEKRG-FDLKFAD---AQQ---K-QENQISAIRSFIAQGVDVIIL-APVVETGWDPVLKEAKA 78 (273)
T ss_pred CCHHH--HHHHHHHHHHHHhcC-CEEEEeC---CCC---C-HHHHHHHHHHHHHcCCCEEEE-cCCccccchHHHHHHHH
Confidence 34555 677888999999999 8776532 111 1 134557788888888999888 443 3333456777777
Q ss_pred cCC
Q 006683 255 MGL 257 (635)
Q Consensus 255 ~g~ 257 (635)
.++
T Consensus 79 ~~i 81 (273)
T cd06309 79 AGI 81 (273)
T ss_pred CCC
Confidence 765
No 453
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=33.77 E-value=2.3e+02 Score=28.95 Aligned_cols=89 Identities=16% Similarity=0.153 Sum_probs=56.6
Q ss_pred HHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEE
Q 006683 158 IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (635)
Q Consensus 158 l~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~ 237 (635)
+.++++..+-+++.+|+++..+ ....+.+.+.++..| . .+.......-. ..+.......+.+.++|+||-
T Consensus 21 ~~~~~~~~~~~~~lvv~g~~~~---~~~~~~~~~~l~~~g-~-~~~~~~~~~a~-----~~ev~~~~~~~~~~~~d~vIG 90 (360)
T COG0371 21 LLEVLLKLGLSRALVVTGENTY---AIAGEKVEKSLKDEG-L-VVHVVFVGEAS-----EEEVERLAAEAGEDGADVVIG 90 (360)
T ss_pred HHHHHHhccCCceEEEEChhHH---HHHHHHHHHHhcccC-c-ceeeeecCccC-----HHHHHHHHHHhcccCCCEEEE
Confidence 5566666677888888877765 455677888999998 6 44443333222 145666666666578899987
Q ss_pred ecCChhHHHHHHHHHHHcCC
Q 006683 238 LQASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 238 ~~~~~~~~~~~l~~a~~~g~ 257 (635)
.+.+...-..--.|.++|+
T Consensus 91 -VGGGk~iD~aK~~A~~~~~ 109 (360)
T COG0371 91 -VGGGKTIDTAKAAAYRLGL 109 (360)
T ss_pred -ecCcHHHHHHHHHHHHcCC
Confidence 6555444333334666765
No 454
>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=33.77 E-value=1.3e+02 Score=27.43 Aligned_cols=70 Identities=13% Similarity=0.179 Sum_probs=41.7
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPA 563 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~ 563 (635)
.+-.++++.+.++. +.+ +++.. ++...++..|.+|++|+++.......+-...+ ...|.....+.++++.
T Consensus 13 ~~l~~~l~~f~~~~P~v~--l~i~~--~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHEPIR--LVCRE--GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 34567777777765 445 44443 34788999999999999885432221101111 1346666666666543
No 455
>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=33.76 E-value=4.2e+02 Score=25.10 Aligned_cols=118 Identities=14% Similarity=0.100 Sum_probs=62.8
Q ss_pred EEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHHH
Q 006683 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~v 113 (635)
+||++.+... .....-..|++.++++.+... .... ......+...+.+.+.+++.. ..+.+|+...+ ..+..+
T Consensus 118 ~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~a~~~ 192 (268)
T cd01575 118 RIGFLGARMDDTRAQQRLEGFRAALRAAGLDP---PLVV-TTPEPSSFALGRELLAELLARWPDLDAVFCSND-DLALGA 192 (268)
T ss_pred cEEEecCCCCcccHHHHHHHHHHHHHHcCCCC---Ccee-EeccCCCHHHHHHHHHHHHhCCCCCCEEEECCc-HHHHHH
Confidence 5777765543 233445567777776654321 1111 112234556677778888743 46888887544 334444
Q ss_pred HHhhccCC------ccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 114 AEIASRVQ------VPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 114 ~~~~~~~~------ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
...+...+ +.++++..+ .+.....|-+-.+..+...+++..++.+
T Consensus 193 ~~~l~~~g~~~p~di~vig~d~~----~~~~~~~~~itti~~~~~~~g~~a~~~l 243 (268)
T cd01575 193 LFECQRRGISVPEDIAIAGFGDL----EIAAALPPALTTVRTPRREIGRRAAELL 243 (268)
T ss_pred HHHHHHhCCCCCcceEEEecCCc----hhhhccCCCceeeeCCHHHHHHHHHHHH
Confidence 44444444 345655533 2223223444445566666777666665
No 456
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=33.56 E-value=3.9e+02 Score=27.56 Aligned_cols=104 Identities=13% Similarity=0.089 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
...+..++.+...-++|.++|.+. ||.-+.+++++.+.+.+.| +.+..... .. .+...+++.+.+ ++
T Consensus 233 i~~~Y~~W~~~~~~~~V~l~Y~sm-yg~T~~ma~aiaegl~~~g-v~v~~~~~---~~------~~~~eI~~~i~~--a~ 299 (388)
T COG0426 233 IVEAYRDWAEGQPKGKVDLIYDSM-YGNTEKMAQAIAEGLMKEG-VDVEVINL---ED------ADPSEIVEEILD--AK 299 (388)
T ss_pred HHHHHHHHHccCCcceEEEEEecc-cCCHHHHHHHHHHHhhhcC-CceEEEEc---cc------CCHHHHHHHHhh--cc
Confidence 445555565555445788888763 3311667788888888888 77664431 21 246667777764 55
Q ss_pred EEEEecCCh------hHHHHHHHHHHHcCCCCCCeEEEeeCchh
Q 006683 234 VFIVLQASL------DMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (635)
Q Consensus 234 vii~~~~~~------~~~~~~l~~a~~~g~~~~~~~~i~~~~~~ 271 (635)
.+++ .+.. ..+..++-....+....+.-..+++.+|.
T Consensus 300 ~~vv-GsPT~~~~~~p~i~~~l~~v~~~~~~~k~~~vfgS~GW~ 342 (388)
T COG0426 300 GLVV-GSPTINGGAHPPIQTALGYVLALAPKNKLAGVFGSYGWS 342 (388)
T ss_pred eEEE-ecCcccCCCCchHHHHHHHHHhccCcCceEEEEeccCCC
Confidence 6666 4443 23445555555555544444455555554
No 457
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=33.50 E-value=56 Score=32.24 Aligned_cols=70 Identities=11% Similarity=0.076 Sum_probs=0.0
Q ss_pred HHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccc-----cccccccc-cceeeeeEEEEeCCC
Q 006683 493 ELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNR-----TEYVEFTQ-PYAESGFSMIVPAKQ 565 (635)
Q Consensus 493 dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r-----~~~~~fs~-p~~~~~~~~~v~~~~ 565 (635)
+++.++.++. +.++++.... .++++..|.+|++|+++..-...++. .+..++.. |+....++++++++.
T Consensus 52 ~~l~~f~~~~P~i~v~i~~~~----s~~l~~~L~~G~iDlai~~~~~~~~~~~~~~~~~~~l~~~~l~~~~l~lvv~~~h 127 (287)
T TIGR02136 52 AAAEEFQKIHPGVSVTVQGAG----SGTGIKALINGTVDIGNSSRPIKDEELQKDKQKGIKLIEHKVAVDGLAVVVNKKN 127 (287)
T ss_pred HHHHHHHhhCCCceEEEccCC----chHHHHHHHcCCCchhhccCCCCHHHHHHHhhcCCCceEEEEEEeeEEEEECCCC
Q ss_pred -C
Q 006683 566 -E 566 (635)
Q Consensus 566 -~ 566 (635)
+
T Consensus 128 ~p 129 (287)
T TIGR02136 128 VP 129 (287)
T ss_pred Cc
No 458
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=33.29 E-value=96 Score=30.02 Aligned_cols=72 Identities=10% Similarity=0.071 Sum_probs=44.8
Q ss_pred eHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCc-ccEEEeccccccccc---ccc-ccc-ccceeeeeEEEEeCC
Q 006683 491 SIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKT-YDAAVGDLTILGNRT---EYV-EFT-QPYAESGFSMIVPAK 564 (635)
Q Consensus 491 ~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~-~D~~~~~~~~~~~r~---~~~-~fs-~p~~~~~~~~~v~~~ 564 (635)
--++.+++-++.|.++++..-. + ..+..++..|. +|+.++.-....++. ..+ ..+ .+|....++++++++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~~~---S-g~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl~~~~~ 116 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSFAS---S-STLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVVVAPKA 116 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEecc---c-HHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEEEEECC
Confidence 3467777777778886554433 2 35677887776 999888653323332 222 122 257788889999887
Q ss_pred CC
Q 006683 565 QE 566 (635)
Q Consensus 565 ~~ 566 (635)
++
T Consensus 117 ~~ 118 (257)
T PRK10677 117 SE 118 (257)
T ss_pred Cc
Confidence 43
No 459
>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=33.25 E-value=1.3e+02 Score=26.80 Aligned_cols=67 Identities=9% Similarity=0.158 Sum_probs=41.5
Q ss_pred eHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 491 SIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 491 ~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
-..++..+.++. +.++++ .. ++...+...|.+|++|+++..-.. ....+. ..++....+.++++++.
T Consensus 15 ~~~~l~~~~~~~P~i~i~i--~~--~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~ 82 (198)
T cd08441 15 LMPVLDQFRERWPDVELDL--SS--GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPDH 82 (198)
T ss_pred hHHHHHHHHHhCCCeEEEE--Ee--CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCCC
Confidence 357777777765 455444 33 235679999999999999853222 122222 23566667777776654
No 460
>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=33.23 E-value=1.4e+02 Score=29.33 Aligned_cols=61 Identities=16% Similarity=0.139 Sum_probs=46.2
Q ss_pred ccceeHHHHHHHHHHCCCcccEEEecCC--CChhhHHHHHHcCcccEEEecccccccccccccc
Q 006683 487 YDGFSIELFRLVVDHLNYDLPYEFVPHD--GVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEF 548 (635)
Q Consensus 487 ~~G~~~dl~~~la~~l~~~~~~~~~~~~--~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~f 548 (635)
..++ ..+.+++.++.|=++++++.+.+ +.-..++..+.+|.+||+.........+...+.+
T Consensus 12 ~~~~-~~fa~~v~e~t~G~v~i~v~~~g~lg~~~e~~~~v~~G~vdm~~~~~~~~~~~~p~~~~ 74 (286)
T PF03480_consen 12 TQAV-EKFAEEVEERTGGRVKIEVFPAGQLGKEAEVLEAVQDGAVDMAVVSPSYLAGFVPEFGV 74 (286)
T ss_dssp HHHH-HHHHHHHHHHTTTSEEEEEEETTSSSSHHHHHHHHHTTSSSEEEEEGGGGTTTSGGGGG
T ss_pred HHHH-HHHHHHHHHHcCCeEEEEEecCcccCCHHHHHHHHhCCCccEEeecchhhhhhchhhee
Confidence 4455 67889999999989888877742 3567899999999999998877666555444433
No 461
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=33.17 E-value=4.2e+02 Score=26.22 Aligned_cols=121 Identities=10% Similarity=0.037 Sum_probs=66.3
Q ss_pred CeEEEEEEeeCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhH
Q 006683 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEET 110 (635)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~ 110 (635)
+.=+||++.... ......-..|++.|+++.+-... -.+... ...+...+.+.+.+++.. ..+.+|+... ...+
T Consensus 173 G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-d~~A 247 (327)
T PRK10423 173 GYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIP---DGYEVT-GDFEFNGGFDAMQQLLALPLRPQAVFTGN-DAMA 247 (327)
T ss_pred CCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCC---cceEEe-CCCChHHHHHHHHHHhcCCCCCCEEEEcC-cHHH
Confidence 345677775432 22334556788888887653211 111222 223445566677777743 3578888744 4445
Q ss_pred HHHHHhhccCCc------cEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 111 AVVAEIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 111 ~~v~~~~~~~~i------p~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
..+...+...++ -+|++... .+.....|.+-.+..+...++...+++|
T Consensus 248 ~g~~~~l~~~g~~vP~dvsvigfd~~----~~~~~~~p~lttv~~~~~~~g~~A~~~l 301 (327)
T PRK10423 248 VGVYQALYQAGLSVPQDIAVIGYDDI----ELARYMTPPLTTIHQPKDELGELAIDVL 301 (327)
T ss_pred HHHHHHHHHcCCCCCCceEEEEeCCh----hHHhhCCCCCceeeCCHHHHHHHHHHHH
Confidence 556666655543 34544322 2333333555566677777777777665
No 462
>PRK13054 lipid kinase; Reviewed
Probab=33.16 E-value=2.6e+02 Score=27.70 Aligned_cols=76 Identities=9% Similarity=0.032 Sum_probs=46.2
Q ss_pred eEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 168 ~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
+++.+|+....-+ ......+.+.+.+.| ..+....+ ... .+..++.+++...+.|+|++ .+.-..+..
T Consensus 4 ~~~~~i~N~~~~~--~~~~~~~~~~l~~~g-~~~~v~~t--~~~------~~a~~~a~~~~~~~~d~vvv-~GGDGTl~e 71 (300)
T PRK13054 4 PKSLLILNGKSAG--NEELREAVGLLREEG-HTLHVRVT--WEK------GDAARYVEEALALGVATVIA-GGGDGTINE 71 (300)
T ss_pred ceEEEEECCCccc--hHHHHHHHHHHHHcC-CEEEEEEe--cCC------CcHHHHHHHHHHcCCCEEEE-ECCccHHHH
Confidence 5677777643323 344555666788888 76544222 111 23556666666667888888 666667777
Q ss_pred HHHHHHHc
Q 006683 248 LFTEANRM 255 (635)
Q Consensus 248 ~l~~a~~~ 255 (635)
++..+...
T Consensus 72 vv~~l~~~ 79 (300)
T PRK13054 72 VATALAQL 79 (300)
T ss_pred HHHHHHhh
Confidence 77776543
No 463
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.15 E-value=1.9e+02 Score=29.66 Aligned_cols=104 Identities=17% Similarity=0.283 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHCCCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCce
Q 006683 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (635)
Q Consensus 154 ~~~al~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~ 233 (635)
...-++-++++.|| ++++++.|. |- .+..+.+...+.+.+ +.+... +.. .|+..-..+-+.+.|+.+.|
T Consensus 117 tc~KlA~y~kkkG~-K~~LvcaDT-FR--agAfDQLkqnA~k~~-iP~ygs--yte----~dpv~ia~egv~~fKke~fd 185 (483)
T KOG0780|consen 117 TCTKLAYYYKKKGY-KVALVCADT-FR--AGAFDQLKQNATKAR-VPFYGS--YTE----ADPVKIASEGVDRFKKENFD 185 (483)
T ss_pred eHHHHHHHHHhcCC-ceeEEeecc-cc--cchHHHHHHHhHhhC-CeeEec--ccc----cchHHHHHHHHHHHHhcCCc
Confidence 34567777888887 566666654 32 344566776666666 554332 211 22334456678888889999
Q ss_pred EEEEecCChhH--HHHHHHHHHHc-CCCCCCeEEEeeCc
Q 006683 234 VFIVLQASLDM--TIHLFTEANRM-GLVGKDSVWIVTNT 269 (635)
Q Consensus 234 vii~~~~~~~~--~~~~l~~a~~~-g~~~~~~~~i~~~~ 269 (635)
+||+ ..++.. -..++.++.+. ....++-+.++-+.
T Consensus 186 vIIv-DTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDa 223 (483)
T KOG0780|consen 186 VIIV-DTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDA 223 (483)
T ss_pred EEEE-eCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 9999 777643 33445554442 22334444444443
No 464
>PRK13792 lysozyme inhibitor; Provisional
Probab=32.86 E-value=45 Score=28.15 Aligned_cols=23 Identities=26% Similarity=0.408 Sum_probs=12.2
Q ss_pred CCchhHHHHHHHHHHHHhcccccc
Q 006683 1 MNRFFFLVLIIASELVFVSPGVES 24 (635)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~ 24 (635)
||+. ++++++.+.++|.+|+...
T Consensus 1 mk~~-l~~ll~~~~~lLsaCs~~~ 23 (127)
T PRK13792 1 MKKA-LWLLLAAVPVVLVACGGSD 23 (127)
T ss_pred ChhH-HHHHHHHHHhheecccCCC
Confidence 7765 3333444455566665544
No 465
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=32.71 E-value=5.1e+02 Score=27.02 Aligned_cols=143 Identities=13% Similarity=0.206 Sum_probs=73.6
Q ss_pred cCCChhhHHHHHHh-hccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCCCCC
Q 006683 103 GMETWEETAVVAEI-ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG 181 (635)
Q Consensus 103 G~~~s~~~~~v~~~-~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~~g~ 181 (635)
|-..+++..++.-. ...+++|++..+-. ... ..+ ....+. +.+..+...+++.|.-.-+++|.+..+..
T Consensus 197 ~F~gTdtv~A~~~~~~~~yg~~~~G~sIP----a~e---HS~-i~s~~~-~~E~~AF~~~~~~fp~~~~~lv~DTYD~~- 266 (407)
T cd01569 197 NFKGTDTIPALDAAYAYYYEDPMAGFSIP----AAE---HST-MTAWGR-ERELEAFRNLLEQFGPGIVSVVSDSYDFW- 266 (407)
T ss_pred CCccchhhhhhhHHHHHhcCCCccccccc----HHH---hHH-HHhCCC-ccHHHHHHHHHHHcCCCcEEEEecCccHH-
Confidence 43444444443222 56788887765322 111 111 111121 34668899999999777778888777754
Q ss_pred Ccc---hHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHH-HHhhhh--------cC-----ceEEEEecCC---
Q 006683 182 DSG---KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGE-LKKVQD--------KQ-----SRVFIVLQAS--- 241 (635)
Q Consensus 182 ~~~---~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~-l~~l~~--------~~-----~~vii~~~~~--- 241 (635)
.. ....+++.+.+.| .+++ ++++. .|. .++... .+.+.+ ++ +++-|+ .++
T Consensus 267 -~~~~~~~~~lk~~i~~~g-~~lv----iRpDS--GD~-~~l~~~~~~~L~~~FG~~~n~kGykvl~~~v~Ii-~gd~id 336 (407)
T cd01569 267 -NALTLWGPRLKDEILARG-GTLV----IRPDS--GDP-VDIICGVLEILGEIFGGTVNSKGYKVLNPHVRII-QGDGIT 336 (407)
T ss_pred -HHHHHHHHHHHHHHHhcC-CcEE----EECCC--CCH-HHHHHHHHHHHHHHhCCcccCCcccccCCceEEE-EcCCCC
Confidence 33 1233444444456 5552 33333 122 222222 222222 12 355555 444
Q ss_pred hhHHHHHHHHHHHcCCCCCCeEEE
Q 006683 242 LDMTIHLFTEANRMGLVGKDSVWI 265 (635)
Q Consensus 242 ~~~~~~~l~~a~~~g~~~~~~~~i 265 (635)
...+..++..+.+.|....+..|-
T Consensus 337 e~~i~~Il~~L~~~G~~~dNi~fG 360 (407)
T cd01569 337 LERIEEILERLKAKGFASENIVFG 360 (407)
T ss_pred HHHHHHHHHHHHHCCCccccceEe
Confidence 466777777899899877665553
No 466
>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=32.70 E-value=1.5e+02 Score=26.29 Aligned_cols=68 Identities=16% Similarity=0.207 Sum_probs=43.0
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-.+++..+.++. +.+ +.+.. ++...++..|.+|++|+++...... ...+. ..+.....+.++++++.
T Consensus 15 ~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~~ 83 (200)
T cd08411 15 LLPRLLPALRQAYPKLR--LYLRE--DQTERLLEKLRSGELDAALLALPVD---EPGLE-EEPLFDEPFLLAVPKDH 83 (200)
T ss_pred hhHHHHHHHHHHCCCcE--EEEEe--CcHHHHHHHHHcCCccEEEEeccCC---CCCce-EEEeeccceEEEecCCC
Confidence 4467777777765 344 44443 2367789999999999998643221 22222 23666777788877654
No 467
>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=32.67 E-value=1.5e+02 Score=27.06 Aligned_cols=70 Identities=11% Similarity=0.058 Sum_probs=45.2
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
.+-.+++..+.++. +.+ +.+.. ++...+...|.+|++|+++.... ...+.+. ..|.....+.++++++.+
T Consensus 13 ~~l~~~l~~f~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~~p 83 (221)
T cd08469 13 VLLPALVRRLETEAPGID--LRIRP--VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRKDHP 83 (221)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEee--CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeCCCc
Confidence 34567777777765 344 44443 23567999999999999986432 2223343 357777888888876653
No 468
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=32.44 E-value=5.2e+02 Score=25.76 Aligned_cols=133 Identities=11% Similarity=0.144 Sum_probs=74.7
Q ss_pred EEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHHHH
Q 006683 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (635)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (635)
-.|+.+|-..+ ......|+.|+.++... .+.+...++.-.-.+.++-..+.++.- +++|+-=. .....+.
T Consensus 39 k~~~~lF~epS---TRTR~SFE~A~~~LGg~----~i~l~~~~ss~~kgEsl~Dt~~vls~y-~D~iviR~--~~~~~~~ 108 (302)
T PRK14805 39 KSVVMLFEKPS---LRTRVSFDIGINKLGGH----CLYLDQQNGALGKRESVADFAANLSCW-ADAIVARV--FSHSTIE 108 (302)
T ss_pred CEEEEEecCCC---chHHHHHHHHHHHcCCc----EEECCCCcCcCCCCcCHHHHHHHHHHh-CCEEEEeC--CChhHHH
Confidence 34777777654 35677899999887654 344432222222223344444445333 55555211 1223455
Q ss_pred HhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH---HHCC---CeEEEEEEEcCCCCCCcchHHH
Q 006683 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLAL 188 (635)
Q Consensus 115 ~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l---~~~~---w~~vaii~~~~~~g~~~~~~~~ 188 (635)
.+++..++|+|+.+.. ...|. +++++++ +++| ..+|+++.+ + ...+..
T Consensus 109 ~~a~~~~vPVINa~~~--------~~HPt------------QaL~Dl~Ti~e~~g~l~g~kva~vGD----~--~~v~~S 162 (302)
T PRK14805 109 QLAEHGSVPVINALCD--------LYHPC------------QALADFLTLAEQFGDVSKVKLAYVGD----G--NNVTHS 162 (302)
T ss_pred HHHHhCCCCEEECCCC--------CCChH------------HHHHHHHHHHHHhCCcCCcEEEEEcC----C--CccHHH
Confidence 6677788999976422 12232 5666664 4554 357888853 2 345677
Q ss_pred HHHHHhccCCeEEEEE
Q 006683 189 LAEALQNVSSSEIQSR 204 (635)
Q Consensus 189 ~~~~l~~~g~~~v~~~ 204 (635)
+...+...| ..+...
T Consensus 163 ~~~~~~~~g-~~v~~~ 177 (302)
T PRK14805 163 LMYGAAILG-ATMTVI 177 (302)
T ss_pred HHHHHHHcC-CEEEEE
Confidence 777788888 776654
No 469
>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=32.34 E-value=1.5e+02 Score=26.37 Aligned_cols=69 Identities=14% Similarity=0.045 Sum_probs=41.8
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~ 564 (635)
.+-.+++..+.++. +.++++.... .+.++.+|.+|++|+++...... ....+ -+.+.....+.++++++
T Consensus 13 ~~l~~~l~~~~~~~P~v~i~i~~~~----~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 82 (195)
T cd08431 13 QPLYPLIAEFYQLNKATRIRLSEEV----LGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEFVFAVAPN 82 (195)
T ss_pred HHHHHHHHHHHHHCCCCceEEEEec----cchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceEEEEEcCC
Confidence 34568888888876 5664454322 45689999999999998632111 11112 23455566666666554
No 470
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=32.00 E-value=2e+02 Score=22.87 Aligned_cols=59 Identities=12% Similarity=0.212 Sum_probs=40.8
Q ss_pred cchHHHHHHHHhccCCe-EEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecC--ChhHHHHHHHHHHHcC
Q 006683 183 SGKLALLAEALQNVSSS-EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA--SLDMTIHLFTEANRMG 256 (635)
Q Consensus 183 ~~~~~~~~~~l~~~g~~-~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~--~~~~~~~~l~~a~~~g 256 (635)
....+.+++.++..| . .+... .+..+.++.+++..+++|++ .. ...+...++++.++.+
T Consensus 8 ~~~~~~l~~~l~~~~-~~~v~~~-------------~~~~~~~~~~~~~~~d~iii-d~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 8 PEIRELLEKLLERAG-YEEVTTA-------------SSGEEALELLKKHPPDLIII-DLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEEE-------------SSHHHHHHHHHHSTESEEEE-ESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhCC-CCEEEEE-------------CCHHHHHHHhcccCceEEEE-Eeeecccccccccccccccc
Confidence 344777888888888 6 33311 22456777778788999998 63 3456777888888877
No 471
>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=31.99 E-value=1.7e+02 Score=27.85 Aligned_cols=76 Identities=12% Similarity=0.006 Sum_probs=46.4
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ +++. ..+.+.+++.+++.| .++.... ... + .......++++.+.++|.+|+ ..... ...
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~---~~~---~-~~~~~~~i~~l~~~~~dgii~-~~~~~-~~~ 69 (259)
T cd01542 2 IGVIVPRLDSFST--SRTVKGILAALYENG-YQMLLMN---TNF---S-IEKEIEALELLARQKVDGIIL-LATTI-TDE 69 (259)
T ss_pred eEEEecCCccchH--HHHHHHHHHHHHHCC-CEEEEEe---CCC---C-HHHHHHHHHHHHhcCCCEEEE-eCCCC-CHH
Confidence 4566654 2344 567788888999999 7775432 111 1 134456778888889999998 54322 234
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
++..+.+.+.
T Consensus 70 ~~~~~~~~~i 79 (259)
T cd01542 70 HREAIKKLNV 79 (259)
T ss_pred HHHHHhcCCC
Confidence 5555665553
No 472
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=31.92 E-value=1.4e+02 Score=29.58 Aligned_cols=73 Identities=10% Similarity=0.112 Sum_probs=46.3
Q ss_pred eeHHHHHHHHHHCCCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCCC
Q 006683 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (635)
Q Consensus 490 ~~~dl~~~la~~l~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~~ 567 (635)
+-.+++..+.++.. .+++.+.. ++..++...|.+|++|+++...... ...+.+.+ .|+....++++++++.+.
T Consensus 109 ~l~~~l~~~~~~~p-~i~~~~~~--~~~~~~~~~l~~g~~Di~i~~~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~~~ 181 (302)
T PRK09791 109 LMPAVISRFHQQHP-QVKVRIME--GQLVSMINELRQGELDFTINTYYQG-PYDHEFTF-EKLLEKQFAVFCRPGHPA 181 (302)
T ss_pred hhHHHHHHHHHHCC-CeEEEEEe--CChHHHHHHHHCCCccEEEEecCCc-ccccceeE-EEeccceEEEEEcCCCCc
Confidence 34677878777663 33344332 2367899999999999988632111 11233443 588888899998876543
No 473
>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=31.84 E-value=3.8e+02 Score=26.49 Aligned_cols=118 Identities=11% Similarity=0.035 Sum_probs=65.6
Q ss_pred EEEEEEe-eCC-CcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCChhhHHH
Q 006683 35 TKIGAIV-DAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (635)
Q Consensus 35 i~IG~i~-p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (635)
=+||++. +.. ...+..-..|++.|+++.+-. ..+ .....+...+.+.+.+++ +.+..||+. .+...+..
T Consensus 173 r~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~-----~~~--~~~~~~~~~~~~~~~~~l-~~~~tAi~~-~~D~~A~g 243 (311)
T TIGR02405 173 RHISFLGVDPSDKTTGLMRHNAYLAYCESANLE-----PIY--QTGQLSHESGYVLTDKVL-KPETTALVC-ATDTLALG 243 (311)
T ss_pred CcEEEEccCcccchhHHHHHHHHHHHHHHcCCC-----cee--eeCCCCHHHHHHHHHHHH-hcCCCEEEE-CCcHHHHH
Confidence 4577775 222 122345567888887775533 111 122234455666777777 456788886 44445555
Q ss_pred HHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHH
Q 006683 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (635)
Q Consensus 113 v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l 162 (635)
+...+...++--|+..+.- +..+.....|-+-.+..+....++..+++|
T Consensus 244 ~~~~l~~~g~~dvsvvgfd-~~~~~~~~~p~lttv~~~~~~~g~~A~~~L 292 (311)
T TIGR02405 244 AAKYLQELDRSDVQVSSVG-NTPLLSFLFPNTVSIDPGYYEAGKAAASQL 292 (311)
T ss_pred HHHHHHHcCCCCeEEEeeC-CchhhcccCCCCceEecCHHHHHHHHHHHH
Confidence 6666666554333332220 223333334666677777788888777766
No 474
>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=31.73 E-value=1.3e+02 Score=29.01 Aligned_cols=69 Identities=9% Similarity=0.020 Sum_probs=45.8
Q ss_pred CCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecC-ChhHHHHHHHHHHHcC
Q 006683 178 VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTIHLFTEANRMG 256 (635)
Q Consensus 178 ~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~-~~~~~~~~l~~a~~~g 256 (635)
+|. ..+.+.+.+.+++.| .++..... .. +. ......++.+...++|.||+ .. ........++++.+.+
T Consensus 12 ~f~--~~~~~gi~~~~~~~G-~~~~~~~~---~~---d~-~~~~~~i~~~~~~~vdgiii-~~~~~~~~~~~i~~~~~~~ 80 (272)
T cd06313 12 TWC--AQGKQAADEAGKLLG-VDVTWYGG---AL---DA-VKQVAAIENMASQGWDFIAV-DPLGIGTLTEAVQKAIARG 80 (272)
T ss_pred hHH--HHHHHHHHHHHHHcC-CEEEEecC---CC---CH-HHHHHHHHHHHHcCCCEEEE-cCCChHHhHHHHHHHHHCC
Confidence 455 666778888889999 77765421 11 11 34556777788888999988 54 3344566677777766
Q ss_pred C
Q 006683 257 L 257 (635)
Q Consensus 257 ~ 257 (635)
+
T Consensus 81 i 81 (272)
T cd06313 81 I 81 (272)
T ss_pred C
Confidence 5
No 475
>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=31.64 E-value=1.4e+02 Score=26.47 Aligned_cols=71 Identities=17% Similarity=0.097 Sum_probs=43.6
Q ss_pred ceeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCC
Q 006683 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 489 G~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
.+-.+++..+.++. +.++++ .. +....+...|.+|++|+++...... .....+ -+.+.....+.++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i--~~--~~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~~v~~~~h 84 (199)
T cd08416 13 NTVPRIIMGLKLRRPELDIEL--TL--GSNKDLLKKLKDGELDAILVATPEG-LNDPDF-EVVPLFEDDIFLAVPATS 84 (199)
T ss_pred hhhHHHHHHHHHhCCCeEEEE--EE--cCcHHHHHHHhCCCCCEEEEecCCc-CCCCCe-EEEEeecceEEEEECCCC
Confidence 34567777887766 555444 33 2356788999999999998643210 012222 234666777788876653
No 476
>TIGR02079 THD1 threonine dehydratase. This model represents threonine dehydratase, the first step in the pathway converting threonine into isoleucine. At least two other clades of biosynthetic threonine dehydratases have been characterized by models TIGR01124 and TIGR01127. Those sequences described by this model are exclusively found in species containg the rest of the isoleucine pathway and which are generally lacking in members of the those other two clades of threonine dehydratases. Members of this clade are also often gene clustered with other elements of the isoleucine pathway.
Probab=31.56 E-value=5.4e+02 Score=26.94 Aligned_cols=129 Identities=12% Similarity=0.043 Sum_probs=72.9
Q ss_pred EEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC
Q 006683 99 KVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV 178 (635)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~ 178 (635)
..|+-..+...+..++..|...++|.+...+. .. | ..-.+.++.+|-+-+-++...++
T Consensus 65 ~gvv~aSsGN~g~a~A~~a~~~G~~~~iv~p~--~~--------------~------~~k~~~~~~~GA~vv~v~~~g~~ 122 (409)
T TIGR02079 65 KGVVCASAGNHAQGFAYACRHLGVHGTVFMPA--TT--------------P------KQKIDRVKIFGGEFIEIILVGDT 122 (409)
T ss_pred CEEEEECccHHHHHHHHHHHHcCCCEEEEECC--CC--------------C------HHHHHHHHHcCCCeeEEEEeCCC
Confidence 34555566678889999999999999876544 11 1 11144568888775544444444
Q ss_pred CCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHHHHHHHHcC
Q 006683 179 YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 179 ~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
|. ...+...+.+++.| ..... .+..........+-..++++++.. .+|.||+..+.+..+..+...+++.+
T Consensus 123 ~~---~a~~~a~~~~~~~g-~~~~~--~~~~~~~~~g~~ti~~Ei~~q~~~-~~D~vv~pvG~GG~~~Gia~~~k~~~ 193 (409)
T TIGR02079 123 FD---QCAAAAREHVEDHG-GTFIP--PFDDPRIIEGQGTVAAEILDQLPE-KPDYVVVPVGGGGLISGLTTYLAGTS 193 (409)
T ss_pred HH---HHHHHHHHHHHhcC-CEEeC--CCCCHhHhhhhHHHHHHHHHhcCC-CCCEEEEEecHhHHHHHHHHHHHHhC
Confidence 43 22444555556666 43221 111100011111223445555542 48888885666677778888787765
No 477
>PRK08639 threonine dehydratase; Validated
Probab=31.53 E-value=6.3e+02 Score=26.51 Aligned_cols=130 Identities=11% Similarity=0.054 Sum_probs=71.3
Q ss_pred EEEEcCCChhhHHHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHHCCCeEEEEEEEcCC
Q 006683 99 KVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV 178 (635)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~~~w~~vaii~~~~~ 178 (635)
..|+-..+...+..++-.|...++|.+-..+. ... ..-.+.++.+|-+-+-++...+.
T Consensus 74 ~~Vv~aSsGN~g~alA~~a~~~G~~~~IvmP~--~~~--------------------~~k~~~~r~~GA~vv~v~~~g~~ 131 (420)
T PRK08639 74 AGVVCASAGNHAQGVAYACRHLGIPGVIFMPV--TTP--------------------QQKIDQVRFFGGEFVEIVLVGDT 131 (420)
T ss_pred CEEEEECccHHHHHHHHHHHHcCCCEEEEECC--CCh--------------------HHHHHHHHHcCCCeeEEEEeCcC
Confidence 45665666678899999999999999876544 111 11245678888764433333333
Q ss_pred CCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhc-CceEEEEecCChhHHHHHHHHHHHcC
Q 006683 179 YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMG 256 (635)
Q Consensus 179 ~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~-~~~vii~~~~~~~~~~~~l~~a~~~g 256 (635)
+. ...+...+..++.| ..... .+..........+-..++++++... .+|.|++..+.+..+..+...+++.+
T Consensus 132 ~~---~a~~~a~~~a~~~g-~~~~~--~~~~~~~~~G~~tig~EI~eq~~~~~~~D~vv~~vG~GG~~aGva~~~k~~~ 204 (420)
T PRK08639 132 FD---DSAAAAQEYAEETG-ATFIP--PFDDPDVIAGQGTVAVEILEQLEKEGSPDYVFVPVGGGGLISGVTTYLKERS 204 (420)
T ss_pred HH---HHHHHHHHHHHhcC-CcccC--CCCChhHhcchhHHHHHHHHhccccCCCCEEEEecChhHHHHHHHHHHHHhC
Confidence 32 22344444555555 32211 1211111111112234556666532 17888885666677777777777764
No 478
>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=31.48 E-value=1.4e+02 Score=28.42 Aligned_cols=75 Identities=13% Similarity=0.063 Sum_probs=41.4
Q ss_pred EEEEEEc------CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHh-hhhcCceEEEEecCCh
Q 006683 170 VAAIYED------NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK-VQDKQSRVFIVLQASL 242 (635)
Q Consensus 170 vaii~~~------~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~-l~~~~~~vii~~~~~~ 242 (635)
|++|..+ ++|. ..+.+.+.+.+++.| +.+..... . .. .+-...+.+ +.+.++|.||+ ....
T Consensus 2 igvi~p~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~-~-~~------~~~~~~~~~~~~~~~vdgiii-~~~~ 69 (268)
T cd06271 2 IGLVLPTGEREEGDPFF--AEFLSGLSEALAEHG-YDLVLLPV-D-PD------EDPLEVYRRLVESGLVDGVII-SRTR 69 (268)
T ss_pred eEEEeCCcccccCCccH--HHHHHHHHHHHHHCC-ceEEEecC-C-Cc------HHHHHHHHHHHHcCCCCEEEE-ecCC
Confidence 4566554 5666 677888888899988 77655431 1 11 122233343 34457888887 4332
Q ss_pred hHHHHHHHHHHHcCC
Q 006683 243 DMTIHLFTEANRMGL 257 (635)
Q Consensus 243 ~~~~~~l~~a~~~g~ 257 (635)
... ..+..+.+.+.
T Consensus 70 ~~~-~~~~~~~~~~i 83 (268)
T cd06271 70 PDD-PRVALLLERGF 83 (268)
T ss_pred CCC-hHHHHHHhcCC
Confidence 221 23455555554
No 479
>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=31.38 E-value=1.6e+02 Score=26.01 Aligned_cols=71 Identities=8% Similarity=0.050 Sum_probs=44.1
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEeccccc--ccccccccccccceeeeeEEEEeCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTIL--GNRTEYVEFTQPYAESGFSMIVPAKQ 565 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~--~~r~~~~~fs~p~~~~~~~~~v~~~~ 565 (635)
+-.+++.++.++. +.++++ .. ++-..+...+.+|++|+++..-... ....+.+ .+.+.....+.++++++.
T Consensus 14 ~l~~~l~~~~~~~P~i~i~~--~~--~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~ 87 (200)
T cd08423 14 LLPPALAALRARHPGLEVRL--RE--AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVLPADH 87 (200)
T ss_pred hhhHHHHHHHHhCCCCeEEE--Ee--CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEecCCC
Confidence 4467778877775 555444 33 2246789999999999988642111 1122233 345677778888876654
No 480
>KOG2387 consensus CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=31.37 E-value=3.6e+02 Score=28.13 Aligned_cols=92 Identities=16% Similarity=0.163 Sum_probs=55.7
Q ss_pred CCeEEEEEEeeCCC--cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCC-------CCHHHHHHHHHHHhhcCCeEEEE
Q 006683 32 EEVTKIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN-------RDPFQAATAAQELINKEKVKVIA 102 (635)
Q Consensus 32 ~~~i~IG~i~p~s~--~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~-------~~~~~a~~~~~~li~~~~v~aii 102 (635)
..+++|+++.-.+. ........|++-|.-.+| +++++.+.+++ .+...+-.++-+++....-+.|=
T Consensus 296 ~~~V~IalVGKYt~l~DsY~Sv~KAL~Ha~~~~~-----~kl~i~wi~s~dLE~~t~~e~~~~~~~aW~~l~~adGilvP 370 (585)
T KOG2387|consen 296 QVPVRIALVGKYTKLSDSYLSVVKALEHAALAIN-----RKLEIVWIDSSDLEPETEQEDPRKYHAAWQKLKSADGILVP 370 (585)
T ss_pred cCcEEEEEEeccccchHHHHHHHHHHHHHHHHhc-----ccceEEEEehhcccccccccChhHHHHHHHHhccCCeEEeC
Confidence 46799999988873 223355566666665655 45777776652 33334555666666332222232
Q ss_pred cCCC---hhhHHHHHHhhccCCccEEeec
Q 006683 103 GMET---WEETAVVAEIASRVQVPILSFA 128 (635)
Q Consensus 103 G~~~---s~~~~~v~~~~~~~~ip~Is~~ 128 (635)
|... .+-....+..|.+.++|++..-
T Consensus 371 GGFG~RGveG~i~Aak~ARen~iP~LGiC 399 (585)
T KOG2387|consen 371 GGFGDRGVEGKILAAKWARENKIPFLGIC 399 (585)
T ss_pred CcccccchhHHHHHHHHHHhcCCCeEeee
Confidence 3332 2445667889999999998653
No 481
>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=31.34 E-value=2e+02 Score=27.44 Aligned_cols=76 Identities=18% Similarity=0.148 Sum_probs=46.0
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ +.|. ..+.+.+.+.+++.| ..+..... .. + .......++.+...++|.|++ .....+...
T Consensus 2 igvi~~~~~~~~~--~~~~~~~~~~~~~~g-~~~~~~~~---~~---~-~~~~~~~i~~l~~~~vdgiii-~~~~~~~~~ 70 (264)
T cd06274 2 IGLIIPDLENRSF--ARIAKRLEALARERG-YQLLIACS---DD---D-PETERETVETLIARQVDALIV-AGSLPPDDP 70 (264)
T ss_pred EEEEeccccCchH--HHHHHHHHHHHHHCC-CEEEEEeC---CC---C-HHHHHHHHHHHHHcCCCEEEE-cCCCCchHH
Confidence 4555544 3455 667788888888998 77654321 11 1 133456788888889999988 443222222
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
++.+.+.+.
T Consensus 71 -~~~~~~~~i 79 (264)
T cd06274 71 -YYLCQKAGL 79 (264)
T ss_pred -HHHHHhcCC
Confidence 556666664
No 482
>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=31.21 E-value=1.5e+02 Score=26.35 Aligned_cols=67 Identities=10% Similarity=0.032 Sum_probs=41.8
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~ 564 (635)
+-.+++..+.++. +.+ +.+... .-..+...|.+|++|+++...... .+.+. ..++....+.++++++
T Consensus 14 ~l~~~l~~~~~~~P~i~--l~~~~~--~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~~~~~~ 81 (196)
T cd08457 14 FLPRFLAAFLRLRPNLH--LSLMGL--SSSQVLEAVASGRADLGIADGPLE---ERQGF-LIETRSLPAVVAVPMG 81 (196)
T ss_pred ccHHHHHHHHHHCCCeE--EEEEec--CcHHHHHHHHcCCccEEEeccCCC---CCCcE-EEEeccCCeEEEeeCC
Confidence 4568888888776 445 444331 235688899999999988643222 22222 2456666777777654
No 483
>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=31.20 E-value=2.2e+02 Score=27.31 Aligned_cols=78 Identities=9% Similarity=0.037 Sum_probs=46.9
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChh---H
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD---M 244 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~---~ 244 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+.... ... + .....+.++.+...++|.+|+...... .
T Consensus 2 Igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~---~~~---~-~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIF--PAFAEAIEAALAQYG-YTVLLCN---TYR---G-GVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchH--HHHHHHHHHHHHHCC-CEEEEEe---CCC---C-hHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 4566543 3455 677888999999999 7765422 111 1 134557788888888998888222222 2
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....+.++.+.|+
T Consensus 72 ~~~~i~~~~~~~i 84 (273)
T cd06292 72 DHSHYERLAERGL 84 (273)
T ss_pred hhHHHHHHHhCCC
Confidence 2334566666655
No 484
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=31.11 E-value=3.7e+02 Score=26.90 Aligned_cols=76 Identities=17% Similarity=0.148 Sum_probs=45.9
Q ss_pred EEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEE--Eec----CCCCHHHHHHHHHHHhhcCCeEEEEcCCChhh
Q 006683 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQ--IRD----HNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (635)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~--~~D----~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (635)
.||+|.|.++.. ....++.|++.+...| +++.+. +.+ -.+.+.+-++.+.++..++.|.+|+....-..
T Consensus 12 ~I~iIaPSs~~~---~~~~~~~a~~~L~~~G--~~v~~~~~i~~~~~~~a~s~~~R~~dL~~af~d~~vk~Il~~rGGyg 86 (313)
T COG1619 12 EIGIIAPSSGAT---ATDALKRAIQRLENLG--FEVVFGEHILRRDQYFAGSDEERAEDLMSAFSDPDVKAILCVRGGYG 86 (313)
T ss_pred EEEEEecCcccc---hHHHHHHHHHHHHHcC--CEEEechhhhhccccccCCHHHHHHHHHHHhcCCCCeEEEEcccCCC
Confidence 688899988643 5678999999999884 444441 111 11334444555666666788877775443333
Q ss_pred HHHHHHh
Q 006683 110 TAVVAEI 116 (635)
Q Consensus 110 ~~~v~~~ 116 (635)
+..+.+.
T Consensus 87 s~rlLp~ 93 (313)
T COG1619 87 SNRLLPY 93 (313)
T ss_pred hhhhhhh
Confidence 3344333
No 485
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=30.94 E-value=1.2e+02 Score=29.15 Aligned_cols=47 Identities=15% Similarity=0.300 Sum_probs=37.4
Q ss_pred HHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCC
Q 006683 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS 241 (635)
Q Consensus 186 ~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~ 241 (635)
++.+.+.|.+.| +.+.....++... .++.+.++.+.+. +|+||+ .+.
T Consensus 23 a~~la~~L~~~G-~~v~~~~~VgD~~------~~I~~~l~~a~~r-~D~vI~-tGG 69 (255)
T COG1058 23 AAFLADELTELG-VDLARITTVGDNP------DRIVEALREASER-ADVVIT-TGG 69 (255)
T ss_pred HHHHHHHHHhcC-ceEEEEEecCCCH------HHHHHHHHHHHhC-CCEEEE-CCC
Confidence 677888999999 9998887766544 7788888888876 999998 543
No 486
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=30.84 E-value=2e+02 Score=25.69 Aligned_cols=83 Identities=19% Similarity=0.214 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHhHhcC-CCCeEEEEEEecCC-CCHHHHHHHHHHHhhcCCeEEEEcC--CChhhHHHHHHhhccC--Ccc
Q 006683 50 QAITAMKIAVQNFNSD-SRNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGM--ETWEETAVVAEIASRV--QVP 123 (635)
Q Consensus 50 ~~~~a~~~Av~~iN~~-~~g~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aiiG~--~~s~~~~~v~~~~~~~--~ip 123 (635)
+...++..|.+.+|.+ .||.+|.+....+= .+| .+.+.+++-+ ...+.|||. ...+....+.+.+... +.|
T Consensus 11 ~~~~al~~aa~~l~~~~~p~l~l~~~~~~el~~~~-~~~~~~~~ai--a~ADii~~smlF~ed~v~~l~~~L~~~r~~~~ 87 (164)
T PF11965_consen 11 HYNSALYRAAARLNRDHCPGLELSVFAAAELERDP-EALEECEAAI--ARADIIFGSMLFIEDHVRPLLPALEARRDHCP 87 (164)
T ss_pred hhhHHHHHHHHHHhhccCCCeEEEEEeHHHhhcCh-HHHHHHHHHH--HhCCEEEeehhhhHHHHHHHHHHHHHHHccCC
Confidence 4556888899999999 57777666443332 444 4556666666 345555554 3446778888887765 677
Q ss_pred EEeecCCCCCCCCC
Q 006683 124 ILSFAAPAVTPLSM 137 (635)
Q Consensus 124 ~Is~~~~~~~~~l~ 137 (635)
.+-...+ .|.+-
T Consensus 88 a~i~~~s--apelm 99 (164)
T PF11965_consen 88 AMIIFES--APELM 99 (164)
T ss_pred EEEEEcC--HHHHH
Confidence 6655444 34443
No 487
>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=30.78 E-value=2.1e+02 Score=27.20 Aligned_cols=77 Identities=18% Similarity=0.202 Sum_probs=43.8
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ +++. ..+.+.+++.+++.| ..+..... ... ........++.+.+.++|.|++ ........
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~~-~~~~~~~~--~~~----~~~~~~~~~~~l~~~~vdgiii-~~~~~~~~- 70 (264)
T cd01574 2 IGVVTTDLALHGP--SSTLAAIESAAREAG-YAVTLSML--AEA----DEEALRAAVRRLLAQRVDGVIV-NAPLDDAD- 70 (264)
T ss_pred EEEEeCCCCcccH--HHHHHHHHHHHHHCC-CeEEEEeC--CCC----chHHHHHHHHHHHhcCCCEEEE-eCCCCChH-
Confidence 4566643 2354 667788888888888 77654321 111 0133556677777778899887 44332222
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.+.++.+.|.
T Consensus 71 ~~~~~~~~~i 80 (264)
T cd01574 71 AALAAAPADV 80 (264)
T ss_pred HHHHHHhcCC
Confidence 2334445554
No 488
>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=30.77 E-value=1.7e+02 Score=25.89 Aligned_cols=71 Identities=14% Similarity=0.214 Sum_probs=44.1
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.+ +.+.. ++-..+..++.+|++|+++...... .+.+.+ ...|+....+.++++++.+
T Consensus 14 ~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~~~~~~~~ 85 (201)
T cd08435 14 LLPPAIARLLARHPRLT--VRVVE--GTSDELLEGLRAGELDLAIGRLADD-EQPPDL-ASEELADEPLVVVARPGHP 85 (201)
T ss_pred HHHHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHcCCccEEEEecCcc-cCCCCc-EEEEcccCcEEEEEeCCCc
Confidence 3457777777664 344 44433 2356789999999999988642211 122333 2357777888888876643
No 489
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=30.74 E-value=1.4e+02 Score=31.57 Aligned_cols=146 Identities=12% Similarity=0.097 Sum_probs=78.9
Q ss_pred CeEEEEcCCCh------hhHHHHHHhhccCCccEEeecCCCCCCCCCC-C-CCceEEEEecCcHHHHHHHHHHH-HHCCC
Q 006683 97 KVKVIAGMETW------EETAVVAEIASRVQVPILSFAAPAVTPLSMS-R-RWPYLIRMASNDSEQMKCIADLA-RKYNW 167 (635)
Q Consensus 97 ~v~aiiG~~~s------~~~~~v~~~~~~~~ip~Is~~~~~~~~~l~~-~-~~p~~~r~~p~~~~~~~al~~~l-~~~~w 167 (635)
+.+-|||.... .....+.++++..++.++...+. ...+.+ . ...--+.+.... ..+..++++| ++||.
T Consensus 162 ~~VNliG~~~~~~~~~~~d~~ei~~lL~~~Gi~v~~~~~~--~~~~~ei~~~~~A~lniv~~~-~~g~~~a~~Lee~~Gi 238 (426)
T cd01972 162 DSVNIIGLWGGPERTEQEDVDEFKRLLNELGLRVNAIIAG--GCSVEELERASEAAANVTLCL-DLGYYLGAALEQRFGV 238 (426)
T ss_pred CCEEEEccCCCccccccccHHHHHHHHHHcCCeEEEEeCC--CCCHHHHHhcccCCEEEEECh-hHHHHHHHHHHHHhCC
Confidence 34677786543 44677889999999988776554 455544 1 111122333222 2466788888 57887
Q ss_pred eEEEEEEEcCCCCCCcchHH-HHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhh--cCceEEEEecCChhH
Q 006683 168 RRVAAIYEDNVYGGDSGKLA-LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDM 244 (635)
Q Consensus 168 ~~vaii~~~~~~g~~~~~~~-~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~--~~~~vii~~~~~~~~ 244 (635)
..+.+ ..++| -.... .+++..+..| ........+.. .+..+...+.+.+. .+-++++ .+++..
T Consensus 239 P~~~~---~~P~G--~~~T~~~l~~ia~~~g-~~~~~e~~i~~------e~~~~~~~l~~~~~~l~Gk~~~i--~~~~~~ 304 (426)
T cd01972 239 PEIKA---PQPYG--IEATDKWLREIAKVLG-MEAEAEAVIER------EHERVAPEIEELRKALKGKKAIV--ETGAAY 304 (426)
T ss_pred CeEec---CCccC--HHHHHHHHHHHHHHhC-CcHHHHHHHHH------HHHHHHHHHHHHHHHhCCCEEEE--EeCCcc
Confidence 75533 34677 33333 3444444445 32110000110 01223334444332 2445544 577788
Q ss_pred HHHHHHHHHHcC-CCC
Q 006683 245 TIHLFTEANRMG-LVG 259 (635)
Q Consensus 245 ~~~~l~~a~~~g-~~~ 259 (635)
...+.+.+.++| +..
T Consensus 305 ~~~~~~~l~elG~~~v 320 (426)
T cd01972 305 GHLLIAVLRELGFGEV 320 (426)
T ss_pred HHHHHHHHHHcCCceE
Confidence 888888899999 654
No 490
>cd03557 L-arabinose_isomerase L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=30.65 E-value=2.5e+02 Score=30.14 Aligned_cols=75 Identities=9% Similarity=0.096 Sum_probs=52.4
Q ss_pred HHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh-hhHHHHHHhhccCCccEEeecCC
Q 006683 55 MKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPILSFAAP 130 (635)
Q Consensus 55 ~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v~~~~~~~~ip~Is~~~~ 130 (635)
.+.-++.+|.++ ..+++++....-.++..+.+.+.+.-.+.++++||-..++ ..+..+.+.++..++|++-....
T Consensus 25 ~~~i~~~l~~~~-~~~~~v~~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~~~i~~~~~l~~PvL~~~~q 100 (484)
T cd03557 25 SREIVDGLNASG-KLPVKIVFKPVLTTPDEILAVCREANADDNCAGVITWMHTFSPAKMWIAGLTALQKPLLHLHTQ 100 (484)
T ss_pred HHHHHHHhcccC-CCCeEEEEccccCCHHHHHHHHHHccccCCccEEEEccCCCchHHHHHHHHHHcCCCEEEEccC
Confidence 334455566553 4678888888778888777666555324778888876655 34567888899999999987654
No 491
>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=30.62 E-value=4.4e+02 Score=24.97 Aligned_cols=120 Identities=13% Similarity=0.083 Sum_probs=60.3
Q ss_pred EEEEEeeCCC-cCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCChhhHHHH
Q 006683 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (635)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~v 113 (635)
+|+++..... .....-..|+..++++.+-+ ..... +.....+...+.+.+.+++.+ ..+.+|+.... ..+..+
T Consensus 118 ~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~a~~~ 192 (269)
T cd06288 118 RIAFINGEPWMLAAKDRLKGYRQALAEAGIP---FDPDL-VVHGDWSADDGYEAAAALLDLDDRPTAIFCGND-RMAMGA 192 (269)
T ss_pred eEEEEeCCccchhHHHHHHHHHHHHHHcCCC---CCHHH-eEeCCCChHHHHHHHHHHHhCCCCCCEEEEeCc-HHHHHH
Confidence 5666644332 22234456677666654321 11111 112223455566677777743 35788887443 444455
Q ss_pred HHhhccCCc------cEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHH
Q 006683 114 AEIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (635)
Q Consensus 114 ~~~~~~~~i------p~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~ 163 (635)
...+.+.++ .++++... +.......|-+-....+...++...+++|.
T Consensus 193 ~~~l~~~g~~vp~di~v~g~d~~---~~~~~~~~~~~~ti~~~~~~~g~~a~~~l~ 245 (269)
T cd06288 193 YQALLERGLRIPQDVSVVGFDNQ---EIIAEHLRPPLTTVALPHYEMGRWAVELLL 245 (269)
T ss_pred HHHHHHcCCCCcccceEEeeCCc---hhhhhccCCCceeEecCHHHHHHHHHHHHH
Confidence 555555443 45555433 222212224444555666677777777663
No 492
>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=30.51 E-value=2.7e+02 Score=26.80 Aligned_cols=79 Identities=14% Similarity=0.133 Sum_probs=46.5
Q ss_pred EEEEEEcC----CCCCCcchHHHHHHHHhc-------cCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEe
Q 006683 170 VAAIYEDN----VYGGDSGKLALLAEALQN-------VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVL 238 (635)
Q Consensus 170 vaii~~~~----~~g~~~~~~~~~~~~l~~-------~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~ 238 (635)
|+++.... .+| ..+...++..+.. .| .++..... .... + .......++++.+.++++|+.
T Consensus 2 ig~~~p~sg~~~~~~--~~~~~g~~~a~~~~n~~gg~~g-~~v~~~~~-d~~~---~-~~~~~~~~~~l~~~~v~~iig- 72 (298)
T cd06268 2 IGVLLPLSGPLAALG--EPVRNGAELAVEEINAAGGILG-RKIELVVE-DTQG---D-PEAAAAAARELVDDGVDAVIG- 72 (298)
T ss_pred eeeeecCcCchhhcC--hhHHHHHHHHHHHHHhcCCCCC-eEEEEEEe-cCCC---C-HHHHHHHHHHHHhCCceEEEc-
Confidence 56666543 356 6666666666555 34 55544432 1111 1 134556777777778888877
Q ss_pred cCChhHHHHHHHHHHHcCC
Q 006683 239 QASLDMTIHLFTEANRMGL 257 (635)
Q Consensus 239 ~~~~~~~~~~l~~a~~~g~ 257 (635)
.........+...+.+.++
T Consensus 73 ~~~~~~~~~~~~~~~~~~i 91 (298)
T cd06268 73 PLSSGVALAAAPVAEEAGV 91 (298)
T ss_pred CCcchhHHhhHHHHHhCCC
Confidence 6656566667777777665
No 493
>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=30.37 E-value=2e+02 Score=27.44 Aligned_cols=76 Identities=13% Similarity=0.095 Sum_probs=46.2
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|+++..+ +++. ..+.+.+.+.+++.| ..+... .... + .......++.+.+.++|.|++ ..... ...
T Consensus 2 i~vv~p~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~---~~~~---~-~~~~~~~~~~l~~~~vdgiii-~~~~~-~~~ 69 (268)
T cd06273 2 IGAIVPTLDNAIF--ARVIQAFQETLAAHG-YTLLVA---SSGY---D-LDREYAQARKLLERGVDGLAL-IGLDH-SPA 69 (268)
T ss_pred eEEEeCCCCCchH--HHHHHHHHHHHHHCC-CEEEEe---cCCC---C-HHHHHHHHHHHHhcCCCEEEE-eCCCC-CHH
Confidence 5666653 3455 677788888899999 777642 1111 1 133556777788778888887 44322 224
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
.++.+.+.+.
T Consensus 70 ~~~~l~~~~i 79 (268)
T cd06273 70 LLDLLARRGV 79 (268)
T ss_pred HHHHHHhCCC
Confidence 4556666554
No 494
>PRK10481 hypothetical protein; Provisional
Probab=30.10 E-value=3.9e+02 Score=25.23 Aligned_cols=83 Identities=12% Similarity=-0.017 Sum_probs=48.7
Q ss_pred HHHHHHHC-CCeEEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEE
Q 006683 158 IADLARKY-NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (635)
Q Consensus 158 l~~~l~~~-~w~~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii 236 (635)
+..++..+ +.++++++....+.. .+..++. ...| ..+.....-|.. .....+.+..++++..++|+|+
T Consensus 119 i~~lv~Al~~g~riGVitP~~~qi-----~~~~~kw-~~~G-~~v~~~~aspy~----~~~~~l~~aa~~L~~~gaD~Iv 187 (224)
T PRK10481 119 LPPLVAAIVGGHQVGVIVPVEEQL-----AQQAQKW-QVLQ-KPPVFALASPYH----GSEEELIDAGKELLDQGADVIV 187 (224)
T ss_pred HHHHHHHhcCCCeEEEEEeCHHHH-----HHHHHHH-HhcC-CceeEeecCCCC----CCHHHHHHHHHHhhcCCCCEEE
Confidence 34444433 448999998665432 3334443 3447 666644322211 1224677788888888999999
Q ss_pred EecCChhHHHHHHHHHH
Q 006683 237 VLQASLDMTIHLFTEAN 253 (635)
Q Consensus 237 ~~~~~~~~~~~~l~~a~ 253 (635)
+ .|-+-.. .+...++
T Consensus 188 l-~C~G~~~-~~~~~le 202 (224)
T PRK10481 188 L-DCLGYHQ-RHRDLLQ 202 (224)
T ss_pred E-eCCCcCH-HHHHHHH
Confidence 9 7776555 3333333
No 495
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=30.00 E-value=4.9e+02 Score=27.50 Aligned_cols=90 Identities=17% Similarity=0.182 Sum_probs=52.2
Q ss_pred CeEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCC--HHHHHHHHHHHhhcC--CeEEEE-cCCCh
Q 006683 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRD--PFQAATAAQELINKE--KVKVIA-GMETW 107 (635)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~--~~~a~~~~~~li~~~--~v~aii-G~~~s 107 (635)
-+-+||+|.+.++. |++.-+..++...|..++.+...--+++ +...+++. +.+... .|++|+ |+.+-
T Consensus 134 ~p~~I~viTs~~gA-------a~~D~~~~~~~r~p~~~~~~~~~~vQG~~A~~~i~~al-~~~~~~~~Dviii~RGGGS~ 205 (438)
T PRK00286 134 FPKRIGVITSPTGA-------AIRDILTVLRRRFPLVEVIIYPTLVQGEGAAASIVAAI-ERANARGEDVLIVARGGGSL 205 (438)
T ss_pred CCCEEEEEeCCccH-------HHHHHHHHHHhcCCCCeEEEecCcCcCccHHHHHHHHH-HHhcCCCCCEEEEecCCCCH
Confidence 47899999999863 5666677777776664444433323333 22233333 333232 344444 44432
Q ss_pred h-----hHHHHHHhhccCCccEEeecCC
Q 006683 108 E-----ETAVVAEIASRVQVPILSFAAP 130 (635)
Q Consensus 108 ~-----~~~~v~~~~~~~~ip~Is~~~~ 130 (635)
+ ....++.......+|+||.-+.
T Consensus 206 eDL~~Fn~e~v~~ai~~~~~Pvis~IGH 233 (438)
T PRK00286 206 EDLWAFNDEAVARAIAASRIPVISAVGH 233 (438)
T ss_pred HHhhccCcHHHHHHHHcCCCCEEEeccC
Confidence 2 2356677777789999998877
No 496
>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=29.98 E-value=1.7e+02 Score=28.89 Aligned_cols=114 Identities=18% Similarity=0.188 Sum_probs=55.5
Q ss_pred eEEEEEEeeCCCcCcHHHHHHHHHHHHhHhcCCCCeEEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCCh---hhH
Q 006683 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW---EET 110 (635)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s---~~~ 110 (635)
.=+||+++..+...+......++.+.++ . |.++.....++..+... ....+ ..++.+++-+.+. ...
T Consensus 131 ~k~igvl~~~~~~~~~~~~~~~~~~a~~---~--g~~l~~~~v~~~~~~~~---~~~~l--~~~~da~~~~~~~~~~~~~ 200 (294)
T PF04392_consen 131 AKRIGVLYDPSEPNSVAQIEQLRKAAKK---L--GIELVEIPVPSSEDLEQ---ALEAL--AEKVDALYLLPDNLVDSNF 200 (294)
T ss_dssp --EEEEEEETT-HHHHHHHHHHHHHHHH---T--T-EEEEEEESSGGGHHH---HHHHH--CTT-SEEEE-S-HHHHHTH
T ss_pred CCEEEEEecCCCccHHHHHHHHHHHHHH---c--CCEEEEEecCcHhHHHH---HHHHh--hccCCEEEEECCcchHhHH
Confidence 3578888877643222333333333322 2 45565444554444333 33334 3444444444433 233
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCCCCCCCceEEEEecCcHHHHHHHHHHHHH
Q 006683 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (635)
Q Consensus 111 ~~v~~~~~~~~ip~Is~~~~~~~~~l~~~~~p~~~r~~p~~~~~~~al~~~l~~ 164 (635)
..+...+...++|+++... .+... --+.-..++...+++..++++.+
T Consensus 201 ~~i~~~~~~~~iPv~~~~~-----~~v~~--Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 201 EAILQLANEAKIPVFGSSD-----FYVKA--GALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp HHHHHHCCCTT--EEESSH-----HHHCT--T-SEEEE--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCEEECCH-----HHhcC--CcEEEEccCHHHHHHHHHHHHHH
Confidence 4567788999999997542 22222 23466778888888888887744
No 497
>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=29.88 E-value=1.7e+02 Score=26.26 Aligned_cols=70 Identities=10% Similarity=0.097 Sum_probs=43.7
Q ss_pred eeHHHHHHHHHHC-CCcccEEEecCCCChhhHHHHHHcCcccEEEecccccccccccccccccceeeeeEEEEeCCCC
Q 006683 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (635)
Q Consensus 490 ~~~dl~~~la~~l-~~~~~~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~v~~~~~ 566 (635)
+-.+++..+.++. +.+ +.+.. ++...+...+.+|++|+++..... .....+. +.++....+.++++++.+
T Consensus 14 ~l~~~l~~f~~~~P~~~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~hp 84 (198)
T cd08443 14 VLPPVIKGFIERYPRVS--LQMHQ--GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVVVKRDHP 84 (198)
T ss_pred ECcHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEEEcCCCc
Confidence 3467888887764 444 44333 235678999999999999853221 1122332 356777788888766543
No 498
>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=29.74 E-value=1.9e+02 Score=27.57 Aligned_cols=76 Identities=17% Similarity=-0.011 Sum_probs=45.6
Q ss_pred EEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHH
Q 006683 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (635)
Q Consensus 170 vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (635)
|++|..+ ++|. ..+.+.+.+.+++.| ..+..... ..+. ..-.+.++++.+.++|.|++ ..... ...
T Consensus 2 i~vi~~~~~~~~~--~~~~~~~~~~~~~~g-~~~~~~~~-~~~~------~~~~~~i~~l~~~~vdgiii-~~~~~-~~~ 69 (268)
T cd06298 2 VGVIIPDITNSYF--AELARGIDDIATMYK-YNIILSNS-DNDK------EKELKVLNNLLAKQVDGIIF-MGGKI-SEE 69 (268)
T ss_pred EEEEECCCcchHH--HHHHHHHHHHHHHcC-CeEEEEeC-CCCH------HHHHHHHHHHHHhcCCEEEE-eCCCC-cHH
Confidence 5666644 3455 677788888898888 77654421 1111 34456777777788999998 53321 123
Q ss_pred HHHHHHHcCC
Q 006683 248 LFTEANRMGL 257 (635)
Q Consensus 248 ~l~~a~~~g~ 257 (635)
++..+.+.++
T Consensus 70 ~~~~l~~~~i 79 (268)
T cd06298 70 HREEFKRSPT 79 (268)
T ss_pred HHHHHhcCCC
Confidence 4555555443
No 499
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=29.71 E-value=2.3e+02 Score=24.79 Aligned_cols=72 Identities=14% Similarity=0.088 Sum_probs=43.4
Q ss_pred EEEEEEEcCCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhHHHHH
Q 006683 169 RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHL 248 (635)
Q Consensus 169 ~vaii~~~~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~~~~~ 248 (635)
+|++|..+... ....+...+.+++.| +...... ..... ....+.+.++++.+.++++||...+-...+..+
T Consensus 2 ~V~Ii~gs~SD---~~~~~~a~~~L~~~g-i~~~~~V-~saHR----~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpgv 72 (150)
T PF00731_consen 2 KVAIIMGSTSD---LPIAEEAAKTLEEFG-IPYEVRV-ASAHR----TPERLLEFVKEYEARGADVIIAVAGMSAALPGV 72 (150)
T ss_dssp EEEEEESSGGG---HHHHHHHHHHHHHTT--EEEEEE---TTT----SHHHHHHHHHHTTTTTESEEEEEEESS--HHHH
T ss_pred eEEEEeCCHHH---HHHHHHHHHHHHHcC-CCEEEEE-EeccC----CHHHHHHHHHHhccCCCEEEEEECCCcccchhh
Confidence 57777766542 566788888999999 6655432 22211 114567778888777888888844444444444
Q ss_pred H
Q 006683 249 F 249 (635)
Q Consensus 249 l 249 (635)
+
T Consensus 73 v 73 (150)
T PF00731_consen 73 V 73 (150)
T ss_dssp H
T ss_pred h
Confidence 4
No 500
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=29.57 E-value=3.2e+02 Score=27.28 Aligned_cols=79 Identities=11% Similarity=0.029 Sum_probs=49.4
Q ss_pred CeEEEEEEEc--CCCCCCcchHHHHHHHHhccCCeEEEEEeeeCCCCCCCCchHHHHHHHHhhhhcCceEEEEecCChhH
Q 006683 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (635)
Q Consensus 167 w~~vaii~~~--~~~g~~~~~~~~~~~~l~~~g~~~v~~~~~~~~~~~~~d~~~~~~~~l~~l~~~~~~vii~~~~~~~~ 244 (635)
-+.|+++..+ ++|. ..+.+.+.+.+++.| ..+.... ... +. ......++.+...+.|.||+ .....
T Consensus 63 ~~~Igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~---~~~---~~-~~~~~~~~~~~~~~vdgiI~-~~~~~- 130 (331)
T PRK14987 63 SRAIGVLLPSLTNQVF--AEVLRGIESVTDAHG-YQTMLAH---YGY---KP-EMEQERLESMLSWNIDGLIL-TERTH- 130 (331)
T ss_pred CCEEEEEeCCCcchhH--HHHHHHHHHHHHHCC-CEEEEec---CCC---CH-HHHHHHHHHHHhcCCCEEEE-cCCCC-
Confidence 3578888764 3465 677888999999999 7765432 111 11 22345677777789999998 54221
Q ss_pred HHHHHHHHHHcCC
Q 006683 245 TIHLFTEANRMGL 257 (635)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (635)
....++.+.+.++
T Consensus 131 ~~~~~~~l~~~~i 143 (331)
T PRK14987 131 TPRTLKMIEVAGI 143 (331)
T ss_pred CHHHHHHHHhCCC
Confidence 2244566666665
Done!