Query 044527
Match_columns 860
No_of_seqs 350 out of 3666
Neff 9.9
Searched_HMMs 46136
Date Fri Mar 29 04:06:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044527.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044527hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 1.3E-90 2.8E-95 708.2 47.2 752 40-847 24-843 (897)
2 KOG1053 Glutamate-gated NMDA-t 100.0 2E-79 4.3E-84 652.3 60.0 680 90-848 83-855 (1258)
3 KOG4440 NMDA selective glutama 100.0 6.7E-81 1.5E-85 639.8 35.3 728 38-851 31-859 (993)
4 KOG1052 Glutamate-gated kainat 100.0 1E-56 2.2E-61 525.7 53.6 569 227-849 5-624 (656)
5 cd06364 PBP1_CaSR Ligand-bindi 100.0 6.1E-43 1.3E-47 393.6 40.1 356 40-407 10-494 (510)
6 cd06374 PBP1_mGluR_groupI Liga 100.0 4.1E-43 8.8E-48 395.1 36.4 355 40-406 7-464 (472)
7 cd06362 PBP1_mGluR Ligand bind 100.0 6.4E-43 1.4E-47 393.4 37.1 358 41-410 1-450 (452)
8 cd06361 PBP1_GPC6A_like Ligand 100.0 1E-42 2.2E-47 381.4 37.6 323 56-409 34-396 (403)
9 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1E-42 2.2E-47 382.0 36.3 354 42-411 2-382 (384)
10 cd06375 PBP1_mGluR_groupII Lig 100.0 2.2E-42 4.8E-47 385.2 38.2 352 41-406 1-454 (458)
11 cd06365 PBP1_Pheromone_recepto 100.0 1.7E-42 3.8E-47 387.8 37.0 354 41-407 1-453 (469)
12 cd06376 PBP1_mGluR_groupIII Li 100.0 1E-41 2.2E-46 383.2 38.3 354 41-406 1-452 (463)
13 cd06366 PBP1_GABAb_receptor Li 100.0 1.8E-41 3.9E-46 369.4 35.7 333 44-410 1-346 (350)
14 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 2.2E-41 4.8E-46 364.0 34.7 339 44-410 1-363 (364)
15 cd06380 PBP1_iGluR_AMPA N-term 100.0 3.2E-41 7E-46 371.4 36.7 347 44-410 1-381 (382)
16 cd06392 PBP1_iGluR_delta_1 N-t 100.0 9.4E-41 2E-45 358.4 35.6 348 44-411 1-399 (400)
17 cd06386 PBP1_NPR_C_like Ligand 100.0 1.6E-40 3.5E-45 364.4 36.8 349 45-407 2-379 (387)
18 cd06370 PBP1_Speract_GC_like L 100.0 1.3E-40 2.9E-45 367.9 35.1 349 43-406 1-394 (404)
19 cd06363 PBP1_Taste_receptor Li 100.0 2.3E-40 5E-45 366.8 36.7 337 39-407 3-396 (410)
20 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 4.3E-40 9.4E-45 352.6 36.0 346 45-410 2-371 (372)
21 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 8.4E-40 1.8E-44 354.9 34.7 345 44-411 1-369 (370)
22 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2E-39 4.3E-44 356.0 37.4 316 40-407 17-364 (377)
23 cd06352 PBP1_NPR_GC_like Ligan 100.0 1.2E-39 2.6E-44 360.6 35.5 354 44-410 1-385 (389)
24 cd06373 PBP1_NPR_like Ligand b 100.0 6.2E-40 1.3E-44 362.8 32.9 351 44-408 1-390 (396)
25 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 1.7E-39 3.7E-44 351.3 35.0 346 44-411 1-370 (371)
26 cd06385 PBP1_NPR_A Ligand-bind 100.0 2.3E-39 5E-44 359.1 37.0 351 44-408 1-392 (405)
27 cd06367 PBP1_iGluR_NMDA N-term 100.0 8.1E-40 1.8E-44 357.5 32.6 317 42-406 2-351 (362)
28 cd06372 PBP1_GC_G_like Ligand- 100.0 2.1E-39 4.5E-44 357.9 35.3 351 44-407 1-386 (391)
29 cd06382 PBP1_iGluR_Kainate N-t 100.0 8.4E-40 1.8E-44 352.5 29.0 318 44-410 1-326 (327)
30 cd06391 PBP1_iGluR_delta_2 N-t 100.0 1.3E-38 2.8E-43 346.3 36.5 349 44-410 1-398 (400)
31 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.8E-38 3.9E-43 347.2 33.9 336 44-399 1-364 (382)
32 cd06394 PBP1_iGluR_Kainate_KA1 100.0 4E-39 8.6E-44 339.8 25.6 321 44-411 1-332 (333)
33 KOG1056 Glutamate-gated metabo 100.0 2.4E-37 5.1E-42 344.2 34.0 378 40-453 29-495 (878)
34 cd06384 PBP1_NPR_B Ligand-bind 100.0 6E-37 1.3E-41 338.5 36.2 353 44-408 1-393 (399)
35 cd06368 PBP1_iGluR_non_NMDA_li 100.0 2.1E-37 4.5E-42 333.9 30.2 319 44-410 1-323 (324)
36 PRK15404 leucine ABC transport 100.0 3.7E-36 8E-41 327.3 34.2 331 40-397 23-363 (369)
37 cd06346 PBP1_ABC_ligand_bindin 100.0 4.8E-36 1E-40 320.6 27.6 300 44-390 1-310 (312)
38 cd06381 PBP1_iGluR_delta_like 100.0 4.7E-35 1E-39 314.9 34.3 332 44-410 1-362 (363)
39 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 5.6E-35 1.2E-39 316.8 32.5 323 44-393 1-334 (334)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 4.9E-35 1.1E-39 318.4 31.2 323 44-393 1-345 (345)
41 cd06345 PBP1_ABC_ligand_bindin 100.0 7.1E-35 1.5E-39 316.5 32.2 318 44-385 1-339 (344)
42 cd06355 PBP1_FmdD_like Peripla 100.0 1.6E-34 3.5E-39 313.2 33.5 334 44-400 1-344 (348)
43 TIGR03669 urea_ABC_arch urea A 100.0 1.4E-34 3E-39 313.8 32.8 340 43-405 1-349 (374)
44 PF01094 ANF_receptor: Recepto 100.0 6.2E-35 1.3E-39 318.8 28.2 325 59-394 2-348 (348)
45 cd06348 PBP1_ABC_ligand_bindin 100.0 2.6E-34 5.7E-39 312.3 31.6 323 44-390 1-343 (344)
46 COG0683 LivK ABC-type branched 100.0 3.4E-34 7.3E-39 311.3 31.7 337 40-397 8-356 (366)
47 cd06350 PBP1_GPCR_family_C_lik 100.0 4E-34 8.8E-39 311.8 29.7 303 44-407 1-340 (348)
48 TIGR03407 urea_ABC_UrtA urea A 100.0 3.1E-33 6.7E-38 304.3 33.9 329 43-394 1-338 (359)
49 cd06344 PBP1_ABC_ligand_bindin 100.0 1.4E-33 3.1E-38 304.5 29.4 317 44-385 1-327 (332)
50 cd06331 PBP1_AmiC_like Type I 100.0 3.2E-33 6.9E-38 302.1 30.7 319 44-384 1-327 (333)
51 cd06343 PBP1_ABC_ligand_bindin 100.0 6.5E-33 1.4E-37 303.6 33.1 338 40-398 4-362 (362)
52 cd06340 PBP1_ABC_ligand_bindin 100.0 2.5E-33 5.5E-38 304.2 28.0 319 44-385 1-342 (347)
53 cd06349 PBP1_ABC_ligand_bindin 100.0 8.9E-33 1.9E-37 299.7 32.1 326 44-397 1-339 (340)
54 cd06347 PBP1_ABC_ligand_bindin 100.0 9.3E-33 2E-37 299.5 32.3 317 44-385 1-329 (334)
55 cd06357 PBP1_AmiC Periplasmic 100.0 2.8E-32 6E-37 296.9 34.9 340 44-402 1-347 (360)
56 cd06329 PBP1_SBP_like_3 Peripl 100.0 8.9E-33 1.9E-37 299.5 29.5 314 44-384 1-337 (342)
57 cd06327 PBP1_SBP_like_1 Peripl 100.0 8E-33 1.7E-37 299.1 27.1 316 44-385 1-330 (334)
58 PF13458 Peripla_BP_6: Peripla 100.0 2.8E-32 6.2E-37 296.9 30.3 331 42-395 1-340 (343)
59 cd06359 PBP1_Nba_like Type I p 100.0 3.9E-32 8.5E-37 293.4 30.6 321 44-392 1-332 (333)
60 cd06356 PBP1_Amide_Urea_BP_lik 100.0 6.7E-32 1.5E-36 291.1 31.8 318 44-384 1-329 (334)
61 cd06330 PBP1_Arsenic_SBP_like 100.0 4.3E-32 9.3E-37 295.3 29.2 319 44-384 1-339 (346)
62 cd06336 PBP1_ABC_ligand_bindin 100.0 3.5E-32 7.5E-37 295.3 28.3 318 44-385 1-342 (347)
63 cd06328 PBP1_SBP_like_2 Peripl 100.0 9.7E-32 2.1E-36 289.8 31.0 316 44-385 1-329 (333)
64 cd06358 PBP1_NHase Type I peri 100.0 1.9E-31 4.1E-36 288.1 32.3 316 44-384 1-326 (333)
65 PF13433 Peripla_BP_5: Peripla 100.0 9.8E-32 2.1E-36 275.4 26.8 321 43-384 1-330 (363)
66 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 2.4E-31 5.2E-36 285.7 29.2 280 88-407 43-351 (362)
67 cd06360 PBP1_alkylbenzenes_lik 100.0 5.8E-31 1.3E-35 285.5 31.3 319 44-385 1-330 (336)
68 cd06335 PBP1_ABC_ligand_bindin 100.0 6.7E-31 1.5E-35 285.2 31.0 315 44-377 1-332 (347)
69 cd06334 PBP1_ABC_ligand_bindin 100.0 3E-31 6.5E-36 286.7 28.0 316 44-377 1-342 (351)
70 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 1.1E-29 2.4E-34 267.2 34.8 311 40-407 16-371 (382)
71 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 2.2E-30 4.8E-35 280.3 29.9 312 44-406 1-322 (328)
72 cd06383 PBP1_iGluR_AMPA_Like N 100.0 4.4E-31 9.4E-36 284.8 23.6 311 51-385 6-353 (368)
73 cd06332 PBP1_aromatic_compound 100.0 1.5E-29 3.3E-34 274.2 31.3 316 44-385 1-327 (333)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 1.1E-29 2.5E-34 276.3 27.2 328 44-398 1-357 (357)
75 cd06326 PBP1_STKc_like Type I 100.0 3.6E-28 7.7E-33 263.7 30.6 312 43-377 1-324 (336)
76 KOG1055 GABA-B ion channel rec 100.0 1.6E-28 3.4E-33 264.1 18.6 349 42-409 41-432 (865)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 9.1E-28 2E-32 258.6 24.5 303 44-384 1-331 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 6.8E-27 1.5E-31 249.7 25.1 292 56-392 10-314 (347)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 2E-26 4.3E-31 250.3 28.7 309 44-374 1-319 (341)
80 cd06269 PBP1_glutamate_recepto 99.9 1.2E-25 2.5E-30 239.7 26.6 221 44-276 1-235 (298)
81 cd06333 PBP1_ABC-type_HAAT_lik 99.9 4.1E-25 8.8E-30 236.7 27.5 283 44-351 1-299 (312)
82 cd04509 PBP1_ABC_transporter_G 99.9 7.4E-25 1.6E-29 233.6 25.4 277 44-341 1-290 (299)
83 cd06268 PBP1_ABC_transporter_L 99.9 1.7E-22 3.7E-27 215.2 26.2 276 44-343 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 3.5E-21 7.7E-26 196.8 28.3 321 57-410 18-368 (380)
85 PRK10797 glutamate and asparta 99.9 4.9E-21 1.1E-25 201.5 23.1 224 454-796 39-273 (302)
86 PRK09495 glnH glutamine ABC tr 99.9 7.4E-21 1.6E-25 195.9 22.4 220 454-795 24-244 (247)
87 PF00497 SBP_bac_3: Bacterial 99.9 1.1E-20 2.3E-25 192.3 16.9 223 457-795 1-225 (225)
88 PRK11260 cystine transporter s 99.9 6.8E-20 1.5E-24 190.8 22.7 222 454-795 40-262 (266)
89 PRK11917 bifunctional adhesin/ 99.8 2.8E-19 6E-24 184.4 22.5 217 454-793 37-258 (259)
90 PRK15007 putative ABC transpor 99.8 4.5E-19 9.8E-24 182.4 22.1 219 454-794 20-242 (243)
91 PRK15010 ABC transporter lysin 99.8 6E-19 1.3E-23 183.0 22.2 224 454-795 25-255 (260)
92 TIGR01096 3A0103s03R lysine-ar 99.8 1.1E-18 2.4E-23 180.5 22.0 219 454-793 23-250 (250)
93 TIGR02995 ectoine_ehuB ectoine 99.8 9.7E-19 2.1E-23 182.9 20.2 228 454-795 32-262 (275)
94 PRK15437 histidine ABC transpo 99.8 3.2E-18 6.9E-23 177.5 22.2 222 454-795 25-255 (259)
95 PRK10859 membrane-bound lytic 99.8 2.1E-17 4.5E-22 185.4 19.3 220 454-795 42-267 (482)
96 TIGR03870 ABC_MoxJ methanol ox 99.7 7.7E-17 1.7E-21 165.3 18.3 210 456-792 1-241 (246)
97 PRK09959 hybrid sensory histid 99.7 1.4E-16 3.1E-21 201.7 22.7 224 448-795 294-521 (1197)
98 TIGR02285 conserved hypothetic 99.7 5.9E-16 1.3E-20 161.3 18.8 234 454-796 17-263 (268)
99 COG0834 HisJ ABC-type amino ac 99.7 1.1E-15 2.3E-20 160.8 20.8 225 454-795 33-265 (275)
100 TIGR03871 ABC_peri_MoxJ_2 quin 99.7 2.6E-15 5.6E-20 153.3 19.8 213 456-794 1-229 (232)
101 PRK09959 hybrid sensory histid 99.7 2.8E-15 6E-20 190.0 20.7 228 448-795 48-278 (1197)
102 cd00134 PBPb Bacterial peripla 99.6 3.4E-14 7.5E-19 143.1 21.1 217 457-793 1-218 (218)
103 smart00062 PBPb Bacterial peri 99.6 3.5E-14 7.7E-19 142.9 20.1 216 456-793 1-219 (219)
104 cd01391 Periplasmic_Binding_Pr 99.5 1.3E-12 2.9E-17 136.2 22.1 214 44-274 1-220 (269)
105 PF00060 Lig_chan: Ligand-gate 99.5 4.2E-15 9.2E-20 139.7 2.5 93 583-675 1-101 (148)
106 COG4623 Predicted soluble lyti 99.4 3E-12 6.6E-17 127.9 14.2 220 454-795 22-248 (473)
107 PF04348 LppC: LppC putative l 99.3 1.6E-10 3.4E-15 129.9 20.6 305 42-395 219-535 (536)
108 smart00079 PBPe Eukaryotic hom 99.3 3E-11 6.5E-16 111.3 11.1 116 675-794 5-133 (134)
109 PF10613 Lig_chan-Glu_bd: Liga 99.2 2.3E-12 4.9E-17 97.5 1.7 63 468-532 1-65 (65)
110 cd01537 PBP1_Repressors_Sugar_ 98.8 1.6E-07 3.4E-12 97.8 18.6 205 44-269 1-211 (264)
111 TIGR01098 3A0109s03R phosphate 98.8 9.8E-08 2.1E-12 98.8 14.4 198 455-779 32-254 (254)
112 PRK00489 hisG ATP phosphoribos 98.8 5.7E-08 1.2E-12 101.3 11.8 164 522-795 52-220 (287)
113 cd01536 PBP1_ABC_sugar_binding 98.7 2.4E-06 5.1E-11 89.1 21.2 199 44-261 1-206 (267)
114 cd06267 PBP1_LacI_sugar_bindin 98.7 1.4E-06 3E-11 90.6 18.8 205 44-269 1-210 (264)
115 COG3107 LppC Putative lipoprot 98.6 1.2E-06 2.7E-11 92.5 16.6 307 42-401 257-603 (604)
116 cd06325 PBP1_ABC_uncharacteriz 98.6 2.4E-06 5.1E-11 90.0 19.3 197 44-260 1-208 (281)
117 cd06300 PBP1_ABC_sugar_binding 98.5 5E-06 1.1E-10 87.0 19.5 201 44-261 1-209 (272)
118 cd06320 PBP1_allose_binding Pe 98.4 4.2E-05 9.1E-10 80.1 20.7 199 44-261 1-207 (275)
119 cd06282 PBP1_GntR_like_2 Ligan 98.3 3.7E-05 8.1E-10 80.0 18.6 200 44-266 1-206 (266)
120 COG2984 ABC-type uncharacteriz 98.3 0.00021 4.5E-09 72.3 21.5 198 40-259 28-239 (322)
121 cd06273 PBP1_GntR_like_1 This 98.2 9E-05 2E-09 77.3 18.5 202 44-266 1-208 (268)
122 cd06323 PBP1_ribose_binding Pe 98.1 0.00025 5.3E-09 73.9 20.0 195 45-260 2-205 (268)
123 cd06317 PBP1_ABC_sugar_binding 98.1 0.00022 4.7E-09 74.6 19.0 201 44-261 1-212 (275)
124 TIGR03431 PhnD phosphonate ABC 98.0 9.2E-05 2E-09 78.0 15.2 113 676-790 131-260 (288)
125 cd06319 PBP1_ABC_sugar_binding 98.0 0.00057 1.2E-08 71.6 20.4 199 44-261 1-210 (277)
126 PRK10653 D-ribose transporter 98.0 0.0011 2.4E-08 70.1 22.6 198 43-260 27-231 (295)
127 cd01545 PBP1_SalR Ligand-bindi 98.0 0.00042 9.1E-09 72.3 18.7 202 45-264 2-207 (270)
128 cd06305 PBP1_methylthioribose_ 97.9 0.00093 2E-08 69.8 20.3 199 44-261 1-208 (273)
129 cd06309 PBP1_YtfQ_like Peripla 97.9 0.00072 1.6E-08 70.7 19.3 207 44-270 1-219 (273)
130 cd06310 PBP1_ABC_sugar_binding 97.9 0.0019 4.1E-08 67.5 22.1 209 44-269 1-215 (273)
131 cd06312 PBP1_ABC_sugar_binding 97.8 0.0015 3.2E-08 68.2 20.1 198 44-261 1-208 (271)
132 PF13407 Peripla_BP_4: Peripla 97.8 0.0014 3.1E-08 67.7 19.7 200 45-261 1-207 (257)
133 cd06301 PBP1_rhizopine_binding 97.8 0.0025 5.3E-08 66.6 21.6 199 44-261 1-208 (272)
134 cd06298 PBP1_CcpA_like Ligand- 97.8 0.0013 2.7E-08 68.5 19.1 201 44-265 1-206 (268)
135 cd06289 PBP1_MalI_like Ligand- 97.7 0.0018 4E-08 67.3 18.8 201 44-264 1-206 (268)
136 cd06284 PBP1_LacI_like_6 Ligan 97.7 0.0032 7E-08 65.4 19.5 197 45-263 2-203 (267)
137 TIGR01481 ccpA catabolite cont 97.6 0.0042 9.1E-08 66.9 20.1 202 41-265 58-265 (329)
138 cd06271 PBP1_AglR_RafR_like Li 97.6 0.0037 8E-08 65.0 18.9 204 45-269 2-214 (268)
139 COG1879 RbsB ABC-type sugar tr 97.6 0.014 3E-07 62.7 23.4 209 43-269 34-250 (322)
140 cd06311 PBP1_ABC_sugar_binding 97.6 0.01 2.2E-07 62.0 21.8 202 45-261 2-210 (274)
141 cd06288 PBP1_sucrose_transcrip 97.6 0.003 6.6E-08 65.7 17.3 205 44-270 1-211 (269)
142 cd01542 PBP1_TreR_like Ligand- 97.6 0.0051 1.1E-07 63.6 18.8 200 45-270 2-207 (259)
143 cd06275 PBP1_PurR Ligand-bindi 97.5 0.0055 1.2E-07 63.8 18.8 204 45-269 2-211 (269)
144 cd06295 PBP1_CelR Ligand bindi 97.5 0.0053 1.1E-07 64.2 18.6 204 42-269 3-219 (275)
145 cd01575 PBP1_GntR Ligand-bindi 97.5 0.0074 1.6E-07 62.7 19.1 202 44-266 1-207 (268)
146 cd06281 PBP1_LacI_like_5 Ligan 97.5 0.0048 1E-07 64.3 17.5 201 44-266 1-206 (269)
147 cd06274 PBP1_FruR Ligand bindi 97.5 0.01 2.3E-07 61.5 20.0 206 44-269 1-211 (264)
148 cd06293 PBP1_LacI_like_11 Liga 97.5 0.012 2.5E-07 61.3 20.0 205 44-269 1-210 (269)
149 cd06322 PBP1_ABC_sugar_binding 97.4 0.022 4.8E-07 59.1 21.8 194 45-260 2-203 (267)
150 cd06270 PBP1_GalS_like Ligand 97.4 0.014 2.9E-07 60.8 20.0 200 44-264 1-205 (268)
151 PRK10936 TMAO reductase system 97.4 0.034 7.4E-07 60.2 23.3 208 40-270 44-262 (343)
152 cd06283 PBP1_RegR_EndR_KdgR_li 97.4 0.015 3.4E-07 60.2 20.0 205 44-268 1-210 (267)
153 cd06299 PBP1_LacI_like_13 Liga 97.4 0.011 2.4E-07 61.2 18.8 205 44-269 1-208 (265)
154 PRK10355 xylF D-xylose transpo 97.4 0.019 4E-07 61.8 20.5 201 41-261 24-236 (330)
155 cd06285 PBP1_LacI_like_7 Ligan 97.4 0.013 2.8E-07 60.8 18.7 197 44-264 1-203 (265)
156 PF00532 Peripla_BP_1: Peripla 97.4 0.014 3.1E-07 60.9 18.8 203 44-266 3-211 (279)
157 PRK10014 DNA-binding transcrip 97.3 0.019 4.2E-07 62.1 20.6 203 41-263 63-270 (342)
158 cd06303 PBP1_LuxPQ_Quorum_Sens 97.3 0.028 6.1E-07 58.9 21.2 202 44-261 1-215 (280)
159 cd06306 PBP1_TorT-like TorT-li 97.3 0.017 3.7E-07 60.0 19.4 196 44-260 1-207 (268)
160 cd06294 PBP1_ycjW_transcriptio 97.3 0.011 2.5E-07 61.4 18.1 203 44-266 1-213 (270)
161 cd01574 PBP1_LacI Ligand-bindi 97.3 0.024 5.3E-07 58.6 20.3 204 44-270 1-208 (264)
162 cd01540 PBP1_arabinose_binding 97.3 0.029 6.2E-07 59.1 21.0 201 44-261 1-219 (289)
163 cd06308 PBP1_sensor_kinase_lik 97.3 0.033 7.1E-07 58.0 21.0 198 44-261 1-207 (270)
164 PRK11303 DNA-binding transcrip 97.3 0.029 6.3E-07 60.3 21.1 206 41-268 60-270 (328)
165 PRK10703 DNA-binding transcrip 97.3 0.02 4.3E-07 62.0 19.5 208 42-269 59-272 (341)
166 cd06321 PBP1_ABC_sugar_binding 97.3 0.037 8E-07 57.6 21.0 205 44-270 1-213 (271)
167 PRK15395 methyl-galactoside AB 97.2 0.057 1.2E-06 58.0 22.6 205 40-260 22-249 (330)
168 cd06290 PBP1_LacI_like_9 Ligan 97.2 0.023 5E-07 58.9 18.9 201 44-265 1-205 (265)
169 cd06318 PBP1_ABC_sugar_binding 97.2 0.06 1.3E-06 56.3 22.1 199 44-260 1-214 (282)
170 cd06316 PBP1_ABC_sugar_binding 97.2 0.045 9.8E-07 57.8 21.2 200 44-260 1-210 (294)
171 cd06296 PBP1_CatR_like Ligand- 97.2 0.021 4.5E-07 59.4 18.3 201 45-266 2-208 (270)
172 cd06313 PBP1_ABC_sugar_binding 97.2 0.047 1E-06 56.9 20.9 168 82-260 31-207 (272)
173 cd01538 PBP1_ABC_xylose_bindin 97.2 0.044 9.5E-07 57.7 20.7 199 44-261 1-215 (288)
174 cd01539 PBP1_GGBP Periplasmic 97.2 0.065 1.4E-06 56.8 21.9 204 44-263 1-228 (303)
175 PRK10423 transcriptional repre 97.2 0.037 8.1E-07 59.5 20.4 208 41-269 55-268 (327)
176 cd06278 PBP1_LacI_like_2 Ligan 97.2 0.03 6.5E-07 58.0 19.0 191 45-259 2-197 (266)
177 cd06324 PBP1_ABC_sugar_binding 97.2 0.037 8E-07 58.8 19.9 202 45-266 2-232 (305)
178 cd06292 PBP1_LacI_like_10 Liga 97.1 0.04 8.7E-07 57.4 19.8 207 45-269 2-214 (273)
179 TIGR02417 fruct_sucro_rep D-fr 97.1 0.035 7.5E-07 59.7 19.6 204 41-268 59-269 (327)
180 COG1609 PurR Transcriptional r 97.1 0.052 1.1E-06 58.2 20.5 201 41-264 57-265 (333)
181 cd06286 PBP1_CcpB_like Ligand- 97.1 0.037 7.9E-07 57.2 18.6 197 44-264 1-203 (260)
182 PRK10727 DNA-binding transcrip 97.1 0.044 9.6E-07 59.3 19.9 206 41-268 58-269 (343)
183 PRK11553 alkanesulfonate trans 97.1 0.007 1.5E-07 64.6 13.2 106 675-782 124-236 (314)
184 PRK09701 D-allose transporter 97.0 0.28 6E-06 52.3 25.3 201 44-261 26-241 (311)
185 cd06297 PBP1_LacI_like_12 Liga 97.0 0.035 7.7E-07 57.7 18.1 201 45-269 2-213 (269)
186 cd06304 PBP1_BmpA_like Peripla 97.0 0.031 6.7E-07 57.8 17.5 198 44-259 1-202 (260)
187 cd06354 PBP1_BmpA_PnrA_like Pe 97.0 0.035 7.6E-07 57.6 17.6 196 44-259 1-206 (265)
188 PRK15408 autoinducer 2-binding 97.0 0.2 4.3E-06 53.8 23.7 199 43-260 24-233 (336)
189 PF04392 ABC_sub_bind: ABC tra 97.0 0.021 4.4E-07 60.3 15.8 181 44-245 1-194 (294)
190 PF12974 Phosphonate-bd: ABC t 97.0 0.0093 2E-07 61.0 12.7 118 673-792 98-230 (243)
191 cd01541 PBP1_AraR Ligand-bindi 96.9 0.072 1.6E-06 55.5 19.4 206 45-269 2-216 (273)
192 cd06280 PBP1_LacI_like_4 Ligan 96.9 0.057 1.2E-06 55.9 18.4 200 44-269 1-205 (263)
193 cd06302 PBP1_LsrB_Quorum_Sensi 96.9 0.11 2.4E-06 54.9 20.7 198 44-261 1-210 (298)
194 cd06314 PBP1_tmGBP Periplasmic 96.9 0.15 3.2E-06 53.0 21.4 196 44-261 1-204 (271)
195 cd06277 PBP1_LacI_like_1 Ligan 96.9 0.084 1.8E-06 54.8 19.4 197 45-264 2-205 (268)
196 cd06307 PBP1_uncharacterized_s 96.9 0.19 4.1E-06 52.3 21.8 201 44-261 1-210 (275)
197 cd06291 PBP1_Qymf_like Ligand 96.9 0.091 2E-06 54.4 19.2 198 44-268 1-205 (265)
198 PRK14987 gluconate operon tran 96.8 0.14 3.1E-06 55.1 20.3 206 41-269 62-272 (331)
199 cd06279 PBP1_LacI_like_3 Ligan 96.8 0.077 1.7E-06 55.6 17.8 195 45-264 2-223 (283)
200 PRK09492 treR trehalose repres 96.7 0.096 2.1E-06 55.9 18.4 192 41-260 61-256 (315)
201 PRK11041 DNA-binding transcrip 96.7 0.13 2.9E-06 54.6 19.4 208 41-270 34-247 (309)
202 cd01543 PBP1_XylR Ligand-bindi 96.7 0.066 1.4E-06 55.5 16.5 195 44-264 1-199 (265)
203 TIGR02955 TMAO_TorT TMAO reduc 96.7 0.28 6.1E-06 51.7 21.4 203 44-270 1-215 (295)
204 PRK10401 DNA-binding transcrip 96.6 0.17 3.8E-06 54.8 20.2 206 41-268 58-269 (346)
205 PRK09526 lacI lac repressor; R 96.6 0.25 5.4E-06 53.4 21.0 205 41-269 62-273 (342)
206 TIGR01729 taurine_ABC_bnd taur 96.6 0.016 3.4E-07 61.5 11.1 103 675-779 95-209 (300)
207 cd06353 PBP1_BmpA_Med_like Per 96.3 0.12 2.7E-06 53.1 15.3 196 44-259 1-200 (258)
208 cd06272 PBP1_hexuronate_repres 96.3 0.25 5.5E-06 50.9 18.0 199 44-268 1-204 (261)
209 TIGR02405 trehalos_R_Ecol treh 96.0 0.43 9.4E-06 50.7 18.3 192 41-260 58-253 (311)
210 TIGR02634 xylF D-xylose ABC tr 95.8 0.81 1.8E-05 48.4 19.2 167 83-260 31-208 (302)
211 cd01544 PBP1_GalR Ligand-bindi 95.7 0.51 1.1E-05 48.9 17.1 197 44-268 1-211 (270)
212 TIGR02637 RhaS rhamnose ABC tr 95.6 2.5 5.4E-05 44.7 22.4 198 45-260 1-209 (302)
213 COG3221 PhnD ABC-type phosphat 95.6 0.3 6.4E-06 50.8 14.4 107 673-781 137-260 (299)
214 TIGR02990 ectoine_eutA ectoine 94.9 0.3 6.6E-06 49.1 11.7 93 163-259 107-206 (239)
215 TIGR02122 TRAP_TAXI TRAP trans 94.7 0.19 4.2E-06 53.7 10.4 43 490-542 48-90 (320)
216 cd06315 PBP1_ABC_sugar_binding 94.6 5.3 0.00012 41.6 20.8 203 44-263 2-216 (280)
217 PF14503 YhfZ_C: YhfZ C-termin 94.3 0.12 2.5E-06 50.9 6.8 192 482-795 23-226 (232)
218 PF12683 DUF3798: Protein of u 94.3 6.6 0.00014 39.4 19.6 207 42-260 2-224 (275)
219 PF13379 NMT1_2: NMT1-like fam 94.1 0.35 7.6E-06 49.6 10.4 61 679-740 120-188 (252)
220 PF09084 NMT1: NMT1/THI5 like; 93.9 0.44 9.5E-06 47.5 10.5 55 673-727 86-145 (216)
221 TIGR01728 SsuA_fam ABC transpo 93.7 0.78 1.7E-05 48.0 12.3 67 674-740 95-166 (288)
222 COG1744 Med Uncharacterized AB 93.6 8.3 0.00018 41.4 19.7 158 91-260 82-244 (345)
223 PF07885 Ion_trans_2: Ion chan 93.0 0.35 7.7E-06 39.2 6.6 55 617-671 22-78 (79)
224 cd06287 PBP1_LacI_like_8 Ligan 92.8 5 0.00011 41.5 16.7 155 105-270 54-212 (269)
225 cd05466 PBP2_LTTR_substrate Th 92.8 5.2 0.00011 37.9 16.0 70 487-571 13-82 (197)
226 PF03466 LysR_substrate: LysR 92.5 3.6 7.7E-05 40.1 14.5 179 488-781 20-206 (209)
227 cd08418 PBP2_TdcA The C-termin 91.2 12 0.00027 35.8 16.7 72 487-571 13-84 (201)
228 PF02608 Bmp: Basic membrane p 91.1 21 0.00046 37.7 19.1 200 43-260 2-212 (306)
229 cd06276 PBP1_FucR_like Ligand- 90.9 11 0.00024 38.4 16.4 137 106-266 51-192 (247)
230 TIGR03427 ABC_peri_uca ABC tra 90.6 2.7 5.8E-05 44.8 11.7 65 675-739 101-170 (328)
231 PRK10339 DNA-binding transcrip 89.8 14 0.0003 39.5 16.8 149 106-268 113-266 (327)
232 TIGR00035 asp_race aspartate r 89.8 2.9 6.2E-05 42.1 10.6 88 91-209 59-146 (229)
233 CHL00180 rbcR LysR transcripti 89.6 21 0.00045 37.7 17.7 72 488-571 109-180 (305)
234 cd08438 PBP2_CidR The C-termin 89.6 19 0.00042 34.2 16.7 70 487-571 13-82 (197)
235 cd08417 PBP2_Nitroaromatics_li 89.4 16 0.00035 34.9 15.8 70 487-571 13-82 (200)
236 cd08442 PBP2_YofA_SoxR_like Th 89.1 21 0.00045 33.9 16.6 71 486-571 12-82 (193)
237 PRK09860 putative alcohol dehy 89.0 1.8 3.8E-05 47.4 9.1 80 164-245 19-98 (383)
238 cd08468 PBP2_Pa0477 The C-term 89.0 23 0.00049 34.2 16.9 73 487-571 13-85 (202)
239 PRK12684 transcriptional regul 88.7 17 0.00036 38.6 16.2 85 454-571 92-176 (313)
240 PF13377 Peripla_BP_3: Peripla 88.5 1.3 2.8E-05 41.6 6.8 98 168-269 1-101 (160)
241 COG1454 EutG Alcohol dehydroge 88.5 2.3 5E-05 45.7 9.2 80 164-245 17-96 (377)
242 COG3473 Maleate cis-trans isom 88.4 9.9 0.00021 36.4 11.9 91 165-259 107-204 (238)
243 cd08459 PBP2_DntR_NahR_LinR_li 88.3 16 0.00035 35.1 14.8 70 487-571 13-82 (201)
244 COG4213 XylF ABC-type xylose t 88.2 34 0.00073 35.2 19.9 206 40-261 23-242 (341)
245 PRK09791 putative DNA-binding 88.0 20 0.00043 37.7 16.3 85 455-571 95-179 (302)
246 COG1794 RacX Aspartate racemas 88.0 21 0.00046 34.9 14.3 89 90-210 58-147 (230)
247 cd08411 PBP2_OxyR The C-termin 88.0 20 0.00044 34.3 15.3 69 488-571 15-83 (200)
248 PF03808 Glyco_tran_WecB: Glyc 87.9 5.9 0.00013 37.8 10.8 102 162-275 35-138 (172)
249 PRK15454 ethanol dehydrogenase 87.9 2.2 4.9E-05 46.8 9.0 80 164-245 37-116 (395)
250 PRK11151 DNA-binding transcrip 87.6 28 0.00061 36.6 17.1 70 487-571 104-173 (305)
251 TIGR00363 lipoprotein, YaeC fa 87.0 19 0.00041 36.8 14.5 80 710-792 170-250 (258)
252 PRK10624 L-1,2-propanediol oxi 86.4 3.3 7E-05 45.4 9.2 80 164-245 18-97 (382)
253 cd08427 PBP2_LTTR_like_2 The C 86.1 31 0.00068 32.7 16.0 72 487-571 13-84 (195)
254 cd08190 HOT Hydroxyacid-oxoaci 86.1 3.1 6.7E-05 46.1 8.9 80 164-245 11-90 (414)
255 PRK12679 cbl transcriptional r 86.1 39 0.00085 35.8 17.2 97 693-795 209-307 (316)
256 TIGR02424 TF_pcaQ pca operon t 85.7 50 0.0011 34.6 17.9 70 489-571 108-177 (300)
257 PRK11480 tauA taurine transpor 85.6 5.3 0.00012 42.6 10.2 61 674-734 116-181 (320)
258 cd08192 Fe-ADH7 Iron-containin 85.5 3.7 7.9E-05 44.8 9.1 78 165-244 13-90 (370)
259 TIGR01256 modA molybdenum ABC 85.0 12 0.00025 37.2 11.9 73 707-782 134-206 (216)
260 PRK12681 cysB transcriptional 84.8 30 0.00065 36.9 15.6 84 455-571 93-176 (324)
261 cd08412 PBP2_PAO1_like The C-t 84.8 32 0.00068 32.7 14.8 71 486-571 12-82 (198)
262 cd08193 HVD 5-hydroxyvalerate 84.8 4.2 9.1E-05 44.5 9.1 79 165-245 15-93 (376)
263 cd08189 Fe-ADH5 Iron-containin 84.7 4.2 9.1E-05 44.4 9.0 79 164-244 14-92 (374)
264 cd08415 PBP2_LysR_opines_like 84.6 37 0.0008 32.2 15.8 71 486-571 12-82 (196)
265 PRK11233 nitrogen assimilation 84.6 29 0.00063 36.6 15.3 68 488-570 106-173 (305)
266 cd08462 PBP2_NodD The C-termin 84.5 32 0.0007 33.0 14.7 68 488-571 14-81 (200)
267 cd08433 PBP2_Nac The C-teminal 84.3 39 0.00084 32.2 16.1 70 487-571 13-82 (198)
268 TIGR00787 dctP tripartite ATP- 84.3 28 0.0006 35.7 14.5 98 673-779 129-230 (257)
269 TIGR02638 lactal_redase lactal 84.3 4.5 9.8E-05 44.2 9.1 80 164-245 17-96 (379)
270 KOG3857 Alcohol dehydrogenase, 84.3 5.1 0.00011 41.3 8.4 92 149-245 42-137 (465)
271 cd08194 Fe-ADH6 Iron-containin 83.9 4.7 0.0001 44.0 9.0 80 164-245 11-90 (375)
272 cd08551 Fe-ADH iron-containing 83.8 5.2 0.00011 43.7 9.3 80 164-245 11-90 (370)
273 PRK10341 DNA-binding transcrip 83.7 39 0.00084 35.7 15.9 71 488-571 111-181 (312)
274 cd08461 PBP2_DntR_like_3 The C 83.5 35 0.00076 32.5 14.4 70 487-571 13-82 (198)
275 cd08469 PBP2_PnbR The C-termin 83.4 44 0.00095 32.7 15.4 70 487-571 13-82 (221)
276 KOG1419 Voltage-gated K+ chann 83.4 2.1 4.5E-05 46.9 5.6 92 585-676 235-328 (654)
277 PF13685 Fe-ADH_2: Iron-contai 83.3 7.6 0.00016 39.3 9.4 103 165-274 8-111 (250)
278 PRK11242 DNA-binding transcrip 83.3 52 0.0011 34.3 16.6 70 487-571 104-173 (296)
279 PRK10200 putative racemase; Pr 82.8 9.7 0.00021 38.2 10.0 89 90-209 58-147 (230)
280 cd08463 PBP2_DntR_like_4 The C 82.8 47 0.001 32.1 16.7 72 486-571 12-83 (203)
281 cd08426 PBP2_LTTR_like_5 The C 82.8 45 0.00097 31.7 16.1 70 487-571 13-82 (199)
282 PRK11063 metQ DL-methionine tr 82.3 33 0.00072 35.4 13.9 80 710-792 183-263 (271)
283 cd08440 PBP2_LTTR_like_4 TThe 82.1 46 0.00099 31.4 17.0 71 486-571 12-82 (197)
284 cd08460 PBP2_DntR_like_1 The C 81.9 25 0.00053 33.8 12.7 70 486-571 12-81 (200)
285 cd08188 Fe-ADH4 Iron-containin 81.8 6.7 0.00015 42.9 9.2 80 164-245 16-95 (377)
286 PF00465 Fe-ADH: Iron-containi 81.5 3.7 8E-05 44.8 7.0 77 165-245 12-88 (366)
287 cd08466 PBP2_LeuO The C-termin 81.2 51 0.0011 31.4 16.0 70 487-571 13-82 (200)
288 cd08421 PBP2_LTTR_like_1 The C 81.2 51 0.0011 31.3 16.1 70 487-571 13-82 (198)
289 cd08419 PBP2_CbbR_RubisCO_like 81.0 51 0.0011 31.2 16.0 69 488-571 13-81 (197)
290 cd06353 PBP1_BmpA_Med_like Per 80.8 18 0.0004 37.0 11.5 87 44-140 122-208 (258)
291 PRK12682 transcriptional regul 80.7 80 0.0017 33.2 17.0 71 487-571 106-176 (309)
292 COG1910 Periplasmic molybdate- 80.6 39 0.00084 32.9 12.3 103 672-784 89-202 (223)
293 cd08464 PBP2_DntR_like_2 The C 80.4 54 0.0012 31.1 15.4 71 486-571 12-82 (200)
294 PF06506 PrpR_N: Propionate ca 80.1 13 0.00028 35.6 9.5 135 81-260 10-144 (176)
295 cd08181 PPD-like 1,3-propanedi 79.8 8.4 0.00018 41.8 9.0 79 165-245 15-93 (357)
296 cd08185 Fe-ADH1 Iron-containin 79.3 7.9 0.00017 42.4 8.7 77 165-244 15-92 (380)
297 cd08176 LPO Lactadehyde:propan 79.0 7.8 0.00017 42.4 8.6 80 164-245 16-95 (377)
298 cd08467 PBP2_SyrM The C-termin 78.8 63 0.0014 30.9 15.4 71 486-571 12-82 (200)
299 cd08420 PBP2_CysL_like C-termi 78.5 61 0.0013 30.6 16.7 71 486-571 12-82 (201)
300 cd08191 HHD 6-hydroxyhexanoate 78.3 10 0.00023 41.5 9.3 78 165-245 12-89 (386)
301 cd08413 PBP2_CysB_like The C-t 78.3 55 0.0012 31.3 13.8 72 486-571 12-83 (198)
302 cd08429 PBP2_NhaR The C-termin 77.8 70 0.0015 31.0 16.9 72 487-570 13-84 (204)
303 cd08434 PBP2_GltC_like The sub 77.8 63 0.0014 30.4 15.5 70 487-571 13-82 (195)
304 cd08465 PBP2_ToxR The C-termin 77.7 48 0.001 31.8 13.2 71 486-571 12-82 (200)
305 cd06533 Glyco_transf_WecG_TagA 77.5 24 0.00051 33.6 10.3 100 162-273 33-134 (171)
306 PRK12683 transcriptional regul 77.1 73 0.0016 33.6 15.2 69 489-571 108-176 (309)
307 PRK10837 putative DNA-binding 76.4 1E+02 0.0022 32.0 18.3 69 488-571 103-171 (290)
308 TIGR00696 wecB_tagA_cpsF bacte 75.8 28 0.00061 33.2 10.2 87 162-258 35-123 (177)
309 COG0715 TauA ABC-type nitrate/ 75.3 11 0.00024 40.4 8.4 66 675-740 131-202 (335)
310 COG1638 DctP TRAP-type C4-dica 75.2 9.7 0.00021 40.6 7.6 99 674-783 161-265 (332)
311 cd08187 BDH Butanol dehydrogen 74.7 13 0.00027 40.8 8.7 78 165-245 18-96 (382)
312 cd08416 PBP2_MdcR The C-termin 74.4 80 0.0017 29.9 15.4 73 486-571 12-84 (199)
313 PF12727 PBP_like: PBP superfa 74.1 87 0.0019 30.4 13.4 85 686-779 100-192 (193)
314 cd08186 Fe-ADH8 Iron-containin 74.1 13 0.00028 40.7 8.6 79 165-244 12-93 (383)
315 cd08444 PBP2_Cbl The C-termina 72.8 89 0.0019 29.8 16.2 72 486-571 12-83 (198)
316 COG0078 ArgF Ornithine carbamo 72.5 1.2E+02 0.0027 31.3 14.6 159 43-239 45-210 (310)
317 cd08435 PBP2_GbpR The C-termin 72.4 89 0.0019 29.6 17.2 71 488-571 14-84 (201)
318 COG2358 Imp TRAP-type uncharac 71.4 20 0.00043 37.6 8.5 48 482-540 36-84 (321)
319 cd08425 PBP2_CynR The C-termin 71.3 94 0.002 29.4 15.7 69 488-571 15-83 (197)
320 PRK03692 putative UDP-N-acetyl 71.0 22 0.00049 35.8 8.7 88 162-258 92-180 (243)
321 cd08171 GlyDH-like2 Glycerol d 69.7 13 0.00029 39.9 7.4 77 165-245 12-88 (345)
322 PRK01686 hisG ATP phosphoribos 68.8 67 0.0014 31.7 11.1 94 679-781 114-209 (215)
323 cd08456 PBP2_LysR The C-termin 68.6 1.1E+02 0.0023 28.9 15.0 71 486-571 12-82 (196)
324 cd08170 GlyDH Glycerol dehydro 68.2 15 0.00032 39.8 7.3 76 165-245 12-87 (351)
325 PRK12680 transcriptional regul 68.0 1.7E+02 0.0037 31.1 17.0 84 455-571 93-176 (327)
326 cd08414 PBP2_LTTR_aromatics_li 67.8 1.1E+02 0.0024 28.8 16.0 70 487-571 13-82 (197)
327 PRK11482 putative DNA-binding 67.6 1.7E+02 0.0037 30.9 15.4 82 454-571 116-197 (317)
328 PRK11062 nhaR transcriptional 66.8 1.7E+02 0.0036 30.5 16.3 73 486-570 105-177 (296)
329 cd08451 PBP2_BudR The C-termin 66.5 1.2E+02 0.0025 28.7 15.2 70 488-571 15-84 (199)
330 cd08182 HEPD Hydroxyethylphosp 66.4 24 0.00053 38.4 8.6 76 165-245 12-87 (367)
331 cd08448 PBP2_LTTR_aromatics_li 66.1 1.2E+02 0.0026 28.5 15.6 70 487-571 13-82 (197)
332 PF01177 Asp_Glu_race: Asp/Glu 65.5 1.4E+02 0.0031 29.3 15.1 121 105-257 63-198 (216)
333 PF13380 CoA_binding_2: CoA bi 65.3 8.7 0.00019 33.8 4.0 87 177-272 1-89 (116)
334 PRK09423 gldA glycerol dehydro 64.6 21 0.00045 38.9 7.6 77 164-245 18-94 (366)
335 cd08430 PBP2_IlvY The C-termin 64.2 1.3E+02 0.0028 28.3 17.8 72 486-571 12-83 (199)
336 cd08441 PBP2_MetR The C-termin 63.9 1.3E+02 0.0029 28.4 16.1 69 488-571 14-82 (198)
337 cd08457 PBP2_OccR The C-termin 63.7 1.3E+02 0.0029 28.3 15.9 70 486-570 12-81 (196)
338 PRK00865 glutamate racemase; P 63.7 60 0.0013 33.3 10.4 111 104-245 64-187 (261)
339 COG1744 Med Uncharacterized AB 63.0 80 0.0017 33.9 11.5 93 42-142 161-253 (345)
340 cd08437 PBP2_MleR The substrat 62.3 1.4E+02 0.0031 28.1 15.6 72 487-571 13-84 (198)
341 PF02608 Bmp: Basic membrane p 61.8 27 0.00059 36.9 7.7 90 44-141 128-222 (306)
342 cd07766 DHQ_Fe-ADH Dehydroquin 61.6 32 0.0007 36.8 8.4 101 165-272 12-114 (332)
343 PRK09508 leuO leucine transcri 61.1 1.3E+02 0.0029 31.7 13.0 70 487-571 125-194 (314)
344 PF07302 AroM: AroM protein; 61.0 57 0.0012 32.2 9.0 86 162-256 114-201 (221)
345 PF13531 SBP_bac_11: Bacterial 60.9 60 0.0013 32.4 9.8 80 707-791 143-226 (230)
346 cd08178 AAD_C C-terminal alcoh 60.8 24 0.00051 38.9 7.3 69 174-244 19-87 (398)
347 PRK13010 purU formyltetrahydro 60.8 2E+02 0.0043 30.0 13.5 93 108-206 11-119 (289)
348 PRK11013 DNA-binding transcrip 60.7 2.2E+02 0.0048 29.9 16.1 69 488-571 108-176 (309)
349 PLN03192 Voltage-dependent pot 60.6 15 0.00032 45.0 6.2 53 619-671 250-304 (823)
350 cd08458 PBP2_NocR The C-termin 60.2 1.6E+02 0.0034 27.9 15.1 69 488-571 14-82 (196)
351 PRK10537 voltage-gated potassi 60.1 28 0.0006 38.1 7.5 55 616-670 165-221 (393)
352 TIGR00067 glut_race glutamate 58.9 84 0.0018 32.0 10.3 122 97-247 51-184 (251)
353 PRK07475 hypothetical protein; 58.7 68 0.0015 32.5 9.6 98 78-207 39-146 (245)
354 cd06305 PBP1_methylthioribose_ 58.7 30 0.00064 35.5 7.3 78 178-260 1-81 (273)
355 PF13407 Peripla_BP_4: Peripla 58.5 18 0.0004 36.8 5.7 78 179-260 1-81 (257)
356 cd08179 NADPH_BDH NADPH-depend 58.5 20 0.00043 39.2 6.1 72 173-245 20-91 (375)
357 PLN02245 ATP phosphoribosyl tr 58.4 79 0.0017 34.3 10.2 94 681-781 197-296 (403)
358 PRK15424 propionate catabolism 58.3 1.8E+02 0.0038 33.5 13.7 129 90-261 47-175 (538)
359 KOG3713 Voltage-gated K+ chann 58.2 13 0.00028 40.6 4.4 62 596-661 358-421 (477)
360 cd08486 PBP2_CbnR The C-termin 58.0 36 0.00077 32.7 7.4 70 487-571 14-83 (198)
361 TIGR02667 moaB_proteo molybden 56.7 71 0.0015 30.0 8.7 67 175-244 3-72 (163)
362 PRK09906 DNA-binding transcrip 56.1 2.5E+02 0.0055 29.1 15.0 69 488-571 104-172 (296)
363 TIGR02329 propionate_PrpR prop 56.1 1.9E+02 0.0041 33.1 13.5 128 90-260 37-164 (526)
364 cd06267 PBP1_LacI_sugar_bindin 56.1 28 0.00061 35.3 6.6 76 179-260 2-79 (264)
365 cd08183 Fe-ADH2 Iron-containin 55.9 44 0.00096 36.4 8.3 74 165-245 12-85 (374)
366 PRK11716 DNA-binding transcrip 55.6 2.4E+02 0.0051 28.6 14.8 69 488-570 81-149 (269)
367 cd08445 PBP2_BenM_CatM_CatR Th 55.5 1.9E+02 0.0041 27.5 16.2 70 487-571 14-83 (203)
368 cd08175 G1PDH Glycerol-1-phosp 55.2 38 0.00083 36.5 7.6 77 165-245 12-90 (348)
369 cd08443 PBP2_CysB The C-termin 55.1 1.9E+02 0.0042 27.4 14.6 72 486-571 12-83 (198)
370 cd08180 PDD 1,3-propanediol de 54.8 29 0.00063 37.2 6.5 72 171-245 17-88 (332)
371 COG1464 NlpA ABC-type metal io 54.4 45 0.00097 33.8 7.1 48 41-98 29-76 (268)
372 PRK15421 DNA-binding transcrip 54.0 2.9E+02 0.0063 29.2 15.1 68 489-571 104-171 (317)
373 cd01537 PBP1_Repressors_Sugar_ 54.0 29 0.00063 35.1 6.3 78 178-260 1-80 (264)
374 cd06301 PBP1_rhizopine_binding 53.0 37 0.0008 34.8 6.9 78 178-260 1-82 (272)
375 cd08453 PBP2_IlvR The C-termin 53.0 2E+02 0.0044 27.1 16.1 73 487-571 13-85 (200)
376 cd08436 PBP2_LTTR_like_3 The C 52.3 2E+02 0.0043 26.8 16.5 72 486-571 12-83 (194)
377 cd06304 PBP1_BmpA_like Peripla 52.2 1.4E+02 0.0031 30.2 11.2 126 42-178 120-246 (260)
378 PF01634 HisG: ATP phosphoribo 51.8 25 0.00054 32.9 4.7 93 680-781 67-161 (163)
379 cd06312 PBP1_ABC_sugar_binding 51.6 39 0.00085 34.7 6.8 79 178-260 1-83 (271)
380 cd08550 GlyDH-like Glycerol_de 51.6 47 0.001 35.9 7.6 76 165-245 12-87 (349)
381 PRK09756 PTS system N-acetylga 51.5 82 0.0018 29.4 8.0 80 163-253 17-97 (158)
382 cd06306 PBP1_TorT-like TorT-li 51.2 37 0.00079 34.9 6.5 80 178-260 1-82 (268)
383 PRK05452 anaerobic nitric oxid 51.2 3.5E+02 0.0076 30.7 14.6 128 111-260 198-335 (479)
384 PRK03515 ornithine carbamoyltr 50.7 3.4E+02 0.0074 29.0 15.3 132 44-211 47-187 (336)
385 cd03522 MoeA_like MoeA_like. T 50.6 1.6E+02 0.0035 31.0 11.0 92 149-244 125-228 (312)
386 PRK09861 cytoplasmic membrane 50.0 3.1E+02 0.0067 28.3 13.4 192 490-792 47-264 (272)
387 PRK15408 autoinducer 2-binding 49.9 57 0.0012 35.0 7.9 83 174-260 21-106 (336)
388 PF02602 HEM4: Uroporphyrinoge 49.6 87 0.0019 31.3 8.8 128 132-271 73-203 (231)
389 COG1922 WecG Teichoic acid bio 49.4 54 0.0012 33.1 6.9 100 162-273 95-196 (253)
390 TIGR00854 pts-sorbose PTS syst 49.2 95 0.002 28.8 8.0 81 163-253 13-93 (151)
391 cd06303 PBP1_LuxPQ_Quorum_Sens 48.9 40 0.00087 34.9 6.5 81 178-259 1-84 (280)
392 PRK14805 ornithine carbamoyltr 48.8 3.4E+02 0.0075 28.5 15.7 131 43-211 39-177 (302)
393 PRK00856 pyrB aspartate carbam 48.6 3.5E+02 0.0076 28.5 13.2 137 43-211 46-188 (305)
394 cd00001 PTS_IIB_man PTS_IIB, P 48.3 98 0.0021 28.7 8.0 82 163-254 12-93 (151)
395 PRK03601 transcriptional regul 48.3 41 0.00089 34.8 6.4 71 486-571 101-171 (275)
396 TIGR03339 phn_lysR aminoethylp 48.2 3.2E+02 0.0069 27.9 16.5 68 489-571 99-166 (279)
397 TIGR00655 PurU formyltetrahydr 48.2 3.4E+02 0.0073 28.2 12.8 94 107-206 1-110 (280)
398 cd06277 PBP1_LacI_like_1 Ligan 48.0 62 0.0014 33.0 7.7 74 179-259 2-80 (268)
399 PRK00779 ornithine carbamoyltr 48.0 3.6E+02 0.0077 28.4 13.4 131 43-211 44-182 (304)
400 cd00578 L-fuc_L-ara-isomerases 46.6 2.4E+02 0.0052 31.7 12.5 93 44-143 2-99 (452)
401 cd01391 Periplasmic_Binding_Pr 46.6 53 0.0011 33.0 6.9 78 178-260 1-83 (269)
402 cd06289 PBP1_MalI_like Ligand- 46.4 54 0.0012 33.4 6.9 77 179-260 2-80 (268)
403 PRK10991 fucI L-fucose isomera 46.4 5.1E+02 0.011 29.7 16.1 126 79-211 49-206 (588)
404 cd01536 PBP1_ABC_sugar_binding 46.1 57 0.0012 33.1 7.0 77 178-259 1-80 (267)
405 COG0725 ModA ABC-type molybdat 46.1 3.5E+02 0.0075 27.7 12.9 94 680-776 135-240 (258)
406 cd06282 PBP1_GntR_like_2 Ligan 45.9 58 0.0013 33.1 7.0 77 179-260 2-80 (266)
407 cd00886 MogA_MoaB MogA_MoaB fa 45.6 1.1E+02 0.0024 28.3 8.1 64 178-244 2-70 (152)
408 PRK11425 PTS system N-acetylga 45.4 1.2E+02 0.0025 28.4 8.0 80 163-253 15-94 (157)
409 PRK11074 putative DNA-binding 45.4 3.7E+02 0.0081 27.9 17.4 70 489-571 107-176 (300)
410 PF01102 Glycophorin_A: Glycop 45.1 44 0.00095 29.5 4.8 25 823-847 68-92 (122)
411 PF07287 DUF1446: Protein of u 44.2 3.3E+02 0.0071 29.4 12.2 90 80-189 23-113 (362)
412 PRK11914 diacylglycerol kinase 44.1 1.4E+02 0.003 31.5 9.6 80 172-257 4-86 (306)
413 cd02071 MM_CoA_mut_B12_BD meth 43.6 1.5E+02 0.0034 26.1 8.4 61 193-260 15-79 (122)
414 TIGR00670 asp_carb_tr aspartat 43.3 4.2E+02 0.009 27.9 13.5 136 43-211 40-182 (301)
415 PRK04284 ornithine carbamoyltr 43.2 4.4E+02 0.0096 28.1 16.0 133 44-211 47-186 (332)
416 TIGR00177 molyb_syn molybdenum 42.9 1.2E+02 0.0025 27.8 7.7 49 192-244 27-75 (144)
417 cd06302 PBP1_LsrB_Quorum_Sensi 42.9 67 0.0015 33.6 7.1 79 178-260 1-82 (298)
418 cd06299 PBP1_LacI_like_13 Liga 42.8 1.1E+02 0.0024 31.0 8.7 76 179-260 2-79 (265)
419 PRK15138 aldehyde reductase; P 42.4 90 0.002 34.2 8.0 75 165-245 20-95 (387)
420 cd06310 PBP1_ABC_sugar_binding 42.1 61 0.0013 33.2 6.6 79 178-259 1-82 (273)
421 cd01545 PBP1_SalR Ligand-bindi 42.1 66 0.0014 32.8 6.8 77 179-259 2-80 (270)
422 PRK13583 hisG ATP phosphoribos 42.0 2.3E+02 0.0049 28.3 9.8 47 524-570 55-107 (228)
423 cd06322 PBP1_ABC_sugar_binding 41.3 78 0.0017 32.3 7.2 77 179-260 2-81 (267)
424 cd08450 PBP2_HcaR The C-termin 40.8 85 0.0018 29.6 7.0 70 487-571 13-82 (196)
425 cd01538 PBP1_ABC_xylose_bindin 40.8 87 0.0019 32.5 7.5 77 179-260 2-81 (288)
426 COG0563 Adk Adenylate kinase a 40.7 76 0.0017 30.3 6.3 30 109-139 3-32 (178)
427 cd08549 G1PDH_related Glycerol 40.5 76 0.0017 33.9 7.0 99 165-272 12-114 (332)
428 PF15050 SCIMP: SCIMP protein 40.1 53 0.0011 28.3 4.3 37 823-859 9-46 (133)
429 cd00758 MoCF_BD MoCF_BD: molyb 40.1 1.3E+02 0.0029 27.0 7.5 63 178-244 1-67 (133)
430 PF04273 DUF442: Putative phos 40.0 2.5E+02 0.0054 24.3 9.4 84 171-256 23-107 (110)
431 PF15179 Myc_target_1: Myc tar 39.9 39 0.00084 31.6 3.8 36 810-845 12-48 (197)
432 PRK15395 methyl-galactoside AB 39.7 2.9E+02 0.0063 29.4 11.4 122 40-173 160-293 (330)
433 PRK06975 bifunctional uroporph 39.6 3.2E+02 0.0069 32.4 12.4 88 162-257 121-214 (656)
434 cd01540 PBP1_arabinose_binding 39.0 69 0.0015 33.2 6.4 77 178-260 1-80 (289)
435 cd06318 PBP1_ABC_sugar_binding 38.7 71 0.0015 32.9 6.4 78 178-260 1-81 (282)
436 cd08485 PBP2_ClcR The C-termin 38.6 1.2E+02 0.0026 28.8 7.7 70 487-571 14-83 (198)
437 cd06300 PBP1_ABC_sugar_binding 38.6 90 0.002 31.9 7.2 80 178-260 1-86 (272)
438 cd00755 YgdL_like Family of ac 38.6 3.6E+02 0.0078 27.0 10.9 120 55-187 62-183 (231)
439 PRK05331 putative phosphate ac 38.3 5.3E+02 0.011 27.6 13.5 140 91-247 71-234 (334)
440 PRK13054 lipid kinase; Reviewe 38.3 1.2E+02 0.0027 31.8 8.1 76 177-258 4-79 (300)
441 PRK08811 uroporphyrinogen-III 38.1 4E+02 0.0087 27.4 11.6 113 131-256 94-210 (266)
442 COG1058 CinA Predicted nucleot 38.1 1.5E+02 0.0033 30.1 8.0 63 178-244 3-69 (255)
443 PRK02929 L-arabinose isomerase 38.0 3.7E+02 0.0081 30.5 12.0 75 63-140 31-105 (499)
444 PRK00002 aroB 3-dehydroquinate 38.0 1.1E+02 0.0024 33.1 7.8 101 165-271 20-127 (358)
445 cd08452 PBP2_AlsR The C-termin 37.9 1.1E+02 0.0025 29.0 7.4 70 487-571 13-82 (197)
446 PRK13584 hisG ATP phosphoribos 37.6 3.6E+02 0.0078 26.4 10.2 91 681-781 106-199 (204)
447 cd08184 Fe-ADH3 Iron-containin 37.6 1.6E+02 0.0035 31.7 8.8 75 165-245 12-91 (347)
448 cd06281 PBP1_LacI_like_5 Ligan 37.4 97 0.0021 31.6 7.2 76 179-259 2-79 (269)
449 cd06315 PBP1_ABC_sugar_binding 37.2 1.3E+02 0.0028 31.1 8.0 79 177-260 1-82 (280)
450 cd06316 PBP1_ABC_sugar_binding 37.2 73 0.0016 33.2 6.2 79 178-260 1-82 (294)
451 PRK10014 DNA-binding transcrip 37.1 1.3E+02 0.0028 32.0 8.4 80 175-259 63-144 (342)
452 TIGR02370 pyl_corrinoid methyl 36.9 4E+02 0.0088 25.9 11.1 88 177-272 85-176 (197)
453 cd08177 MAR Maleylacetate redu 36.7 75 0.0016 34.1 6.2 77 164-245 11-87 (337)
454 PRK10481 hypothetical protein; 36.6 2.3E+02 0.0051 28.2 9.0 68 175-248 128-195 (224)
455 cd06317 PBP1_ABC_sugar_binding 36.4 96 0.0021 31.7 6.9 77 179-260 2-82 (275)
456 PRK02255 putrescine carbamoylt 36.2 5.7E+02 0.012 27.4 15.6 131 43-211 43-184 (338)
457 PRK11303 DNA-binding transcrip 36.0 1.4E+02 0.003 31.7 8.3 80 175-259 60-141 (328)
458 PRK00843 egsA NAD(P)-dependent 35.8 1.2E+02 0.0025 32.8 7.6 97 165-272 22-121 (350)
459 PF02310 B12-binding: B12 bind 35.8 2.8E+02 0.0061 24.0 9.0 44 193-243 16-59 (121)
460 PRK01713 ornithine carbamoyltr 35.6 5.8E+02 0.013 27.3 15.5 134 43-211 47-187 (334)
461 PRK01215 competence damage-ind 35.6 2.2E+02 0.0047 29.3 9.0 75 177-255 4-83 (264)
462 cd08449 PBP2_XapR The C-termin 35.5 1.3E+02 0.0029 28.1 7.5 72 487-571 13-84 (197)
463 cd08197 DOIS 2-deoxy-scyllo-in 35.5 2.8E+02 0.0061 29.9 10.3 101 165-271 12-119 (355)
464 PRK10936 TMAO reductase system 35.4 1.1E+02 0.0023 32.9 7.3 80 176-259 46-128 (343)
465 PRK14749 hypothetical protein; 35.2 1.1E+02 0.0024 19.2 4.0 25 824-848 4-28 (30)
466 PF08114 PMP1_2: ATPase proteo 35.1 27 0.00058 23.6 1.5 25 830-854 17-41 (43)
467 cd06354 PBP1_BmpA_PnrA_like Pe 34.9 5E+02 0.011 26.3 12.8 94 42-140 121-214 (265)
468 cd06278 PBP1_LacI_like_2 Ligan 34.7 96 0.0021 31.4 6.6 75 179-260 2-78 (266)
469 cd08173 Gro1PDH Sn-glycerol-1- 34.7 1.3E+02 0.0028 32.2 7.7 75 165-245 13-88 (339)
470 cd06296 PBP1_CatR_like Ligand- 34.5 1.1E+02 0.0023 31.2 6.9 75 179-259 2-78 (270)
471 PRK09701 D-allose transporter 34.2 2.4E+02 0.0052 29.7 9.6 84 174-260 22-108 (311)
472 COG1419 FlhF Flagellar GTP-bin 34.2 1.6E+02 0.0035 32.0 8.0 73 162-245 219-291 (407)
473 PF00625 Guanylate_kin: Guanyl 34.0 2.4E+02 0.0053 26.8 8.8 89 107-210 3-99 (183)
474 PRK10653 D-ribose transporter 33.9 1.7E+02 0.0036 30.5 8.3 81 175-260 25-108 (295)
475 PF01102 Glycophorin_A: Glycop 33.8 46 0.001 29.3 3.2 43 816-858 58-100 (122)
476 cd06270 PBP1_GalS_like Ligand 33.7 1.3E+02 0.0028 30.6 7.3 75 179-259 2-78 (268)
477 COG0426 FpaA Uncharacterized f 33.5 6.6E+02 0.014 27.3 16.5 151 42-211 212-363 (388)
478 PRK02261 methylaspartate mutas 33.2 3.3E+02 0.0071 24.7 8.8 75 178-260 5-83 (137)
479 cd06578 HemD Uroporphyrinogen- 33.2 2.6E+02 0.0057 27.7 9.4 89 162-259 106-196 (239)
480 cd02067 B12-binding B12 bindin 33.1 3E+02 0.0064 24.0 8.5 60 193-259 15-78 (119)
481 PRK10355 xylF D-xylose transpo 33.1 1.6E+02 0.0034 31.5 8.0 80 175-259 24-106 (330)
482 PRK09189 uroporphyrinogen-III 33.0 1.8E+02 0.004 29.2 8.1 88 162-257 102-191 (240)
483 cd01539 PBP1_GGBP Periplasmic 32.9 1.3E+02 0.0028 31.5 7.3 78 178-260 1-83 (303)
484 cd06295 PBP1_CelR Ligand bindi 32.9 1.3E+02 0.0027 30.8 7.2 78 175-260 2-88 (275)
485 PF04971 Lysis_S: Lysis protei 32.9 59 0.0013 25.1 3.2 33 820-852 32-64 (68)
486 cd01542 PBP1_TreR_like Ligand- 32.5 1.2E+02 0.0027 30.5 6.9 75 179-259 2-78 (259)
487 cd06323 PBP1_ribose_binding Pe 32.1 1.2E+02 0.0025 30.8 6.7 77 179-260 2-81 (268)
488 PRK14498 putative molybdopteri 32.0 4.7E+02 0.01 30.9 12.4 170 503-789 440-631 (633)
489 PRK13805 bifunctional acetalde 32.0 1.6E+02 0.0035 36.3 8.7 69 175-245 479-549 (862)
490 PF14981 FAM165: FAM165 family 31.9 1.1E+02 0.0025 21.3 4.0 32 816-847 3-34 (51)
491 PRK10094 DNA-binding transcrip 31.8 6.2E+02 0.013 26.5 16.3 70 489-571 108-177 (308)
492 cd06320 PBP1_allose_binding Pe 31.5 1.2E+02 0.0025 31.1 6.6 80 178-260 1-83 (275)
493 PRK09986 DNA-binding transcrip 31.4 1.7E+02 0.0036 30.4 7.8 71 488-571 111-181 (294)
494 TIGR00640 acid_CoA_mut_C methy 31.3 2.1E+02 0.0045 25.8 7.2 62 192-260 17-82 (132)
495 PF00448 SRP54: SRP54-type pro 31.3 1.1E+02 0.0025 29.7 5.9 63 176-244 29-92 (196)
496 COG4846 CcdC Membrane protein 31.3 42 0.00092 29.3 2.5 24 813-836 117-140 (163)
497 PF06716 DUF1201: Protein of u 31.2 1.4E+02 0.003 20.8 4.4 24 819-842 4-27 (54)
498 TIGR02417 fruct_sucro_rep D-fr 31.1 2.1E+02 0.0045 30.2 8.7 80 175-259 59-140 (327)
499 cd00885 cinA Competence-damage 31.1 2.1E+02 0.0045 27.1 7.5 46 194-243 21-66 (170)
500 COG3340 PepE Peptidase E [Amin 30.9 4E+02 0.0088 26.2 9.2 89 162-261 19-108 (224)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-90 Score=708.16 Aligned_cols=752 Identities=18% Similarity=0.292 Sum_probs=632.2
Q ss_pred CceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCC--cccEEEEEEec-CCCCHHHHHHHHHHhhccCCeEEEEecCC
Q 044527 40 SDEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTH--CKTRLILHSRD-SQGDPFHALTTASNLMQNVDLQAIICIGM 116 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~--l~~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~ 116 (860)
+.+|.||.+||.... +...|+++|+...|.+..- .|.+|..++.. ...+....++++|+..++ +|.||+|.+.
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---QEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSR-GVYAIFGFYD 99 (897)
T ss_pred CCceeeccccCCcch---HHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhh-hHhhheeccc
Confidence 567999999998875 5778999999999986553 34777776654 237888999999999998 9999999999
Q ss_pred ChhHHHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 117 TPTGAQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 117 ~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
-.+...+..+|+..++|.|+++... +.++ +..++.|+-. .++++++.||+|.++.++|+.+ -|. +..+
T Consensus 100 -~ks~~~ltsfc~aLh~~~vtpsfp~--~~~~~Fviq~RP~l~------~al~s~i~hy~W~~fv~lyD~~-rg~-s~Lq 168 (897)
T KOG1054|consen 100 -KKSVNTLTSFCGALHVSFVTPSFPT--DGDNQFVIQMRPALK------GALLSLIDHYKWEKFVYLYDTD-RGL-SILQ 168 (897)
T ss_pred -ccchhhhhhhccceeeeeecccCCc--CCCceEEEEeCchHH------HHHHHHHHhcccceEEEEEccc-chH-HHHH
Confidence 8899999999999999999998633 4555 8899999654 8999999999999999999766 577 7889
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
++.+.+..+++.|.....-. ..+...++.+++.+...+.+.+++.|..+....++.++.+.+....+||+++.+....
T Consensus 169 ai~~~a~~~nw~VtA~~v~~--~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~ 246 (897)
T KOG1054|consen 169 AIMEAAAQNNWQVTAINVGN--INDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFT 246 (897)
T ss_pred HHHHHHHhcCceEEEEEcCC--cccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCc
Confidence 99999999999998865422 2345669999999999999999999999999999999988887779999999887654
Q ss_pred hcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC-
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV- 354 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~- 354 (860)
..+.. .+... ..++.||+..+.++|..++|.++|++.-..+.|+..+..+...++.+|||+.+.++|++.+..+..
T Consensus 247 d~dl~--~f~~g-~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~ 323 (897)
T KOG1054|consen 247 DIDLE--RFQHG-GANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRID 323 (897)
T ss_pred hhhHH--HHhcC-CcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhc
Confidence 33221 22333 678999999999999999999999988777888887778889999999999999999998764431
Q ss_pred -------------------ChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCceeec
Q 044527 355 -------------------SDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGITKEM 414 (860)
Q Consensus 355 -------------------~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~~~~~ 414 (860)
.|..+.++++++.++|+||+++| +.|.|.++ ..+|++++.++-+++|+|+...++....
T Consensus 324 ~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Ny-t~~i~elk~~~~rk~~~W~e~~~fv~~~ 402 (897)
T KOG1054|consen 324 ISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNY-TIDIVELKSNGSRKVGYWNEGEGFVPGS 402 (897)
T ss_pred hhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccc-eEEEEEeccCCcceeeeecccCceeecc
Confidence 17889999999999999999999 99999999 9999999999999999999988866432
Q ss_pred cccccccccccccCCCCCCCcceeecCCCCCCCCCcccCCCeEEEEecCCCcccceEeeeCCC--CCCCCccEeeeeHHH
Q 044527 415 NSSVFINKMDTISSTSPNDELEVIIWPGGSAAIPAGVGKINKLRIGVPVNGLKEFVNVVWDPQ--SINSTLTVEGFCIDV 492 (860)
Q Consensus 415 ~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~g~~l~v~~~~~~~~pf~~~~~~~~--~~~~~~~~~G~~~~l 492 (860)
+. .+. +. ...... .+++.|.+.. ..||++.+++.. .| +++++|||+||
T Consensus 403 t~------a~~----------~~-----d~~~~~-----n~tvvvttiL--~spyvm~kkn~~~~eg--n~ryEGyCvdL 452 (897)
T KOG1054|consen 403 TV------AQS----------RN-----DQASKE-----NRTVVVTTIL--ESPYVMLKKNHEQLEG--NERYEGYCVDL 452 (897)
T ss_pred cc------ccc----------cc-----cccccc-----cceEEEEEec--CCchhHHHhhHHHhcC--CcccceeHHHH
Confidence 20 000 00 000001 3566676663 478888877653 45 89999999999
Q ss_pred HHHHHHhCCCceeEEEEeecCCCCCccCCC-HHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEecCC
Q 044527 493 FKAAIDTLTFEVPYEFIPFVDAGGRVAAGS-YSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 493 ~~~la~~l~f~~~~~~~~~~~~~~~~~~g~-~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
+.+||++.+.++++.++.++++|.++++++ |+||+++|..|+||++++++++|.+|++.+|||.|+++.++.+++++|+
T Consensus 453 a~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPq 532 (897)
T KOG1054|consen 453 AAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQ 532 (897)
T ss_pred HHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCcc
Confidence 999999999999999999999999999998 9999999999999999999999999999999999999999999999998
Q ss_pred --CCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCc------c-------cccchhHHHHHHHHhhccc-
Q 044527 572 --NNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGS------R-------AHQFGMIFWYSFSTLVFSQ- 635 (860)
Q Consensus 572 --~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~------~-------~~~~~~~~~~~~~~~~~~~- 635 (860)
.+..++|+.|...++|+||+++++.+++++++..|+++++|+-. . -+++.|++|++++++++||
T Consensus 533 Ksk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~ 612 (897)
T KOG1054|consen 533 KSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGC 612 (897)
T ss_pred cCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCC
Confidence 78999999999999999999999999999999999999987632 1 1467799999999999999
Q ss_pred cccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHh--------hhcCCcEE--EecCCcHHHhhhcCCCCC---
Q 044527 636 REKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIK--------LASMDNIG--SQLGSVVPGALSNLNFKD--- 702 (860)
Q Consensus 636 ~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~--------~~~~~~i~--~~~~~~~~~~~~~~~~~~--- 702 (860)
...|||.++|++..+||||+||++++|||||+||||+++|. +.++.+|. +..+....++++.+..+-
T Consensus 613 DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skiavy~k 692 (897)
T KOG1054|consen 613 DISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIAVYEK 692 (897)
T ss_pred CCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHHHHHH
Confidence 66799999999999999999999999999999999999987 44566664 456666677775432110
Q ss_pred -------c-CccccCCHHHHHHHHhc--CCcEEEEcchHHHHHHHhcc-CccceeeccccccccCceEEEeccCCcchHH
Q 044527 703 -------S-RLKKYNSAEEYANALSM--GSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTSTNGFGFVFQKGSPLVHD 771 (860)
Q Consensus 703 -------~-~~~~~~~~~~~~~~l~~--g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~ 771 (860)
. --+...+..|++.++++ |+ +||+.++..-+|..++. | +-..++..+ .+.+|+++.||||.|+..
T Consensus 693 MW~yM~SaepsVFv~t~aeGv~rVRksKGk-yAfLLEsTmNey~eqRkPC-DTMKVGgNL--ds~GYGiATp~Gsslr~~ 768 (897)
T KOG1054|consen 693 MWTYMKSAEPSVFVRTTAEGVARVRKSKGK-YAFLLESTMNEYIEQRKPC-DTMKVGGNL--DSKGYGIATPKGSSLRNA 768 (897)
T ss_pred HHHHHhcCCcceeeehhhhHHHHHHhcCCc-eEeehHhhhhhhhhccCCc-cceeccccc--CCcceeecCCCCcccccc
Confidence 0 11234567788888875 55 89999999999987766 9 566678888 999999999999999999
Q ss_pred HHHHHHHHhhcchHHHHHHHHcCCCCCCCcccCCCCCCCCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 044527 772 ISRAIARLREEGTLAKIENVWFNTQQSSNFMHEDSTSSNPSSLSLANFGGLFLITGISSTLALVIFLVTSIYKRTF 847 (860)
Q Consensus 772 in~~i~~l~e~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~l~g~f~~l~~g~~ls~~vf~~E~~~~~~~ 847 (860)
+|.++++|.|.|+++++.+|||++++.|+- ...+.......|++.++.|+||+|..|+++|+++.++|++|+.+.
T Consensus 769 vNLAvLkL~E~G~LdKLkNKWWYDkGeC~s-g~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~ 843 (897)
T KOG1054|consen 769 VNLAVLKLNEQGLLDKLKNKWWYDKGECGS-GGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRA 843 (897)
T ss_pred hhhhhhhhcccchHHHhhhhhcccccccCC-CCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhH
Confidence 999999999999999999999999999942 112244555799999999999999999999999999999998764
No 2
>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=2e-79 Score=652.26 Aligned_cols=680 Identities=22% Similarity=0.380 Sum_probs=553.8
Q ss_pred CCHHHHHHHHHHhhccCCeEEEEecCCCh--hHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHH
Q 044527 90 GDPFHALTTASNLMQNVDLQAIICIGMTP--TGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQS 162 (860)
Q Consensus 90 ~~~~~a~~~~~~li~~~~v~aviGp~~~s--~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~ 162 (860)
.||...++..|+++...+|.+|+--..|. +.+..+--++.+..||+|+..+.+...+++ .|+++.|+.+ +
T Consensus 83 tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sie---q 159 (1258)
T KOG1053|consen 83 TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIE---Q 159 (1258)
T ss_pred CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHH---H
Confidence 89999999999999998999876433313 444555557788999999997665424444 8999999999 9
Q ss_pred HHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhh--CCceEeEEEeccCCCCChHH-HHHHHHhhhcCCCeEE
Q 044527 163 QARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHD--NDIDIARRTSISLASSTHDQ-IIEKLSMLKSLDTKVF 239 (860)
Q Consensus 163 ~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~--~g~~i~~~~~~~~~~~~~~~-~~~~l~~i~~~~~~vi 239 (860)
|++++.++|++|+|..++++....+.-. .+...+++..++ .|+++....... .+..| ......++++-++.||
T Consensus 160 qa~Vml~iL~~ydW~~Fs~vtt~~pg~~-~f~~~ir~~~d~s~vgwe~i~v~~l~---~s~~d~~a~~q~qLkki~a~Vi 235 (1258)
T KOG1053|consen 160 QAQVMLKILEEYDWYNFSLVTTQFPGNR-TFVSLIRQTNDNSHVGWEMINVLTLD---PSTDDLLAKLQAQLKKIQAPVI 235 (1258)
T ss_pred HHHHHHHHHHHcCcceeEEEEeecCchH-HHHHHHHHhhhhccccceeeeeeecC---CCCCchHHHHHHHHHhcCCcEE
Confidence 9999999999999999999998887666 778888887766 477776655544 33222 2333445666679999
Q ss_pred EEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhcc
Q 044527 240 VVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLN 319 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 319 (860)
+++|+.++|..|+..|.++||++++|.||+++..... +... .+. ..|.+.+.....+
T Consensus 236 llyC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~~~p---a~~-P~GLisv~~~~w~------------------ 292 (1258)
T KOG1053|consen 236 LLYCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-EPRP---AEF-PLGLISVSYDTWR------------------ 292 (1258)
T ss_pred EEEecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-CCCC---ccC-ccceeeeeccchh------------------
Confidence 9999999999999999999999999999997665432 1111 122 4455555433211
Q ss_pred CCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC------------------ChHHHHHHHHhcccccceeeEEe-eCC
Q 044527 320 NPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV------------------SDEIFYKQIVNNRFRGLSGDFQF-VNG 380 (860)
Q Consensus 320 ~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~------------------~~~~l~~~l~~~~~~g~tG~v~F-~~g 380 (860)
..+.+..-|+|-++|.|...+..... .+..+.++|.|+.|+| ++++| ++|
T Consensus 293 ---------~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~g 361 (1258)
T KOG1053|consen 293 ---------YSLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFNEDG 361 (1258)
T ss_pred ---------hhHHHHHhhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--cceeecCCc
Confidence 12456677899999999988764321 2788999999999999 88999 999
Q ss_pred eecCCccEEEEEee-cCceEEeeeecCCCCceeeccccccccccccccCCCCCCCcceeecCCCCCCCCCcccCCCeEEE
Q 044527 381 KLTSSREFEIVNVI-GKTIKRVGFWNPTTGITKEMNSSVFINKMDTISSTSPNDELEVIIWPGGSAAIPAGVGKINKLRI 459 (860)
Q Consensus 381 ~~~~~~~~~i~~~~-~~~~~~vG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~g~~l~v 459 (860)
-..++ ...++.+. +..|++||.|+.++ +.+++.+||..... +.+.....+|+|
T Consensus 362 ~~v~p-~lvvI~l~~~r~We~VG~We~~~------------------------L~M~y~vWPr~~~~-~q~~~d~~HL~V 415 (1258)
T KOG1053|consen 362 YLVHP-NLVVIDLNRDRTWERVGSWENGT------------------------LVMKYPVWPRYHKF-LQPVPDKLHLTV 415 (1258)
T ss_pred eeecc-ceEEEecCCCcchheeceecCCe------------------------EEEeccccccccCc-cCCCCCcceeEE
Confidence 99998 88887775 45699999998753 24567899944331 112222569999
Q ss_pred EecCCCcccceEeee-CCCCC-------------------------CCCccEeeeeHHHHHHHHHhCCCceeEEEEeecC
Q 044527 460 GVPVNGLKEFVNVVW-DPQSI-------------------------NSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVD 513 (860)
Q Consensus 460 ~~~~~~~~pf~~~~~-~~~~~-------------------------~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~ 513 (860)
+|.+ .+||++... ||.++ +-..|+.|||+||+++||+.+||+++++++.+++
T Consensus 416 vTLe--E~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGK 493 (1258)
T KOG1053|consen 416 VTLE--ERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGK 493 (1258)
T ss_pred EEec--cCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCc
Confidence 9995 499999753 23221 1256899999999999999999999999998765
Q ss_pred CCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEecCC-CCCcceecccCChhHHHHHHH
Q 044527 514 AGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ-NNNMWIFLKPLKPNLWLTIAA 592 (860)
Q Consensus 514 ~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~-~~~~~~~~~pF~~~vW~~i~~ 592 (860)
+|++.||.|+||++++..++|||++++++|+.||.+.+|||.|+...++.++|+..+ ..+.-+|+.||++.+|+++++
T Consensus 494 -hGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFV 572 (1258)
T KOG1053|consen 494 -HGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFV 572 (1258)
T ss_pred -ccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHH
Confidence 567899999999999999999999999999999999999999999999999999888 778889999999999999999
Q ss_pred HHHHHH-HHhhhhccccCCCcC---------CcccccchhHHHHHHHHhhccc--cccccccchhhhHHHHHHHHHHHHH
Q 044527 593 LFVLTG-FVVWIIERPVNDEFQ---------GSRAHQFGMIFWYSFSTLVFSQ--REKLFSNLSKFVVIVWVFVVLILSS 660 (860)
Q Consensus 593 ~~~~~~-~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~--~~~~~s~~~R~l~~~w~~~~lil~~ 660 (860)
++++++ +.+++++++++..+. +...++++.++|..|+.+++.. .+.||++++|++..+|.+|++++.+
T Consensus 573 m~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLA 652 (1258)
T KOG1053|consen 573 MCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLA 652 (1258)
T ss_pred HHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHH
Confidence 888665 456688988876543 2246799999999999999876 6689999999999999999999999
Q ss_pred HhhhccccccchhhHh----------------hhcCCcEEEecCCcHHHhhhcCCCCC--cCccccC--CHHHHHHHHhc
Q 044527 661 SYTATLASMLTIQQIK----------------LASMDNIGSQLGSVVPGALSNLNFKD--SRLKKYN--SAEEYANALSM 720 (860)
Q Consensus 661 ~Yta~L~s~lt~~~~~----------------~~~~~~i~~~~~~~~~~~~~~~~~~~--~~~~~~~--~~~~~~~~l~~ 720 (860)
+|||||+|||.-+.+- .....++|.+.++..++++++ ++++ ..++.|+ ..+++++.|++
T Consensus 653 sYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~-Nyp~MHeYM~kyNq~~v~dal~sLK~ 731 (1258)
T KOG1053|consen 653 SYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRS-NYPEMHEYMVKYNQPGVEDALESLKN 731 (1258)
T ss_pred HHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHh-ccHHHHHHHHHhccCchHHHHHHHhc
Confidence 9999999999544432 123568999988888888875 4443 4555564 68999999999
Q ss_pred CCcEEEEcchHHHHHHHhcc--Cccceeec--cccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHHHHHHcCCC
Q 044527 721 GSISAIVDEIPYVRAFLSKY--SAHYTTAA--AKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKIENVWFNTQ 796 (860)
Q Consensus 721 g~~~~~i~~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~~~~~~ 796 (860)
||.||||+|..+++|+..++ | +|.+++ +.+ ...+|+++++||||+++.||.+|++....|.|+.+++.|+.
T Consensus 732 gKLDAFIyDaAVLnY~agkDegC-KLvTIGsgKvF--AttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wlt-- 806 (1258)
T KOG1053|consen 732 GKLDAFIYDAAVLNYMAGKDEGC-KLVTIGSGKVF--ATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLT-- 806 (1258)
T ss_pred ccchhHHHHHHHHHHhhccCCCc-eEEEecCCcee--eecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhh--
Confidence 99999999999999999987 8 888888 788 99999999999999999999999999999999999999998
Q ss_pred CCCCcccCCCCCCCCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 044527 797 QSSNFMHEDSTSSNPSSLSLANFGGLFLITGISSTLALVIFLVTSIYKRTFW 848 (860)
Q Consensus 797 ~~~~~~~~~~~~~~~~~l~l~~l~g~f~~l~~g~~ls~~vf~~E~~~~~~~~ 848 (860)
..| .+...+..+.+|+++++.|+||+|++|+++|+++|++|++++.+-|
T Consensus 807 gic---~n~k~evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvYw~Lr 855 (1258)
T KOG1053|consen 807 GIC---HNSKNEVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWKLR 855 (1258)
T ss_pred ccc---ccchhhhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 789 7777888999999999999999999999999999999999865433
No 3
>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=6.7e-81 Score=639.76 Aligned_cols=728 Identities=20% Similarity=0.343 Sum_probs=595.7
Q ss_pred CCCceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEec--CCCCHHHHHHHHHH-hhccCCeEEEEe-
Q 044527 38 LNSDEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRD--SQGDPFHALTTASN-LMQNVDLQAIIC- 113 (860)
Q Consensus 38 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D--~~~~~~~a~~~~~~-li~~~~v~aviG- 113 (860)
.++++++||.+.... ..+.-+.-++.++|++.+ +.++.+.-.. .+.++...+-.+|+ +++. .|.+|+-
T Consensus 31 ~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~--s~k~~~~aksv~~d~n~i~t~~~VC~~li~~-~vyav~vS 102 (993)
T KOG4440|consen 31 CNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG--SWKIQLNAKSVTHDPNAIQTALSVCEDLISS-QVYAVLVS 102 (993)
T ss_pred CCccceeeeeeeech-----hHHHHHHHHHHHhhcccc--ceEEEEccccccCCCcHHHHHHHHHHHHHhh-heeEEEec
Confidence 347899999998764 466779999999997654 2555553222 33555555555554 5665 7887763
Q ss_pred cCCChh---HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEec
Q 044527 114 IGMTPT---GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHED 185 (860)
Q Consensus 114 p~~~s~---~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~ 185 (860)
|.-||. +-.++...++.+.||++..+..+. .+++ .|.|++|+.. .|+....+++.+|.|++|.++.++
T Consensus 103 h~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda-~fSdKnIh~sFlRtvpPys---hqa~VwleMl~~~~y~~vi~l~s~ 178 (993)
T KOG4440|consen 103 HPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDA-IFSDKNIHLSFLRTVPPYS---HQASVWLEMLRVYSYNHVILLVSD 178 (993)
T ss_pred CCCCCCcccccccceeeccceeeeeeeeeehhh-hhccCceeeeEeecCCCcc---chhHHHHHHHHHhhcceEEEEEcc
Confidence 222122 234556788889999999998888 8988 8999999999 999999999999999999999999
Q ss_pred CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCe
Q 044527 186 NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGY 265 (860)
Q Consensus 186 ~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~ 265 (860)
|.-|+ ....+++...++..-++.....+. ++..+++..|-++|...++|+++.++.++|..+++.|-.++|++.+|
T Consensus 179 d~~gr-a~~~r~qt~~e~~~~~~e~v~~f~---p~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~ 254 (993)
T KOG4440|consen 179 DHEGR-AAQKRLQTLLEERESKAEKVLQFD---PGTKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGY 254 (993)
T ss_pred cccch-hHHhHHHHHHHHHhhhhhhheecC---cccchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceE
Confidence 99888 777778777776665555544555 77889999999999999999999999999999999999999999999
Q ss_pred EEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHH
Q 044527 266 VWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKA 345 (860)
Q Consensus 266 ~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~A 345 (860)
+||++......- +. ..|++|.+..... ...++.-|+|.+++.|
T Consensus 255 VWiV~E~a~~~n--------n~-PdG~LGlqL~~~~----------------------------~~~~hirDsv~vlasA 297 (993)
T KOG4440|consen 255 VWIVGERAISGN--------NL-PDGILGLQLINGK----------------------------NESAHIRDSVGVLASA 297 (993)
T ss_pred EEEEeccccccC--------CC-CCceeeeEeecCc----------------------------cccceehhhHHHHHHH
Confidence 999987654221 11 5688887765422 2346778999999999
Q ss_pred HHhhhcCCC----------------ChHHHHHHHHhccc-ccceeeEEe-eCCeecCCccEEEEEee-cCceEEeeeecC
Q 044527 346 SEKLKTGQV----------------SDEIFYKQIVNNRF-RGLSGDFQF-VNGKLTSSREFEIVNVI-GKTIKRVGFWNP 406 (860)
Q Consensus 346 l~~~~~~~~----------------~~~~l~~~l~~~~~-~g~tG~v~F-~~g~~~~~~~~~i~~~~-~~~~~~vG~~~~ 406 (860)
++++..... +|..+...+...++ +|.||++.| ++|+|... .|+|+|++ +.+.+-+|.|+.
T Consensus 298 v~e~~~~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a-~YdiiN~hq~rk~Vg~~~yd~ 376 (993)
T KOG4440|consen 298 VHELLEKENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFA-NYDIINLHQNRKLVGVGIYDG 376 (993)
T ss_pred HHHHHhhccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeec-cceeEehhhhhhhhhhccccc
Confidence 999875421 16677777776555 899999999 99999998 99999996 444555566654
Q ss_pred CCCceeeccccccccccccccCCCCCCCcceeecCCCCCCCCCcccCCCeEEEEecCCCcccceEeeeCC----------
Q 044527 407 TTGITKEMNSSVFINKMDTISSTSPNDELEVIIWPGGSAAIPAGVGKINKLRIGVPVNGLKEFVNVVWDP---------- 476 (860)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~g~~l~v~~~~~~~~pf~~~~~~~---------- 476 (860)
. ... .+.+.|+|||+.+.+|++...-.+||+.+. +.+||+|....-
T Consensus 377 ~---r~~-------------------~nd~~IiWpGg~~~KP~gi~~pthLrivTi--~~~PFVYv~p~~sd~~c~eef~ 432 (993)
T KOG4440|consen 377 T---RVI-------------------PNDRKIIWPGGETEKPRGIQMPTHLRIVTI--HQEPFVYVKPTLSDGTCKEEFT 432 (993)
T ss_pred e---eec-------------------cCCceeecCCCCcCCCccccccceeEEEEe--ccCCeEEEecCCCCcchhhhcc
Confidence 2 211 134789999999999998888899999999 459999986210
Q ss_pred ----------CCC-----------CCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCC-------ccCC-CHHHHH
Q 044527 477 ----------QSI-----------NSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGR-------VAAG-SYSDLI 527 (860)
Q Consensus 477 ----------~~~-----------~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~-------~~~g-~~~g~~ 527 (860)
.+| ....|+.|+|+|++.++++.+||++++.+++++..|.. ..++ +|+|++
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 000 12458899999999999999999999999999887652 1133 699999
Q ss_pred HHHHcCcccEEEeceeecccccceeeccccccccceEEEEecCC-CCCcceecccCChhHHHHHHHHHHHHHHHhhhhcc
Q 044527 528 DQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ-NNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIER 606 (860)
Q Consensus 528 ~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~-~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~ 606 (860)
++|.+|+|||+++++++++||.++++||.|+...+++++.+++. ...+.+|+.||+.++|+++.+++++++++++++.|
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 99999999999999999999999999999999999999999998 78889999999999999999999999999999999
Q ss_pred ccCCC-cCC-------cccccchhHHHHHHHHhhccc-cc-cccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHh
Q 044527 607 PVNDE-FQG-------SRAHQFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIK 676 (860)
Q Consensus 607 ~~~~~-~~~-------~~~~~~~~~~~~~~~~~~~~~-~~-~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~ 676 (860)
+++.+ ++. ....+++..+|++||.+++.| ++ .|||.++|++-++|+=||+||+++|||||++||.+++.+
T Consensus 593 fSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe 672 (993)
T KOG4440|consen 593 FSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPE 672 (993)
T ss_pred cCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCcc
Confidence 98765 221 234688999999999999988 44 699999999999999999999999999999999888877
Q ss_pred -------------hhcCCcEEEecCCcHHHhhhcCC-----CCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHh
Q 044527 677 -------------LASMDNIGSQLGSVVPGALSNLN-----FKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLS 738 (860)
Q Consensus 677 -------------~~~~~~i~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~ 738 (860)
-..+...+.+.+|....||++.- ++.-.-.-|.+.+|+++++++|+.+||+.|+..++|..+
T Consensus 673 ~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gkL~AFIWDS~rLEfEAs 752 (993)
T KOG4440|consen 673 ERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGKLHAFIWDSARLEFEAS 752 (993)
T ss_pred ccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCceeEEEeecceeeehhh
Confidence 11234568889999999986521 111123456788999999999999999999999999999
Q ss_pred ccCccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHHHHHHcCCC--CCCCcccCCCCCCCCCcccc
Q 044527 739 KYSAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKIENVWFNTQ--QSSNFMHEDSTSSNPSSLSL 816 (860)
Q Consensus 739 ~~~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~l 816 (860)
+.| .|...++.+ ..++|+++++|+||+.+.+..+|++++|+|+|+++.++|.... +.| ......+..|++
T Consensus 753 ~~C-eLvT~GeLF--gRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c-----~~~~k~PatLgl 824 (993)
T KOG4440|consen 753 QKC-ELVTTGELF--GRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQEC-----DSRSKAPATLGL 824 (993)
T ss_pred ccc-ceEeccccc--cccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchh-----hhhccCcccccc
Confidence 999 999999999 9999999999999999999999999999999999999998763 233 334567889999
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 044527 817 ANFGGLFLITGISSTLALVIFLVTSIYKRTFWRTG 851 (860)
Q Consensus 817 ~~l~g~f~~l~~g~~ls~~vf~~E~~~~~~~~~~~ 851 (860)
+++.|+|++.+.|+.++++..++|..|+|++..++
T Consensus 825 ~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k~ 859 (993)
T KOG4440|consen 825 ENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAKR 859 (993)
T ss_pred cccccEEEEEecchhheeeEEEEeehhhhhhhhhh
Confidence 99999999999999999999999999988754433
No 4
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1e-56 Score=525.73 Aligned_cols=569 Identities=34% Similarity=0.553 Sum_probs=478.0
Q ss_pred HHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCc-chhhcccCceeEEEEeccCCchhH
Q 044527 227 KLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMD-SLVVESSMQGVVGFRRYVPTSKEL 305 (860)
Q Consensus 227 ~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~ 305 (860)
.+.+++....+++++.+.+..+..++.++.++||...+++|+.+.......+... ....+. ..+.++...+.+.+...
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDV-MNGVLGLRGHIPRSELL 83 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhh-eeeEEeeccCCCccHHH
Confidence 3445566788999999999999999999999999999999999998776554433 233344 66788888888888888
Q ss_pred HHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhc-CC-----------CChHHHHHHHHhccccc---
Q 044527 306 HNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKT-GQ-----------VSDEIFYKQIVNNRFRG--- 370 (860)
Q Consensus 306 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~-~~-----------~~~~~l~~~l~~~~~~g--- 370 (860)
+.|..+|... . .....++..+||++++++.|++.... .. ..+..+.+.++.....+
T Consensus 84 ~~~~~~~~~~-~--------~~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (656)
T KOG1052|consen 84 QNFVTRWQTS-N--------VELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLSG 154 (656)
T ss_pred HHHHHHHhhc-c--------ccccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhcccc
Confidence 8888888654 1 13467899999999999999998873 11 11566777777765544
Q ss_pred ceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCceeeccccccccccccccCCCCCCCcceeecCCCCCCCCC
Q 044527 371 LSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGITKEMNSSVFINKMDTISSTSPNDELEVIIWPGGSAAIPA 449 (860)
Q Consensus 371 ~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~ 449 (860)
.+|.+.+ .++.+..+ .|++++..+.+-..+|.|.+..+ ..+.||+.....|+
T Consensus 155 ~~~~~~~~~~~~~~~~-~~~i~n~~~~~~~~ig~W~~~~~--------------------------~~i~~~~~~~~~~~ 207 (656)
T KOG1052|consen 155 VTGQFQFFRGGLLEYF-KYEILNLNGSGERRIGYWYPRGG--------------------------ENISWPGKDYFVPK 207 (656)
T ss_pred ceeEEEecCCCccccc-eEEEEEecCcCceeEEEecCCCC--------------------------ceeeccCCcccCcC
Confidence 4566666 67899998 99999999888888999998654 13688888888888
Q ss_pred cccC---CCeEEEEecCCCcccceEeeeC--CCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHH
Q 044527 450 GVGK---INKLRIGVPVNGLKEFVNVVWD--PQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYS 524 (860)
Q Consensus 450 ~~~~---g~~l~v~~~~~~~~pf~~~~~~--~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~ 524 (860)
+|-. |+++||++... +||.....+ ...+ +.++.|+|+|+++++++++||+++++.++++. |...++|+|+
T Consensus 208 ~~~~~~~~~~l~v~~~~~--~P~~~~~~~~~~~~~--~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~-g~~~~~g~~~ 282 (656)
T KOG1052|consen 208 GWFFPTNGKPLRVGVVTE--PPFVDLVEDLAILNG--NDRIEGFEIDLLQALAKRLNFSYEIIFVPDGS-GSRDPNGNWD 282 (656)
T ss_pred CccccCCCceEEEEEecc--CCceeeeecccccCC--CCccceEEehHHHHHHHhCCCceEEEEcCCCC-CCCCCCCChh
Confidence 8875 99999999954 788887766 3334 77999999999999999999999999999877 5556669999
Q ss_pred HHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEecCC-CCCcceecccCChhHHHHHHHHHHHHHHHhhh
Q 044527 525 DLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ-NNNMWIFLKPLKPNLWLTIAALFVLTGFVVWI 603 (860)
Q Consensus 525 g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~-~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~ 603 (860)
|+++++.+|++|++ ++++++++|.+++|||.||+..++++++++++ ....+.|++||++.+|++++++++++++++|+
T Consensus 283 g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~ 361 (656)
T KOG1052|consen 283 GLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWI 361 (656)
T ss_pred HHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999 89999999999999999999999999999998 33389999999999999999999999999999
Q ss_pred hccccCCCcCCcc-----cccchhHHHHHHHHhhccc-cccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHh-
Q 044527 604 IERPVNDEFQGSR-----AHQFGMIFWYSFSTLVFSQ-REKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIK- 676 (860)
Q Consensus 604 ~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~-~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~- 676 (860)
++++.+.++ ... .....+++|.++++++.|+ ...|++.++|++.++||+|+++++++|||+|+|+||.+++.
T Consensus 362 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~ 440 (656)
T KOG1052|consen 362 LERLSPYEL-PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRS 440 (656)
T ss_pred HhccccccC-CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence 999888887 222 1244568899999999988 67899999999999999999999999999999999999886
Q ss_pred ------h---hcCCcEEEecCCcHHHhhhcC----CCCCc-CccccCCHHHHHHHHhcCC--cEEEEcchHHHHHHHhcc
Q 044527 677 ------L---ASMDNIGSQLGSVVPGALSNL----NFKDS-RLKKYNSAEEYANALSMGS--ISAIVDEIPYVRAFLSKY 740 (860)
Q Consensus 677 ------~---~~~~~i~~~~~~~~~~~~~~~----~~~~~-~~~~~~~~~~~~~~l~~g~--~~~~i~~~~~~~~~~~~~ 740 (860)
+ .....+|...++....+++.. ..... ..+.+.+.+++++++++|. ..+++.+...+.|....+
T Consensus 441 ~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~ 520 (656)
T KOG1052|consen 441 PIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLFLRD 520 (656)
T ss_pred cccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHHhhc
Confidence 2 256788999999988888654 23333 6788899999999999995 467777777777776665
Q ss_pred --CccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHHHHHHcCCC---CCCCcccCCCCCCCCCccc
Q 044527 741 --SAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKIENVWFNTQ---QSSNFMHEDSTSSNPSSLS 815 (860)
Q Consensus 741 --~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~l~ 815 (860)
| .++.+++.+ ...+++ ++||||||+..++.+|++++|.|.+++|.++|+..+ ..| ...+ ..+.|+
T Consensus 521 ~~c-~~~~v~~~~--~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~---~~~~---~~~~l~ 590 (656)
T KOG1052|consen 521 EIC-DLTEVGEPF--LYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKC---SQTE---KTKALD 590 (656)
T ss_pred CCC-ceEEeCCcc--cCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCC---CCcc---cccccc
Confidence 7 999999999 999999 999999999999999999999999999999999984 444 2221 577899
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 044527 816 LANFGGLFLITGISSTLALVIFLVTSIYKRTFWR 849 (860)
Q Consensus 816 l~~l~g~f~~l~~g~~ls~~vf~~E~~~~~~~~~ 849 (860)
++++.|+|+++++|+++|+++|++|+++++++.+
T Consensus 591 ~~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 591 LESFWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999999887665
No 5
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=100.00 E-value=6.1e-43 Score=393.60 Aligned_cols=356 Identities=19% Similarity=0.231 Sum_probs=300.7
Q ss_pred CceEEEEEEEecCC----------------------cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHH
Q 044527 40 SDEVHVGIILDMRS----------------------WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHAL 96 (860)
Q Consensus 40 ~~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~ 96 (860)
+++|.||++||.+. ..|.+...|+++|+||||+++++|| ++|+++++|+|+++..|+
T Consensus 10 ~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a~ 89 (510)
T cd06364 10 KGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKAL 89 (510)
T ss_pred cCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHHH
Confidence 67899999999983 1278889999999999999999999 899999999999999999
Q ss_pred HHHHHhhccCC------------------eEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEee
Q 044527 97 TTASNLMQNVD------------------LQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQI 153 (860)
Q Consensus 97 ~~~~~li~~~~------------------v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~ 153 (860)
+.+.+++.+++ |.|||||.+ |.++.+++.+++.++||+|+++++++ .+++ +|||+
T Consensus 90 ~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~s-S~~s~ava~~~~~~~IP~IS~~sss~-~ls~~~~yp~ffRt 167 (510)
T cd06364 90 EATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATG-SGVSTAVANLLGLFYIPQVSYASSSR-LLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHhcccccccccccccccCCCCCceEEEECCCc-hhHHHHHHHHhccccccccccccCCc-ccCCccccCCeeEc
Confidence 99999987644 469999999 99999999999999999999999998 8876 69999
Q ss_pred cCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc
Q 044527 154 DQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS 233 (860)
Q Consensus 154 ~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~ 233 (860)
.|+|. .+++++++++++|+|++|++|+.|++||+ ...+.+++.+++.|+||+..+.++ ...+..++.+++.++++
T Consensus 168 ~psd~---~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~-~~~~~~~~~~~~~Gi~I~~~~~i~-~~~~~~d~~~~l~klk~ 242 (510)
T cd06364 168 IPNDE---HQATAMADIIEYFRWNWVGTIAADDDYGR-PGIEKFREEAEERDICIDFSELIS-QYSDEEEIQRVVEVIQN 242 (510)
T ss_pred CCChH---HHHHHHHHHHHHcCCeEEEEEEecCcchH-HHHHHHHHHHHHCCcEEEEEEEeC-CCCCHHHHHHHHHHHHh
Confidence 99999 99999999999999999999999999999 999999999999999999887776 43467899999999999
Q ss_pred CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH----
Q 044527 234 LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT---- 309 (860)
Q Consensus 234 ~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~---- 309 (860)
+++|+||+.+..+++..++++|.++|++ +.+||.++.+............+. +.|++++.+.....+.+++|+
T Consensus 243 ~~a~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~~~~~~~-~gg~lg~~~~~~~i~~f~~~l~~l~ 319 (510)
T cd06364 243 STAKVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAMPEYFDV-MGGTIGFALKAGQIPGFREFLQKVH 319 (510)
T ss_pred cCCeEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhcccccccCCccce-eeEEEEEEECCCcCccHHHHHHhCC
Confidence 9999999999999999999999999984 579999887764333232334455 788999988776666666554
Q ss_pred -----------HHHHHHhhccCCC-------------------------------CC--------CC-----CCChhHHH
Q 044527 310 -----------LRWRREMYLNNPN-------------------------------AE--------VS-----ELDAYGIL 334 (860)
Q Consensus 310 -----------~~~~~~~~~~~~~-------------------------------~~--------~~-----~~~~~~~~ 334 (860)
+.|++.++|..+. .. .. .....+.+
T Consensus 320 p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~ 399 (510)
T cd06364 320 PKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYN 399 (510)
T ss_pred cccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHH
Confidence 4567777765321 00 00 01244678
Q ss_pred HhhHHHHHHHHHHhhhcCCC----------------ChHHHHHHHHhccccccee-eEEe-eCCeecCCccEEEEEeec-
Q 044527 335 AYDTVWAVAKASEKLKTGQV----------------SDEIFYKQIVNNRFRGLSG-DFQF-VNGKLTSSREFEIVNVIG- 395 (860)
Q Consensus 335 ~YDav~~la~Al~~~~~~~~----------------~~~~l~~~l~~~~~~g~tG-~v~F-~~g~~~~~~~~~i~~~~~- 395 (860)
+||||+++|+|||++..+.. .+++|.++|++++|.|.+| .+.| ++|+... .|+|++|+.
T Consensus 400 v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~~--~YdI~n~q~~ 477 (510)
T cd06364 400 VYLAVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLVG--NYSIINWHLS 477 (510)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCCcc--ceeEEEeeec
Confidence 99999999999999975431 1689999999999999987 5899 9999887 899999983
Q ss_pred --Cc---eEEeeeecCC
Q 044527 396 --KT---IKRVGFWNPT 407 (860)
Q Consensus 396 --~~---~~~vG~~~~~ 407 (860)
++ +++||.|++.
T Consensus 478 ~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 478 PEDGSVVFKEVGYYNVY 494 (510)
T ss_pred CCCCcEEEEEEEEEcCC
Confidence 22 7899999864
No 6
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=4.1e-43 Score=395.05 Aligned_cols=355 Identities=17% Similarity=0.261 Sum_probs=298.8
Q ss_pred CceEEEEEEEecCC-----------------cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHH
Q 044527 40 SDEVHVGIILDMRS-----------------WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASN 101 (860)
Q Consensus 40 ~~~i~IG~l~~~~~-----------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~ 101 (860)
+++|.||++||.+. ..|.+...|+.+|+|+||+++.+|| ++|++++.|+|+++..|++.+.+
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 67899999999983 1267788999999999999999999 99999999999999999999999
Q ss_pred hhc-------------------------cCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceE
Q 044527 102 LMQ-------------------------NVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSI 151 (860)
Q Consensus 102 li~-------------------------~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~ 151 (860)
++. .++|.|||||.+ |.++.+++++++.+++|+|+++++++ .+++ ++|
T Consensus 87 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~-S~~~~ava~~~~~~~iP~Is~~ats~-~ls~~~~~p~~f 164 (472)
T cd06374 87 FIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGS-SSVAIQVQNLLQLFNIPQIAYSATSI-DLSDKTLFKYFL 164 (472)
T ss_pred HHhhcccccccccccccccCCCcccccCCCCeEEEECCCc-chHHHHHHHHhhhhcccccccccCch-hhcccccCCceE
Confidence 985 248999999999 99999999999999999999999998 8876 799
Q ss_pred eecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhh
Q 044527 152 QIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSML 231 (860)
Q Consensus 152 r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i 231 (860)
|+.|++. .+++++++++++|+|++|++|+++++||. ...+.+.+.+++.|+||+..+.++ ...+..++..++.+|
T Consensus 165 Rt~p~d~---~~~~al~~l~~~~~W~~Vaii~~~~~yg~-~~~~~~~~~~~~~gi~i~~~~~i~-~~~~~~d~~~~l~~l 239 (472)
T cd06374 165 RVVPSDT---LQARAMLDIVKRYNWTYVSAVHTEGNYGE-SGMEAFKELAAHEGLCIAHSDKIY-SNAGEQSFDRLLRKL 239 (472)
T ss_pred EcCCChH---HHHHHHHHHHHHCCCcEEEEEEecchHHH-HHHHHHHHHHHHCCeeEEEEEEec-CCCchHHHHHHHHHH
Confidence 9999999 99999999999999999999999999999 999999999999999999888775 445678999999999
Q ss_pred hcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH
Q 044527 232 KSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT 309 (860)
Q Consensus 232 ~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~ 309 (860)
+++ +++||++++...++..++++|+++|+. ..++||.++.+........ ...+. ..|.+++.+..++.+.+++|+
T Consensus 240 k~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~~-~~~~~-~~G~l~~~~~~~~~~~F~~~l 316 (472)
T cd06374 240 RSRLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVVE-GYEEE-AEGGITIKLQSPEVPSFDDYY 316 (472)
T ss_pred HhcCCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhhh-cchhh-hheeEEEEecCCCCccHHHHH
Confidence 965 556777778888899999999999985 5589999988764322121 22334 789999999888877777754
Q ss_pred ---------------HHHHHHhhccCCCCCCC------------------CCChhHHHHhhHHHHHHHHHHhhhcCC---
Q 044527 310 ---------------LRWRREMYLNNPNAEVS------------------ELDAYGILAYDTVWAVAKASEKLKTGQ--- 353 (860)
Q Consensus 310 ---------------~~~~~~~~~~~~~~~~~------------------~~~~~~~~~YDav~~la~Al~~~~~~~--- 353 (860)
+.|++.+.|..++.... .....++++||||+++|+|||++..+.
T Consensus 317 ~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~ 396 (472)
T cd06374 317 LKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG 396 (472)
T ss_pred HhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 46777777754211100 012456699999999999999986311
Q ss_pred ----------CChHHHHHHHHhccccccee-eEEe-eCCeecCCccEEEEEeec-----CceEEeeeecC
Q 044527 354 ----------VSDEIFYKQIVNNRFRGLSG-DFQF-VNGKLTSSREFEIVNVIG-----KTIKRVGFWNP 406 (860)
Q Consensus 354 ----------~~~~~l~~~l~~~~~~g~tG-~v~F-~~g~~~~~~~~~i~~~~~-----~~~~~vG~~~~ 406 (860)
.++.+|.++|++++|+|++| +|.| ++|++.. .|+|++++. .++++||.|++
T Consensus 397 ~~~~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~~--~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 397 HVGLCDAMKPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDSPG--RYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCCCcCCCCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCCCC--ceEEEEEEECCCCCEEEEEEEEEeC
Confidence 12789999999999999999 7999 9999987 899999983 25899999975
No 7
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=6.4e-43 Score=393.43 Aligned_cols=358 Identities=19% Similarity=0.260 Sum_probs=299.5
Q ss_pred ceEEEEEEEecCC-------------cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhcc-
Q 044527 41 DEVHVGIILDMRS-------------WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQN- 105 (860)
Q Consensus 41 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~- 105 (860)
+++.||++||++. ..|.....|+++|+|+||++++++| ++|+++++|+|++|..|++.+.+++.+
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 4689999999985 1367789999999999999999996 999999999999999999999998854
Q ss_pred ---------------------CCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCch
Q 044527 106 ---------------------VDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEA 159 (860)
Q Consensus 106 ---------------------~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~ 159 (860)
++|.+||||.+ |+++.+++++++.+++|+|+++++++ .+++ ++||+.|++.
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~-S~~~~av~~~~~~~~ip~Is~~sts~-~ls~~~~~~~~fR~~p~d~- 157 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASY-SSVSIQVANLLRLFKIPQISYASTSP-ELSDKTRYDYFSRTVPPDS- 157 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCC-CchHHHHHHHhccccCcccccccCch-hhccccccCCEEEecCChH-
Confidence 58999999999 99999999999999999999999999 8874 8999999999
Q ss_pred hHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc-CCCeE
Q 044527 160 SQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS-LDTKV 238 (860)
Q Consensus 160 ~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~v 238 (860)
.+++++++++++++|++|++|+++++||. ...+.+.+.+++.|+||+..+.++ ...+.+++.+++++|++ +++++
T Consensus 158 --~~~~a~~~~l~~~~w~~vaii~~~~~~G~-~~~~~~~~~~~~~gi~i~~~~~~~-~~~~~~d~~~~l~~l~~~~~a~v 233 (452)
T cd06362 158 --FQAQAMVDIVKAFNWTYVSTVASEGNYGE-KGIEAFEKLAAERGICIAGSEKIP-SSATEEEFDNIIRKLLSKPNARV 233 (452)
T ss_pred --HHHHHHHHHHHHCCCcEEEEEEeCCHHHH-HHHHHHHHHHHHCCeeEEEEEEcC-CCCCHHHHHHHHHHHhhcCCCeE
Confidence 99999999999999999999999999999 999999999999999999888877 44578899999999987 57999
Q ss_pred EEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH---------
Q 044527 239 FVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT--------- 309 (860)
Q Consensus 239 iil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~--------- 309 (860)
||+.+..+++..++++|++.|++ ..+.||.++.+....... ....+. .+|++++.+.....+.+++|+
T Consensus 234 iil~~~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~-~~~~~~-~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~ 310 (452)
T cd06362 234 VVLFCREDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV-EGLEDV-AEGAITIELQSAEVPGFDEYFLSLTPENNS 310 (452)
T ss_pred EEEEcChHHHHHHHHHHHHcCCc-CceEEEEeccccccchhh-cccccc-cceEEEEEecccccccHHHHhhhCCcCcCC
Confidence 99999999999999999999986 568999988775432111 122244 778888877766655555543
Q ss_pred ------HHHHHHhhccCCCCCC----------------CCCChhHHHHhhHHHHHHHHHHhhhcCC-------------C
Q 044527 310 ------LRWRREMYLNNPNAEV----------------SELDAYGILAYDTVWAVAKASEKLKTGQ-------------V 354 (860)
Q Consensus 310 ------~~~~~~~~~~~~~~~~----------------~~~~~~~~~~YDav~~la~Al~~~~~~~-------------~ 354 (860)
+.|+..+.|..+.... .....+++++||||+++|+||+++..+. .
T Consensus 311 ~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~~~ 390 (452)
T cd06362 311 RNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMKPI 390 (452)
T ss_pred CChHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCccCC
Confidence 3445555554221110 1224578999999999999999986321 1
Q ss_pred ChHHHHHHHHhccccccee-eEEe-eCCeecCCccEEEEEeec----CceEEeeeecCCCCc
Q 044527 355 SDEIFYKQIVNNRFRGLSG-DFQF-VNGKLTSSREFEIVNVIG----KTIKRVGFWNPTTGI 410 (860)
Q Consensus 355 ~~~~l~~~l~~~~~~g~tG-~v~F-~~g~~~~~~~~~i~~~~~----~~~~~vG~~~~~~~~ 410 (860)
++.+|.++|++++|.|++| .|.| ++|++.. .|+|++++. .++++||.|+++.++
T Consensus 391 ~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~~--~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 391 DGRKLLFYLRNVSFSGLAGGPVRFDANGDGPG--RYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CHHHHHHHHHhCCcCCCCCceEEECCCCCCCC--ceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 3789999999999999998 7999 9999988 899999983 358999999887654
No 8
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=1e-42 Score=381.36 Aligned_cols=323 Identities=18% Similarity=0.202 Sum_probs=277.1
Q ss_pred hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhcc------------------CCeEEEEecCCC
Q 044527 56 GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQN------------------VDLQAIICIGMT 117 (860)
Q Consensus 56 g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~------------------~~v~aviGp~~~ 117 (860)
|.+...|+.+|+||||+++++.+++|+++++|+|++|..|++.+.+++++ ++|.|||||.+
T Consensus 34 g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~- 112 (403)
T cd06361 34 GFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY- 112 (403)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc-
Confidence 77888999999999999995545999999999999999999999999975 58999999999
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcC
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDN 192 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~ 192 (860)
|+.+.+++.+++.++||+|++++++| .+++ ||||+.|+|. .|++++++++++|+|++|++|+++++||+ .
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~-~Ls~~~~~~~ffRt~p~D~---~qa~ai~~li~~~~w~~Vaii~~~d~yG~-~ 187 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAE-ILSDKIRFPSFLRTVPSDF---YQTKAMAHLIKKSGWNWVGIIITDDDYGR-S 187 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCc-ccCCcccCCCeeECCCchH---hHHHHHHHHHHHcCCcEEEEEEecCchHH-H
Confidence 99999999999999999999999999 9986 7999999999 99999999999999999999999999999 9
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCC-----hHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEE
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASST-----HDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVW 267 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~-----~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~ 267 (860)
..+.|++.+++.|+||+..+.++ .... ..++..+++.++++++|+||+.+..+++..++++|+++|+ ++.|
T Consensus 188 ~~~~f~~~~~~~GicIa~~e~~~-~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~w 263 (403)
T cd06361 188 ALETFIIQAEANGVCIAFKEILP-ASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVW 263 (403)
T ss_pred HHHHHHHHHHHCCeEEEEEEEec-CccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEE
Confidence 99999999999999999988887 3221 1566667777899999999999999999999999999997 6899
Q ss_pred EecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHH
Q 044527 268 IATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASE 347 (860)
Q Consensus 268 i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~ 347 (860)
|.++.+............+. ..|.+++.+..++.+.+.+|.+.. +..++||||+++|+||+
T Consensus 264 igs~~w~~~~~~~~~~~~~~-~~g~ig~~~~~~~~~~F~~~~~~~------------------~~~~v~~AVyaiA~Al~ 324 (403)
T cd06361 264 IASDNWSTAKKILTDPNVKK-IGKVVGFTFKSGNISSFHQFLKNL------------------LIHSIQLAVFALAHAIR 324 (403)
T ss_pred EEECcccCccccccCCcccc-cceEEEEEecCCccchHHHHHHHh------------------hHHHHHHHHHHHHHHHH
Confidence 99998865333232222234 678899998876666666555432 13468999999999999
Q ss_pred hhhcC-------CCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCc----eEEeeeecCCCC
Q 044527 348 KLKTG-------QVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKT----IKRVGFWNPTTG 409 (860)
Q Consensus 348 ~~~~~-------~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~----~~~vG~~~~~~~ 409 (860)
+++.+ ..++++|.++|++++|+|++|.+.| ++|+... .|+|++|++++ +++||.|++...
T Consensus 325 ~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~~~--~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 325 DLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDLNL--GYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred HhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCCCc--ceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 98631 1237899999999999999889999 9999855 89999998542 899999998654
No 9
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=1e-42 Score=382.03 Aligned_cols=354 Identities=19% Similarity=0.289 Sum_probs=296.8
Q ss_pred eEEEEEEEe-cCCcc---hhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCC-CCHHHHHHHHHHhhccCCeEEEEecC
Q 044527 42 EVHVGIILD-MRSWT---GKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQ-GDPFHALTTASNLMQNVDLQAIICIG 115 (860)
Q Consensus 42 ~i~IG~l~~-~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aviGp~ 115 (860)
.|+||++++ ++|.. |...+.|+++|+++||++++++| .+|.+.+.+.+ +++..+.+.+|+++.+ +|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~-~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLAL-GVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhccccc-CcEEEECCC
Confidence 499999999 77643 77899999999999999999999 99999999955 4776888888998764 999999999
Q ss_pred CChhHHHHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcC
Q 044527 116 MTPTGAQILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDN 192 (860)
Q Consensus 116 ~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~ 192 (860)
+ |..+.+++++++.++||+|++++++| .+++ +++|+.|++. .++.++++++++|+|++|++||+++. |. .
T Consensus 81 ~-S~~~~av~~i~~~~~iP~Is~~~t~~-~lt~~~~~~~~~~~~~~---~~~~a~~~~~~~~~wk~vaily~~~~-g~-~ 153 (384)
T cd06393 81 Q-GSCTNAVQSICNALEVPHIQLRWKHH-PLDNKDTFYVNLYPDYA---SLSHAILDLVQYLKWRSATVVYDDST-GL-I 153 (384)
T ss_pred C-hHHHHHHHHHHhccCCCeEeccCCCc-ccCccceeEEEeccCHH---HHHHHHHHHHHHcCCcEEEEEEeCch-hH-H
Confidence 9 99999999999999999999999988 8876 6778888887 88999999999999999999998764 55 4
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecCh
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~ 272 (860)
..+.+.+.+++.|++|+.. .++ .+..|++.+|++|+++++++||+.+..+++..+++||+++||..+.|+|++++.
T Consensus 154 ~l~~~~~~~~~~g~~v~~~-~~~---~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~ 229 (384)
T cd06393 154 RLQELIMAPSRYNIRLKIR-QLP---TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTL 229 (384)
T ss_pred HHHHHHHhhhccCceEEEE-ECC---CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccC
Confidence 5567888888899999874 355 567899999999999999999999999999999999999999999999998887
Q ss_pred hhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHH-hhccC-CCCC--CCCCChhHHHHhhHHHHHHHHHHh
Q 044527 273 TMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRRE-MYLNN-PNAE--VSELDAYGILAYDTVWAVAKASEK 348 (860)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~-~~~~--~~~~~~~~~~~YDav~~la~Al~~ 348 (860)
.....+..+ +... ..+++++....++++.+++|+++|+++ ++..+ |+.. ...+..+++.+||||+++++|+++
T Consensus 230 ~~~~~~~~~--~~~~-~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~ 306 (384)
T cd06393 230 DLYALDLEP--YRYS-GVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQR 306 (384)
T ss_pred ccccccchh--hhcC-cceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhh
Confidence 654433211 1112 445788888888899999999999854 54321 1111 112357899999999999999997
Q ss_pred hhcCC------------CChHHHHHHHHhcccccceeeEEe-e-CCeecCCccEEEEEeecCceEEeeeecCCCCce
Q 044527 349 LKTGQ------------VSDEIFYKQIVNNRFRGLSGDFQF-V-NGKLTSSREFEIVNVIGKTIKRVGFWNPTTGIT 411 (860)
Q Consensus 349 ~~~~~------------~~~~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~~ 411 (860)
++... ..|.+|.++|++++|+|+||+++| + +|+|.++ .++|+++.++++++||+|+|..|+.
T Consensus 307 ~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~-~~~i~~~~~~g~~~vg~W~~~~g~~ 382 (384)
T cd06393 307 APQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDF-DLDIISLKEDGLEKVGVWNPNTGLN 382 (384)
T ss_pred hhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeee-EEEEEEecCCcceeeEEEcCCCCcC
Confidence 75431 125799999999999999999999 5 6899999 9999999999999999999988864
No 10
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=2.2e-42 Score=385.25 Aligned_cols=352 Identities=17% Similarity=0.254 Sum_probs=298.2
Q ss_pred ceEEEEEEEecCC-------------cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhc--
Q 044527 41 DEVHVGIILDMRS-------------WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQ-- 104 (860)
Q Consensus 41 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~-- 104 (860)
++|.||++||.+. ..|.+...|+.+|+|+||+++++|| ++|+++++|+|+++..|++.+.+++.
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 4699999999973 2378899999999999999999998 99999999999999999999988873
Q ss_pred ----------------------cCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCC
Q 044527 105 ----------------------NVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDD 157 (860)
Q Consensus 105 ----------------------~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~ 157 (860)
.++|.|||||.+ |..+.+++++++.++||+|+++++++ .+++ +|||+.|+|
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~-S~~s~ava~~~~~~~IP~Is~~sts~-~Ls~~~~~~~ffRt~psd 158 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSY-SSVSIQVANLLRLFQIPQISYASTSA-KLSDKSRYDYFARTVPPD 158 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCC-chHHHHHHHHhhhccccceeeccCCh-hhcccccCCCeEEecCCc
Confidence 247999999999 99999999999999999999999999 8875 899999999
Q ss_pred chhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc-CCC
Q 044527 158 EASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS-LDT 236 (860)
Q Consensus 158 ~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~-~~~ 236 (860)
. .+++++++++++|+|++|++|+++++||. ...+.+.+.+++.|+||+..+.++ ...+..++..+++++++ +++
T Consensus 159 ~---~qa~ai~~ll~~~~W~~Vaii~~~~~yG~-~~~~~~~~~~~~~gi~i~~~~~i~-~~~~~~d~~~~l~~l~~~~~a 233 (458)
T cd06375 159 F---YQAKAMAEILRFFNWTYVSTVASEGDYGE-TGIEAFEQEARLRNICIATSEKVG-RSADRKSYDSVIRKLLQKPNA 233 (458)
T ss_pred H---HHHHHHHHHHHHCCCeEEEEEEeCchHHH-HHHHHHHHHHHHCCeeEEEEEEec-CCCCHHHHHHHHHHHhccCCC
Confidence 9 99999999999999999999999999999 999999999999999999988887 55577899999999875 799
Q ss_pred eEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH-------
Q 044527 237 KVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT------- 309 (860)
Q Consensus 237 ~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------- 309 (860)
||||+++..+++..++++|.++|++ +.||.++++........ ...+. ..|++++.+.....+.+++|+
T Consensus 234 ~vVvl~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~~-~~~~~-~~G~i~~~~~~~~i~~f~~yl~~l~p~~ 308 (458)
T cd06375 234 RVVVLFTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIVK-GSEDV-AEGAITIELASHPIPDFDRYFQSLTPET 308 (458)
T ss_pred EEEEEecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhhh-ccchh-hceEEEEEeccccchhHHHHHHhCCcCc
Confidence 9999999999999999999999974 89999988753211111 12234 789999999888888887776
Q ss_pred --------HHHHHHhhccCCCCCC----------------CCCChhHHHHhhHHHHHHHHHHhhhcCC------------
Q 044527 310 --------LRWRREMYLNNPNAEV----------------SELDAYGILAYDTVWAVAKASEKLKTGQ------------ 353 (860)
Q Consensus 310 --------~~~~~~~~~~~~~~~~----------------~~~~~~~~~~YDav~~la~Al~~~~~~~------------ 353 (860)
+.|+..|.|..+.... ......+.++||||+++|+|||++..+.
T Consensus 309 ~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~~~ 388 (458)
T cd06375 309 NTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDAMK 388 (458)
T ss_pred CCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Confidence 4677777776432110 0123568899999999999999987321
Q ss_pred -CChHHHH-HHHHhcccc-----ccee-eEEe-eCCeecCCccEEEEEee--cC--c--eEEeeeecC
Q 044527 354 -VSDEIFY-KQIVNNRFR-----GLSG-DFQF-VNGKLTSSREFEIVNVI--GK--T--IKRVGFWNP 406 (860)
Q Consensus 354 -~~~~~l~-~~l~~~~~~-----g~tG-~v~F-~~g~~~~~~~~~i~~~~--~~--~--~~~vG~~~~ 406 (860)
.++.++. ++|++++|. |.+| .+.| ++|+... .|+|++++ ++ . +++||.|..
T Consensus 389 ~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~~~--~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 389 PLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDGLG--RYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCCCc--ceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 1267888 599999999 8988 5899 9999877 89999998 23 2 689999954
No 11
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.7e-42 Score=387.80 Aligned_cols=354 Identities=18% Similarity=0.188 Sum_probs=295.5
Q ss_pred ceEEEEEEEecCC----------------------cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHH
Q 044527 41 DEVHVGIILDMRS----------------------WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALT 97 (860)
Q Consensus 41 ~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~ 97 (860)
++|.||++||.+. ..|.+...|+.+|+|+||+++.+|| ++|++.+.|+|+++..|++
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 4689999999862 1177788999999999999999999 9999999999999999999
Q ss_pred HHHHhhcc-------------CCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCch
Q 044527 98 TASNLMQN-------------VDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEA 159 (860)
Q Consensus 98 ~~~~li~~-------------~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~ 159 (860)
.+.+++.. +++.|||||.+ |..+.+++.+++.++||+|+++++++ .+++ +|||+.|+|.
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~-S~~s~~va~i~~~~~IP~Is~~sts~-~lsd~~~yp~ffRt~psd~- 157 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPS-WALSATIATLLGLYKFPQLTYGPFDP-LLSDRVQFPSLYQMAPKDT- 157 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCc-cHHHHHHHHHhhhhcccceeeccCCc-cccchhhCCcceEecCCch-
Confidence 99999853 57999999999 99999999999999999999999998 8885 7999999999
Q ss_pred hHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCC--hHHHHHHHHhhhcCCCe
Q 044527 160 SQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASST--HDQIIEKLSMLKSLDTK 237 (860)
Q Consensus 160 ~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~i~~~~~~ 237 (860)
.+++|+++++++|+|++|++|+.+++||. ...+.+.+.+++.|+||+..+.++ .... ..++..++++++++++|
T Consensus 158 --~q~~ai~~li~~f~W~~Vaiv~~d~~yg~-~~~~~~~~~~~~~gi~I~~~~~i~-~~~~~~~~~~~~~l~~i~~~~ar 233 (469)
T cd06365 158 --SLPLGMVSLMLHFSWTWVGLVISDDDRGE-QFLSDLREEMQRNGICLAFVEKIP-VNMQLYLTRAEKYYNQIMTSSAK 233 (469)
T ss_pred --hHHHHHHHHHHhcCCeEEEEEEecChhHH-HHHHHHHHHHHHCCeEEEEEEEec-CCchhhHHHHHHHHHHhhcCCCe
Confidence 99999999999999999999999999999 999999999999999999988877 3332 24788999999999999
Q ss_pred EEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH--------
Q 044527 238 VFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT-------- 309 (860)
Q Consensus 238 viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~-------- 309 (860)
+||+++..+++..++.++.+.+. .+++||.++.+..... ......+. ++|++++.++.++.|.+++|+
T Consensus 234 vIvl~~~~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~-~~~~~~~~-~~G~lg~~~~~~~~~~f~~fl~~l~~~~~ 309 (469)
T cd06365 234 VIIIYGDTDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTS-PKDFTLNS-FHGTLIFSHHHSEIPGFKDFLQTVNPSKY 309 (469)
T ss_pred EEEEEcCcHHHHHHHHHHHHhcc--CceEEEeecccccccc-ccccccce-eeEEEEEEeccCcCcchHHHhhccCcccC
Confidence 99999999888777666655553 5699999988754321 12223455 899999999998888888876
Q ss_pred -------HHHHHHhhccCCCCC---------------------CCCCChhHHHHhhHHHHHHHHHHhhhcCCC-------
Q 044527 310 -------LRWRREMYLNNPNAE---------------------VSELDAYGILAYDTVWAVAKASEKLKTGQV------- 354 (860)
Q Consensus 310 -------~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~YDav~~la~Al~~~~~~~~------- 354 (860)
+.|+..|.|..+... +......+.++||||+++|+|||++..++.
T Consensus 310 ~~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~ 389 (469)
T cd06365 310 PEDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENN 389 (469)
T ss_pred CCccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCC
Confidence 456666666522100 000234678899999999999999975432
Q ss_pred ------ChHHHHHHHHhcccccceee-EEe-eCCeecCCccEEEEEeec--C---ceEEeeeecCC
Q 044527 355 ------SDEIFYKQIVNNRFRGLSGD-FQF-VNGKLTSSREFEIVNVIG--K---TIKRVGFWNPT 407 (860)
Q Consensus 355 ------~~~~l~~~l~~~~~~g~tG~-v~F-~~g~~~~~~~~~i~~~~~--~---~~~~vG~~~~~ 407 (860)
.+.+|.++|++++|.|.+|. +.| +||++.. .|+|++++. + .+++||.|++.
T Consensus 390 ~~~~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~~~--~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 390 GKRLIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKLDT--EYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred CCCCCccHHHHHHHHHhccccCCCCCEEEecCCCCcCc--eeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 26799999999999999985 899 9999987 899999972 2 37999999864
No 12
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=1e-41 Score=383.21 Aligned_cols=354 Identities=14% Similarity=0.227 Sum_probs=290.7
Q ss_pred ceEEEEEEEecC--Cc-----------chhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHH----HHHHh
Q 044527 41 DEVHVGIILDMR--SW-----------TGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALT----TASNL 102 (860)
Q Consensus 41 ~~i~IG~l~~~~--~~-----------~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~----~~~~l 102 (860)
++|+||++||.+ ++ .|.....|+++|+|+||++++++| ++|+++++|+|+++..+++ .+.++
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 469999999998 32 366788999999999999999998 9999999999988764444 44444
Q ss_pred hcc------------------CCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCch
Q 044527 103 MQN------------------VDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEA 159 (860)
Q Consensus 103 i~~------------------~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~ 159 (860)
+.+ ++|.|||||.+ |..+.+++++++.++||+|+++++++ .+++ +|||+.|+|.
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~-S~~t~ava~i~~~~~iP~Is~~ats~-~ls~~~~~~~ffR~~p~d~- 157 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASA-SSVSIMVANILRLFQIPQISYASTAP-ELSDDRRYDFFSRVVPPDS- 157 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCC-chHHHHHHHHhccccCcccccccCCh-hhcccccCCceEEccCCHH-
Confidence 432 48999999999 99999999999999999999999998 8875 7999999999
Q ss_pred hHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhc-CCCe
Q 044527 160 SQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKS-LDTK 237 (860)
Q Consensus 160 ~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~ 237 (860)
.+++++++++++|+|++|++|+.+++||. ...+.+.+.+++. |+||.....++ ...+..|+..++++|++ ++++
T Consensus 158 --~~~~ai~~~i~~~~w~~Vaii~~~~~yg~-~~~~~~~~~~~~~g~~~v~~~~~i~-~~~~~~d~~~~l~~ik~~~~~~ 233 (463)
T cd06376 158 --FQAQAMVDIVKALGWNYVSTLASEGNYGE-SGVEAFTQISREAGGVCIAQSIKIP-REPRPGEFDKIIKRLLETPNAR 233 (463)
T ss_pred --HHHHHHHHHHHHcCCeEEEEEEeCChHHH-HHHHHHHHHHHHcCCceEEEEEecC-CCCCHHHHHHHHHHHhccCCCe
Confidence 99999999999999999999999999999 9999999999987 46887666565 55678899999999986 7999
Q ss_pred EEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH--------
Q 044527 238 VFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT-------- 309 (860)
Q Consensus 238 viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~-------- 309 (860)
+||+.+..+++..++++|+++|+.+ .++||.++.+........ ...+. ..|.+++.+...+.+.+++|.
T Consensus 234 vIvl~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~-~~G~~~~~~~~~~~~~F~~~~~~l~~~~~ 310 (463)
T cd06376 234 AVIIFANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDV-AEGAITILPKRASIEGFDAYFTSRTLENN 310 (463)
T ss_pred EEEEecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcce-eeeEEEEEeccccchhHHHHHHhCCcccC
Confidence 9999999999999999999999853 599999998754322111 11233 789999988877777777665
Q ss_pred -------HHHHHHhhccCCC--CC----------C--------CCCChhHHHHhhHHHHHHHHHHhhhcCC---------
Q 044527 310 -------LRWRREMYLNNPN--AE----------V--------SELDAYGILAYDTVWAVAKASEKLKTGQ--------- 353 (860)
Q Consensus 310 -------~~~~~~~~~~~~~--~~----------~--------~~~~~~~~~~YDav~~la~Al~~~~~~~--------- 353 (860)
+.|+..|.|..+. .. . ......++++||||+++|+|||++..++
T Consensus 311 ~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C~ 390 (463)
T cd06376 311 RRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGVCP 390 (463)
T ss_pred CCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCCCc
Confidence 4677777775331 10 0 0112368899999999999999986211
Q ss_pred ----CChHHHHHHHHhccccccee-eEEe-eCCeecCCccEEEEEeec-----CceEEeeeecC
Q 044527 354 ----VSDEIFYKQIVNNRFRGLSG-DFQF-VNGKLTSSREFEIVNVIG-----KTIKRVGFWNP 406 (860)
Q Consensus 354 ----~~~~~l~~~l~~~~~~g~tG-~v~F-~~g~~~~~~~~~i~~~~~-----~~~~~vG~~~~ 406 (860)
.++.+|.++|++++|+|.+| ++.| ++|++.. .|+|.+++. .++++||.|++
T Consensus 391 ~~~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~~--~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 391 EMEPADGKKLLKYIRAVNFNGSAGTPVMFNENGDAPG--RYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred cCCCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCCC--ceEEEEEEecCCCceeEEEEEEECC
Confidence 12789999999999999999 6999 9999988 899999982 35899999975
No 13
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=1.8e-41 Score=369.40 Aligned_cols=333 Identities=39% Similarity=0.697 Sum_probs=292.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCc-ccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHC-KTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l-~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+||+++|++| ..|+....|+++|+++||++++++ +++|+++++|++|+|..+++.+++|+.+++|.+||||.| |..+
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~-s~~~ 79 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQC-SSVA 79 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCc-HHHH
Confidence 5999999996 448999999999999999998554 599999999999999999999999999889999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 196 (860)
.+++++++.+++|+|+++++++ .+++ ++||+.|++. .++.++++++++++|++|++|+.+++||. ...+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~~~~~-~l~~~~~~~~~~r~~p~~~---~~~~a~~~~~~~~~~~~v~ii~~~~~~g~-~~~~~ 154 (350)
T cd06366 80 EFVAEVANEWNVPVLSFAATSP-SLSSRLQYPYFFRTTPSDS---SQNPAIAALLKKFGWRRVATIYEDDDYGS-GGLPD 154 (350)
T ss_pred HHHHHHhhcCCeeEEeccCCCc-cccccccCCceEEcccchH---hHHHHHHHHHHHCCCcEEEEEEEcCcccc-hhHHH
Confidence 9999999999999999999988 7743 8999999999 99999999999999999999999999999 99999
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhh
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNF 276 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~ 276 (860)
+++.+++.|++|+....++ .....+|+.+++++|+++++|+|++++...++..++++++++|+..+.++|+.++.....
T Consensus 155 ~~~~~~~~g~~v~~~~~~~-~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 233 (350)
T cd06366 155 LVDALQEAGIEISYRAAFP-PSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSN 233 (350)
T ss_pred HHHHHHHcCCEEEEEeccC-CCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhh
Confidence 9999999999999988777 222368999999999999999999999999999999999999998778999998865544
Q ss_pred cc----cCcchhhcccCceeEEEEeccCC-chhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhc
Q 044527 277 LH----SMDSLVVESSMQGVVGFRRYVPT-SKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKT 351 (860)
Q Consensus 277 ~~----~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~ 351 (860)
++ .......+. .+|++++.++.++ ++.+++|.++|+++++...+. ...|..+++++|||+++
T Consensus 234 ~~~~~~~~~~~~~~~-~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~---------- 300 (350)
T cd06366 234 WWSSSDCTDEEMLEA-MQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA---------- 300 (350)
T ss_pred hccCCCCChHHHHHh-hceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee----------
Confidence 31 122223345 7899999988887 788999999999998753221 12367789999999998
Q ss_pred CCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCc
Q 044527 352 GQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGI 410 (860)
Q Consensus 352 ~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~ 410 (860)
+.+|+|++|+++| ++|++... .|+++++.++++++||.|++..++
T Consensus 301 -------------~~~~~G~~G~v~fd~~~~~~~~-~~~~~~~~~~~~~~vg~~~~~~~~ 346 (350)
T cd06366 301 -------------STNFNGLSGPVQFDGGRRLASP-AFEIINIIGKGYRKIGFWSSESGL 346 (350)
T ss_pred -------------eceEEeeeeeEEEcCCCccCCc-ceEEEEecCCceEEEEEEeCCCCc
Confidence 4589999999999 99999777 999999999999999999987654
No 14
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.2e-41 Score=364.05 Aligned_cols=339 Identities=17% Similarity=0.265 Sum_probs=289.4
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEec-CCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRD-SQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++|+.+.. +.+.|+++|++++|.+..+.| .+.. +..|++.+.+++|+++++ ||.|||||.+ +.++.
T Consensus 1 ~iG~if~~~~~---~~~~af~~av~~~N~~~~l~~-----~~~~~~~~dsf~~~~~~C~~~~~-gV~AI~Gp~s-~~~a~ 70 (364)
T cd06390 1 QIGGLFPNQQS---QEHAAFRFALSQLTEPPKLLP-----QIDIVNISDSFEMTYTFCSQFSK-GVYAIFGFYD-RKTVN 70 (364)
T ss_pred CCceeeCCCCh---HHHHHHHHHHHHhccCccccc-----ceEEeccccHHHHHHHHHHHhhc-CceEEEccCC-hhHHH
Confidence 48999987653 578999999999999875544 2211 347899999999999998 9999999999 99999
Q ss_pred HHHHhhcCCCCcEEecccCCCccccc--ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTS--YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~--~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~ 200 (860)
.++.+|+..+||+|+++. | ..++ ++.++.|+ +++|+++++++|+|++|++||+++ ||. ...+.+.+.
T Consensus 71 ~v~sic~~~~vP~i~~~~--~-~~~~~~~~i~~~P~------~~~Ai~diI~~~~W~~v~iIYd~d-~g~-~~lq~l~~~ 139 (364)
T cd06390 71 MLTSFCGALHVCFITPSF--P-VDTSNQFVLQLRPE------LQDALISVIEHYKWQKFVYIYDAD-RGL-SVLQKVLDT 139 (364)
T ss_pred HHHHhhcCCCCCceecCC--C-CCCCCceEEEeChh------HHHHHHHHHHHcCCcEEEEEEeCC-ccH-HHHHHHHHh
Confidence 999999999999999864 3 3333 88999985 479999999999999999999766 999 999999999
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccC
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSM 280 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 280 (860)
+++.|++|.....++ .+..+++..|+++++.++++||+.|..+.+..+++++.+.+|...+|+||+|+......+
T Consensus 140 ~~~~~~~I~~~~~~~---~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~-- 214 (364)
T cd06390 140 AAEKNWQVTAVNILT---TTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDID-- 214 (364)
T ss_pred hhccCceeeEEEeec---CChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCccccc--
Confidence 999999999876655 456799999999999999999999999999999999988888889999999995443322
Q ss_pred cchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhc---------
Q 044527 281 DSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKT--------- 351 (860)
Q Consensus 281 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~--------- 351 (860)
..++... ..|++|++.+.++++..++|..+|++......|+.....+..+++++||||+++|+|++++..
T Consensus 215 ~~~~~~~-~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~ 293 (364)
T cd06390 215 LTKFRES-GANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRG 293 (364)
T ss_pred HHHHhcC-CcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCC
Confidence 1233445 889999999999999999999999887666666555556788999999999999999997532
Q ss_pred ----CC-------CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCc
Q 044527 352 ----GQ-------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGI 410 (860)
Q Consensus 352 ----~~-------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~ 410 (860)
|. ..|..|.++|++++|+|+||+++| ++|+|..+ .|+|+++.+.++++||+|++..|+
T Consensus 294 ~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~-~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 294 NAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNY-TLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred CCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccc-eEEEEEecCCcceEEEEECCCCCc
Confidence 10 127899999999999999999999 99999998 999999999999999999998765
No 15
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=3.2e-41 Score=371.43 Aligned_cols=347 Identities=19% Similarity=0.328 Sum_probs=291.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCC-CCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQ-GDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
.||++|+.++ ...+.|+++|+++||++..+++ ++|.+.+.++. +|+..+++++|+++++ +|.|||||.+ |.++
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~-~V~aiiGp~~-s~~~ 75 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSR-GVFAIFGSYD-KSSV 75 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhc-CcEEEEecCc-HHHH
Confidence 4899999985 5789999999999999876656 88888888765 8999999999999986 9999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLF 198 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~ 198 (860)
.+++++++.++||+|+++++.+ .+++ |+||+.|+.. .++++++++++|++|++||++++ |. ...+.+.
T Consensus 76 ~~~~~~~~~~~iP~i~~~~~~~-~l~~~~~~~fr~~p~~~------~a~~~~~~~~~wk~vaii~~~~~-~~-~~~~~~~ 146 (382)
T cd06380 76 NTLTSYSDALHVPFITPSFPTN-DLDDGNQFVLQMRPSLI------QALVDLIEHYGWRKVVYLYDSDR-GL-LRLQQLL 146 (382)
T ss_pred HHHHHHHhcCCCCeEecCCCcc-cCCCCCcEEEEeccchh------HHHHHHHHhcCCeEEEEEECCCc-ch-HHHHHHH
Confidence 9999999999999999999988 7765 9999988532 47889999999999999998775 55 6677788
Q ss_pred HHHhhCC--ceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhh
Q 044527 199 DSLHDND--IDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNF 276 (860)
Q Consensus 199 ~~~~~~g--~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~ 276 (860)
+.+++.| ++++... +. ...+..|++.+|++|+++++|+||+.+..+++..+++||+++||..++|+||+++.....
T Consensus 147 ~~~~~~g~~i~v~~~~-~~-~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~ 224 (382)
T cd06380 147 DYLREKDNKWQVTARR-VD-NVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDD 224 (382)
T ss_pred HHHhccCCceEEEEEE-ec-CCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCccc
Confidence 8888888 6665433 22 122457999999999999999999999999999999999999999999999998876554
Q ss_pred cccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC---
Q 044527 277 LHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ--- 353 (860)
Q Consensus 277 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~--- 353 (860)
++.. ..... ..++.++....+..+..++|.++|++.++...|......+..+++++||||+++++|+++++...
T Consensus 225 ~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~ 301 (382)
T cd06380 225 IDLS--KFLFG-GVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSG 301 (382)
T ss_pred ccHH--HhccC-ceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 4321 11122 45677888777778899999999999887554443333567799999999999999999986421
Q ss_pred -----------------------CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCC
Q 044527 354 -----------------------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTG 409 (860)
Q Consensus 354 -----------------------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~ 409 (860)
.+|.++.++|++++|+|++|+++| ++|++... .++|++++++++++||.|++..|
T Consensus 302 ~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~-~~~i~~~~~~~~~~vg~w~~~~g 380 (382)
T cd06380 302 RHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNY-TLDVVELKTRGLRKVGYWNEDDG 380 (382)
T ss_pred ccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccc-cEEEEEecCCCceEEEEECCCcC
Confidence 137899999999999999999999 99999987 89999999889999999999876
Q ss_pred c
Q 044527 410 I 410 (860)
Q Consensus 410 ~ 410 (860)
+
T Consensus 381 ~ 381 (382)
T cd06380 381 L 381 (382)
T ss_pred c
Confidence 4
No 16
>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=9.4e-41 Score=358.37 Aligned_cols=348 Identities=17% Similarity=0.300 Sum_probs=279.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEE-ecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHS-RDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~-~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
.||++|+.+.. +.+.|+++|++++|.+..+++ .+|.+++ .++.+|++.+.+++|+++++ +|.|||||.+ +.++
T Consensus 1 ~iG~if~~~~~---~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~-gV~AI~Gp~s-~~~a 75 (400)
T cd06392 1 HIGAIFEENAA---KDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQ-GILALVTSTG-CASA 75 (400)
T ss_pred CeeeccCCCch---HHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhc-CeEEEECCCc-hhHH
Confidence 38999997653 478999999999999998888 9999999 88999999999999999976 9999999999 9999
Q ss_pred HHHHHhhcCCCCcEEeccc-----------CCCccccc--ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC
Q 044527 122 QILADLGSRAKIPIISLFT-----------TLPNSLTS--YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW 188 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a-----------~~~~~ls~--~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~ 188 (860)
..++++|+..+||+|++++ ++| .++. |.+.+.|+ . .+.+|+++++.+|+|++|++|| |++|
T Consensus 76 ~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p-~~~~~~~~~~lrp~-~---~~~~Ai~dlV~~~~W~~v~~iY-D~d~ 149 (400)
T cd06392 76 NALQSLTDAMHIPHLFVQRNSGGSPRTACHLNP-SPEGEEYTLAARPP-V---RLNDVMLKLVTELRWQKFIVFY-DSEY 149 (400)
T ss_pred HHHHHHhccCcCCcEeecccccccccccccCCC-CcCcCceeEEecCc-h---HHHHHHHHHHHhCCCcEEEEEE-ECcc
Confidence 9999999999999999865 345 5544 77888887 6 7789999999999999999999 6789
Q ss_pred CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCC-------CeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 189 GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLD-------TKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 189 g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~-------~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
|. ..++.+.+.+.+.+.+|.... +. . ..+..+.+.++.++... -++||+.|+++.+..++++|.++||.
T Consensus 150 gl-~~lq~L~~~~~~~~~~I~~~~-v~-~-~~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~~~~~~il~qA~~lgM~ 225 (400)
T cd06392 150 DI-RGLQSFLDQASRLGLDVSLQK-VD-R-NISRVFTNLFTTMKTEELNRYRDTLRRAILLLSPRGAQTFINEAVETNLA 225 (400)
T ss_pred cH-HHHHHHHHHHhhcCceEEEEE-cc-c-CcchhhhhHHHHHHHhhhhhccccceEEEEEcCcHHHHHHHHHHHHhCcc
Confidence 99 889999999999999988654 22 0 11123444444443333 48999999999999999999999999
Q ss_pred cCCeEEEecChhhhhcccCcchhhcccCc-eeEEEEeccCCchhHHHHH----HHHHHHhhccCCCCCCCCCChhHHHHh
Q 044527 262 SKGYVWIATAATMNFLHSMDSLVVESSMQ-GVVGFRRYVPTSKELHNFT----LRWRREMYLNNPNAEVSELDAYGILAY 336 (860)
Q Consensus 262 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~~~~~Y 336 (860)
..+|+||+++......+..+ .... .. ++++++.+.+.++...+|. .+|++......+ .....+..+++++|
T Consensus 226 ~~~y~wI~t~~~~~~~dl~~--~~~g-~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~-~~~~~l~~~aalay 301 (400)
T cd06392 226 SKDSHWVFVNEEISDTEILE--LVHS-ALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQE-GYLQMLQVSNLYLY 301 (400)
T ss_pred cCCeEEEEecCCcccccHHH--Hhcc-cccceeeEEEecCCcHHHHHHHHHHHHHHHhhhccccc-ccccccchhHHHHH
Confidence 99999999999876543322 2222 33 6777999888776545443 566533322111 11114678999999
Q ss_pred hHHHHHHHHHHhhh-----------cC--C-----CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEee---
Q 044527 337 DTVWAVAKASEKLK-----------TG--Q-----VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVI--- 394 (860)
Q Consensus 337 Dav~~la~Al~~~~-----------~~--~-----~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~--- 394 (860)
|||+++|+|++... .+ + ..|..|.++|+.++|+|+||+++| ++|+|.++ .|+|++++
T Consensus 302 DaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~-~ldIi~l~~~~ 380 (400)
T cd06392 302 DSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHV-QFEILGTSYSE 380 (400)
T ss_pred HHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCC-ceEEEeccccc
Confidence 99999999999752 12 1 128899999999999999999999 99999999 99999965
Q ss_pred --cCceEEeeeecCCCCce
Q 044527 395 --GKTIKRVGFWNPTTGIT 411 (860)
Q Consensus 395 --~~~~~~vG~~~~~~~~~ 411 (860)
+.+.++||+|+|..|+.
T Consensus 381 ~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 381 TFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred cCCCCceEeEEecCCCCCC
Confidence 45699999999988753
No 17
>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=1.6e-40 Score=364.39 Aligned_cols=349 Identities=14% Similarity=0.166 Sum_probs=284.8
Q ss_pred EEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 45 VGIILDMRSWT---GKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 45 IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
|-+|+|.++.. +.....|+++|+|+||+++++++ ++|+++++|++|++..+++.+..+.+ ++|.|||||.| |..
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~-~~v~aiiGp~~-s~~ 79 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCA-RKPDLILGPVC-EYA 79 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHh-hCCCEEECCCC-ccH
Confidence 44677765533 57789999999999999999866 99999999999998777777777776 49999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc------ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCC-
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS------YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNT- 193 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~------~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~- 193 (860)
+.+++.+++.++||+|+++++++ .+++ ++||+.|++. .++.++++++++|+|++|++||++++|++ ..
T Consensus 80 ~~~va~ia~~~~iP~Is~~a~~~-~~s~~~~~yp~~~R~~p~~~---~~~~a~~~ll~~~~W~~vaiiy~~~~~~~-~~~ 154 (387)
T cd06386 80 AAPVARLASHWNIPMISAGALAA-GFSHKKSEYSHLTRVAPSYV---KMGETFSALFERFHWRSALLVYEDDKQER-NCY 154 (387)
T ss_pred HHHHHHHHHhCCCcEEccccCch-hhccCcccCCeeEEecCchH---HHHHHHHHHHHhCCCeEEEEEEEcCCCCc-cce
Confidence 99999999999999999999888 8764 4999999999 99999999999999999999999999998 76
Q ss_pred --HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 194 --IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 194 --~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
.+.+.+.+++.|++|+..+..+ .+..++..+++++++++ |+||++++.+++..++++|+++||+..+|+||..+
T Consensus 155 ~~~~~l~~~~~~~gi~v~~~~~~~---~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d 230 (387)
T cd06386 155 FTLEGVHHVFQEEGYHMSIYPFDE---TKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIE 230 (387)
T ss_pred ehHHHHHHHHHhcCceEEEEecCC---CCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEe
Confidence 8999999999999998866544 45679999999999988 99999999999999999999999999999999997
Q ss_pred hhh------hhcc---cCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHH
Q 044527 272 ATM------NFLH---SMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAV 342 (860)
Q Consensus 272 ~~~------~~~~---~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~l 342 (860)
... ..+. ..+.....+ ...+.++....+.+|.+++|.+++++++...+..+....++.+++++||||+++
T Consensus 231 ~~~~~~~~~~~w~~~~~~~~~~~~a-~~~~~~v~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~ 309 (387)
T cd06386 231 LFNSSSYGDGSWKRGDKHDFEAKQA-YSSLNTVTLLRTVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLY 309 (387)
T ss_pred cccccccCCCCCccCCCcCHHHHHH-HHhheEEeccCCCChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHH
Confidence 653 1111 112111111 222333333334457788899988866654211111224568899999999999
Q ss_pred HHHHHhhhcC---CCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEee---cCceEEeeeecCC
Q 044527 343 AKASEKLKTG---QVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVI---GKTIKRVGFWNPT 407 (860)
Q Consensus 343 a~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~---~~~~~~vG~~~~~ 407 (860)
|+||+++... ..+|.+|.++|++++|+|++|.+.| ++|+|.. .|.|+.++ .+++++||.|...
T Consensus 310 A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~~--~~~v~~~~~~~~~~~~~~~~~~~~ 379 (387)
T cd06386 310 ALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRYG--DFSVIAMTDVEAGTYEVVGNYFGK 379 (387)
T ss_pred HHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCccc--cEEEEEccCCCCccEEEEeEEccc
Confidence 9999998432 2348999999999999999999999 9999988 89999996 4579999999853
No 18
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.3e-40 Score=367.92 Aligned_cols=349 Identities=16% Similarity=0.200 Sum_probs=286.1
Q ss_pred EEEEEEEecCC-cc---hhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCC
Q 044527 43 VHVGIILDMRS-WT---GKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMT 117 (860)
Q Consensus 43 i~IG~l~~~~~-~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~ 117 (860)
|+||++.|++| .. |.....|+++|+++||+++++++ ++|++++.|++|+|..|++++++|+.+ +|.+||||.|
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~-~v~aiiGp~~- 78 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKR-GVVAFIGPEC- 78 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhc-CceEEECCCc-
Confidence 68999999999 34 89999999999999999999975 999999999999999999999999976 9999999999
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcC
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDN 192 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~ 192 (860)
|.. +++.+++.++||+|+++++++ .+++ +|||+.|++. .++.++++++++++|++|++|+++++||. +
T Consensus 79 S~~--~~a~i~~~~~iP~Is~~a~~~-~l~~~~~~~~f~r~~~~~~---~~~~a~~~~~~~~~w~~vaii~~~~~~g~-~ 151 (404)
T cd06370 79 TCT--TEARLAAAWNLPMISYKCDEE-PVSDKSKYPTFARTVPPSI---QVVKSVIALLKHFNWNKFSVVYENDSKYS-S 151 (404)
T ss_pred hhH--HHHHHHhhcCCcEEecccCCc-cccccccCCCeEEcCCCHH---HHHHHHHHHHHHCCCcEEEEEEecCcccH-H
Confidence 644 456799999999999999988 8775 6889999999 99999999999999999999999999999 9
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCC-----ChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCc-cCCeE
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASS-----THDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMM-SKGYV 266 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~-----~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~-~~~~~ 266 (860)
..+.+++.+++.|++|+..+.++ ... ..+++..++++++.. ++++|+++...++..++++|.++||. ..+|+
T Consensus 152 ~~~~~~~~~~~~g~~iv~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~ 229 (404)
T cd06370 152 VFETLKEEAELRNITISHVEYYA-DFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYM 229 (404)
T ss_pred HHHHHHHHHHHcCCEEEEEEEEC-CCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEE
Confidence 99999999999999999888877 221 157899999888765 67777888888999999999999998 57789
Q ss_pred EEecChhhhh---------------cc---cCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCC-----
Q 044527 267 WIATAATMNF---------------LH---SMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNA----- 323 (860)
Q Consensus 267 ~i~~~~~~~~---------------~~---~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~----- 323 (860)
||.++..... +. .......++ +++++.+.+..+ ++..++|.++|+++....+...
T Consensus 230 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~ 307 (404)
T cd06370 230 VLGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEA-MKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGES 307 (404)
T ss_pred EEEEchhhccccchhhhhhhhhhccccccccccHHHHHH-hHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccc
Confidence 9986532110 01 011122234 677777765555 6778899999988754421110
Q ss_pred -CCCCCChhHHHHhhHHHHHHHHHHhhhcCC---CChHHHHHHHHhccccccee-eEEe-eCCeecCCccEEEEEeecCc
Q 044527 324 -EVSELDAYGILAYDTVWAVAKASEKLKTGQ---VSDEIFYKQIVNNRFRGLSG-DFQF-VNGKLTSSREFEIVNVIGKT 397 (860)
Q Consensus 324 -~~~~~~~~~~~~YDav~~la~Al~~~~~~~---~~~~~l~~~l~~~~~~g~tG-~v~F-~~g~~~~~~~~~i~~~~~~~ 397 (860)
....+..+++++||||+++|+||+++..+. .++.+|.++|++++|+|++| ++.| ++|++.. .|.|+++++++
T Consensus 308 ~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~~~--~y~v~~~~~~~ 385 (404)
T cd06370 308 ELVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDAEG--NYSVLALQPIP 385 (404)
T ss_pred ccccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCccc--ceEEEEecccc
Confidence 223467789999999999999999984332 24789999999999999999 8999 9999976 89999998887
Q ss_pred eEEeeeecC
Q 044527 398 IKRVGFWNP 406 (860)
Q Consensus 398 ~~~vG~~~~ 406 (860)
|-.-|...+
T Consensus 386 ~~~~~~~~~ 394 (404)
T cd06370 386 PGDNGSTPC 394 (404)
T ss_pred ccCCCCCCC
Confidence 665554433
No 19
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=2.3e-40 Score=366.77 Aligned_cols=337 Identities=18% Similarity=0.209 Sum_probs=286.0
Q ss_pred CCceEEEEEEEecCC---------------------cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHH
Q 044527 39 NSDEVHVGIILDMRS---------------------WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHAL 96 (860)
Q Consensus 39 ~~~~i~IG~l~~~~~---------------------~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~ 96 (860)
.++++.||++||.+- ..|.....|+++|+++||++++++| ++|++++.|+|+ +..|+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~ 81 (410)
T cd06363 3 LPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANF 81 (410)
T ss_pred CCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHH
Confidence 378899999999874 1177789999999999999999996 999999999966 77799
Q ss_pred HHHHHhhcc---------------CCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCC
Q 044527 97 TTASNLMQN---------------VDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQD 156 (860)
Q Consensus 97 ~~~~~li~~---------------~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~ 156 (860)
+.+.+|+.+ ++|.+||||.+ |+.+.+++++++.+++|+|+++++++ .+++ ++||+.|+
T Consensus 82 ~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~-S~~~~av~~i~~~~~vp~is~~~~~~-~lt~~~~~~~~fr~~~~ 159 (410)
T cd06363 82 PPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDS-STLALTVAPLFSFFLIPQISYGASSE-VLSNKELYPSFLRTVPS 159 (410)
T ss_pred HHHHHHHhccCcccCcccccccCCCCeEEEECCCc-cHHHHHHHHHhcccccccccccccCc-cccccccCCCeeEecCC
Confidence 999999854 69999999999 99999999999999999999999888 8774 79999999
Q ss_pred CchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCC-CChHHHHHHHHhhhcCC
Q 044527 157 DEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLAS-STHDQIIEKLSMLKSLD 235 (860)
Q Consensus 157 ~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~-~~~~~~~~~l~~i~~~~ 235 (860)
+. .++.++++++++++|++|++++++++||. ...+.+++.+++.|++++..+.++ .. .+.+|+.+++.+|++++
T Consensus 160 ~~---~~~~al~~~l~~~~~k~vaii~~~~~~g~-~~~~~~~~~l~~~gi~i~~~~~~~-~~~~~~~d~~~~l~~i~~~~ 234 (410)
T cd06363 160 DK---DQIEAMVQLLQEFGWNWVAFLGSDDEYGR-DGLQLFSELIANTGICIAYQGLIP-LDTDPETDYQQILKQINQTK 234 (410)
T ss_pred cH---HHHHHHHHHHHHCCCcEEEEEEeCChhHH-HHHHHHHHHHHHCCeEEEEEEEec-CCCchHHHHHHHHHHHhcCC
Confidence 99 99999999999999999999999999999 999999999999999999888776 32 25789999999999999
Q ss_pred CeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHH
Q 044527 236 TKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRRE 315 (860)
Q Consensus 236 ~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~ 315 (860)
+|+|++.+..+++..++++|+++|+. ...|+.+..+............+. ..+++++....++.+.+++|++.
T Consensus 235 ~dvIil~~~~~~~~~il~qa~~~g~~--~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~f~~~---- 307 (410)
T cd06363 235 VNVIVVFASRQPAEAFFNSVIQQNLT--GKVWIASEAWSLNDELPSLPGIRN-IGTVLGVAQQTVTIPGFSDFIYS---- 307 (410)
T ss_pred CeEEEEEcChHHHHHHHHHHHhcCCC--CCEEEEeCcccccccccCCcccee-eccEEEEEeCCCCCccHHHHHHH----
Confidence 99999999999999999999999984 447888766432211111112223 44677777777777888888765
Q ss_pred hhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC---------CChHHHHHHHHhcccccceeeEEe-eCCeecCC
Q 044527 316 MYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ---------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 316 ~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~---------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~ 385 (860)
+++.+||||+++|+|++++..++ .+++.|.++|++++|+|++|++.| ++|++..
T Consensus 308 ---------------~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~~- 371 (410)
T cd06363 308 ---------------FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPNF- 371 (410)
T ss_pred ---------------HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCcc-
Confidence 35679999999999999984321 126889999999999999999999 9999766
Q ss_pred ccEEEEEeecC----ceEEeeeecCC
Q 044527 386 REFEIVNVIGK----TIKRVGFWNPT 407 (860)
Q Consensus 386 ~~~~i~~~~~~----~~~~vG~~~~~ 407 (860)
.++|++++.. ++++||.|+++
T Consensus 372 -~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 372 -GYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred -ceEEEEEEEcCCceeEEEEEEEECC
Confidence 7999998532 59999999985
No 20
>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=4.3e-40 Score=352.60 Aligned_cols=346 Identities=14% Similarity=0.238 Sum_probs=291.8
Q ss_pred EEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc--cEEEEEEec-CCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 45 VGIILDMRSWTGKITNSCISMAIADFYAVNTHCK--TRLILHSRD-SQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 45 IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~--~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
||++|+.+.. +.+.|+++|++++|.+..+++ .+|...+.. ...|++.+.+++|+++++ ||.||+||.+ +.++
T Consensus 2 iG~iF~~~~~---~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~-GV~AIfGp~~-~~s~ 76 (372)
T cd06387 2 IGGLFMRNTV---QEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSR-GVYAIFGFYD-QMSM 76 (372)
T ss_pred cceeecCCcH---HHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhc-ccEEEEecCC-HhHH
Confidence 8999996543 578999999999999987776 577776664 358999999999999998 9999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSL 201 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~ 201 (860)
.++..+|+..+||+|.+....+ .-.++..++.|+ +++|+++++++|+|++|.+|| |+++|. ...+.+.+.+
T Consensus 77 ~~v~s~c~~~~iP~i~~~~~~~-~~~~~~l~l~P~------l~~Ai~diI~~~~Wr~~~~iY-d~d~gl-~~Lq~L~~~~ 147 (372)
T cd06387 77 NTLTSFCGALHTSFITPSFPTD-ADVQFVIQMRPA------LKGAILSLLAHYKWEKFVYLY-DTERGF-SILQAIMEAA 147 (372)
T ss_pred HHHHHhhccccCCeeeeCCCCC-CCCceEEEEChh------HHHHHHHHHHhcCCCEEEEEe-cCchhH-HHHHHHHHhh
Confidence 9999999999999998854322 111277889996 369999999999999999999 567888 8888899999
Q ss_pred hhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCc
Q 044527 202 HDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMD 281 (860)
Q Consensus 202 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~ 281 (860)
+..++.|......+ .....+++..++++++.+.++||+.|.++.+..++++|.+.||+..+|+||+++......+..+
T Consensus 148 ~~~~~~V~~~~v~~--~~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl~~ 225 (372)
T cd06387 148 VQNNWQVTARSVGN--IKDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISLER 225 (372)
T ss_pred ccCCceEEEEEecc--CCchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccHHH
Confidence 99999887665333 2245689999999999999999999999999999999999999999999999986654433222
Q ss_pred chhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhc----------
Q 044527 282 SLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKT---------- 351 (860)
Q Consensus 282 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~---------- 351 (860)
.... ..+++|++.+.++++..++|.++|++......|+.....+..+++++||||+++|+|++++..
T Consensus 226 --~~~g-~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~~~ 302 (372)
T cd06387 226 --VMHG-GANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRRGS 302 (372)
T ss_pred --hccC-CcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccCCC
Confidence 2222 556999999999999999999999887766666655556778999999999999999997632
Q ss_pred ---CC-------CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCc
Q 044527 352 ---GQ-------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGI 410 (860)
Q Consensus 352 ---~~-------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~ 410 (860)
|. ..|..|.++|++++|+|+||+++| ++|+|.++ .|+|+++.+.++++||+|++..|+
T Consensus 303 ~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~-~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 303 AGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNY-TIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred CCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccc-eEEEEEecCCCceeEEEECCCCCc
Confidence 10 128899999999999999999999 88999999 999999999999999999998775
No 21
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=8.4e-40 Score=354.87 Aligned_cols=345 Identities=14% Similarity=0.242 Sum_probs=285.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEec-CCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRD-SQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++|+.... +.+.|+++|++.+|.+. .+|..++.. +..|.+.+.+++|+++++ ||.||+||.+ |.++.
T Consensus 1 ~ig~if~~~~~---~~~~af~~a~~~~n~~~----~~l~~~~~~~~~~dsf~~~~~~C~~~~~-GV~AI~Gp~s-s~~~~ 71 (370)
T cd06389 1 QIGGLFPRGAD---QEYSAFRVGMVQFSTSE----FRLTPHIDNLEVANSFAVTNAFCSQFSR-GVYAIFGFYD-KKSVN 71 (370)
T ss_pred CCceeecCCch---HHHHHHHHHHHHhcccC----ceeeeeeEEecccchHHHHHHHHHHhhc-CcEEEEecCC-HHHHH
Confidence 48999997653 57899999999999873 566665554 458999999999999998 9999999999 99999
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHh
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLH 202 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~ 202 (860)
+++++|+..+||+|+++++.+ .-..+.+++.|+. ..++++++++|+|++|+++|+ ++||. ..++.+.+.++
T Consensus 72 ~v~~i~~~~~IP~I~~~~~~~-~~~~f~~~~~p~~------~~ai~d~i~~~~wk~vailYd-sd~gl-~~lq~l~~~~~ 142 (370)
T cd06389 72 TITSFCGTLHVSFITPSFPTD-GTHPFVIQMRPDL------KGALLSLIEYYQWDKFAYLYD-SDRGL-STLQAVLDSAA 142 (370)
T ss_pred HHHHhhccCCCCeeeecCCCC-CCCceEEEecchh------hhHHHHHHHhcCCcEEEEEec-CchHH-HHHHHHHHhhc
Confidence 999999999999999876533 2111667777763 589999999999999999997 55999 99999999999
Q ss_pred hCCceEeEEEe--ccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccC
Q 044527 203 DNDIDIARRTS--ISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSM 280 (860)
Q Consensus 203 ~~g~~i~~~~~--~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 280 (860)
+.|++|+.... +. +..+..|++.+|++|+++++++||+.|+.+++..+++||.++||+.+.|+||+++......+..
T Consensus 143 ~~g~~V~~~~~~~i~-~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~ 221 (370)
T cd06389 143 EKKWQVTAINVGNIN-NDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLS 221 (370)
T ss_pred cCCceEEEEEeecCC-CccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccchh
Confidence 99988875432 22 2345679999999999999999999999999999999999999999999999988755433221
Q ss_pred cchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC-------
Q 044527 281 DSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ------- 353 (860)
Q Consensus 281 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~------- 353 (860)
+.. .. ..++.+++...++.+..++|.++|++.....+|+.....+...++.+||||+++++|++++....
T Consensus 222 ~~~--~~-~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~~ 298 (370)
T cd06389 222 KIQ--FG-GANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRG 298 (370)
T ss_pred hhc--cC-CcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCC
Confidence 111 11 45788999888889999999999986433344433334577899999999999999999875321
Q ss_pred -------------CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCce
Q 044527 354 -------------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGIT 411 (860)
Q Consensus 354 -------------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~~ 411 (860)
..|..|.++|++++|+|+||+++| ++|+|..+ .++|++++++++++||+|++..++.
T Consensus 299 ~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~-~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 299 NAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINY-TINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred CCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccc-eEEEEEecCCcceEEEEEcCCCCcc
Confidence 137899999999999999999999 99999998 9999999999999999999988753
No 22
>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=2e-39 Score=356.04 Aligned_cols=316 Identities=18% Similarity=0.316 Sum_probs=261.3
Q ss_pred CceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHH-HHhhccCCeEEEEe-cCC
Q 044527 40 SDEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTA-SNLMQNVDLQAIIC-IGM 116 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~-~~li~~~~v~aviG-p~~ 116 (860)
+++|+||+++|.+ ....|+++|++++|++.+..+ .+++-...+.++++..+...+ .+|+++ +|.|||| +.+
T Consensus 17 ~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~-~V~aii~~~~~ 90 (377)
T cd06379 17 PKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISN-QVYAVIVSHPP 90 (377)
T ss_pred CcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhc-ceEEEEEeCCC
Confidence 4579999999843 578999999999999654332 333332222234666655444 567775 8999974 443
Q ss_pred Chh---HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC
Q 044527 117 TPT---GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW 188 (860)
Q Consensus 117 ~s~---~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~ 188 (860)
||. .+.+++.+++.++||+|+++++++ .+++ ++||+.|++. .+++++++++++++|++|++++++++|
T Consensus 91 ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~-~ls~~~~~~~~~R~~psd~---~~~~a~~~~l~~~~w~~vaii~~~~~~ 166 (377)
T cd06379 91 TSNDHLTPTSVSYTAGFYRIPVVGISTRDS-IFSDKNIHLSFLRTVPPYS---HQADVWLEMLRSFKWNKVILLVSDDHE 166 (377)
T ss_pred CCcccccHHHHHHHhhCCCCcEEecccCCc-cccCccccccEEEecCCHH---HHHHHHHHHHHHcCCeEEEEEEEcCcc
Confidence 133 467788899999999999998888 7775 8999999999 999999999999999999999999999
Q ss_pred CCcCCHHHHHHHHhhCCc----eEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 189 GNDNTIPYLFDSLHDNDI----DIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 189 g~~~~~~~l~~~~~~~g~----~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
|. +..+.+++.+++.|+ +|+..+.++ .+.+++...+++++++++|+|++++..+++..++++|+++||++.+
T Consensus 167 g~-~~~~~~~~~~~~~g~~~~~~v~~~~~~~---~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~ 242 (377)
T cd06379 167 GR-AAQKRFETLLEEREIEFKIKVEKVVEFE---PGEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEG 242 (377)
T ss_pred hh-HHHHHHHHHHHhcCCccceeeeEEEecC---CchhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Confidence 99 999999999999999 888777766 6778999999999999999999999999999999999999999888
Q ss_pred eEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHH
Q 044527 265 YVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAK 344 (860)
Q Consensus 265 ~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~ 344 (860)
|+||.++.+... .+. ..|++++++..+ ...++++||||+++|+
T Consensus 243 ~~wi~t~~~~~~--------~~~-~~g~~g~~~~~~----------------------------~~~~~~~yDAV~~~A~ 285 (377)
T cd06379 243 YVWIVSEQAGAA--------RNA-PDGVLGLQLING----------------------------KNESSHIRDAVAVLAS 285 (377)
T ss_pred EEEEEecccccc--------ccC-CCceEEEEECCC----------------------------CCHHHHHHHHHHHHHH
Confidence 999999887321 123 678888887642 1246799999999999
Q ss_pred HHHhhhcCC----------------CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCC
Q 044527 345 ASEKLKTGQ----------------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPT 407 (860)
Q Consensus 345 Al~~~~~~~----------------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~ 407 (860)
|++++.... ..|..+.++|++++|+|++|++.| ++|++..+ .|+|+++++.++++||.|++.
T Consensus 286 Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~-~~~I~~~~~~~~~~VG~w~~~ 364 (377)
T cd06379 286 AIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFA-NYDIMNIQNRKLVQVGLYNGD 364 (377)
T ss_pred HHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCc-cEEEEEecCCCceEeeEEcCc
Confidence 999884310 126899999999999999999999 99999877 999999999999999999874
No 23
>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=1.2e-39 Score=360.57 Aligned_cols=354 Identities=18% Similarity=0.241 Sum_probs=304.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccC-CcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNT-HCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~-~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
+||+++|++|.. |.....|+++|+|+||++++ +.+++|++++.|++|+|..+++.+.+++.+++|.+||||.+ |+
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~-s~ 79 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGC-PY 79 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCC-hh
Confidence 599999999854 88999999999999999995 45599999999999999999999999998889999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-CCCcCC
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-WGNDNT 193 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-~g~~~~ 193 (860)
.+.++++++..+++|+|+++++++ .+++ ++||+.|++. .++.++++++++++|++++++++++. ||. ..
T Consensus 80 ~~~a~~~~~~~~~ip~Is~~~~~~-~~~~~~~~~~~fr~~~~~~---~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~-~~ 154 (389)
T cd06352 80 ACAPVARLAAHWNIPMISWGCVAL-SLSDKSEYPTLTRTLPPAR---KLGEAVLALLRWFNWHVAVVVYSDDSENCF-FT 154 (389)
T ss_pred HHHHHHHHHhcCCCCEeccccccc-ccCccccCCceeecCCcHH---HHHHHHHHHHHHcCceEEEEEEecCCccHH-HH
Confidence 999999999999999999998888 7763 8999999999 99999999999999999999999888 899 89
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCC--hHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASST--HDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
.+.+.+.+++.|++|+....++ .+ .+++..+++++++++ |+|++++..+++..+++++.++|+...+++|+.++
T Consensus 155 ~~~~~~~~~~~G~~v~~~~~~~---~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~ 230 (389)
T cd06352 155 LEALEAALREFNLTVSHVVFME---DNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILID 230 (389)
T ss_pred HHHHHHHHHhcCCeEEEEEEec---CCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEe
Confidence 9999999999999999988777 44 689999999999888 99999999999999999999999977789999877
Q ss_pred hhhhhcc-----------cCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCC--CCCCCChhHHHHhhH
Q 044527 272 ATMNFLH-----------SMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNA--EVSELDAYGILAYDT 338 (860)
Q Consensus 272 ~~~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~~~~~YDa 338 (860)
....... .......+. ..+++++.+..+.++.+++|.++|+++++..+... ....+..+++++|||
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDa 309 (389)
T cd06352 231 LFNYSLPYQNSYPWERGDGDDEKAKEA-YDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDA 309 (389)
T ss_pred hhccccccCCCCCcccCCcccHHHHHH-HHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHH
Confidence 6544321 111122334 67788888877778899999999999886532111 122457789999999
Q ss_pred HHHHHHHHHhhhcCCC---ChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeec--CceEEeeeecCCCCc
Q 044527 339 VWAVAKASEKLKTGQV---SDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIG--KTIKRVGFWNPTTGI 410 (860)
Q Consensus 339 v~~la~Al~~~~~~~~---~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~--~~~~~vG~~~~~~~~ 410 (860)
|+++++|++++..++. ++.++.+.|++++|+|++|++.| ++|++.. .|+|+++++ +....++.+.+..+.
T Consensus 310 v~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~~ 385 (389)
T cd06352 310 VLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDREG--DYSLLDLDSTGGQLEVVYLYDTSSGG 385 (389)
T ss_pred HHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCeee--eEEEEEecCCCceEEEEEecccccee
Confidence 9999999999965532 36789999999999999999999 9999987 899999985 568888988876543
No 24
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=6.2e-40 Score=362.81 Aligned_cols=351 Identities=16% Similarity=0.206 Sum_probs=290.2
Q ss_pred EEEEEEecCCc----chhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCC----CHHHHHHHHHHhhccCCeEEEEec
Q 044527 44 HVGIILDMRSW----TGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQG----DPFHALTTASNLMQNVDLQAIICI 114 (860)
Q Consensus 44 ~IG~l~~~~~~----~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~----~~~~a~~~~~~li~~~~v~aviGp 114 (860)
+||+++|.+|. .|+....|+++|+|+||+++++++ ++|++++.|+++ ++..++..+.+++.+++|.+||||
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 48999999972 277889999999999999998775 999999999998 899999999999877799999999
Q ss_pred CCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCC
Q 044527 115 GMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWG 189 (860)
Q Consensus 115 ~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g 189 (860)
.| |..+.+++++++.++||+|+++++++ .+++ ++||+.|++. .++.++++++++++|++|++|+++++++
T Consensus 81 ~~-S~~~~av~~~~~~~~ip~Is~~as~~-~lt~~~~~~~~fr~~p~~~---~~~~a~~~~~~~~~w~~vaii~~~~~~~ 155 (396)
T cd06373 81 GC-EYAAAPVARFAAHWNVPVLTAGAPAA-GFSDKSEYSTLTRTGPSYT---KLGEFVLALHEHFNWSRAALLYHDDKND 155 (396)
T ss_pred Cc-cchhHHHHHHHhcCCCceECccCCcc-ccccchhcCceeeccccHH---HHHHHHHHHHHHcCCeEEEEEEECCCCC
Confidence 99 99999999999999999999999988 8875 6999999999 9999999999999999999999987764
Q ss_pred ----CcCCHHHHHHHHhhCCceEeEEEeccCCCCC--hHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccC
Q 044527 190 ----NDNTIPYLFDSLHDNDIDIARRTSISLASST--HDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSK 263 (860)
Q Consensus 190 ----~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~ 263 (860)
. ...+.+.+.+++.|++|+... +. .+ .+|+..++++++++. |+||+++..+++..++++++++|++..
T Consensus 156 ~~~~~-~~~~~~~~~~~~~g~~v~~~~-~~---~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~ 229 (396)
T cd06373 156 DRPCY-FTLEGVYTVLKEENITVSDFP-FD---EDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSG 229 (396)
T ss_pred cchHH-HHHHHHHHHHhhcCceeeEEe-ec---CCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCC
Confidence 3 457888999999999988543 43 33 479999999999876 999999999999999999999999988
Q ss_pred CeEEEecChhhhh------cc-----cCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCC-CCCCCCCChh
Q 044527 264 GYVWIATAATMNF------LH-----SMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNP-NAEVSELDAY 331 (860)
Q Consensus 264 ~~~~i~~~~~~~~------~~-----~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~~ 331 (860)
+|+||..+..... +. .......++ ..+++++....++++.+++|.++|+++....+. ......+..+
T Consensus 230 ~yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~ 308 (396)
T cd06373 230 EYVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEA-YQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFF 308 (396)
T ss_pred cEEEEEEccchhhhccCCCCcCCCCCcccHHHHHH-HHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHH
Confidence 9999987644221 10 000112233 557888888888888899999999876332110 1111235678
Q ss_pred HHHHhhHHHHHHHHHHhhhcCC---CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEe---ecCceEEeeee
Q 044527 332 GILAYDTVWAVAKASEKLKTGQ---VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNV---IGKTIKRVGFW 404 (860)
Q Consensus 332 ~~~~YDav~~la~Al~~~~~~~---~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~---~~~~~~~vG~~ 404 (860)
++.+||||+++++||+++..+. .++++|.++|++++|+|++|++.| ++|++.. .|.|+.+ ++++++.+|.|
T Consensus 309 a~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~~--~~~v~~~~~~~~g~~~~~~~~ 386 (396)
T cd06373 309 AGAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDRES--DFSLWDMTDTETGTFEVVANY 386 (396)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCcccc--eeeeeeccCCCCceEEEEeec
Confidence 9999999999999999974221 337899999999999999999999 9999987 7888765 47789999999
Q ss_pred cCCC
Q 044527 405 NPTT 408 (860)
Q Consensus 405 ~~~~ 408 (860)
++..
T Consensus 387 ~~~~ 390 (396)
T cd06373 387 NGSN 390 (396)
T ss_pred cccc
Confidence 8854
No 25
>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=1.7e-39 Score=351.34 Aligned_cols=346 Identities=14% Similarity=0.230 Sum_probs=283.6
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc--cEEEEEEec-CCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK--TRLILHSRD-SQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~--~~l~~~~~D-~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++|+.+.. +.+.|+++|++.+|.+....+ .+|..++.. +..|++.+.+++|+++++ ||.||+||.+ |.+
T Consensus 1 ~iG~if~~~~~---~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~-gV~AI~Gp~s-s~~ 75 (371)
T cd06388 1 QIGGLFIRNTD---QEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSR-GVFAIFGLYD-KRS 75 (371)
T ss_pred CCceeecCCch---HHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhC-CceEEEecCC-HHH
Confidence 48999996543 467999999999998875543 577776554 458999999999999998 9999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDS 200 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~ 200 (860)
+.+++++|+..+||+|+++.+.. ..+.||+...+. . ..++++++++++|++|+++|+++ +|. ..++.|.+.
T Consensus 76 ~~~v~~i~~~~~IP~I~~~~~~~---~~~~f~i~~~p~---~-~~a~~~~i~~~~wk~vaiiYd~~-~~~-~~lq~l~~~ 146 (371)
T cd06388 76 VHTLTSFCSALHISLITPSFPTE---GESQFVLQLRPS---L-RGALLSLLDHYEWNRFVFLYDTD-RGY-SILQAIMEK 146 (371)
T ss_pred HHHHHHHhhCCCCCeeecCcccc---CCCceEEEeChh---h-hhHHHHHHHhcCceEEEEEecCC-ccH-HHHHHHHHh
Confidence 99999999999999999875422 234555555543 3 47788899999999999999644 566 678899999
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccC
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSM 280 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 280 (860)
+++.|++|+.....+ .++.|++++|++|+++++++||+.|.++.+..+++||+++||..++|+||+++......+..
T Consensus 147 ~~~~g~~v~~~~~~~---~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~ 223 (371)
T cd06388 147 AGQNGWQVSAICVEN---FNDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISLE 223 (371)
T ss_pred hHhcCCeeeeEEecc---CCcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccHH
Confidence 999999998765544 34669999999999999999999999999999999999999999999999988754433221
Q ss_pred cchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhh----------
Q 044527 281 DSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLK---------- 350 (860)
Q Consensus 281 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~---------- 350 (860)
++... ..++.++....+.++..++|.++|.+.+...+|+... .|...++++||||+++++|++++.
T Consensus 224 --~~~~g-~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~-~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~~~ 299 (371)
T cd06388 224 --RFMHG-GANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSES-PPKYTSALTYDGVLVMAEAFRNLRRQKIDISRRG 299 (371)
T ss_pred --HHhcc-CCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCC-CccchHHHHHHHHHHHHHHHHHHHhcCCCcccCC
Confidence 12222 4568999998888899999999998876655544222 467899999999999999999864
Q ss_pred ---cC--CC-----ChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCce
Q 044527 351 ---TG--QV-----SDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGIT 411 (860)
Q Consensus 351 ---~~--~~-----~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~~ 411 (860)
.| ++ .|..|.++|++++|+|+||+++| ++|+|..+ .++|++++..++++||+|++..|+.
T Consensus 300 ~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~-~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 300 NAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNY-TMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred CCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccc-eEEEEEccCCCceEEEEEcCCCCcc
Confidence 11 11 15889999999999999999999 99999998 9999999999999999999988753
No 26
>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=2.3e-39 Score=359.09 Aligned_cols=351 Identities=17% Similarity=0.151 Sum_probs=281.9
Q ss_pred EEEEEEecCCcc---h-hhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHH-----HHHHHhhccCCeEEEEe
Q 044527 44 HVGIILDMRSWT---G-KITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHAL-----TTASNLMQNVDLQAIIC 113 (860)
Q Consensus 44 ~IG~l~~~~~~~---g-~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~-----~~~~~li~~~~v~aviG 113 (860)
+||+++|+++.. | +....|+++|+|+||+++++++ ++|++++.|+++++..+. ..+.++...++|.+|||
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 599999999863 3 7788899999999999999995 999999999976665443 33444334458999999
Q ss_pred cCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEE-EEecCC
Q 044527 114 IGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVIL-IHEDNT 187 (860)
Q Consensus 114 p~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~i-i~~~~~ 187 (860)
|.| |.++.+++.+++.++||+|+++++++ .+++ ++||+.|++. .++.++++++++|+|+++++ ++.++.
T Consensus 81 p~~-S~~~~~va~~a~~~~iP~Is~~a~~~-~l~~~~~~~~~~R~~p~~~---~~~~a~~~~~~~~~w~~va~ii~~~~~ 155 (405)
T cd06385 81 PGC-DYTASPVARFTTHWDVPLVTAGAPAL-GFGVKDEYATITRTGPTHK---KLGEFVLHIHQHFGWRSHAMLIYSDNK 155 (405)
T ss_pred CCc-cchHHHHHHHHhccCCcEEccccChh-hcCCcccCcceEEecCchH---HHHHHHHHHHHhCCCeEEEEEEEecCc
Confidence 999 99999999999999999999999988 8875 7999999999 99999999999999999995 555543
Q ss_pred -CCCcC---CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccC
Q 044527 188 -WGNDN---TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSK 263 (860)
Q Consensus 188 -~g~~~---~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~ 263 (860)
+++ . ..+.+.+.+++.|++|+..+..+ .+..++..+|+++++.. |+|+++++..++..++++|.++||+.+
T Consensus 156 ~~~~-~~~~~~~~l~~~~~~~gi~v~~~~~~~---~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~ 230 (405)
T cd06385 156 VDDR-PCYFAMEGLYMELKKNNITVVDLVFEE---DDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSE 230 (405)
T ss_pred cccc-chHHHHHHHHHHHHhCCeEEEEeeccC---CchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCC
Confidence 333 3 36889999999999999876433 45789999999998765 999999999999999999999999999
Q ss_pred CeEEEecChhhhhcc------------cCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCC--CCCCC
Q 044527 264 GYVWIATAATMNFLH------------SMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAE--VSELD 329 (860)
Q Consensus 264 ~~~~i~~~~~~~~~~------------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~--~~~~~ 329 (860)
+|+||+++....... ..+....++ +++++......+.++.+++|.++|+++....+ +.. ...+.
T Consensus 231 ~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a-~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~~ 308 (405)
T cd06385 231 DYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREA-FQSVKILTYKEPQNPEYKEFLSDLKTDAKEMF-NFTVEDSLMN 308 (405)
T ss_pred cEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHh-hheeEEEeCCCCCChhHHHHHHHHHHHhhccC-CCccchhhHH
Confidence 999999865432211 011122344 67787777777778889999999988632111 110 11256
Q ss_pred hhHHHHhhHHHHHHHHHHhhhc---CCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEe---ecCceEEee
Q 044527 330 AYGILAYDTVWAVAKASEKLKT---GQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNV---IGKTIKRVG 402 (860)
Q Consensus 330 ~~~~~~YDav~~la~Al~~~~~---~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~---~~~~~~~vG 402 (860)
.+++++||||+++|.||+++.. ...+|+++.++|++++|+|++|.+.| ++|+|.. .|.++++ ++++++++|
T Consensus 309 ~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~~--~~~~~~~~~~~~g~~~~v~ 386 (405)
T cd06385 309 IIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRET--DFALWDMTDTESGDFQVVS 386 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEec--eeEEEEccCCCCCcEEEEE
Confidence 8899999999999999999732 11247899999999999999999999 9999987 8988855 577899999
Q ss_pred eecCCC
Q 044527 403 FWNPTT 408 (860)
Q Consensus 403 ~~~~~~ 408 (860)
+|+..+
T Consensus 387 ~~~~~~ 392 (405)
T cd06385 387 VYNGTQ 392 (405)
T ss_pred EEcccC
Confidence 998644
No 27
>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=8.1e-40 Score=357.50 Aligned_cols=317 Identities=20% Similarity=0.296 Sum_probs=276.0
Q ss_pred eEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 42 EVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 42 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
.|+||++++.++ ...+++.|+..+|.+..+.. ++++++..|+.+||..+++++|+++.+++|.+|+||.+ |+.
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~-s~~ 75 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDP-TDE 75 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCC-CCc
Confidence 489999999985 34889999999998875223 99999999999999999999999988779999999999 887
Q ss_pred ---HHHHHHhhcCCCCcEEecccCCCccc-cc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCc
Q 044527 121 ---AQILADLGSRAKIPIISLFTTLPNSL-TS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGND 191 (860)
Q Consensus 121 ---~~~~~~~~~~~~ip~Is~~a~~~~~l-s~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~ 191 (860)
+.+++.+++.++||+|+++++++ .+ ++ ++||+.|++. .+++++++++++|+|++|++||++++||+
T Consensus 76 ~~~~~~~~~v~~~~~iP~Is~~~~~~-~~~s~~~~~~~~~R~~p~~~---~~~~ai~~ll~~~~w~~vaii~~~~~~g~- 150 (362)
T cd06367 76 EAVAQILDFTSAQTRIPVVGISGRES-IFMSDKNIHSLFLQTGPSLE---QQADVMLEILEEYDWHQFSVVTSRDPGYR- 150 (362)
T ss_pred cchhhhhhhhhhhhcCcEEEeecccc-ccccCCCcccceEeecCcHH---HHHHHHHHHHHHcCCeEEEEEEEcCcccH-
Confidence 89999999999999999999988 77 54 8999999999 99999999999999999999999999999
Q ss_pred CCHHHHHHHHhhCCce--EeEEEeccCCCCChH-HHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 192 NTIPYLFDSLHDNDID--IARRTSISLASSTHD-QIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 192 ~~~~~l~~~~~~~g~~--i~~~~~~~~~~~~~~-~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+..+.+++.+++.|+| ++....++ .... ++...+.++++.++++|++.|+.+++..++++|.++||+.++|+||
T Consensus 151 ~~~~~l~~~l~~~g~~~~i~~~~~~~---~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI 227 (362)
T cd06367 151 DFLDRVETTLEESFVGWEFQLVLTLD---LSDDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWI 227 (362)
T ss_pred HHHHHHHHHHHhcccceeeeeeEEec---cCCCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEE
Confidence 9999999999999999 76666555 3333 7888999999999999999999999999999999999998889999
Q ss_pred ecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHh
Q 044527 269 ATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEK 348 (860)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~ 348 (860)
+++.+.... . ...+. ..|++++++..+ ..+++++||||+++|+|+++
T Consensus 228 ~~~~~~~~~--~--~~~~~-~~G~~g~~~~~~----------------------------~~~~~~~~Dav~~~a~Al~~ 274 (362)
T cd06367 228 VGELALGSG--L--APEGL-PVGLLGVGLDTW----------------------------YSLEARVRDAVAIVARAAES 274 (362)
T ss_pred ECccccccc--C--CccCC-CCeeEEEEeccc----------------------------ccHHHHHHHHHHHHHHHHHH
Confidence 999986421 1 12233 678999987642 13578999999999999998
Q ss_pred hhcC------------------CCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEee-cCceEEeeeecC
Q 044527 349 LKTG------------------QVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVI-GKTIKRVGFWNP 406 (860)
Q Consensus 349 ~~~~------------------~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~-~~~~~~vG~~~~ 406 (860)
+..+ ...|..+.++|++++|+|++|++.| ++|++..+ .|+|++++ ..+|++||.|++
T Consensus 275 ~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~-~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 275 LLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNP-KLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred HHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccc-eEEEEEecCCCcceEEEEEcC
Confidence 7542 1236799999999999999999999 99999877 99999998 789999999975
No 28
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=2.1e-39 Score=357.95 Aligned_cols=351 Identities=13% Similarity=0.166 Sum_probs=281.2
Q ss_pred EEEEEEecCCc---chhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 44 HVGIILDMRSW---TGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 44 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
+||++.|.++. .|.....|+++|+++||++++++| ++|++++.|++|+|..|+..+++++.+++|.+||||.| |+
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~-S~ 79 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPAC-PE 79 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCC-Cc
Confidence 58999998764 367777999999999999999998 99999999999999999999999998779999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC---CCC-
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT---WGN- 190 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~---~g~- 190 (860)
.+.+++++++.+++|+|+++++++ .+++ +++|+.|++. .+++++++++++|+|++|++++++++ |+.
T Consensus 80 ~~~av~~va~~~~iP~is~~s~s~-~ls~~~~~~~~~r~~p~~~---~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~ 155 (391)
T cd06372 80 AAEVTGLLASQWNIPMFGFVGQTA-KLDNRFLYDTYVKLVPPKQ---KIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEV 155 (391)
T ss_pred HHHHHHHHHhccCccEEEeecCCc-cccccccCCceEEecCchh---hHHHHHHHHHHHCCCeEEEEEEeccccchhhhH
Confidence 999999999999999999999999 8875 7899999999 99999999999999999999986542 331
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
....+.+.+.++ .+++++....++ .+.+++...+.+.+++++|+||+++..+++..++++|.++||..++|+||.+
T Consensus 156 ~~~~~~~~~~~~-~~~~i~~~~~~~---~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~ 231 (391)
T cd06372 156 DELWKAVENQLK-FHFNITATVRYS---SSNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLL 231 (391)
T ss_pred HHHHHHHHHHHh-hCEEEEEEEecC---CCChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEe
Confidence 012334445553 678888877665 5567777777666678999999999999999999999999998778999996
Q ss_pred Chhhhh-ccc--C---cchhhcccCceeEEEEeccCC-chhHHHHHHHHHHHhhccCCCC----CCCCCChhHHHHhhHH
Q 044527 271 AATMNF-LHS--M---DSLVVESSMQGVVGFRRYVPT-SKELHNFTLRWRREMYLNNPNA----EVSELDAYGILAYDTV 339 (860)
Q Consensus 271 ~~~~~~-~~~--~---~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~----~~~~~~~~~~~~YDav 339 (860)
...... +.. . .....++ ..+++++.+..+. .+...+|.++|++++... |.. .......+++++||||
T Consensus 232 ~~~~~~~w~~~~~~~~~~~~~~~-~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~-p~~~~~~~~~~~~~~a~~~yDav 309 (391)
T cd06372 232 QQFEDNFWKEVLTDDQVQHLPKV-YESVFLIAPSSYGGYSGGYEFRKQVYQKLKRP-PFQSSLSSEEQVSPYSAYLHDAV 309 (391)
T ss_pred hhhcCccccccCCCcchHHHHHH-HhhEEEEecCCCCCCcchhHHHHHHHHHHhcC-CccccccccccchHHHHHHHHHH
Confidence 432211 110 0 0112234 5677777666543 356778888888877532 210 1113467899999999
Q ss_pred HHHHHHHHhhhcCCC---ChHHHHHHHH---hcccccceeeEEe-eCCeecCCccEEEEEeec----CceEEeeeecCC
Q 044527 340 WAVAKASEKLKTGQV---SDEIFYKQIV---NNRFRGLSGDFQF-VNGKLTSSREFEIVNVIG----KTIKRVGFWNPT 407 (860)
Q Consensus 340 ~~la~Al~~~~~~~~---~~~~l~~~l~---~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~----~~~~~vG~~~~~ 407 (860)
+++|+|++++...+. +|..+.+.|+ +++|+|++|++.| ++|+|.. .|.|++++. ...++||+|+..
T Consensus 310 ~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r~~--~y~i~~~~~~~~~~~~~~vg~~~~~ 386 (391)
T cd06372 310 LLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKRQM--DYSVYALQKSGNSSLFLPFLHYDSH 386 (391)
T ss_pred HHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCcce--eEEEEeccccCCccceeeEEEecch
Confidence 999999999655422 4789999999 6899999999999 9999988 899999974 348999999874
No 29
>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=8.4e-40 Score=352.49 Aligned_cols=318 Identities=20% Similarity=0.300 Sum_probs=273.6
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCC-CCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQ-GDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+||+++++ ..|...+.|+++|+|+||+++++++ ++|++++.|++ +++..+++.+|+++.+ +|.+||||.+ |+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~-~V~aiiG~~~-S~~~ 76 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQ-GVAAIFGPSS-SEAS 76 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhc-CcEEEECCCC-hhHH
Confidence 59999997 5578899999999999999999986 99999999998 9999999999999987 9999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc--ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS--YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFD 199 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~--~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~ 199 (860)
.+++++++.+++|+|+++++++ .++. ++||+.|++. .+++++++++++++|++|++++++++++. .+.+
T Consensus 77 ~av~~~~~~~~vP~Is~~~~~~-~~~~~~~~fr~~p~~~---~~~~a~~~~~~~~~w~~vavl~~~~~~~~-----~l~~ 147 (327)
T cd06382 77 SIVQSICDAKEIPHIQTRWDPE-PKSNRQFTINLYPSNA---DLSRAYADIVKSFNWKSFTIIYESAEGLL-----RLQE 147 (327)
T ss_pred HHHHHHHhccCCCceeccCCcC-ccccccceEEeCCCHH---HHHHHHHHHHHhcCCcEEEEEecChHHHH-----HHHH
Confidence 9999999999999999988887 7654 8999999999 99999999999999999999999987655 3455
Q ss_pred HHhhCCc---eEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhh
Q 044527 200 SLHDNDI---DIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNF 276 (860)
Q Consensus 200 ~~~~~g~---~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~ 276 (860)
.+++.+. .++. ..++ .+. |++.++.+|+++++|+|++.+..+++..++++|+++||..+.++|++++.....
T Consensus 148 ~~~~~~~~g~~v~~-~~~~---~~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~ 222 (327)
T cd06382 148 LLQAFGISGITITV-RQLD---DDL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHT 222 (327)
T ss_pred HHHhhccCCCeEEE-EEcc---CCc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccc
Confidence 5555554 4444 3444 444 999999999999999999999999999999999999999888999998776544
Q ss_pred cccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCCh
Q 044527 277 LHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSD 356 (860)
Q Consensus 277 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 356 (860)
.+... .... ..+++++..+.++++..++|.++|+++++...|+.....|+.+++.+|||++++
T Consensus 223 ~~l~~--~~~~-~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~-------------- 285 (327)
T cd06382 223 LDLED--YRYS-GVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF-------------- 285 (327)
T ss_pred cchhh--hccC-ceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe--------------
Confidence 32211 1122 457888888888889999999999999976544434445778999999999999
Q ss_pred HHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCc
Q 044527 357 EIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGI 410 (860)
Q Consensus 357 ~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~ 410 (860)
|+||.++| ++|+|.++ .|+|+++..+++++||.|++..++
T Consensus 286 -------------g~tG~v~f~~~g~r~~~-~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 -------------GLTGRIEFDSSGQRSNF-TLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred -------------ecccceeeCCCCCEeee-EEEEEeccccCceEEEEECCCCCc
Confidence 99999999 99999999 999999999999999999987764
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=1.3e-38 Score=346.27 Aligned_cols=349 Identities=20% Similarity=0.348 Sum_probs=278.9
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEE--EEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLI--LHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~--~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++|+.+...+ +.|+++|+++||++..++| ++|. +...|+ +|+..|..++|+++++ +|.|||||.+ +.+
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~~-gv~ai~Gp~~-~~~ 74 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMNQ-GILALVSSIG-CTS 74 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHhC-CeEEEECCCc-chH
Confidence 4899999988644 4699999999999998888 7444 588888 5999999999999976 8999999988 788
Q ss_pred HHHHHHhhcCCCCcEEec----ccCC-----Cccccc----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC
Q 044527 121 AQILADLGSRAKIPIISL----FTTL-----PNSLTS----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT 187 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~----~a~~-----~~~ls~----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~ 187 (860)
+..++.+|+.++||+|++ ++++ | .+++ |.+.+.|+ . .+++|+++++++|+|+++++++ +++
T Consensus 75 ~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~-~~~~~~~~y~~~~rp~-~---~~~~ai~~li~~f~W~~v~i~~-d~~ 148 (400)
T cd06391 75 AGSLQSLADAMHIPHLFIQRSTAGTPRSSCGL-TRSNRNDDYTLSVRPP-V---YLNDVILRVVTEYAWQKFIIFY-DTD 148 (400)
T ss_pred HHHHHHHhccCcCCeEEeecccccCccccCCC-CCCCCcccceEEecCh-H---HHHHHHHHHHHHcCCcEEEEEE-eCC
Confidence 899999999999999974 3332 3 3332 54555565 6 7889999999999999999865 466
Q ss_pred CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCCh---HHHHH-HHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 188 WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTH---DQIIE-KLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 188 ~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~---~~~~~-~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
||. ..++.+.+.+++.|+||..... . ....+ ..++. .++++++ ++.++||++|..+.+..++++|.++||.
T Consensus 149 ~~~-~~l~~l~~~~~~~~i~I~~~~~-~-~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~ 225 (400)
T cd06391 149 YDI-RGIQEFLDKVSQQGMDVALQKV-E-NNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLV 225 (400)
T ss_pred ccH-HHHHHHHHHHHHcCCeEEEEec-C-cchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCC
Confidence 888 8899999999999999987442 2 11110 12222 4456665 6779999999999999999999999999
Q ss_pred cCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhcc--CCCCC-CCCCChhHHHHhhH
Q 044527 262 SKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLN--NPNAE-VSELDAYGILAYDT 338 (860)
Q Consensus 262 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--~~~~~-~~~~~~~~~~~YDa 338 (860)
+.+|+||+++......+..+ ...+. ..|+.+++++.|.+....+|..+|..++... .|... ...+..+++++|||
T Consensus 226 ~~~y~wi~t~~~~~~~dl~~-~~~~~-~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDa 303 (400)
T cd06391 226 AFDCHWIIINEEISDMDVQE-LVRRS-IGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDT 303 (400)
T ss_pred CCCeEEEEeCccccccccch-HHhcc-cceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHH
Confidence 99999999999887766533 22344 6678889988888788888888888766432 22221 22356899999999
Q ss_pred HHHHHHHHHhhhc-----------CC-------CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEee-----
Q 044527 339 VWAVAKASEKLKT-----------GQ-------VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVI----- 394 (860)
Q Consensus 339 v~~la~Al~~~~~-----------~~-------~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~----- 394 (860)
|+++|+|++++.. +. ..|..|.++|+.++|+|+||+++| ++|+|.++ .|+|+++.
T Consensus 304 V~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~-~~dIin~~~~~~~ 382 (400)
T cd06391 304 VLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNV-HFEILGTNYGEDL 382 (400)
T ss_pred HHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCC-ceEEEEeeccccC
Confidence 9999999998631 11 128899999999999999999999 88999999 99999996
Q ss_pred cCceEEeeeecCCCCc
Q 044527 395 GKTIKRVGFWNPTTGI 410 (860)
Q Consensus 395 ~~~~~~vG~~~~~~~~ 410 (860)
+.++++||+|+|..|+
T Consensus 383 ~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 383 GRGVRKLGCWNPITGL 398 (400)
T ss_pred CCcceEEEEEcCCcCC
Confidence 7789999999998875
No 31
>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=1.8e-38 Score=347.18 Aligned_cols=336 Identities=15% Similarity=0.149 Sum_probs=270.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
+||++.|+||.. |...+.|+++|+|+||+++++++ +++++++.|++|++..++..+.++ +++|.+||||.| |.
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~~-S~ 77 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPVN-PG 77 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCCC-ch
Confidence 599999998854 78889999999999999999865 999999999999988887655443 358999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~ 194 (860)
++.+++.+++.++||+|++++++| .+++ +|+|+.|++. +++++++++|+|++|++|+++++|+. ...
T Consensus 78 ~~~a~a~va~~~~iP~Is~~a~~~-~lt~~~~y~~f~r~~~~~~------~~~~~~~~~~~w~~vaii~~~~~~~~-~~~ 149 (382)
T cd06371 78 YCEAAALLAKEWDKALFSWGCVNY-ELDDVRSYPTFARTLPSPS------RVLFTVLRYFRWAHVAIVSSPQDIWV-ETA 149 (382)
T ss_pred HHHHHHHHHHhcCceEEecccCch-hhcCcccCCCceecCCCcH------HHHHHHHHHCCCeEEEEEEecccchH-HHH
Confidence 999999999999999999999998 8884 7889988764 56888999999999999999999998 899
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCC-CeEEEEEeCH-----HHHHHHHHHHHHcCCccCCeEEE
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLD-TKVFVVHMTH-----ALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~viil~~~~-----~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+.+.+.+++.|++|+..+.++ .+..|++++|++|++.+ +|+||+++.. .++..+++||+++||+..+|+||
T Consensus 150 ~~l~~~l~~~gi~v~~~~~~~---~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i 226 (382)
T cd06371 150 QKLASALRAHGLPVGLVTSMG---PDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFI 226 (382)
T ss_pred HHHHHHHHHCCCcEEEEEEec---CCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEE
Confidence 999999999999999877776 67789999999999987 6999998865 78889999999999998899999
Q ss_pred ecChhhhh-------ccc--CcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCC-CCCCCChhHHHHhhH
Q 044527 269 ATAATMNF-------LHS--MDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNA-EVSELDAYGILAYDT 338 (860)
Q Consensus 269 ~~~~~~~~-------~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~~~YDa 338 (860)
.++..... ... .+.+..++ .++++.+....+..+..++|.+.|+.. ..|.. ....+..+++++|||
T Consensus 227 ~~d~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~YDa 302 (382)
T cd06371 227 PYDTLLYSLPYRNVSYPALRNNSKLRRA-YDAVLTITMDSGEQSFYEAFRAAQERG---EIPSDLEPEQVSPLFGTIYNS 302 (382)
T ss_pred EeccccccCCCCCccccCCCCCHHHHHH-hHhhEEEEecCCCCcHHHHHHHHHhcC---CCCCCCCccccchhHHHHHHH
Confidence 88753211 010 11222244 667777766654444455555443211 11110 111234566789999
Q ss_pred HHHHHHHHHhhhcC--CCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceE
Q 044527 339 VWAVAKASEKLKTG--QVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIK 399 (860)
Q Consensus 339 v~~la~Al~~~~~~--~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~ 399 (860)
++++|.|+++++.. ..++.++.++|++++|+|++|+++| ++|++.. .|.|+++.+.+++
T Consensus 303 v~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~~~--~~~v~~~~~~~~~ 364 (382)
T cd06371 303 IYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGGQA--PYVVLDTDGKGDQ 364 (382)
T ss_pred HHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCccc--ceEEEecCCCCCe
Confidence 99999999999643 1237899999999999999999999 9999876 8999999876654
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=4e-39 Score=339.75 Aligned_cols=321 Identities=16% Similarity=0.274 Sum_probs=263.7
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHH-HHHHHHHHhhccCCeEEEEecCCChh-H
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPF-HALTTASNLMQNVDLQAIICIGMTPT-G 120 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~-~a~~~~~~li~~~~v~aviGp~~~s~-~ 120 (860)
+||++++.....|+....|+++|++++|+++++++ .+|++++.|+..++. .+..++|+++++ +|.|||||.+ |. +
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~-gV~AIiGp~s-s~~~ 78 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPK-GVVSVLGPSS-SPAS 78 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhc-CeEEEECCCC-chHH
Confidence 48999999998999999999999999999999998 699999999988775 778889999965 9999999999 75 4
Q ss_pred HHHHHHhhcCCCCcEEecccCC-Cccccc--c-eEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTL-PNSLTS--Y-SIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~-~~~ls~--~-~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 196 (860)
+.+++++|+..+||+|+++... | .+.. + ..++.|++. .+++|+++++++|+|++|++||+++++- ..
T Consensus 79 ~~~v~~i~~~~~VP~Is~~~~~~~-~~~~~~~~~i~l~P~~~---~~~~Ai~dli~~~~W~~v~~iYe~d~~l-----~~ 149 (333)
T cd06394 79 SSIVSHICGEKEIPHFKVGPEETP-KLQYLRFASVNLHPSNE---DISVAVAGILNSFNYPTASLICAKAECL-----LR 149 (333)
T ss_pred HHHHHHHhhccCCceEEeccccCc-ccccccceEEEecCCHH---HHHHHHHHHHHhcCCCEEEEEEeCcHHH-----HH
Confidence 6799999999999999987443 3 3333 3 679999999 9999999999999999999999999753 34
Q ss_pred HHHHHhhCCc---eEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChh
Q 044527 197 LFDSLHDNDI---DIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAAT 273 (860)
Q Consensus 197 l~~~~~~~g~---~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 273 (860)
+++.++..+. .+.... ..++.|++++|++|+++++++||+.|..+.+..++++|+++||..+.|+|++|+..
T Consensus 150 L~~~l~~~~~~~~~i~~~~-----~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~ 224 (333)
T cd06394 150 LEELLRQFLISKETLSVRM-----LDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMD 224 (333)
T ss_pred HHHHHHhhcccCCceeeEE-----ccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCC
Confidence 5555544332 222211 13467899999999999999999999999999999999999999999999999988
Q ss_pred hhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC
Q 044527 274 MNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ 353 (860)
Q Consensus 274 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 353 (860)
....+..+. ... ..++++|+..+++.|..++|+++|++.+.+......-......++.+||||+++
T Consensus 225 ~~~~~L~~~--~~~-~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------- 290 (333)
T cd06394 225 FPLLRLDSI--VDD-RSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------- 290 (333)
T ss_pred cccccHHHh--hcC-CcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------
Confidence 764332221 122 557899999999999999999999887632111000011234689999999988
Q ss_pred CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCce
Q 044527 354 VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGIT 411 (860)
Q Consensus 354 ~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~~ 411 (860)
|+||+|+| ++|+|.++ .++|++++..+.++||+|++..|+.
T Consensus 291 ----------------glTg~i~f~~~g~R~~~-~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 ----------------GLTGRIEFNSKGQRSNY-TLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred ----------------eeecceecCCCCcCccc-EEEEEEecCCcceEEEEEeCCCCcC
Confidence 89999999 99999999 9999999999999999999988764
No 33
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2.4e-37 Score=344.23 Aligned_cols=378 Identities=20% Similarity=0.302 Sum_probs=323.2
Q ss_pred CceEEEEEEEecCCc-------------chhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhcc
Q 044527 40 SDEVHVGIILDMRSW-------------TGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQN 105 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~-------------~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~ 105 (860)
+++|.||++||.+.. .|.+...|+.+|+||||+ +.++| .||++.+.|+|.++..|+++..+++.+
T Consensus 29 ~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~~ 107 (878)
T KOG1056|consen 29 PGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSFVRA 107 (878)
T ss_pred CCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHHHHh
Confidence 789999999998741 267788999999999999 99999 999999999999999999999988754
Q ss_pred ----------------CCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHH
Q 044527 106 ----------------VDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQA 164 (860)
Q Consensus 106 ----------------~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~ 164 (860)
..|.+||||.. |..+.+++.+..-+.||||+|++++| .+++ ||.|++|+|. .|+
T Consensus 108 ~~~~~~~e~~c~~g~sp~v~~VIG~s~-Ssvsi~vanlLrlf~ipQisyaSts~-~LSdk~ry~~F~RtVP~D~---~Qa 182 (878)
T KOG1056|consen 108 SLTSDDSEVRCPDGYSPPVVAVIGPSY-SSVSIAVANLLRLFLIPQISYASTSP-DLSDKTRYDYFLRTVPSDV---FQA 182 (878)
T ss_pred cccCCCcceecCCCCCCceeEEeCCCC-chHHHHHHHHHHhhcCceeccccCCc-ccccchhhhceeeecCChH---HHH
Confidence 46899999999 99999999999999999999999999 9998 8999999999 999
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc-CCCeEEEEEe
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS-LDTKVFVVHM 243 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~viil~~ 243 (860)
+||++++++|+|++|..++++++||+ ...++|.+..+++|+||...+.++ ....+..+...++++.+ .+++++|+++
T Consensus 183 ~Am~~il~~f~W~yVstv~s~~dYGE-~Gieaf~~~a~~~~iCIa~s~ki~-~~~~~~~~~~~l~kl~~~~~a~vvV~F~ 260 (878)
T KOG1056|consen 183 QAMVDILKKFNWNYVSTVASEGDYGE-SGIEAFKEEAAERGICIAFSEKIY-QLSIEQEFDCVLRKLLETPNARVVVVFC 260 (878)
T ss_pred HHHHHHHHHhCeeEeeehhcCccchh-hhHHHHHHhHHhcCceEEehhhcc-cccchhHHHHHHHHHhhcCCCeEEEEec
Confidence 99999999999999999999999999 999999999999999999987766 55567889999998876 8999999999
Q ss_pred CHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHH--------------
Q 044527 244 THALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFT-------------- 309 (860)
Q Consensus 244 ~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~-------------- 309 (860)
.++++..++++|..+++++ .++|+.+++|....+....... . .+|.+++....+..+.+++|.
T Consensus 261 ~~~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~~~e~-~-a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~ 337 (878)
T KOG1056|consen 261 RGEDARRLLKAARRANLTG-EFLWIASDGWASQNSPTEAPER-E-AEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWF 337 (878)
T ss_pred CcchHHHHHHHHHHhCCCc-ceEEEecchhhccCChhhhhhh-h-hceeEEEEecCCcchhHHHHHHhcCccccccCccc
Confidence 9999999999999999854 5899999998864433322222 3 789999999887777777765
Q ss_pred -HHHHHHhhccCCCCC------------C---CCC-----ChhHHHHhhHHHHHHHHHHhhhcCCC-------------C
Q 044527 310 -LRWRREMYLNNPNAE------------V---SEL-----DAYGILAYDTVWAVAKASEKLKTGQV-------------S 355 (860)
Q Consensus 310 -~~~~~~~~~~~~~~~------------~---~~~-----~~~~~~~YDav~~la~Al~~~~~~~~-------------~ 355 (860)
+.|.+.+.|+.++.. . ... ..-....+|||+++|+||+.+..+.. +
T Consensus 338 ~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~~d 417 (878)
T KOG1056|consen 338 AEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKAID 417 (878)
T ss_pred chhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCccccC
Confidence 567777778766321 0 000 12357889999999999999864321 3
Q ss_pred hHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecC----ceEEeeeecCCCCceeeccccccccccccccCCC
Q 044527 356 DEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGK----TIKRVGFWNPTTGITKEMNSSVFINKMDTISSTS 430 (860)
Q Consensus 356 ~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~----~~~~vG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 430 (860)
|.+|.++++++.|.+..|.+.| ++||... .|+|++++.. .+..+|+|.+...+
T Consensus 418 g~~L~~~l~~vnF~~~~~~v~Fd~~gD~~~--~y~I~~~~~~~~~~~y~~vg~w~~~~~l-------------------- 475 (878)
T KOG1056|consen 418 GSLLLKYLLNVNFTGPAGSVRFDENGDGPG--RYDILNYQLTNGSYTYKEVGYWSEGLSL-------------------- 475 (878)
T ss_pred HHHHHhhhheeEEecCCCceeecCCCCCcc--ceeEEEeeccCCCccceeeeeecccccc--------------------
Confidence 8999999999999999999999 9999999 8999999832 58999999986542
Q ss_pred CCCCcceeecCCCCCCCCCcccC
Q 044527 431 PNDELEVIIWPGGSAAIPAGVGK 453 (860)
Q Consensus 431 ~~~~~~~i~w~~~~~~~p~~~~~ 453 (860)
+...+.|.++..+.|++.|+
T Consensus 476 ---~i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 476 ---NIEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred ---cceeeeeccCCCCCcccccc
Confidence 33568999999999999998
No 34
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=6e-37 Score=338.50 Aligned_cols=353 Identities=15% Similarity=0.169 Sum_probs=274.5
Q ss_pred EEEEEEecCCc-c---hhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHH----HHHHHHhhccCCeEEEEec
Q 044527 44 HVGIILDMRSW-T---GKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHA----LTTASNLMQNVDLQAIICI 114 (860)
Q Consensus 44 ~IG~l~~~~~~-~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a----~~~~~~li~~~~v~aviGp 114 (860)
+||+++|.+.. . -.....|+++|+|+||+++++++ ++|+++++|+++++..+ ...+..+...+++.+||||
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 47888876543 1 24466799999999999998755 99999999986664433 3223222122478899999
Q ss_pred CCChhHHHHHHHhhcCCCCcEEecccCCCccccc------ceEeecCCCchhHHHHHHHHHHHhhCCCc-EEEEEEecCC
Q 044527 115 GMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS------YSIQIDQDDEASQSQARGISDFISVFKWK-EVILIHEDNT 187 (860)
Q Consensus 115 ~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~------~~~r~~p~~~~~~~~~~ai~~~l~~~~w~-~v~ii~~~~~ 187 (860)
.| |.++.+++.+++.++||+|+++++++ .+++ ++||+.|++. .++.++..++++|+|+ ++++||.++.
T Consensus 81 ~~-S~~~~av~~i~~~~~iP~Is~~at~~-~ls~~~~~y~~~fR~~p~~~---~~~~~~~~i~~~~~w~~~vaiiy~~~~ 155 (399)
T cd06384 81 GC-VYPTASVARFATHWRLPLITAGAPAF-GFSNKTDEYRTTVRTGPSTT---KLGEFVNHLHEHFNWTSRAALLYLDLK 155 (399)
T ss_pred CC-chHHHHHHHHHhhcCCcEEeeccchh-hhccccccCCceEEecCcHH---HHHHHHHHHHHhCCCcEEEEEEEecCC
Confidence 99 99999999999999999999999988 7764 4999999999 9999988999999999 6889987643
Q ss_pred CCCc---CCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 188 WGND---NTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 188 ~g~~---~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
.+.. ...+.+.+.+++.|++|+....+. .+.+|+.++++++++ ++|+|++++..+++..+++||++.||+.++
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~---~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~ 231 (399)
T cd06384 156 TDDRPHYFISEGVFLALQEENANVSAHPYHI---EKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGD 231 (399)
T ss_pred ccCCcceEehHHHHHHHHhcCceEEEEEEec---cchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCc
Confidence 3210 135678888899999999865544 567899999999997 899999999999999999999999999999
Q ss_pred eEEEecChhhhhc------cc-------CcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCC-CCCCCCh
Q 044527 265 YVWIATAATMNFL------HS-------MDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNA-EVSELDA 330 (860)
Q Consensus 265 ~~~i~~~~~~~~~------~~-------~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~ 330 (860)
|+||..+...... .. ......++ +++++.+..+.+.++.+++|.++|++++...+... .......
T Consensus 232 y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~ 310 (399)
T cd06384 232 YVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEA-FKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNF 310 (399)
T ss_pred EEEEEehhcccccccCCCCccccCCCCcccHHHHHH-HhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhh
Confidence 9999876533211 10 01223335 77888888888888889999999987543221100 0012366
Q ss_pred hHHHHhhHHHHHHHHHHhhhcC---CCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEE---EEeecCceEEeee
Q 044527 331 YGILAYDTVWAVAKASEKLKTG---QVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEI---VNVIGKTIKRVGF 403 (860)
Q Consensus 331 ~~~~~YDav~~la~Al~~~~~~---~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i---~~~~~~~~~~vG~ 403 (860)
+++++||||++++.|++++... ..++.++.++|++.+|+|++|++.| ++|+|.. .|.+ .++++++++++|+
T Consensus 311 ~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~~--~~~~~~~~~~~~g~~~~v~~ 388 (399)
T cd06384 311 IAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRDI--DFDLWAMTDHETGKYEVVAH 388 (399)
T ss_pred hhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCccc--ceEEEEeecCCCCeEEEEEE
Confidence 7999999999999999998322 1247899999999999999999999 9999987 6777 3557889999999
Q ss_pred ecCCC
Q 044527 404 WNPTT 408 (860)
Q Consensus 404 ~~~~~ 408 (860)
|+..+
T Consensus 389 ~~~~~ 393 (399)
T cd06384 389 YNGIT 393 (399)
T ss_pred EcCCC
Confidence 98744
No 35
>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=2.1e-37 Score=333.95 Aligned_cols=319 Identities=21% Similarity=0.340 Sum_probs=273.6
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecC-CCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDS-QGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~-~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+||++++.++ .....|+++|+++||++++++| .++++.+.|+ .+++..+++.+|+|+. ++|.+||||.+ |..+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~-S~~~ 75 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSS-SSSA 75 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCC-HHHH
Confidence 5999999998 6789999999999999999998 7999999997 5999999999999998 69999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDS 200 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~ 200 (860)
.+++++++.++||+|+++++++ .+++ +.+++.|++. .++.++++++++++|++|++++++++++. ..+.+.+.
T Consensus 76 ~av~~i~~~~~ip~is~~~~~~-~~~~~~~~~~~~~~~---~~~~a~~~~~~~~~w~~vaii~~~~~~~~--~l~~~~~~ 149 (324)
T cd06368 76 NTVQSICDALEIPHITTSWSPN-PKPRQFTINLYPSMR---DLSDALLDLIKYFGWRKFVYIYDSDEGLL--RLQELLDA 149 (324)
T ss_pred HHHHHHHhccCCCcEEecCCcC-CCCCcceEEecCCHH---HHHHHHHHHHHhcCCCEEEEEECCcHhHH--HHHHHHHh
Confidence 9999999999999999999998 8765 6677778888 89999999999999999999998876554 45667777
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccC
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSM 280 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 280 (860)
+++.|++++.....+ ..+|+++++.+++++++|+|++.+..+++..++++|.++||..+.++|++++......+.
T Consensus 150 ~~~~g~~v~~~~~~~----~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~- 224 (324)
T cd06368 150 LSPKGIQVTVRRLDD----DTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL- 224 (324)
T ss_pred hccCCceEEEEEecC----CchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch-
Confidence 888899998765433 333899999999999999999999999999999999999998889999998765533211
Q ss_pred cchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCChHHHH
Q 044527 281 DSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSDEIFY 360 (860)
Q Consensus 281 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~l~ 360 (860)
...... ..++.++....+++|..++|.++|+++++...|......|..+++.+||||+++
T Consensus 225 -~~~~~~-~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------------ 284 (324)
T cd06368 225 -ELFRYG-GVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------------ 284 (324)
T ss_pred -hhhhcC-CceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe------------------
Confidence 112222 456778878888889999999999998876444333345788999999999988
Q ss_pred HHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCceEEeeeecCCCCc
Q 044527 361 KQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRVGFWNPTTGI 410 (860)
Q Consensus 361 ~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~vG~~~~~~~~ 410 (860)
||+++| ++|+|.++ .++|+++..++++++|.|++..++
T Consensus 285 -----------tg~~~f~~~g~~~~~-~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------TGRIQFDENGQRSNF-TLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------eeeeEeCCCCcCcce-EEEEEEEcCCCceEEEEECCCCCC
Confidence 899999 99999999 999999999999999999987654
No 36
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=3.7e-36 Score=327.30 Aligned_cols=331 Identities=15% Similarity=0.185 Sum_probs=282.1
Q ss_pred CceEEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCC
Q 044527 40 SDEVHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGM 116 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 116 (860)
.++|+||++.|+||+. |.....|+++|+++||+.+++++++|++++.|++++|..+++.+.+|++ ++|.+|+|+.+
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 ADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVVN-DGIKYVIGHLC 101 (369)
T ss_pred CCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHHh-CCceEEEcCCC
Confidence 4579999999999964 8889999999999999999999999999999999999999999999997 59999999999
Q ss_pred ChhHHHHHHHhhcCCCCcEEecccCCCccccc----ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCc
Q 044527 117 TPTGAQILADLGSRAKIPIISLFTTLPNSLTS----YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGND 191 (860)
Q Consensus 117 ~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~----~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~ 191 (860)
|..+.+++++++..++|+|++.+++| .+++ ++||+.+.+. .+++++++++ ++++|+++++|++|+.||+
T Consensus 102 -s~~~~a~~~~~~~~~ip~i~~~s~~~-~l~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~k~va~i~~d~~~g~- 175 (369)
T PRK15404 102 -SSSTQPASDIYEDEGILMITPAATAP-ELTARGYQLIFRTIGLDS---DQGPTAAKYILEKVKPKRIAVLHDKQQYGE- 175 (369)
T ss_pred -chhHHHhHHHHHHCCCeEEecCCCCH-HHhcCCCceEEeCCCCcH---HHHHHHHHHHHHhcCCCEEEEEeCCCchhH-
Confidence 88999999999999999999998888 8764 8999999999 9999999976 4579999999999999999
Q ss_pred CCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 192 NTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 192 ~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
...+.+++.+++.|++++....++ .+.+|+.+++.+++++++|+|++.+...++..+++++++.|+. ..|+.++
T Consensus 176 ~~~~~~~~~~~~~G~~v~~~~~~~---~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~---~~~i~~~ 249 (369)
T PRK15404 176 GLARSVKDGLKKAGANVVFFEGIT---AGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLK---TQFMGPE 249 (369)
T ss_pred HHHHHHHHHHHHcCCEEEEEEeeC---CCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCC---CeEEecC
Confidence 999999999999999999887777 6788999999999999999999888888999999999999973 3466554
Q ss_pred hhhhhcccCcchhhcccCceeEEEEec-cCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhh
Q 044527 272 ATMNFLHSMDSLVVESSMQGVVGFRRY-VPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLK 350 (860)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~ 350 (860)
..... . +.....+. .+|++...++ ...+|..++|.+.|+++++. .+..++..+||++++++.|+++++
T Consensus 250 ~~~~~-~-~~~~~~~~-~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~Y~~~~~l~~Al~~aG 318 (369)
T PRK15404 250 GVGNK-S-LSNIAGPA-SEGMLVTLPKRYDQDPANKAIVDAFKAKKQD--------PSGPFVWTTYAAVQSLAAGINRAG 318 (369)
T ss_pred cCCCH-H-HHHhhhhh-hcCcEEEccCCCccChhHHHHHHHHHHhcCC--------CCccchHHHHHHHHHHHHHHHhhC
Confidence 32211 0 11111233 5677665443 23457889999999887532 234578899999999999999998
Q ss_pred cCCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCc
Q 044527 351 TGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKT 397 (860)
Q Consensus 351 ~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~ 397 (860)
..+ ++.|.++|++.+|+|++|++.| ++|+.... .|.|++|++++
T Consensus 319 ~~~--~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~-~~~i~~~~~~~ 363 (369)
T PRK15404 319 SDD--PAKVAKYLKANTFDTVIGPLSWDEKGDLKGF-EFGVFEWHADG 363 (369)
T ss_pred CCC--HHHHHHHHHhCCCCcceEeeEECCCCCcccC-CEEEEEEEcCC
Confidence 654 6899999999999999999999 88988766 99999988655
No 37
>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=4.8e-36 Score=320.60 Aligned_cols=300 Identities=16% Similarity=0.184 Sum_probs=260.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
|||++.|++|+. |+....|+++|+++||+++++++++|+++++|++++|..+++.+++|+.+++|.+|+||.+ |..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~-s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAAC-SGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEcccc-chh
Confidence 699999999964 8889999999999999999998899999999999999999999999999889999999999 999
Q ss_pred HHHH-HHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCH
Q 044527 121 AQIL-ADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 121 ~~~~-~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~ 194 (860)
+.++ ++++++.++|+|+++++++ .+++ ++||+.|++. .++.++++++.+++|+++++++.+++||+ +..
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~-~l~~~~~~~~~fr~~~~~~---~~~~~l~~~~~~~~~~~vail~~~~~~g~-~~~ 154 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSP-TLTTLDDNGLFFRTAPSDA---LQGQALAQLAAERGYKSVATTYINNDYGV-GLA 154 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCc-cceecCCCceEEEecCCcH---HHHHHHHHHHHHcCCCeEEEEEccCchhh-HHH
Confidence 9999 8999999999999998888 7764 8999999999 99999999999999999999999999999 999
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhh
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATM 274 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 274 (860)
+.+++.+++.|++|+....++ .+.+|+.+++.+++++++|+|++.+.+.++..+++++++.|+. ..|+.++...
T Consensus 155 ~~~~~~~~~~G~~vv~~~~~~---~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~---~~~~~~~~~~ 228 (312)
T cd06346 155 DAFTKAFEALGGTVTNVVAHE---EGKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLF---DKFLLTDGMK 228 (312)
T ss_pred HHHHHHHHHcCCEEEEEEeeC---CCCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCC---CceEeecccc
Confidence 999999999999999988877 7789999999999999999999999999999999999999973 3356554422
Q ss_pred hhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC
Q 044527 275 NFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV 354 (860)
Q Consensus 275 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 354 (860)
.. ........+. .+|+++..+..+ .+..++|.++|+++|+. .|+.+++.+||+++++++|
T Consensus 229 ~~-~~~~~~~~~~-~~g~~~~~~~~~-~~~~~~f~~~~~~~~g~--------~p~~~~~~~Yd~~~~l~~A--------- 288 (312)
T cd06346 229 SD-SFLPADGGYI-LAGSYGTSPGAG-GPGLEAFTSAYKAAYGE--------SPSAFADQSYDAAALLALA--------- 288 (312)
T ss_pred Ch-HHHHhhhHHH-hCCcEEccCCCC-chhHHHHHHHHHHHhCC--------CCCccchhhHHHHHHHHHH---------
Confidence 11 1111111223 567776655443 38899999999999875 2567889999999999999
Q ss_pred ChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEE
Q 044527 355 SDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEI 390 (860)
Q Consensus 355 ~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i 390 (860)
|.|++|++.| ++|++.. .|+-
T Consensus 289 -------------~~g~~g~~~f~~~g~~~~--~~~~ 310 (312)
T cd06346 289 -------------YQGASGVVDFDENGDVAG--SYDE 310 (312)
T ss_pred -------------hCCCccceeeCCCCCccc--ceee
Confidence 8999999999 9998877 5653
No 38
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=4.7e-35 Score=314.93 Aligned_cols=332 Identities=14% Similarity=0.213 Sum_probs=254.4
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
+||++|+.+... .+..-++.+|++++|++++..+..+.++.+|+.+||.+|++++|+|+++ +|.|||||.+ |.++.+
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~-gV~AI~G~~~-s~~~~a 77 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTSTG-CASAIA 77 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecCC-hhHHHH
Confidence 599999987543 3344555666677788777666778889999999999999999999998 9999999999 999999
Q ss_pred HHHhhcCCCCcEEecccC---CCc---------ccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCc
Q 044527 124 LADLGSRAKIPIISLFTT---LPN---------SLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGND 191 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~---~~~---------~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~ 191 (860)
++++++..+||+|++.+. +|. ....|.|++.|+ . .++.++++++++++|++|+++|++++ |.
T Consensus 78 v~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~-~---~~~~ai~~lv~~~~wkkvavly~~d~-g~- 151 (363)
T cd06381 78 LQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPP-V---RLNDVMLRLVTEWRWQKFVYFYDNDY-DI- 151 (363)
T ss_pred HHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEecc-H---HHHHHHHHHHHhCCCeEEEEEEECCc-hH-
Confidence 999999999999997532 210 111266777776 5 67899999999999999999999886 44
Q ss_pred CCHHHHHHHHhhCCceEeEEEeccCCCCC-hHHHHHHHHhhh-------cCCCeEEEEEeCHHHHHHHHHHHHHcCCccC
Q 044527 192 NTIPYLFDSLHDNDIDIARRTSISLASST-HDQIIEKLSMLK-------SLDTKVFVVHMTHALASHLFLNAKKLGMMSK 263 (860)
Q Consensus 192 ~~~~~l~~~~~~~g~~i~~~~~~~~~~~~-~~~~~~~l~~i~-------~~~~~viil~~~~~~~~~il~~a~~~gl~~~ 263 (860)
...+.+.+.+++.|+.++... .. .+ ...+...++.++ +.+.++||+.|.++.+..++++|.++||+..
T Consensus 152 ~~l~~~~~~~~~~g~~v~~~~-~~---~~~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~ 227 (363)
T cd06381 152 RGLQEFLDQLSRQGIDVLLQK-VD---LNISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIK 227 (363)
T ss_pred HHHHHHHHHHHhcCceEEEEe-cc---cccchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcC
Confidence 466778888999998766432 22 22 223344443332 4566689999999999999999999999988
Q ss_pred CeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHH----HHHHHHHHHhhccCCCCCCCCCChhHHHHhhHH
Q 044527 264 GYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELH----NFTLRWRREMYLNNPNAEVSELDAYGILAYDTV 339 (860)
Q Consensus 264 ~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav 339 (860)
+|+|++++.+..... ........ ..|+++|+...+..+..+ ++.+.|+..+... |+ ....+...++++||||
T Consensus 228 ~~~wi~~~~l~~~~~-~l~~~~~~-~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~al~yDaV 303 (363)
T cd06381 228 DSHWFLINEEISDTE-IDELVRYA-HGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPK-DG-YLQMLEISNLYIYDSV 303 (363)
T ss_pred ceEEEEeccccccch-hhHHHhhc-CccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCC-CC-CCCChhHHHHHHHHHH
Confidence 999987666543211 11223344 789999999988776666 4455554433222 22 2225677899999999
Q ss_pred HHHHHHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCc-----eEEeeeecCCCCc
Q 044527 340 WAVAKASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKT-----IKRVGFWNPTTGI 410 (860)
Q Consensus 340 ~~la~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~-----~~~vG~~~~~~~~ 410 (860)
+++ .++|+.++|+|+||+++| ++|+|.++ .++|+++...+ .+++|+|+|..++
T Consensus 304 ~~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~-~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 304 LLL-----------------LETIKKGPITGLTGKLEFNEGGDNSNV-QFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred HHH-----------------HHHHHhcCccCcceeEEeCCCCCcccc-EEEEEEeccCCccccceEEeeeccCCCCC
Confidence 999 788999999999999999 99999999 99999998554 7889999997764
No 39
>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=5.6e-35 Score=316.81 Aligned_cols=323 Identities=18% Similarity=0.225 Sum_probs=278.6
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |.+...|+++|++++|+++++.++++++++.|++|+|..+++.+.+++++ +|.+|+||.+ |..
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~-s~~ 78 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLN-SGV 78 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCCc-cHh
Confidence 599999999965 88999999999999999999888999999999999999999999999998 9999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc----ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS----YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~----~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
+.+++++++..+||+|+++++++ .+++ ++||+.|++. .++.++++++ ++++|++|++++++++||+ ...+
T Consensus 79 ~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~-~~~~ 153 (334)
T cd06342 79 TIPASPIYADAGIVMISPAATNP-KLTERGYKNVFRVVARDD---QQGPAAAKYAVETLKAKKVAIIDDKTAYGQ-GLAD 153 (334)
T ss_pred HHHhHHHHHhCCCeEEecCCCCc-hhhcCCCceEEeccCCcH---HHHHHHHHHHHHhcCCCEEEEEeCCcchhh-HHHH
Confidence 99999999999999999988766 6654 8999999999 9999999986 5789999999999999999 9999
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.+++.|++|+....++ .+..++...+.+++++++++|++.+..+++..+++++.+.|+. ..|+.++....
T Consensus 154 ~~~~~~~~~g~~v~~~~~~~---~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~ 227 (334)
T cd06342 154 EFKKALKAAGGKVVAREGTT---DGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCD 227 (334)
T ss_pred HHHHHHHHcCCEEEEEecCC---CCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCC
Confidence 99999999999999988776 6678999999999999999999999999999999999999973 35665543221
Q ss_pred hcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ 353 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 353 (860)
. . ......+. .+|++...++.+ +++..++|.++|.++++. .++.++..+||+++++++|+++++..+
T Consensus 228 ~-~-~~~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~al~~~~~~~ 296 (334)
T cd06342 228 P-E-FIKIAGDA-AEGTYATFPGGPLEKMPAGKAFVARYKAKFGD--------PPGAYAPYAYDAANVLAEAIKKAGSTD 296 (334)
T ss_pred H-H-HHHHhhHh-hCCcEEEecCCCCCCChHHHHHHHHHHHHhCC--------CCchhHHHHHHHHHHHHHHHHHhCCCC
Confidence 1 1 11111123 566666655554 468899999999988754 245789999999999999999986433
Q ss_pred CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEe
Q 044527 354 VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNV 393 (860)
Q Consensus 354 ~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~ 393 (860)
++.+.++|++.+|+|++|+++| ++|++..+ .|+|+||
T Consensus 297 --~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~-~~~~~~~ 334 (334)
T cd06342 297 --PAKVADALRKVDFDGVTGKISFDAKGDLKGA-AVTVYQV 334 (334)
T ss_pred --HHHHHHHHHhCCCCCcceeeEECCCCCcccC-cEEEEeC
Confidence 6899999999999999999999 99999998 9999885
No 40
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.9e-35 Score=318.43 Aligned_cols=323 Identities=15% Similarity=0.186 Sum_probs=274.0
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCC----cccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCC
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTH----CKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGM 116 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~----l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 116 (860)
+||+++|+||+. |+....|+++|+++||+++++ .+++|+++++|++++|..+++.+++|+++++|.+||||.+
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 599999999865 888999999999999998765 5699999999999999999999999999889999999999
Q ss_pred ChhHHHHHHHhhcCCCCcEEecccCCCcccc-c---ceEeecCCCchhHHHHHHHHHHHhhCC--CcEEEEEEecCCCCC
Q 044527 117 TPTGAQILADLGSRAKIPIISLFTTLPNSLT-S---YSIQIDQDDEASQSQARGISDFISVFK--WKEVILIHEDNTWGN 190 (860)
Q Consensus 117 ~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls-~---~~~r~~p~~~~~~~~~~ai~~~l~~~~--w~~v~ii~~~~~~g~ 190 (860)
|..+.+++++++..++|+|+++++++ .++ + ++||+.|++. .++.++++++++++ |+++++++.+++||+
T Consensus 81 -s~~~~a~~~~~~~~~vp~i~~~~~~~-~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~ 155 (345)
T cd06338 81 -SGLTLAAAPVAEKYGVPMVAGSGASD-SIFAQGFKYVFGTLPPAS---QYAKSLLEMLVALDPRPKKVAILYADDPFSQ 155 (345)
T ss_pred -chhHHHHHHHHHHhCCcEEecCCCCc-hHhhcCCceEEEecCchH---HHHHHHHHHHHhcCCCCceEEEEecCCcccH
Confidence 99999999999999999999998887 665 3 9999999999 99999999999887 999999999999999
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
...+.+++.+++.|++|+....++ .+.+|+++++++|++.++|+|++.+...++..+++++++.|+..+ ..+...
T Consensus 156 -~~~~~~~~~~~~~g~~v~~~~~~~---~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~ 230 (345)
T cd06338 156 -DVAEGAREKAEAAGLEVVYDETYP---PGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYMTV 230 (345)
T ss_pred -HHHHHHHHHHHHcCCEEEEEeccC---CCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEEec
Confidence 999999999999999999877766 667899999999999999999999999999999999999998532 333222
Q ss_pred Chhhh-hcccCcchhhcccCceeEEEEeccCC-------chhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHH
Q 044527 271 AATMN-FLHSMDSLVVESSMQGVVGFRRYVPT-------SKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAV 342 (860)
Q Consensus 271 ~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~l 342 (860)
..... ... ...++ ..|+++...+.+. .|..++|.++|+++|+.. |..++..+||+++++
T Consensus 231 ~~~~~~~~~----~~g~~-~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------p~~~~~~~y~a~~~~ 297 (345)
T cd06338 231 GPAFPAFVK----ALGAD-AEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGKA--------PDYHAAGAYAAGQVL 297 (345)
T ss_pred CCCcHHHHH----HHhhh-hCceeecceeccCcccccccCccHHHHHHHHHHHhCCC--------CCcccHHHHHHHHHH
Confidence 21111 111 11122 4566666555443 377899999999988752 456788999999999
Q ss_pred HHHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEe
Q 044527 343 AKASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNV 393 (860)
Q Consensus 343 a~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~ 393 (860)
++|+++++..+ ++.+.++|++++|+|++|++.| ++|++.. .+.+++|
T Consensus 298 ~~a~~~ag~~~--~~~v~~al~~~~~~~~~G~~~f~~~~~~~~--~~~~~~~ 345 (345)
T cd06338 298 QEAVERAGSLD--PAAVRDALASNDFDTFYGPIKFDETGQNNH--PMTVVQW 345 (345)
T ss_pred HHHHHHhCCCC--HHHHHHHHHhCCCcccccCeeECCCCCcCC--CceeeeC
Confidence 99999997654 5899999999999999999999 8898877 5666653
No 41
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.1e-35 Score=316.55 Aligned_cols=318 Identities=15% Similarity=0.214 Sum_probs=269.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |+....|+++|++++|++++++++++++++.|++++|..+++.+++|+.+++|.+|+||.+ |..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~-s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYS-SEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcc-hHH
Confidence 599999999854 8999999999999999999998899999999999999999999999998889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccc-----c---ceEeecCCCchhHHHHHHHHHHHhh-----CCCcEEEEEEecCC
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLT-----S---YSIQIDQDDEASQSQARGISDFISV-----FKWKEVILIHEDNT 187 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls-----~---~~~r~~p~~~~~~~~~~ai~~~l~~-----~~w~~v~ii~~~~~ 187 (860)
+.+++++++..++|+|+++++++ .++ + ++||+.|++. .++.++++++.+ ++|++|++++.+++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~-~~t~~~~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~ 155 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASP-EITTADDYETYKYVFRAGPTNS---SYAQSVADALKETLVDKHGFKTAAIVAEDAA 155 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCC-cccccccccCCceEEecCCCcH---HHHHHHHHHHHHhhcccCCCceEEEEecCch
Confidence 99999999999999999988877 665 1 9999999999 899999998876 89999999999999
Q ss_pred CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEE
Q 044527 188 WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVW 267 (860)
Q Consensus 188 ~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~ 267 (860)
||. ...+.+++.+++.|++|+....++ .+.+++..++.+|+++++++|++.+...++..+++++.+.|+..+ +
T Consensus 156 ~g~-~~~~~~~~~~~~~G~~vv~~~~~~---~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~ 228 (344)
T cd06345 156 WGK-GIDAGIKALLPEAGLEVVSVERFS---PDTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---T 228 (344)
T ss_pred hhh-HHHHHHHHHHHHcCCeEEEEEecC---CCCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---e
Confidence 999 999999999999999999887776 567899999999999999999999999999999999999997322 2
Q ss_pred EecChhhhhcccCcchhhcccCceeEEEEecc----CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHH
Q 044527 268 IATAATMNFLHSMDSLVVESSMQGVVGFRRYV----PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVA 343 (860)
Q Consensus 268 i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~----~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la 343 (860)
+..+......... ....+. .++.+....+. +.++..++|.++|+++++. .|+.+++.+||++++++
T Consensus 229 ~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~--------~p~~~~~~~yda~~~l~ 298 (344)
T cd06345 229 IGISVEGNSPAFW-KATNGA-GNYVITAESGAPGVEAITDKTVPFTEAYEAKFGG--------PPNYMGASTYDSIYILA 298 (344)
T ss_pred EEecCCcCCHHHH-Hhhchh-cceEEeecccccCccCCCHHHHHHHHHHHHHhCC--------CCcccchHHHHHHHHHH
Confidence 2222111000000 011122 44555443332 3567889999999988865 35678999999999999
Q ss_pred HHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-eCCeecCC
Q 044527 344 KASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 344 ~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~ 385 (860)
+|+++++..+ ++.+.++|++.+|+|++|+++| ++|++...
T Consensus 299 ~A~~~ag~~~--~~~i~~al~~~~~~g~~G~i~f~~~g~~~~~ 339 (344)
T cd06345 299 EAIERAGSTD--GDALVEALEKTDFVGTAGRIQFYGDDSAFAH 339 (344)
T ss_pred HHHHHhcCCC--HHHHHHHHHhCCCcCCceeEEECCCCCcCcC
Confidence 9999997655 5899999999999999999999 99998874
No 42
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=1.6e-34 Score=313.20 Aligned_cols=334 Identities=13% Similarity=0.084 Sum_probs=275.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |+....|+++|+++||++||+++++|+++.+|++++|..+++.+++|+.+++|.+|+|+.+ |+.
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~-S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWT-SAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccc-hhh
Confidence 599999999965 8899999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhh-CCCcEEEEEEecCCCCCcCCHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISV-FKWKEVILIHEDNTWGNDNTIPYLF 198 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~l~ 198 (860)
+.++.+++++.++|++++.+... ...+ ++||+.+.+. .++..+++++.. .++++|++++.|++||. +..+.++
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~-~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~k~vaii~~d~~~g~-~~~~~~~ 154 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG-LEQSPNVFYTGAAPN---QQIIPAVDWLMSNKGGKRFYLVGSDYVYPR-TANKILK 154 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC-CCCCCCEEEeCCChH---HhHHHHHHHHHhccCCCeEEEECCcchHHH-HHHHHHH
Confidence 99999999999999998765443 3333 9999999998 888888888764 57999999999999999 9999999
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcc
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLH 278 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 278 (860)
+.+++.|++|+....++ .+.+|+.+++.+++++++|+|++...++++..+++++++.|+..+...++..........
T Consensus 155 ~~~~~~G~~vv~~~~~~---~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 231 (348)
T cd06355 155 AQLESLGGEVVGEEYLP---LGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR 231 (348)
T ss_pred HHHHHcCCeEEeeEEec---CChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh
Confidence 99999999999988777 788999999999999999999999999999999999999998544344554332211111
Q ss_pred cCcchhhcccCceeEEEEec--cCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCCh
Q 044527 279 SMDSLVVESSMQGVVGFRRY--VPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSD 356 (860)
Q Consensus 279 ~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 356 (860)
... .+. ..|++....+ ..++|..++|.++|+++|+..+ .+..++..+||+++++++|+++++..+ +
T Consensus 232 ~~g---~~~-~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~------~~~~~a~~~Y~a~~~~~~Al~~ag~~~--~ 299 (348)
T cd06355 232 GIG---PEN-LAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDR------VTNDPMEAAYIGVYLWKQAVEKAGSFD--V 299 (348)
T ss_pred hcC---hHh-hcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCCC--H
Confidence 111 122 4565554333 3356889999999999886532 234568899999999999999998754 6
Q ss_pred HHHHHHHHhcccccceeeEEe-e-CCeecCCccEEEEEee-cCceEE
Q 044527 357 EIFYKQIVNNRFRGLSGDFQF-V-NGKLTSSREFEIVNVI-GKTIKR 400 (860)
Q Consensus 357 ~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~~~~~~i~~~~-~~~~~~ 400 (860)
+++.++|++.+|+++.|.++| + +++... .+.|.+++ +++++.
T Consensus 300 ~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~--~~~i~~~~~~g~~~~ 344 (348)
T cd06355 300 DKVRAALPGQSFDAPEGPVTVDPANHHLWK--PVRIGRIQADGQFEI 344 (348)
T ss_pred HHHHHHhccCcccCCCcceEeecCCCeeee--eeEEEEEcCCCcEEE
Confidence 899999999999999999999 6 555555 67777775 455543
No 43
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=1.4e-34 Score=313.85 Aligned_cols=340 Identities=12% Similarity=0.092 Sum_probs=275.1
Q ss_pred EEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 43 VHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 43 i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
|+||++.|+||+. |...++|+++|+++||++||++|++|++++.|++++|..+++.+++|+++++|.+|+||.+ |+
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~-S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYS-SA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCc-hH
Confidence 6899999999965 8899999999999999999999999999999999999999999999999889999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLF 198 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~ 198 (860)
.+.++.+++++.++|+|....... ...+ ++||+.|++. .++.++++++....-+++++++.|++||+ ...+.++
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~~-~~~~~~~Fr~~~~~~---~~~~~~~~~~~~~~g~~va~l~~d~~~g~-~~~~~~~ 154 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYEG-GVCDEYTFAVGATAR---QQLGTVVPYMVEEYGKKIYTIAADYNFGQ-LSADWVR 154 (374)
T ss_pred HHHHHHHHHHhcCceEEcCccccc-ccCCCCEEEcCCChH---HHHHHHHHHHHHcCCCeEEEEcCCcHHHH-HHHHHHH
Confidence 999999999999999997543333 3334 9999999999 99999999986543378999999999999 9999999
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcc
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLH 278 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~ 278 (860)
+.+++.|++++....++ .+.+||.+++.+|++++||+|++...+.+...+++|++++|+..+- +..........
T Consensus 155 ~~~~~~G~~vv~~~~~~---~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~~---~~~~~~~~~~~ 228 (374)
T TIGR03669 155 VIAKENGAEVVGEEFIP---LSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLPM---GTSTAMAQGYE 228 (374)
T ss_pred HHHHHcCCeEEeEEecC---CCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCcc---cchhhhhhhhh
Confidence 99999999999888877 7889999999999999999999999888999999999999984331 11111111000
Q ss_pred cCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCCh
Q 044527 279 SMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSD 356 (860)
Q Consensus 279 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 356 (860)
.... ..+. ..|+++...+.+ ++|..++|+++|+++|+.. | .++.++..+||+++++++|++++++.+ +
T Consensus 229 ~~~~-~~~~-~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~-p-----~~~~~a~~~Yda~~~l~~Ai~~AGs~d--~ 298 (374)
T TIGR03669 229 HKRF-EPPA-LKDVYAGVNYMEEIDTPENEAFVERFYAKFPDA-P-----YINQEAENNYFSVYMYKQAVEEAGTTD--Q 298 (374)
T ss_pred hhhc-Cchh-hCCcEEeeeccccCCCHHHHHHHHHHHHHcCCC-C-----CCChHHHHHHHHHHHHHHHHHHhCCCC--H
Confidence 0000 1122 455555444443 4688999999999998642 1 235678999999999999999998765 5
Q ss_pred HHHHHHHHh-cccccceeeEEe-eCCeecCCccEEEEEeecC-ceEEeeeec
Q 044527 357 EIFYKQIVN-NRFRGLSGDFQF-VNGKLTSSREFEIVNVIGK-TIKRVGFWN 405 (860)
Q Consensus 357 ~~l~~~l~~-~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~-~~~~vG~~~ 405 (860)
++++++|++ .+++|+.|+++| ++++.... .+.|.+++.+ ....+..|+
T Consensus 299 ~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~-~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 299 DAVRDVLESGVEMDAPEGKVCIDGATHHMSH-TMRLARADADHNITFVKEQE 349 (374)
T ss_pred HHHHHHHHcCCeEECCCccEEEcCCCCeeee-eeEEEEEcCCCCEEEEEecC
Confidence 899999997 679999999999 65544443 6778888744 345555555
No 44
>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=6.2e-35 Score=318.81 Aligned_cols=325 Identities=26% Similarity=0.360 Sum_probs=266.2
Q ss_pred HHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEe
Q 044527 59 TNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIIS 137 (860)
Q Consensus 59 ~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is 137 (860)
...|+++|+++||+++++++ ++|++.+.|+++++..+...+...+..++|.+||||.| +.++.+++.+++.++||+|+
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~-~~~~~~~~~~~~~~~ip~is 80 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSC-SSSAEAVASLASEWNIPQIS 80 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSS-HHHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCc-ccccchhheeecccccceee
Confidence 57899999999999999777 99999999998666666666666655558999999999 99999999999999999999
Q ss_pred cccCCCccccc------ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEE
Q 044527 138 LFTTLPNSLTS------YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARR 211 (860)
Q Consensus 138 ~~a~~~~~ls~------~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~ 211 (860)
++++++ .+++ +++|+.|++. .+++++++++++|+|++|++|++++++|. +..+.+.+.+++.++.+...
T Consensus 81 ~~~~~~-~ls~~~~~~~~~~r~~p~~~---~~~~a~~~~l~~~~w~~v~vv~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 155 (348)
T PF01094_consen 81 PGSTSP-SLSDRKTRYPTFFRTVPSDS---SQARALVDLLKHFGWTRVSVVYSDDDYGN-SLADSFQDLLRERGGICVAF 155 (348)
T ss_dssp SSGGSG-GGGSTTTTTTTEEESSB-HH---HHHHHHHHHHHHTTSSEEEEEEESSHHHH-HHHHHHHHHHHHHTTCEEEE
T ss_pred cccccc-ccccchhhccccccccccHH---HHHHHHHHhhhcCCCceeeeecccccccc-ccchhhhhhhcccccceecc
Confidence 999988 7755 8999999999 99999999999999999999999999988 89999999999965444433
Q ss_pred -EeccCCCCChHHHHHHHHhhh--cCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhccc
Q 044527 212 -TSISLASSTHDQIIEKLSMLK--SLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESS 288 (860)
Q Consensus 212 -~~~~~~~~~~~~~~~~l~~i~--~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~ 288 (860)
.... ....+....+.+++ +.++++|++++...++..++++|.++||...+|+||.++.+............+.
T Consensus 156 ~~~~~---~~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~- 231 (348)
T PF01094_consen 156 ISVVI---SSDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFREA- 231 (348)
T ss_dssp EEEEE---TTTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHCC-
T ss_pred ccccc---ccccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccccccccccc-
Confidence 3333 33334444444444 4999999999999999999999999999889999999998765532223344455
Q ss_pred CceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC----------ChHH
Q 044527 289 MQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV----------SDEI 358 (860)
Q Consensus 289 ~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~----------~~~~ 358 (860)
..+++++....+..+.+++|.++|++.............+..+++++|||++++++|++++..... .|..
T Consensus 232 ~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g~~ 311 (348)
T PF01094_consen 232 FQGVLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQNGSQ 311 (348)
T ss_dssp HTTEEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTHHH
T ss_pred ccceeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCccccccHHH
Confidence 789999999999899999999999865432112222345678999999999999999999964311 2578
Q ss_pred HHHHHHhcccccceeeEEe-e-CCeecCCccEEEEEee
Q 044527 359 FYKQIVNNRFRGLSGDFQF-V-NGKLTSSREFEIVNVI 394 (860)
Q Consensus 359 l~~~l~~~~~~g~tG~v~F-~-~g~~~~~~~~~i~~~~ 394 (860)
+.++|++++|+|++|++.| + +|++... .|+|++++
T Consensus 312 l~~~l~~~~f~G~tG~v~f~~~~G~~~~~-~~~i~~~~ 348 (348)
T PF01094_consen 312 LLKYLRNVSFEGLTGRVSFDSNDGDRTNY-DYDILNMQ 348 (348)
T ss_dssp HHHHHHTEEEEETTEEEEEETTTSBEESE-EEEEEEE-
T ss_pred HHHHHhheeeeCCCCCEEEeCCCCCcCCC-EEEEEECC
Confidence 9999999999999999999 7 8999887 99999864
No 45
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.6e-34 Score=312.29 Aligned_cols=323 Identities=15% Similarity=0.251 Sum_probs=269.1
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |+....|+++|+++||+++++++++|++++.|++++|..+++++++|+++++|.+|+||.+ |..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~-s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTL-SQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCC-cHH
Confidence 599999999965 8999999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHH-HHHHHHHhhC-CCcEEEEEEecCC-CCCcCCH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQA-RGISDFISVF-KWKEVILIHEDNT-WGNDNTI 194 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~-~ai~~~l~~~-~w~~v~ii~~~~~-~g~~~~~ 194 (860)
+.++.++++..++|+|+++++++ .+.+ ++||+.+++. .+. .++..+++++ +|++++++|.+++ ||. ...
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~-~~~ 154 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAK-GIPEIGPYVFRVSAPEA---VVAPAAIAAALKLNPGIKRVAVFYAQDDAFSV-SET 154 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCC-CcCCCCCeEEEccCcHH---HHHHHHHHHHHHHhcCCeEEEEEEeCCchHHH-HHH
Confidence 99999999999999999987776 6554 8999988776 444 4555667787 9999999997655 999 999
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhh
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATM 274 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 274 (860)
+.+++.+++.|++++....++ .+.+|+.+++.+++++++|+|++.+.+.++..+++++.+.|+.. .++.+....
T Consensus 155 ~~~~~~~~~~g~~v~~~~~~~---~~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~ 228 (344)
T cd06348 155 EIFQKALRDQGLNLVTVQTFQ---TGDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFN 228 (344)
T ss_pred HHHHHHHHHcCCEEEEEEeeC---CCCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceecccccc
Confidence 999999999999999888877 67789999999999999999999999999999999999999743 344433321
Q ss_pred hhcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcC
Q 044527 275 NFLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTG 352 (860)
Q Consensus 275 ~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 352 (860)
. .. +.....+. .+|++...++.+ +++..++|.+.|+++++. .++.++..+||+++++++|+++++..
T Consensus 229 ~-~~-~~~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~yda~~~~~~A~~~a~~~ 297 (344)
T cd06348 229 T-PN-VFPVCQAA-CDGVLVAQAYSPENDTPVNRDFVEAYKKKYGK--------APPQFSAQAFDAVQVVAEALKRLNQK 297 (344)
T ss_pred C-HH-HHHhhhHh-hcCeEEEeeccCCCCCHHHHHHHHHHHHHHCC--------CccHHHHHHHHHHHHHHHHHHHhcCC
Confidence 1 11 11112233 567776665543 457889999999988864 34578899999999999999999764
Q ss_pred CC-C-------hHHHHHHHHhcccccceeeEEe-eCCeecCCccEEE
Q 044527 353 QV-S-------DEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEI 390 (860)
Q Consensus 353 ~~-~-------~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i 390 (860)
.. + +++|.++|++.+|+|++|++.| ++|++..+ .|.|
T Consensus 298 ~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~-~~~~ 343 (344)
T cd06348 298 QKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQK-AFYV 343 (344)
T ss_pred CccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccC-ceec
Confidence 32 1 4688999999999999999999 99998876 5543
No 46
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=3.4e-34 Score=311.26 Aligned_cols=337 Identities=18% Similarity=0.205 Sum_probs=277.5
Q ss_pred CceEEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCC
Q 044527 40 SDEVHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGM 116 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 116 (860)
.++|+||++.|+||.. |++...|+++|+++||+.++++|.+|++++.|+.+||..+.+.+.+|+.+++|.+|+|+.+
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 3479999999999965 9999999999999999999999977999999999999999999999999889999999999
Q ss_pred ChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhh-CCCcEEEEEEecCCCCC
Q 044527 117 TPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISV-FKWKEVILIHEDNTWGN 190 (860)
Q Consensus 117 ~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~-~~w~~v~ii~~~~~~g~ 190 (860)
|.++.++.+++++.++|+|++++++| .+.. ++||+.|++. +|+.++++++.. .+.++|++|+.++.||+
T Consensus 88 -S~~~~a~~~v~~~~~i~~i~p~st~~-~~~~~~~~~~vfr~~~~~~---~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~ 162 (366)
T COG0683 88 -SGVALAASPVAEEAGVPLISPSATAP-QLTGRGLKPNVFRTGPTDN---QQAAAAADYLVKKGGKKRVAIIGDDYAYGE 162 (366)
T ss_pred -CcccccchhhHhhcCceEEeecCCCC-cccccccccceEEecCChH---HHHHHHHHHHHHhcCCcEEEEEeCCCCcch
Confidence 99999999999999999999999999 7665 4999999999 999999999865 55569999999999999
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
+..+.+++.+++.|++++..+.+. +...++..++.+++++++|+|++.+.+++...+++++++.|+... ..++.+
T Consensus 163 -~~~~~~~~~l~~~G~~~~~~~~~~---~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~ 237 (366)
T COG0683 163 -GLADAFKAALKALGGEVVVEEVYA---PGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDG 237 (366)
T ss_pred -hHHHHHHHHHHhCCCeEEEEEeeC---CCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccc
Confidence 999999999999999866555555 555569999999999999999999999999999999999997432 222222
Q ss_pred ChhhhhcccCcchhhcccCceeEEEEecc-CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhh
Q 044527 271 AATMNFLHSMDSLVVESSMQGVVGFRRYV-PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKL 349 (860)
Q Consensus 271 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~ 349 (860)
........... ...+ ....+...... .++|..+.|+++|+++++.. ..++.++..+||+++++++|++++
T Consensus 238 ~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~------~~~~~~~~~~y~a~~~~~~ai~~a 308 (366)
T COG0683 238 AGTAEFEEIAG-AGGA--GAGLLATAYSTPDDSPANKKFVEAYKAKYGDP------AAPSYFAAAAYDAVKLLAKAIEKA 308 (366)
T ss_pred cCchhhhhhcc-cCcc--ccEEEEecccccccCcchHHHHHHHHHHhCCC------CCcccchHHHHHHHHHHHHHHHHH
Confidence 22211111111 0001 11223222222 34577888999999999821 145678999999999999999999
Q ss_pred hcCCCChHHHHHHHHhcc-cccceeeEEe-eCCeecCCccEEEEEeecCc
Q 044527 350 KTGQVSDEIFYKQIVNNR-FRGLSGDFQF-VNGKLTSSREFEIVNVIGKT 397 (860)
Q Consensus 350 ~~~~~~~~~l~~~l~~~~-~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~ 397 (860)
+. ..+.+++.++|++.. +++.+|.+.| ++|++... .+.|.+|+.++
T Consensus 309 ~~-~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~-~~~i~~~~~~~ 356 (366)
T COG0683 309 GK-SSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSK-PVYVGQVQKGG 356 (366)
T ss_pred hc-CCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCC-ceEEEEEEecC
Confidence 84 222688999999987 6899999999 88998887 99999988443
No 47
>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=4e-34 Score=311.79 Aligned_cols=303 Identities=30% Similarity=0.391 Sum_probs=258.4
Q ss_pred EEEEEEecCCc-------------chhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhcc----
Q 044527 44 HVGIILDMRSW-------------TGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQN---- 105 (860)
Q Consensus 44 ~IG~l~~~~~~-------------~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~---- 105 (860)
.||++||+++. .|.....++.+|+++||+++++++ ++|++++.|++|+|..|++.+++++.+
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 38999999873 267778899999999999988886 999999999999999999999999987
Q ss_pred ---------CCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHH
Q 044527 106 ---------VDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFI 171 (860)
Q Consensus 106 ---------~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l 171 (860)
++|.+|+||.+ |..+.+++++++.+++|+|+++++++ .+++ ++||+.|++. .++.++++++
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~-S~~~~a~~~~~~~~~vp~is~~~~~~-~ls~~~~~~~~fr~~p~~~---~~~~a~~~~~ 155 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGS-SSVSMAVAELLGLFKIPQISYGATSP-LLSDKLQFPSFFRTVPSDT---SQALAIVALL 155 (348)
T ss_pred CCCCcCCCCCceEEEECCCc-cHHHHHHHHHHhcCcCceecccCCCh-hhccccccCCeeEecCCcH---HHHHHHHHHH
Confidence 79999999999 99999999999999999999999998 8854 8999999999 9999999999
Q ss_pred hhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHH
Q 044527 172 SVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHL 251 (860)
Q Consensus 172 ~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~i 251 (860)
++++|++|++++.+++||. ...+.+++.+++.|++|+....++ ......++..++++++++++|+|++.+...++..+
T Consensus 156 ~~~~~~~v~~l~~~~~~g~-~~~~~~~~~~~~~gi~v~~~~~~~-~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~ 233 (348)
T cd06350 156 KHFGWTWVGLVYSDDDYGR-SGLSDLEEELEKNGICIAFVEAIP-PSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRL 233 (348)
T ss_pred HHCCCeEEEEEEecchhHH-HHHHHHHHHHHHCCCcEEEEEEcc-CCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHH
Confidence 9999999999999999999 999999999999999999988877 22236899999999999999999999999999999
Q ss_pred HHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChh
Q 044527 252 FLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAY 331 (860)
Q Consensus 252 l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~ 331 (860)
+++++++|+ ... .|+.++.+....... ....+. .+|+++...+.+.+....+|.+.+++ +
T Consensus 234 ~~~a~~~g~-~~~-~~i~~~~~~~~~~~~-~~~~~~-~~g~~~~~~~~~~~~~~~~f~~~~~~----------------~ 293 (348)
T cd06350 234 FCEAYKLGM-TGK-YWIISTDWDTSTCLL-LFTLDA-FQGVLGFSGHAPRSGEIPGFKDFLRK----------------Y 293 (348)
T ss_pred HHHHHHhCC-CCe-EEEEEccccCccccc-cCCcce-eeeEEEEEEEeecCCcCCChHHHHHH----------------H
Confidence 999999998 344 444444433221111 122234 67888888877655445556555543 6
Q ss_pred HHHHhhHHHHHHHHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeec----CceEEeeeecC
Q 044527 332 GILAYDTVWAVAKASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIG----KTIKRVGFWNP 406 (860)
Q Consensus 332 ~~~~YDav~~la~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~----~~~~~vG~~~~ 406 (860)
++++||||++ .+.| ++|++.. .|+|.+++. .++++||.|++
T Consensus 294 ~~~~YDav~~--------------------------------~v~f~~~gd~~~--~~~i~~~~~~~~~~~~~~vg~~~~ 339 (348)
T cd06350 294 AYNVYDAVYA--------------------------------EVKFDENGDRLA--SYDIINWQIFPGGGGFVKVGFWDP 339 (348)
T ss_pred HHHHHhheeE--------------------------------EEEecCCCCccc--ceeEEEEEEcCCcEEEEEEEEEcC
Confidence 7899999998 7899 9999999 799999975 67999999997
Q ss_pred C
Q 044527 407 T 407 (860)
Q Consensus 407 ~ 407 (860)
.
T Consensus 340 ~ 340 (348)
T cd06350 340 Q 340 (348)
T ss_pred C
Confidence 4
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=3.1e-33 Score=304.29 Aligned_cols=329 Identities=13% Similarity=0.085 Sum_probs=268.1
Q ss_pred EEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 43 VHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 43 i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
|+||++.|+||.. |+....|+++|+++||++||++|++|+++++|+.++|..|++++++|+.+++|.+|+|+.+ |.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~-S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWT-SA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCc-HH
Confidence 6899999999854 8889999999999999999999999999999999999999999999999889999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhh-CCCcEEEEEEecCCCCCcCCHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISV-FKWKEVILIHEDNTWGNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~l 197 (860)
.+.++.++++..++|++.+..... ...+ ++||+.+++. .++.++++++.. .|.+++++++.|++||+ ...+.+
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~~-~~~~~~~F~~~~~~~---~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~-~~~~~~ 154 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYEG-EECSPNIFYTGAAPN---QQIIPAVDYLLSKKGAKRFFLLGSDYVFPR-TANKII 154 (359)
T ss_pred HHHHHHHHHhccCCceEeCCcccC-cccCCCEEEcCCChH---HHHHHHHHHHHhccCCceEEEecCccHHHH-HHHHHH
Confidence 999999999999999997754332 2333 9999999999 999999888866 59999999999999999 888999
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhc
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFL 277 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 277 (860)
++.+++.|++++....++ .+.+|+.+++.+|+++++|+|++.....++..+++++++.|+......++.........
T Consensus 155 ~~~~~~~G~~vv~~~~~~---~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~ 231 (359)
T TIGR03407 155 KAYLKSLGGTVVGEDYTP---LGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEI 231 (359)
T ss_pred HHHHHHcCCEEEeeEEec---CChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHH
Confidence 999999999999887777 78899999999999999999998888888889999999999853333333332211111
Q ss_pred ccCcchhhcccCceeEEEEec--cCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCC
Q 044527 278 HSMDSLVVESSMQGVVGFRRY--VPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVS 355 (860)
Q Consensus 278 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 355 (860)
.... .+. .+|+.....+ ..++|..++|.++|+++++..+ .+...++.+||+++++++|++++++.+
T Consensus 232 ~~~g---~~~-~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~y~a~~~~~~A~~~ag~~~-- 299 (359)
T TIGR03407 232 RGIG---PEN-LVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDR------VTNDPMEAAYLGVYLWKAAVEKAGSFD-- 299 (359)
T ss_pred hhcC---hHh-hCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCCC--
Confidence 1111 122 4565543222 3456888999999998876431 123456789999999999999998764
Q ss_pred hHHHHHHHHhcccccceeeEEe-e-CCeecCCccEEEEEee
Q 044527 356 DEIFYKQIVNNRFRGLSGDFQF-V-NGKLTSSREFEIVNVI 394 (860)
Q Consensus 356 ~~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~~~~~~i~~~~ 394 (860)
++.+.++|++++|+++.|.++| + +++... .+.+.+++
T Consensus 300 ~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~--~~~~~~~~ 338 (359)
T TIGR03407 300 VDAVRDAAIGIEFDAPEGKVKVDGKNHHLTK--TVRIGEIR 338 (359)
T ss_pred HHHHHHHhcCCcccCCCccEEEeCCCCeeee--eeEEEEEc
Confidence 6899999999999999999999 6 555544 56666654
No 49
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.4e-33 Score=304.47 Aligned_cols=317 Identities=13% Similarity=0.100 Sum_probs=267.4
Q ss_pred EEEEEEecCCc--chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSW--TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~--~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+||++.|+||. .|+....|+++|+++||+.+++++++|+++++|++++|..+++.+.+|+.+++|.+|+|+.+ |..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~-s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYS-SDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCC-cHHH
Confidence 48999999975 48889999999999999999999999999999999999999999999999889999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHHhhCC-CcEEEEEEecCC-CCCcCCHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFISVFK-WKEVILIHEDNT-WGNDNTIPY 196 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l~~~~-w~~v~ii~~~~~-~g~~~~~~~ 196 (860)
.++++++++.++|+|+++++++ .+++ ++||+.|++. .+++++++++++.+ |++|++++.++. ||+ ...+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~-~lt~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~-~~~~~ 154 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSV-KLSNPGPYFFRTVPSNA---VAARALAKYLKKKNKIKKVAIFYNSTSPYSQ-SLKQE 154 (332)
T ss_pred HHHHHHHhhcCceEEccCcCch-hhcCCCCcEEEeCCCcH---HHHHHHHHHHHhhcCCCeEEEEeCCCchHhH-HHHHH
Confidence 9999999999999999988888 7765 9999999999 99999999998876 999999999876 999 99999
Q ss_pred HHHHHhh-CCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 197 LFDSLHD-NDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 197 l~~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
+++.+++ .|++++....++ .++.++..++.++++.++++|++.+.......+++++.+.+. ...++.++....
T Consensus 155 ~~~~~~~~~g~~v~~~~~~~---~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~ 228 (332)
T cd06344 155 FTSALLERGGGIVVTPCDLS---SPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYT 228 (332)
T ss_pred HHHHHHHhcCCeeeeeccCC---CCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccC
Confidence 9999999 588887654433 456678889999999999999999999888899999988773 333444333221
Q ss_pred hcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVS 355 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 355 (860)
.+... ...+. .+|+....++.++++..++|.+.|+++++. .+..++..+||+++++++|++++++.+
T Consensus 229 -~~~~~-~~~~~-~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~a~~~Yda~~~l~~A~~~ag~~~-- 295 (332)
T cd06344 229 -PDTLL-DGGKD-LEGLVLAVPWHPLASPNSPFAKLAQQLWGG--------DVSWRTATAYDATKALIAALSQGPTRE-- 295 (332)
T ss_pred -HHHHH-hchhh-hcCeEEEEecccccccchHHHHHHHHHhcC--------CchHHHHhHHHHHHHHHHHHHhCCChh--
Confidence 11111 11233 677888778877777889999999998875 356789999999999999999998655
Q ss_pred hHHHH-HHHHhcccccceeeEEe-eCCeecCC
Q 044527 356 DEIFY-KQIVNNRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 356 ~~~l~-~~l~~~~~~g~tG~v~F-~~g~~~~~ 385 (860)
+..+. ..+++..|+|+.|+++| ++|++..+
T Consensus 296 ~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 296 GVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred hhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 35555 67888899999999999 99998774
No 50
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=3.2e-33 Score=302.15 Aligned_cols=319 Identities=14% Similarity=0.134 Sum_probs=268.6
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |.....|+++|+++||+++++++++|++++.|++++|..+++++++|+.+++|.+|+||.+ |..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~-s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYT-SAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEeccc-HHH
Confidence 599999999864 8899999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFD 199 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~ 199 (860)
+.++.+++++.++|+|++.+.+. ...+ ++||+.|++. .++.++++++...+|++|++++.|+.||+ ...+.+++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~-~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~v~il~~d~~~g~-~~~~~~~~ 154 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEG-GECSPNVFYTGATPN---QQLLPLIPYLMEKYGKRFYLIGSDYVWPR-ESNRIARA 154 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCC-CcCCCCeEEccCChH---HhHHHHHHHHHHhcCCeEEEECCCchhHH-HHHHHHHH
Confidence 99999999999999999876544 3334 9999999998 89999999886666999999999999999 99999999
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhh-hhcc
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATM-NFLH 278 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~-~~~~ 278 (860)
.+++.|.+++....++ .+.+|+.+++.++++.++|+|++.+.++++..+++++.+.|+..... ++.+.... ....
T Consensus 155 ~~~~~G~~vv~~~~~~---~~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~~~~ 230 (333)
T cd06331 155 LLEELGGEVVGEEYLP---LGTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI-PILSLTLDENELA 230 (333)
T ss_pred HHHHcCCEEEEEEEec---CCcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-eeEEcccchhhhh
Confidence 9999999999888877 67899999999999999999999999999999999999999852233 33332211 1111
Q ss_pred cCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCCh
Q 044527 279 SMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSD 356 (860)
Q Consensus 279 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~ 356 (860)
.. .... ..|++...++.+ +.+..++|.++|+++++... .++.+++.+||+++++++|+++++..+ +
T Consensus 231 ~~---~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~A~~~ag~~~--~ 298 (333)
T cd06331 231 AI---GAEA-AEGHYSAASYFQSLDTPENKAFVARYRARYGDDA------VINSPAEAAYEAVYLWAAAVEKAGSTD--P 298 (333)
T ss_pred cc---Chhh-hCCcEeechhhhhcCChhHHHHHHHHHHHcCCCc------CCCchhHHHHHHHHHHHHHHHHcCCCC--H
Confidence 11 1122 567776655543 45788999999998876421 256789999999999999999998644 6
Q ss_pred HHHHHHHHhcccccceeeEEe-eCCeecC
Q 044527 357 EIFYKQIVNNRFRGLSGDFQF-VNGKLTS 384 (860)
Q Consensus 357 ~~l~~~l~~~~~~g~tG~v~F-~~g~~~~ 384 (860)
+.+.++|++++|+|++|.+.| +++++..
T Consensus 299 ~~l~~al~~~~~~~~~G~i~f~~~~~~~~ 327 (333)
T cd06331 299 EAVRAALEGVSFDAPQGPVRIDPDNHHTW 327 (333)
T ss_pred HHHHHHhhcCcccCCCCceEecCCCCccc
Confidence 899999999999999999999 6665544
No 51
>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=6.5e-33 Score=303.60 Aligned_cols=338 Identities=13% Similarity=0.171 Sum_probs=278.8
Q ss_pred CceEEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCC
Q 044527 40 SDEVHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGM 116 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 116 (860)
+++|+||+++|++|+. |+....++++|++++|+.+++++++|+++++|++++|..+++.+.+|+.+++|.+|+||.+
T Consensus 4 ~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~~ 83 (362)
T cd06343 4 DTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGLG 83 (362)
T ss_pred CceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecCC
Confidence 5689999999999965 8899999999999999999999999999999999999999999999999889999999999
Q ss_pred ChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCC
Q 044527 117 TPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGN 190 (860)
Q Consensus 117 ~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~ 190 (860)
|..+.+++++++..+||+|++.++++ .+++ ++||+.|++. .++.++++++ ++++|++|++++.++.||+
T Consensus 84 -s~~~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~ 158 (362)
T cd06343 84 -TPTNLAVQKYLNEKKVPQLFPASGAS-KWNDPKPFPWTFGWQPSYQ---DEARIYAKYLVEEKPNAKIAVLYQNDDFGK 158 (362)
T ss_pred -cHHHHHhHHHHHhcCCceEecccccH-hhhCCCCCCceEecCCChH---HHHHHHHHHHHHhCCCceEEEEEeccHHHH
Confidence 99999999999999999999887766 6653 8999999998 9999999975 5689999999999999999
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
...+.+++.+++.|++++....++ .+.+|+.+++.+++++++|+|++.+...++..+++++++.|+.. .++.+
T Consensus 159 -~~~~~~~~~~~~~G~~vv~~~~~~---~~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~ 231 (362)
T cd06343 159 -DYLKGLKDGLGDAGLEIVAETSYE---VTEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKP---TFLLS 231 (362)
T ss_pred -HHHHHHHHHHHHcCCeEEEEeeec---CCCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCc---eEEEE
Confidence 999999999999999999888877 67889999999999999999999999999999999999999743 24444
Q ss_pred ChhhhhcccCcchhhcccCceeEEEEecc-------CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHH
Q 044527 271 AATMNFLHSMDSLVVESSMQGVVGFRRYV-------PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVA 343 (860)
Q Consensus 271 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la 343 (860)
+..............++ .+|++....+. .++|..++|.+.|+++++... .++.++..+||++.+++
T Consensus 232 ~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~y~a~~~~~ 304 (362)
T cd06343 232 SVSASVASVLKPAGLEA-AEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGD------PPDTYAVYGYAAAETLV 304 (362)
T ss_pred ecccccHHHHHHhhhHh-hCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCC------CCchhhhHHHHHHHHHH
Confidence 43321110011111233 56666554432 246788999999988876421 25678999999999999
Q ss_pred HHHHhhhcCCCChHHHHHHHHhccc---c-cceeeEEe-eCCeecCCccEEEEEeecCce
Q 044527 344 KASEKLKTGQVSDEIFYKQIVNNRF---R-GLSGDFQF-VNGKLTSSREFEIVNVIGKTI 398 (860)
Q Consensus 344 ~Al~~~~~~~~~~~~l~~~l~~~~~---~-g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~ 398 (860)
+|+++++.. .+++.++++|+++++ . +..|++.| .++++... .+.|.++++++|
T Consensus 305 ~a~~~ag~~-~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~i~~~~~g~~ 362 (362)
T cd06343 305 KVLKQAGDD-LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIE-QMQLMRFEGGRW 362 (362)
T ss_pred HHHHHhCCC-CCHHHHHHHHHhCCCCCccccCccceecCccccccce-eEEEEEEecCcC
Confidence 999999743 236899999999987 3 23458899 55444444 788888887765
No 52
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.5e-33 Score=304.20 Aligned_cols=319 Identities=17% Similarity=0.237 Sum_probs=269.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccC---CcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCC
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNT---HCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMT 117 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~---~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~ 117 (860)
+||++.|++|.. |.....|+++|+++||++++ +.+++|+++++|++++|..+++.+++++.+++|.+|+||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~- 79 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQ- 79 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccc-
Confidence 599999999854 88999999999999999996 45699999999999999999999999999889999999999
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCccccc----ceEeecCCCchhHHHHHHHHHHHhhC------CCcEEEEEEecCC
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTS----YSIQIDQDDEASQSQARGISDFISVF------KWKEVILIHEDNT 187 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~----~~~r~~p~~~~~~~~~~ai~~~l~~~------~w~~v~ii~~~~~ 187 (860)
|..+.+++.++++.++|+|+++++++ .+++ ++||+.|++. .++.++++++.++ +|+++++++.+++
T Consensus 80 s~~~~a~~~~~~~~~ip~i~~~~~~~-~l~~~~~~~~fr~~p~~~---~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~ 155 (347)
T cd06340 80 SAVTLAASQVAERYGVPFVVDGAVSD-SITERGFKYTFRITPHDG---MFTRDMFDFLKDLNEKTGKPLKTVALVHEDTE 155 (347)
T ss_pred hHhHHHHHHHHHHhCCCEEeccccch-HHhhcCCceEEecCCChH---HHHHHHHHHHHHhhHhcCCCCceEEEEecCch
Confidence 99999999999999999999988887 7754 8999999999 9999999999876 4699999999999
Q ss_pred CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEE
Q 044527 188 WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVW 267 (860)
Q Consensus 188 ~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~ 267 (860)
||. ...+.+++.+++.|++|+..+.++ .+.+|+.+++.+++++++|+|++.+...++..+++++++.|+.. ...+
T Consensus 156 ~g~-~~~~~~~~~~~~~G~~vv~~~~~~---~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~ 230 (347)
T cd06340 156 FGT-SVAEAIKKFAKERGFEIVEDISYP---ANARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEP-KAVY 230 (347)
T ss_pred HhH-HHHHHHHHHHHHcCCEEEEeeccC---CCCcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCC-cEEE
Confidence 999 999999999999999999887777 56789999999999999999999999999999999999999843 2222
Q ss_pred EecChhhhhcccCcchhhcccCceeEEEEeccCC-chhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHH
Q 044527 268 IATAATMNFLHSMDSLVVESSMQGVVGFRRYVPT-SKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKAS 346 (860)
Q Consensus 268 i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al 346 (860)
....+.... . +.....++ .+|++...++.++ .+..++|.++|+++++. .++.++..+||+++++++|+
T Consensus 231 ~~~~~~~~~-~-~~~~~g~~-~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~--------~~~~~~~~~Y~a~~~l~~A~ 299 (347)
T cd06340 231 SVGGGAEDP-S-FVKALGKD-AEGILTRNEWSDPKDPMAKDLNKRFKARFGV--------DLSGNSARAYTAVLVIADAL 299 (347)
T ss_pred ecCCCcCcH-H-HHHHhhHh-hheEEeccccCCCCChHHHHHHHHHHHHhCC--------CCChHHHHHHHHHHHHHHHH
Confidence 222211110 0 01111233 6677777666554 68899999999998865 25678999999999999999
Q ss_pred HhhhcCCCChHHHH--HHHHhcccc---cceeeEEe-eCCeecCC
Q 044527 347 EKLKTGQVSDEIFY--KQIVNNRFR---GLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 347 ~~~~~~~~~~~~l~--~~l~~~~~~---g~tG~v~F-~~g~~~~~ 385 (860)
+++++.+ ++.+. .+|+...+. +..|+++| ++|+.+++
T Consensus 300 ~~ag~~~--~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 300 ERAGSAD--PEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHhcCCC--HHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 9998765 57888 488888775 56899999 99999884
No 53
>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=8.9e-33 Score=299.75 Aligned_cols=326 Identities=15% Similarity=0.228 Sum_probs=271.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |.....|+++|++++|+++++++++|+++++|++++|..+++.+.+|+++++|.+++|+.+ |+.
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~-s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFS-SGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCc-cHh
Confidence 699999999965 8999999999999999999998899999999999999999999999999989999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCcCCHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~ 196 (860)
+.+++++++..++|+|+++++.+ .+++ ++||+.|++. .+..++++++ ++.+|++|++++.+++||. ...+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~-~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~-~~~~~ 154 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHP-DFTKGGDFIFRNSTSQA---IEAPLLADYAVKDLGFKKVAILSVNTDWGR-TSADI 154 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCC-ccccCCCeEEEccCCcH---HHHHHHHHHHHHHcCCcEEEEEecCChHhH-HHHHH
Confidence 99999999999999999988777 7765 9999999998 8999999986 6789999999999999999 99999
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhh
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNF 276 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~ 276 (860)
+++.+++.|++++....++ .+..|++..+.+++++++|+|++.+.+.+...+++++.+.|+.. .++..+....
T Consensus 155 ~~~~~~~~g~~v~~~~~~~---~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~- 227 (340)
T cd06349 155 FVKAAEKLGGQVVAHEEYV---PGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI---PVVASSSVYS- 227 (340)
T ss_pred HHHHHHHcCCEEEEEEEeC---CCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC---cEEccCCcCC-
Confidence 9999999999999877766 56789999999999999999999999999999999999999742 2333322211
Q ss_pred cccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC
Q 044527 277 LHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV 354 (860)
Q Consensus 277 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 354 (860)
..... ...+. ..|++....+.+ ++|..++|.++|+++++. .++.++..+||+++++++|+++++....
T Consensus 228 ~~~~~-~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~~~~~~y~~~~~~~~a~~~ag~~~~ 297 (340)
T cd06349 228 PKFIE-LGGDA-VEGVYTPTAFFPGDPRPEVQSFVSAYEAKYGA--------QPDAFAAQAYDAVGILAAAVRRAGTDRR 297 (340)
T ss_pred HHHHH-HhHHH-hCCcEEecccCCCCCCHHHHHHHHHHHHHHCC--------CcchhhhhHHHHHHHHHHHHHHhCCCCH
Confidence 01011 11123 567766655544 357889999999888864 2467899999999999999999986542
Q ss_pred ChHHHHHHH--HhcccccceeeEEe-eC-CeecCCccEEEEEeecCc
Q 044527 355 SDEIFYKQI--VNNRFRGLSGDFQF-VN-GKLTSSREFEIVNVIGKT 397 (860)
Q Consensus 355 ~~~~l~~~l--~~~~~~g~tG~v~F-~~-g~~~~~~~~~i~~~~~~~ 397 (860)
. ....+ .+..+.|++|.++| .+ |+... .+.++.+++++
T Consensus 298 --~-~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~--~~~~~~~~~g~ 339 (340)
T cd06349 298 --A-ARDGFAKAEDVYSGVTGSTKFDPNTRRVIK--RFVPLVVRNGK 339 (340)
T ss_pred --H-HHHHHHHhccCcccceEeEEECCCCCCccC--ceEEEEEeCCc
Confidence 3 33334 45567899999999 65 66666 78888877665
No 54
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=9.3e-33 Score=299.51 Aligned_cols=317 Identities=17% Similarity=0.237 Sum_probs=268.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|+. |+....|+++|++++|+++++++++|++++.|++++|..+++.+++++++++|.+||||.+ +..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~-s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVT-SGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCc-cHh
Confidence 599999999965 7889999999999999999988899999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecC-CCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDN-TWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~-~~g~~~~~~ 195 (860)
+.+++++++..+||+|+++++.+ .+++ ++||+.|++. .++.++++++ ++++|++|++|+.++ +|+. ...+
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~-~~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~-~~~~ 154 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNP-KVTQGKDYVFRVCFIDP---FQGTVMAKFATENLKAKKAAVLYDNSSDYSK-GLAK 154 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCC-CcccCCCeEEEeeCCcH---HHHHHHHHHHHHhcCCcEEEEEEeCCCchhH-HHHH
Confidence 99999999999999999998877 6665 8999999998 8999999987 668999999999886 8998 8889
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.+++.|++++....++ .+..++...+++++++++++|++.+..++...+++++++.|+ ...|+.++.+..
T Consensus 155 ~~~~~~~~~g~~v~~~~~~~---~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~---~~~i~~~~~~~~ 228 (334)
T cd06347 155 AFKEAFKKLGGEIVAEETFN---AGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGI---KVPILGGDGWDS 228 (334)
T ss_pred HHHHHHHHcCCEEEEEEEec---CCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCC---CCcEEecccccC
Confidence 99999999999999887776 566789999999999999999999999999999999999996 245665554432
Q ss_pred hcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ 353 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 353 (860)
. .. .....+. ..|+....++.+ +++..++|.+.|+++++. .++.++..+||+++++++|+++++..+
T Consensus 229 ~-~~-~~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~Al~~ag~~~ 297 (334)
T cd06347 229 P-KL-EEAGGAA-AEGVYFTTHFSADDPTPKAKKFVKAYKAKYGK--------EPDAFAALGYDAYYLLADAIERAGSTD 297 (334)
T ss_pred H-HH-HHHHHHH-hCCcEEecccCCCCCCHHHHHHHHHHHHHHCC--------CcchhHHHHHHHHHHHHHHHHHhCCCC
Confidence 1 11 1111233 566666555544 357889999999887753 356788999999999999999987643
Q ss_pred CChHHHHHHHHhc-ccccceeeEEe-eCCeecCC
Q 044527 354 VSDEIFYKQIVNN-RFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 354 ~~~~~l~~~l~~~-~~~g~tG~v~F-~~g~~~~~ 385 (860)
++.+.+.|++. +|+|++|++.| ++|+....
T Consensus 298 --~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 298 --PEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred --HHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 68899998765 79999999999 88988773
No 55
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=2.8e-32 Score=296.95 Aligned_cols=340 Identities=13% Similarity=0.128 Sum_probs=272.7
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||.. |+..+.|+++|+++||++||++|++|+++++|++++|..+++++++|+++++|.+|+|+.+ |..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~-s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYT-SSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCcc-HHH
Confidence 599999999864 8999999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDS 200 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~ 200 (860)
+.++.++++..++|++++++......++++|++.+++. .+..++++++.+.+-+++++|+.|+.||+ +..+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~v~~i~~d~~~g~-~~~~~~~~~ 155 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEGFEYSPNVIYTGAAPN---QNSVPLADYLLRHYGKRVFLVGSNYIYPY-ESNRIMRDL 155 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccCCcccCCEEEeCCCcH---HHHHHHHHHHHhcCCcEEEEECCCCcchH-HHHHHHHHH
Confidence 99999999999999998765433122237788888877 77888999887666689999999999999 999999999
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccC
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSM 280 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~ 280 (860)
+++.|++++....++ ...+.+|+.+++.+++++++|+|++.+.+.++..++++++++|+.... ..+.+...... . .
T Consensus 156 ~~~~G~~vv~~~~~~-~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~-~-~ 231 (360)
T cd06357 156 LEQRGGEVLGERYLP-LGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEA-E-V 231 (360)
T ss_pred HHHcCCEEEEEEEec-CCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHH-H-H
Confidence 999999998866666 334489999999999999999999999999999999999999985332 22222221110 0 1
Q ss_pred cchhhcccCceeEEEEecc--CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCChHH
Q 044527 281 DSLVVESSMQGVVGFRRYV--PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSDEI 358 (860)
Q Consensus 281 ~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~ 358 (860)
.....+. .+|+++..++. .++|..++|.++|+++|+... .++.++..+||+++++++|+++++..+ ++.
T Consensus 232 ~~~~g~~-~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~------~~~~~~~~~yda~~~l~~Al~~ag~~~--~~~ 302 (360)
T cd06357 232 AAMGAEA-AAGHITAAPYFSSIDTPANRAFVARYRARFGEDA------PVSACAEAAYFQVHLFARALQRAGSDD--PED 302 (360)
T ss_pred hhcchHh-hCCcEEecccccccCChhHHHHHHHHHHHcCCCC------CCCcHHHHHHHHHHHHHHHHHHcCCCC--HHH
Confidence 1111133 66777765543 356889999999999887531 245688999999999999999998765 589
Q ss_pred HHHHHHhcccccceeeEEe-eCCeecCCccEEEEEe-ecCceEEee
Q 044527 359 FYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNV-IGKTIKRVG 402 (860)
Q Consensus 359 l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~-~~~~~~~vG 402 (860)
++++|++.+|+|+.|.+.| .+++.... ...+.++ .+++|..+.
T Consensus 303 v~~aL~~~~~~~~~g~~~f~~~~~~~~~-~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 303 VLAALLGFSFDAPQGPVRIDPDNNHTYL-WPRIARVNADGQFDIVR 347 (360)
T ss_pred HHHHhccCcccCCCcceEEeCCCCeeee-eeEEEEEcCCCCEEEEE
Confidence 9999999999999999999 55443332 5555666 345554433
No 56
>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=8.9e-33 Score=299.46 Aligned_cols=314 Identities=16% Similarity=0.183 Sum_probs=266.1
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|+. |+..+.|+++|+++||+.+++++++|+++++|++++|.++++.+++|+++ +|.+|+||.+ |..
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~~-~v~aiiG~~~-s~~ 78 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGNS-SSV 78 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh-CCeEEEcccc-hHH
Confidence 599999999964 89999999999999999999999999999999999999999999999988 9999999999 998
Q ss_pred HHHH-------HHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCC-CcEEEEEEecCC
Q 044527 121 AQIL-------ADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFK-WKEVILIHEDNT 187 (860)
Q Consensus 121 ~~~~-------~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~-w~~v~ii~~~~~ 187 (860)
+.++ +++++..++|+|+++++++ .+++ ++||+.|++. .++.++++++.+.+ |+++++++.++.
T Consensus 79 ~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~fr~~~~~~---~~~~~l~~~~~~~~~~k~v~i~~~~~~ 154 (342)
T cd06329 79 ALALTEAVRKHNQRNPGKEVLYLNYASVAP-ALTGEKCSFWHFRTDANTD---MKMEALASYIKKQPDGKKVYLINQDYS 154 (342)
T ss_pred HHHhhhhhhhhhhhhccCCeEEEecCCCCc-hhhhccCcceEEEecCChH---HHHHHHHHHHHhcccCceEEEEeCChH
Confidence 8888 7888899999999988777 6653 8999999999 99999999998875 999999999999
Q ss_pred CCCcCCHHHHHHHHhh--CCceEeEEEeccCCCCCh-HHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 188 WGNDNTIPYLFDSLHD--NDIDIARRTSISLASSTH-DQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 188 ~g~~~~~~~l~~~~~~--~g~~i~~~~~~~~~~~~~-~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
||+ +..+.+++.+++ .|++|+....++ .+. +|+.+++.+++++++|+|++.....++..+++++++.|+..
T Consensus 155 ~g~-~~~~~~~~~~~~~~~G~~vv~~~~~~---~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-- 228 (342)
T cd06329 155 WGQ-DVAAAFKAMLAAKRPDIQIVGEDLHP---LGKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL-- 228 (342)
T ss_pred HHH-HHHHHHHHHHHhhcCCcEEeceeccC---CCCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc--
Confidence 999 999999999999 999999877766 566 89999999999999999999998889999999999999732
Q ss_pred eEEEecChhhhhcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHH
Q 044527 265 YVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAV 342 (860)
Q Consensus 265 ~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~l 342 (860)
.++........ ......+. .+|.+....+.+ +++..++|.++|+++++. .++.++..+||+++++
T Consensus 229 -~~~~~~~~~~~---~~~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~y~~~~~~ 295 (342)
T cd06329 229 -PFYTPYLDQPG---NPAALGEA-GLGLVVAVAYWHPNDTPANRAFVEAFKAKYGR--------VPDYYEGQAYNGIQML 295 (342)
T ss_pred -eEEeccccchh---HHHhhccc-ccceEEeeeccCCCCCHHHHHHHHHHHHHhCC--------CCCchHHHHHHHHHHH
Confidence 24433322211 11112233 566666555432 368889999999988764 3467899999999999
Q ss_pred HHHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-e-CCeecC
Q 044527 343 AKASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-V-NGKLTS 384 (860)
Q Consensus 343 a~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~ 384 (860)
++|+++++..+ ++.+.++|++++|+|..|+++| . +++...
T Consensus 296 ~~a~~~ag~~~--~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~ 337 (342)
T cd06329 296 ADAIEKAGSTD--PEAVAKALEGMEVDTPVGPVTMRASDHQAQQ 337 (342)
T ss_pred HHHHHHhCCCC--HHHHHHHHhCCccccCCCCeEEcccCcchhc
Confidence 99999987654 5899999999999999999999 4 555544
No 57
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=8e-33 Score=299.12 Aligned_cols=316 Identities=16% Similarity=0.134 Sum_probs=268.5
Q ss_pred EEEEEEecCCcc----hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 44 HVGIILDMRSWT----GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 44 ~IG~l~~~~~~~----g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
+||++.|++|+. |.....|+++|+++|| +++++++|+++++|++++|..+++.+.+|+++++|.+|+||.+ |.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~-s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPN-SA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCcc-HH
Confidence 589999999875 7889999999999999 8888899999999999999999999999999889999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~ 194 (860)
.+.++++++++.++|+|+++++++ .+++ ++||+.+++. .++.++++++...+++++++++.++.||+ ...
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~-~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~v~~i~~~~~~g~-~~~ 152 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSD-DLTGKDCSPYTFHWAYDTY---MLANGTAPALVKAGGKKWFFLTADYAFGH-SLE 152 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCcc-ccccCCCCCceEEccCChH---HHHHHHHHHHHHhcCCeEEEEecchHHhH-HHH
Confidence 999999999999999999988877 6663 8999999999 99999999887777999999999999999 999
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhh
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATM 274 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 274 (860)
+.+++.+++.|++++....++ .+.+|+.+++.++++.++|+|++.+.+.++..+++++++.|+. ....++......
T Consensus 153 ~~~~~~~~~~G~~vv~~~~~~---~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~~~~~~~~ 228 (334)
T cd06327 153 RDARKVVKANGGKVVGSVRHP---LGTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLT-KGQKLAGLLLFL 228 (334)
T ss_pred HHHHHHHHhcCCEEcCcccCC---CCCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCc-cCCcEEEecccH
Confidence 999999999999999887777 6778999999999999999999999999999999999999975 233333322221
Q ss_pred hhcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcC
Q 044527 275 NFLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTG 352 (860)
Q Consensus 275 ~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 352 (860)
...... ..+. .+|++...++.+ +++..++|.++|+++++. .|+.++..+||+++++++|++++++.
T Consensus 229 ~~~~~~---~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~Y~~~~~~~~A~~~ag~~ 296 (334)
T cd06327 229 TDVHSL---GLDA-AQGLYLTTAWYWDLPNDETRAFVKRFQAKYGK--------MPSMVQAGAYSAVLHYLKAVEAAGTD 296 (334)
T ss_pred HHHHhh---chhh-hcCeEEeeeccccCCCHHHHHHHHHHHHHHCc--------CCCcHHHHHHHHHHHHHHHHHHHCCC
Confidence 111111 1123 567766665543 368899999999998865 24678899999999999999999887
Q ss_pred CCChHHHHHHHHhcc-cccceeeEEe-e-CCeecCC
Q 044527 353 QVSDEIFYKQIVNNR-FRGLSGDFQF-V-NGKLTSS 385 (860)
Q Consensus 353 ~~~~~~l~~~l~~~~-~~g~tG~v~F-~-~g~~~~~ 385 (860)
++ +++.++|++++ ++++.|.++| . +|+...+
T Consensus 297 ~~--~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~ 330 (334)
T cd06327 297 DA--DKVVAKMKETPIYDLFAGNGYIRACDHQMVHD 330 (334)
T ss_pred Ch--HHHHHhccccceeccCCCCceeeccccchhcc
Confidence 64 78999999975 5888999999 5 7776653
No 58
>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=2.8e-32 Score=296.91 Aligned_cols=331 Identities=19% Similarity=0.272 Sum_probs=275.8
Q ss_pred eEEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCCh
Q 044527 42 EVHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTP 118 (860)
Q Consensus 42 ~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s 118 (860)
+|+||++.|++|.. |.....|+++|++++|+++++++++|+++++|+.+++..+++.+.+++++++|.+|+||.+ |
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~-s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLS-S 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSS-H
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCC-c
Confidence 59999999999976 8899999999999999999999999999999999999999999999999789999999999 9
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCcCCHHH
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~ 196 (860)
..+.++++.++..++|+|++++.++ .... ++||+.|++. .++.++++++ ++++.+++++|+.+++||+ ...+.
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~-~~~~~ 154 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP-SPDSPNVFRLSPSDS---QQAAALAEYLAKKLGAKKVAIVYPDDPYGR-SLAEA 154 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG-TTTHTTEEESS--HH---HHHHHHHHHHHHTTTTSEEEEEEESSHHHH-HHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC-CCCCCcEEEEecccc---HHHHHHHHHHHHHcCCcEEEEEecCchhhh-HHHHH
Confidence 9999999999999999999775554 3333 9999999999 9999999986 5589999999999999999 99999
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhh
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNF 276 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~ 276 (860)
+++.+++.|++++....++ .+..|+...+.++++.++|+|++.+...+...+++++.+.|...+.+....+......
T Consensus 155 ~~~~~~~~G~~vv~~~~~~---~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (343)
T PF13458_consen 155 FRKALEAAGGKVVGEIRYP---PGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDAS 231 (343)
T ss_dssp HHHHHHHTTCEEEEEEEE----TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHH
T ss_pred HHHHHhhcCceeccceecc---cccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHH
Confidence 9999999999998877777 6779999999999999999999999999999999999999975433444333322222
Q ss_pred cccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC
Q 044527 277 LHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV 354 (860)
Q Consensus 277 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 354 (860)
.... ..+. .++++...++.+ ++|..++|.++|++.++... .++.++..+||++.++++|+++++. .
T Consensus 232 l~~~---~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~------~~~~~~~~~yda~~~~~~al~~~g~--~ 299 (343)
T PF13458_consen 232 LQQL---GGDA-LEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEP------PPSLYAAQGYDAARLLAQALERAGS--L 299 (343)
T ss_dssp HHHH---HGGG-GTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTG------GTCHHHHHHHHHHHHHHHHHHHHTS--H
T ss_pred HHHh---hhhh-ccCceeecccCCCCCCHHHHHHHHHHHHHcCCCC------CCchhHHHHHHHHHHHHHHHHHhCC--C
Confidence 1111 1123 667777777655 46889999999999997631 2578999999999999999999974 3
Q ss_pred ChHHHHHHHHhcccccceeeEEe--eCCeecCCccEEEEEeec
Q 044527 355 SDEIFYKQIVNNRFRGLSGDFQF--VNGKLTSSREFEIVNVIG 395 (860)
Q Consensus 355 ~~~~l~~~l~~~~~~g~tG~v~F--~~g~~~~~~~~~i~~~~~ 395 (860)
+++.+.++|++.+|+|+.|++.| .+|+... .+.|++++.
T Consensus 300 ~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~--~~~i~~v~~ 340 (343)
T PF13458_consen 300 DREAVREALESLKYDGLFGPISFDPPDHQANK--PVYIVQVKS 340 (343)
T ss_dssp HHHHHHHHHHTSEEEETTEEEEEETTTSBEEE--EEEEEEEET
T ss_pred CHHHHHHHHHhCCCcccccceEEeCCCCcccc--CeEEEEEec
Confidence 37899999999999999999999 4555555 899999983
No 59
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=3.9e-32 Score=293.44 Aligned_cols=321 Identities=12% Similarity=0.159 Sum_probs=264.4
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|.. |.....|+++|++++| +++.+++|+++++|++++|..+++.+.+|+.+++|.+|+||.+ |..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~-s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVF-SNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--CccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCC-cHH
Confidence 599999999965 8889999999999998 6777799999999999999999999999998889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
+.+++++++..++|+|+++++.+ .+.+ ++||+.|++. .++.++++++...+|++|++++.++.||+ ...+
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~g~~~vail~~~~~~g~-~~~~ 152 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPS-QLAGKQCSPYFFSTSWQND---QVHEAMGKYAQDKGYKRVFLIAPNYQAGK-DALA 152 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCcc-ccccccCCCcEEEeeCChH---hhHHHHHHHHHHhCCCeEEEEecCchhhH-HHHH
Confidence 99999999999999999976655 5542 9999999999 99999999999899999999999999999 8888
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.++ .+++....++ .+.+|+.+++.+++++++|+|++...+.++..+++++++.|+.. ...++.+.....
T Consensus 153 ~~~~~~~---~~v~~~~~~~---~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~ 225 (333)
T cd06359 153 GFKRTFK---GEVVGEVYTK---LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDE 225 (333)
T ss_pred HHHHHhC---ceeeeeecCC---CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccC
Confidence 8888764 3566555544 67789999999999999999999888888999999999999742 334444333221
Q ss_pred hcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ 353 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 353 (860)
. +.. ....++ .+|++....+.+ +++..++|.++|+++++. .+..++..+||+++++++|+++++...
T Consensus 226 ~-~~~-~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~A~~~ag~~~ 294 (333)
T cd06359 226 E-DTL-PAVGDA-ALGLYNTAQWAPDLDNPANKKFVADFEKKYGR--------LPTLYAAQAYDAAQLLDSAVRKVGGNL 294 (333)
T ss_pred H-HHH-Hhcchh-hcCeeeccccCCCCCCHHHHHHHHHHHHHhCC--------CCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 1 001 111233 567777666655 468899999999988864 356889999999999999999997643
Q ss_pred CChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEE
Q 044527 354 VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVN 392 (860)
Q Consensus 354 ~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~ 392 (860)
.+++.+.++|++.+|+|++|+++| ++|+... ...+++
T Consensus 295 ~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~~--~~~~~~ 332 (333)
T cd06359 295 SDKDALRAALRAADFKSVRGAFRFGTNHFPIQ--DFYLRE 332 (333)
T ss_pred CCHHHHHHHHhcCccccCccceEECCCCCcce--eEEEEe
Confidence 246899999999999999999999 8888766 444443
No 60
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=6.7e-32 Score=291.14 Aligned_cols=318 Identities=11% Similarity=0.098 Sum_probs=263.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||+. |+....|+++|+++||+++|++|++|+++++|++++|..+++.+++|+.+++|.+|+|+.+ |..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~-s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGIS-SAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcc-hHH
Confidence 599999999965 8999999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFD 199 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~ 199 (860)
+.++.+++++.++|+|....... ..++ ++||+.+++. .++.++++++...+-+++++++.|++||. +..+.+++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~-~~~~~~~F~~~~~~~---~~~~~~~~~~~~~~~~~vail~~d~~~g~-~~~~~~~~ 154 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG-GVCDRNTFCTGATPA---QQFSTLVPYMMEKYGKKVYTIAADYNFGQ-ISAEWVRK 154 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-CcccCCEEEeCCCcH---HHHHHHHHHHHHccCCeEEEECCCchhhH-HHHHHHHH
Confidence 99999999999999998754444 4444 9999999999 99999999987755589999999999999 99999999
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhh--c
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNF--L 277 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~--~ 277 (860)
.+++.|++++....++ .+..|++.++.+++++++|+|++...+.+...+++++++.|+ . ....+........ .
T Consensus 155 ~~~~~G~~vv~~~~~~---~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~-~~~~~~~~~~~~~~~~ 229 (334)
T cd06356 155 IVEENGGEVVGEEFIP---LDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-G-NIPMASSTLGAQGYEH 229 (334)
T ss_pred HHHHcCCEEEeeeecC---CCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-c-cCceeeeecccchhHH
Confidence 9999999999888877 778999999999999999999999888899999999999997 1 1112221111000 1
Q ss_pred ccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCC
Q 044527 278 HSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVS 355 (860)
Q Consensus 278 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 355 (860)
..+. ... .+|++....+.+ +.|..++|.++|+++++.. | .++.++..+||+++++++|++++++.+
T Consensus 230 ~~~~---~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-p-----~~~~~~~~~y~a~~~~~~A~~~ag~~~-- 297 (334)
T cd06356 230 KRLK---PPA-LKDMYATANYIEELDTPANKAFVERFRAKFPDA-P-----YINEEAENNYEAIYLYKEAVEKAGTTD-- 297 (334)
T ss_pred hccC---chh-cCCeEEecchhhhcCCHHHHHHHHHHHHHcCCC-C-----CCCchhHHHHHHHHHHHHHHHHHCCCC--
Confidence 1111 122 566666555433 3578899999999998652 1 125688999999999999999998654
Q ss_pred hHHHHHHHHh-cccccceeeEEe-e-CCeecC
Q 044527 356 DEIFYKQIVN-NRFRGLSGDFQF-V-NGKLTS 384 (860)
Q Consensus 356 ~~~l~~~l~~-~~~~g~tG~v~F-~-~g~~~~ 384 (860)
++.|.++|+. .+++|+.|++.| . +++...
T Consensus 298 ~~~v~~aL~~~~~~~~~~g~~~~~~~~h~~~~ 329 (334)
T cd06356 298 RDAVIEALESGLVCDGPEGKVCIDGKTHHTSH 329 (334)
T ss_pred HHHHHHHHHhCCceeCCCceEEEecCCCceee
Confidence 5899999996 678999999999 4 454444
No 61
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=4.3e-32 Score=295.30 Aligned_cols=319 Identities=18% Similarity=0.164 Sum_probs=264.5
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|+. |+....|+++|+++||+++++.++++++++.|+++++..+++.+++|+.+++|.+|+||.+ +..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~-s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLIS-SGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccc-hHH
Confidence 599999999975 8889999999999999999998999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCCCCCcCC
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNTWGNDNT 193 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~g~~~~ 193 (860)
+.+++++++..++|+|++.++++ .+.+ ++||+.|++. .+..+++++++++ +|++|++++.+++||. ..
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~-~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~-~~ 154 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTP-RLTEEPDNPYVFRTRNSTI---MDAVAGALYAAKLDKKAKTWATINPDYAYGQ-DA 154 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCc-ccccCCCCCceEEecCChH---HHHHHHHHHHHHhCcCccEEEEECCchHHHH-HH
Confidence 99999999999999999987776 5542 9999999999 9999999999876 4999999999999999 99
Q ss_pred HHHHHHHHhhCC--ceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 194 IPYLFDSLHDND--IDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 194 ~~~l~~~~~~~g--~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
.+.+++.+++.| ++++....++ .+.+|+..++.+|+++++|+|++.+.+.+...+++++.+.|+.. +..|+.+.
T Consensus 155 ~~~~~~~~~~~g~~~~~v~~~~~~---~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~ 230 (346)
T cd06330 155 WADFKAALKRLRPDVEVVSEQWPK---LGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTL 230 (346)
T ss_pred HHHHHHHHHHhCCCCeecccccCC---CCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeec
Confidence 999999999985 4555444333 56789999999999999999999999999999999999999843 56677665
Q ss_pred hhhhhcccCcchhhcccCceeEEEEe--ccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHH
Q 044527 272 ATMNFLHSMDSLVVESSMQGVVGFRR--YVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASE 347 (860)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~g~~~~~~--~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~ 347 (860)
....... ....+. ..|++.... +.. +++..++|.++|+++++. .++.++..+||+++++++|++
T Consensus 231 ~~~~~~~---~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--------~p~~~~~~~y~a~~~l~~a~~ 298 (346)
T cd06330 231 TGAPELA---PLGDEM-PEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYGD--------YPTYGAYGAYQAVMALAAAVE 298 (346)
T ss_pred cchhhhh---hhhccc-CCceEEeccccCCCCCCChHHHHHHHHHHHHHCC--------CCChHHHHHHHHHHHHHHHHH
Confidence 5332211 111122 455543322 222 478899999999998863 345688999999999999999
Q ss_pred hhhcCCCC--hHHHHHHHHhcccccceeeEEe-e-CCeecC
Q 044527 348 KLKTGQVS--DEIFYKQIVNNRFRGLSGDFQF-V-NGKLTS 384 (860)
Q Consensus 348 ~~~~~~~~--~~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~ 384 (860)
+++..+.. .+.+.++|+++++.|+.|++.| + +++...
T Consensus 299 ~a~~~~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~~ 339 (346)
T cd06330 299 KAGATDGGAPPEQIAAALEGLSFETPGGPITMRAADHQATQ 339 (346)
T ss_pred HhcCCCCCCcHHHHHHHHcCCCccCCCCceeeecCCCcccc
Confidence 99876531 1469999999999999999999 5 444444
No 62
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.5e-32 Score=295.26 Aligned_cols=318 Identities=14% Similarity=0.116 Sum_probs=266.4
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCc--c--cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCC
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHC--K--TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGM 116 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l--~--~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~ 116 (860)
+||++.|+||+. |.+...++++|++++|++++++ + ++|+++++|++++|..+.+.+++|+.+++|.+|+|+.+
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 599999999864 8889999999999999999987 5 58999999999999999999999998889999999999
Q ss_pred ChhHHHHHHHhhcCCCCcEEecccCCCccccc----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcC
Q 044527 117 TPTGAQILADLGSRAKIPIISLFTTLPNSLTS----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDN 192 (860)
Q Consensus 117 ~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~ 192 (860)
+..+.. ++++++.++|+|++.++++ .+++ ++||+.|++. .++.++++++++.+|++|++++.|++||+ .
T Consensus 81 -s~~~~~-~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~fr~~~~~~---~~~~~~~~~~~~~~~~~v~il~~d~~~g~-~ 153 (347)
T cd06336 81 -GGITAA-QQITERNKVLLLTAYSSDL-SIDTAGNPLTFRVPPIYN---VYGVPFLAYAKKPGGKKVALLGPNDAYGQ-P 153 (347)
T ss_pred -Cchhhh-hhhhhhcCceEEeccCCcc-cccccCCceEEEecCCch---hHHHHHHHHHhhcCCceEEEEccCCchhH-H
Confidence 888887 9999999999999998888 7763 8999999999 99999999998899999999999999999 9
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHHHHHHHHHcCCccCCeEEEecC
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
..+.+++.+++.|++++....++ .+.+|+..++.+++++++|+|++.+... ++..+++++++.|+..+ ..++...
T Consensus 154 ~~~~~~~~l~~~G~~vv~~~~~~---~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~ 229 (347)
T cd06336 154 WVAAYKAAWEAAGGKVVSEEPYD---PGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGD 229 (347)
T ss_pred HHHHHHHHHHHcCCEEeeecccC---CCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCC
Confidence 99999999999999999888777 6789999999999999999999999988 99999999999997532 2222111
Q ss_pred hhhhhcccCcchhhcccCceeEEEEeccC----CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHH
Q 044527 272 ATMNFLHSMDSLVVESSMQGVVGFRRYVP----TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASE 347 (860)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~ 347 (860)
......... ..+. ..|++...++.+ ++|..++|.++|+++++. .+..++..+||++.++++|++
T Consensus 230 ~~~~~~~~~---~~~~-~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~p~~~~~~~y~~~~~~~~Al~ 297 (347)
T cd06336 230 KYDELLVAT---GADF-MEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE--------PPNSEAAVSYDAVYILKAAME 297 (347)
T ss_pred CchHHHHHh---cHHh-hCceEEEeecccccccCCHHHHHHHHHHHHHHCC--------CCcHHHHHHHHHHHHHHHHHH
Confidence 111111111 1233 567777666544 468889999999998865 256789999999999999999
Q ss_pred hhhcCCCChHHHHHHHHh-------cccccceeeEEe-eCCeecCC
Q 044527 348 KLKTGQVSDEIFYKQIVN-------NRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 348 ~~~~~~~~~~~l~~~l~~-------~~~~g~tG~v~F-~~g~~~~~ 385 (860)
+++..+. .+.+.+.++. ..|.+..|.+.| ++|+...|
T Consensus 298 ~ag~~~~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 298 AAGSVDD-TAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred hcCCCCc-HHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 9986654 2333444443 678889999999 99999987
No 63
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=9.7e-32 Score=289.77 Aligned_cols=316 Identities=14% Similarity=0.125 Sum_probs=259.8
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHH-hccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFY-AVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN-~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
+||++.|++|+. |.....|+++|++++| +.++++|++|++++.|++++|..+++++.+|+.+++|.+|+||.+ |.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~-S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTS-SG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCC-cH
Confidence 599999999964 8999999999999995 568888899999999999999999999999999989999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~ 194 (860)
.+.++.+++++.++|+|+++++++ .++. |+||+.+++. .+...+++++... +++|++++.+++||+ +..
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~-~l~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~-~~~v~~i~~~~~~g~-~~~ 153 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAAD-SITGKNWNRYTFRTGRNSS---QDAIAAAAALGKP-GKKIATLAQDYAFGR-DGV 153 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCc-hhhccCCCCcEEEecCChH---HHHHHHHHHHHhc-CCeEEEEecCccccH-HHH
Confidence 999999999999999999888877 6653 8999998888 8888888887665 899999999999999 999
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHHHHHHHHHcCCccCCeEEEecChh
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASHLFLNAKKLGMMSKGYVWIATAAT 273 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~il~~a~~~gl~~~~~~~i~~~~~ 273 (860)
+.+++.+++.|++++....++ .+..|+.+++.+++++++|+|++...+. ++..+++++...|+... .......
T Consensus 154 ~~~~~~~~~~G~~vv~~~~~~---~~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~ 227 (333)
T cd06328 154 AAFKAALEKLGAAIVTEEYAP---TDTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDI 227 (333)
T ss_pred HHHHHHHHhCCCEEeeeeeCC---CCCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccc
Confidence 999999999999999988777 7889999999999999999998876555 67777888877775321 1122211
Q ss_pred hhhcccCcchhhcccCceeEEEEecc-CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcC
Q 044527 274 MNFLHSMDSLVVESSMQGVVGFRRYV-PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTG 352 (860)
Q Consensus 274 ~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~ 352 (860)
..... .....+. ..+......+. +.+|..+.|.++|+++++. .|+.+++.+||++.++++|+++++..
T Consensus 228 ~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~--------~p~~~~~~~y~a~~~l~~Ai~~ag~~ 296 (333)
T cd06328 228 LANLT--MYKAGPG-MSGASYYYHYFLPKNPVNDWLVEEHKARFGS--------PPDLFTAGGMSAAIAVVEALEETGDT 296 (333)
T ss_pred cCccc--ccccccc-ccceeeeecCCCCCCHHHHHHHHHHHHHhCC--------CcchhhHHHHHHHHHHHHHHHHhCCC
Confidence 11110 0111122 44555444444 6678889999999998864 35678999999999999999999843
Q ss_pred CCChHHHHHHHHhcccccceeeEEe-e-CCeecCC
Q 044527 353 QVSDEIFYKQIVNNRFRGLSGDFQF-V-NGKLTSS 385 (860)
Q Consensus 353 ~~~~~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~~ 385 (860)
+ ++.+.++|++.+|+++.|+++| . +++...+
T Consensus 297 ~--~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~ 329 (333)
T cd06328 297 D--TEALIAAMEGMSFETPKGTMTFRKEDHQALQP 329 (333)
T ss_pred C--HHHHHHHHhCCeeecCCCceEECcccchhhhc
Confidence 3 6899999999999999999999 4 5555553
No 64
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=100.00 E-value=1.9e-31 Score=288.10 Aligned_cols=316 Identities=14% Similarity=0.162 Sum_probs=262.3
Q ss_pred EEEEEEecCCc---chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSW---TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||. .|+....|+++|+++||+.+++++++++++++|++++|..+++++.+|+.+++|.+|||+.+ |..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~-s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHT-SAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCc-HHH
Confidence 59999999996 48999999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCcCCHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGNDNTIPYLF 198 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~l~ 198 (860)
+.++.++++ .++|+|++.+.+. .... ++||+.+++. .++.++++++ +..+|++|++++.++.||+ ...+.++
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~-~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~-~~~~~~~ 153 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEG-GECNPGVFLTGETPE---QQLAPAIPWLAEEKGARRWYLIGNDYVWPR-GSLAAAK 153 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCC-CCCCCCEEEcCCCcH---HHHHHHHHHHHHhcCCCeEEEEeccchhhH-HHHHHHH
Confidence 999999999 9999999865544 3333 9999999988 8887777666 5579999999999999999 9999999
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecC-hhh-hh
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATA-ATM-NF 276 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~-~~~-~~ 276 (860)
+.+++.|++|+....++ .+..|+.+++.++++.++|+|++.....++..+++++++.|+..+ ++... ... ..
T Consensus 154 ~~~~~~G~~v~~~~~~~---~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~ 227 (333)
T cd06358 154 RYIAELGGEVVGEEYVP---LGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENM 227 (333)
T ss_pred HHHHHcCCEEeeeeeec---CChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHH
Confidence 99999999999887777 778999999999999999999999998899999999999998543 22211 111 11
Q ss_pred cccCcchhhcccCceeEEEEecc--CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC
Q 044527 277 LHSMDSLVVESSMQGVVGFRRYV--PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV 354 (860)
Q Consensus 277 ~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 354 (860)
..... .+. .+|++....+. ...+..++|.+.|+++|+...+ .+..++..+||+++++++|+++++..+
T Consensus 228 ~~~~~---~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~-----~~~~~~~~~yda~~~~~~A~~~ag~~~- 297 (333)
T cd06358 228 LLASG---AEA-AEGLYSSSGYFASLQTPANAAFLARYRARFGDDAP-----PLNSLSESCYEAVHALAAAAERAGSLD- 297 (333)
T ss_pred HHhcC---hHh-hCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCC-----CCChHHHHHHHHHHHHHHHHHHhCCCC-
Confidence 11111 122 45665554443 3568899999999998875321 356788999999999999999987644
Q ss_pred ChHHHHHHHHhcccccceeeEEe-eCCeecC
Q 044527 355 SDEIFYKQIVNNRFRGLSGDFQF-VNGKLTS 384 (860)
Q Consensus 355 ~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~ 384 (860)
++.|.++|++++|+|++|.++| ++ +...
T Consensus 298 -~~~v~~al~~~~~~~~~G~~~~~~~-~~~~ 326 (333)
T cd06358 298 -PEALIAALEDVSYDGPRGTVTMRGR-HARQ 326 (333)
T ss_pred -HHHHHHHhccCeeeCCCcceEEccc-cccc
Confidence 6899999999999999999999 66 3344
No 65
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=9.8e-32 Score=275.36 Aligned_cols=321 Identities=15% Similarity=0.118 Sum_probs=233.6
Q ss_pred EEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 43 VHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 43 i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
|+||+|++++|.. ++.+..|..+|++|||++||++|++|+.+++|.++|+..-.+.+.+|+.+++|.+|+|.++ |.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~T-Sa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYT-SA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--S-HH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecch-hh
Confidence 7899999999976 6889999999999999999999999999999999999999999999999889999999999 99
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCcCCHHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGNDNTIPYLF 198 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~l~ 198 (860)
+-.++.++.++.+-+...+....-.+.+++++-+..... ++...+++++ .++|.+|+.+|.+|+.|++ ...+-++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YEG~E~S~nviYtGa~PN---Q~~~pl~~~~~~~~G~~r~~lvGSdYv~pr-e~Nri~r 155 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYEGFECSPNVIYTGAAPN---QQLLPLIDYLLENFGAKRFYLVGSDYVYPR-ESNRIIR 155 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S--------TTEEE-S--GG---GTHHHHHHHHHHHS--SEEEEEEESSHHHH-HHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccccccCCCceEEcCCCch---hhHHHHHHHHHhccCCceEEEecCCccchH-HHHHHHH
Confidence 999999999999998887764443123337777777666 6666666665 7789999999999999999 9999999
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecCh-hhhhc
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAA-TMNFL 277 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~-~~~~~ 277 (860)
+.+++.|++++.+..++ .+.+++..++++|++.+||+|+-...++....|+++.+++|+... ...|.+-. .....
T Consensus 156 ~~l~~~GgevvgE~Y~p---lg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 156 DLLEARGGEVVGERYLP---LGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAEL 231 (363)
T ss_dssp HHHHHTT-EEEEEEEE----S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHH
T ss_pred HHHHHcCCEEEEEEEec---CCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHH
Confidence 99999999999999998 899999999999999999999999999999999999999998643 34444333 22233
Q ss_pred ccCcchhhcccCceeEEEEec--cCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCC
Q 044527 278 HSMDSLVVESSMQGVVGFRRY--VPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVS 355 (860)
Q Consensus 278 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 355 (860)
..++. +. ..|.+....+ +-++|.+++|+++|+++++.+. .++.....+|.+|+++|+|++++++.+
T Consensus 232 ~~~g~---~~-~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~------v~s~~~eaaY~~v~l~a~Av~~ags~d-- 299 (363)
T PF13433_consen 232 AAMGA---EA-AAGHYTSAPYFQSIDTPENQAFVARFRARYGDDR------VTSDPMEAAYFQVHLWAQAVEKAGSDD-- 299 (363)
T ss_dssp TTS-H---HH-HTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----------HHHHHHHHHHHHHHHHHHHHTS----
T ss_pred hhcCh---hh-cCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCC------CCCcHHHHHHHHHHHHHHHHHHhCCCC--
Confidence 33332 23 5677776665 4567999999999999987642 346667789999999999999999877
Q ss_pred hHHHHHHHHhcccccceeeEEe-e-CCeecC
Q 044527 356 DEIFYKQIVNNRFRGLSGDFQF-V-NGKLTS 384 (860)
Q Consensus 356 ~~~l~~~l~~~~~~g~tG~v~F-~-~g~~~~ 384 (860)
.++++++|.+.+|+++.|.+++ . |++...
T Consensus 300 ~~~vr~al~g~~~~aP~G~v~id~~n~H~~l 330 (363)
T PF13433_consen 300 PEAVREALAGQSFDAPQGRVRIDPDNHHTWL 330 (363)
T ss_dssp HHHHHHHHTT--EEETTEEEEE-TTTSBEEB
T ss_pred HHHHHHHhcCCeecCCCcceEEcCCCCeecc
Confidence 5999999999999999999999 4 666655
No 66
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=2.4e-31 Score=285.75 Aligned_cols=280 Identities=16% Similarity=0.289 Sum_probs=221.7
Q ss_pred CCCCHHHHHHHHHHhhccCCeEEEE-ecCCChh--HHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCch
Q 044527 88 SQGDPFHALTTASNLMQNVDLQAII-CIGMTPT--GAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEA 159 (860)
Q Consensus 88 ~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~--~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~ 159 (860)
...||...++++|+++.+.+|.|+| ||.+ +. .+..++.++++.+||+|+++++++..+++ +|+|+.|++.
T Consensus 43 ~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~-~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~- 120 (362)
T cd06378 43 NETDPKSILTQLCDLLSTTKVHGVVFEDDT-DQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIE- 120 (362)
T ss_pred CCCCHHHHHHHHHHHhcccceEEEEecCCC-CccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHH-
Confidence 4589999999999999886799755 9999 65 44677888888999999998665423333 8999999999
Q ss_pred hHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCC-ChHHHHHHHHhhhcCCCeE
Q 044527 160 SQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASS-THDQIIEKLSMLKSLDTKV 238 (860)
Q Consensus 160 ~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~i~~~~~~v 238 (860)
.|++|+++++++|+|++|++|+++++.+. .+.+.+++.+++.++|+.....++ ... ...+....+.++++.++++
T Consensus 121 --~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~~-~~~~~l~~~~~~~~~~~~i~~~~~-~~~~~~~~~~~~l~~lk~~~arV 196 (362)
T cd06378 121 --QQAAVMLKIMEEYDWHAFSVVTSRFPGYD-DFVSAVRTTVDNSFVGWELQSVLT-LDMSDDDGDARTQRQLKKLESQV 196 (362)
T ss_pred --HHHHHHHHHHHHCCCeEEEEEEEcCCCHH-HHHHHHHHHHhhcccceeEEEEEe-eccCCCcchHHHHHHHHhcCCCE
Confidence 99999999999999999999999988766 677777777777666654443333 212 2234778889999999999
Q ss_pred EEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhc
Q 044527 239 FVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYL 318 (860)
Q Consensus 239 iil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~ 318 (860)
||++|+.+++..++++|.++||++.+|+||+++......+. . ..+. ..|++++... +|+.
T Consensus 197 iVl~~s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~-~--~~~~-~~G~i~v~~~------------~w~~---- 256 (362)
T cd06378 197 ILLYCSKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL-G--PSEF-PVGLISVSYD------------GWRY---- 256 (362)
T ss_pred EEEECCHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc-c--cccC-CcceEeeccc------------cccc----
Confidence 99999999999999999999999999999999987655211 1 1122 4566665421 2211
Q ss_pred cCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcC------------------CCChHHHHHHHHhcccccceeeEEe-eC
Q 044527 319 NNPNAEVSELDAYGILAYDTVWAVAKASEKLKTG------------------QVSDEIFYKQIVNNRFRGLSGDFQF-VN 379 (860)
Q Consensus 319 ~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~------------------~~~~~~l~~~l~~~~~~g~tG~v~F-~~ 379 (860)
...+..||||+++|+|++.+... ...|..|.++|++++|+|. +++| ++
T Consensus 257 -----------~~~a~~~DaV~vva~Al~~l~~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~ 323 (362)
T cd06378 257 -----------SLRARVRDGVAIIATGASAMLRQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTED 323 (362)
T ss_pred -----------cHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCC
Confidence 13567899999999999976321 0127899999999999996 9999 99
Q ss_pred CeecCCccEEEEEeec-CceEEeeeecCC
Q 044527 380 GKLTSSREFEIVNVIG-KTIKRVGFWNPT 407 (860)
Q Consensus 380 g~~~~~~~~~i~~~~~-~~~~~vG~~~~~ 407 (860)
|++.++ .|+|++++. .+|++||+|+++
T Consensus 324 G~r~~~-~ldIinl~~~~g~~kVG~W~~~ 351 (362)
T cd06378 324 GYLVNP-KLVVISLNKERVWEEVGKWENG 351 (362)
T ss_pred CeEccc-eEEEEEecCCCCceEEEEEcCC
Confidence 999999 999999996 589999999953
No 67
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=5.8e-31 Score=285.54 Aligned_cols=319 Identities=13% Similarity=0.136 Sum_probs=271.0
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|+. |.....|+++|++++| +++.|+++++++.|++++|..+++++.+|+.+++|.+||||.+ +..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~-s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVH-SGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCc-cHh
Confidence 599999999965 6889999999999986 4566799999999999999999999999998779999999999 888
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
+.++++.++..++|+|+++++++ .+++ ++||+.|++. .++..+++++.+.+|+++++++.++.||+ +..+
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~-~~~~~~~~~~~f~~~~~~~---~~~~~~~~~l~~~~~~~v~~l~~~~~~g~-~~~~ 152 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGAD-DLTGRLCAPNFFRTSFSNA---QWAAPMGKYAADDGYKKVVTVAWDYAFGY-EVVE 152 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCc-cccccCCCCcEEEEeCchH---HHHHHHHHHHHHcCCCeEEEEeccchhhH-HHHH
Confidence 88889999999999999988777 6653 8999999998 99999999999889999999999999999 8899
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.+++.|++++....++ .+.+||++++.+++++++|+|++.....++..+++++.+.|+.. ...++.++....
T Consensus 153 ~~~~~~~~~G~~v~~~~~~~---~~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 228 (336)
T cd06360 153 GFKEAFTEAGGKIVKELWVP---FGTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTD 228 (336)
T ss_pred HHHHHHHHcCCEEEEEEecC---CCCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccC
Confidence 99999999999998877666 67889999999999999999999999999999999999999742 334554443321
Q ss_pred hcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ 353 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 353 (860)
. . ......++ .+|++...++.+ +++..++|.++|+++++. .|+.++..+||+++++++|+++++...
T Consensus 229 ~-~-~~~~~g~~-~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~~--------~~~~~~~~~yda~~~~~~A~~~a~~~~ 297 (336)
T cd06360 229 G-T-TLGAAGEA-AEGVITALHYADTLDNPANQAFVKAYRAAYPD--------TPSVYAVQGYDAGQALILALEAVGGDL 297 (336)
T ss_pred H-H-HHHhhHhh-hcCceeccccCCCCCCHHHHHHHHHHHHHhCC--------CccHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 1 0 11112234 667776666544 468899999999998864 356889999999999999999998754
Q ss_pred CChHHHHHHHHhcccccceeeEEe-eCCeecCC
Q 044527 354 VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 354 ~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~ 385 (860)
.+++.+.++|++.+|+|..|+++| ++|++..+
T Consensus 298 ~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 298 SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred CCHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 446889999999999999999999 88998874
No 68
>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=6.7e-31 Score=285.20 Aligned_cols=315 Identities=17% Similarity=0.215 Sum_probs=256.9
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|+||.. |.....|+++|++++|+++++++++|++++.|++++|..+.+.+.+|+.+++|.+|+||.+ |+.
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~-s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLH-TPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCC-CHH
Confidence 599999999954 8999999999999999999999999999999999999999999999999889999999999 999
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc------ceEeecCCCchhHHHHHHHHHHH-hhCCCcEEEEEEecCCCCCcCC
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS------YSIQIDQDDEASQSQARGISDFI-SVFKWKEVILIHEDNTWGNDNT 193 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~------~~~r~~p~~~~~~~~~~ai~~~l-~~~~w~~v~ii~~~~~~g~~~~ 193 (860)
+.++.++++..+||+|++.++.+ .++. ++||+.|++. .++.++++++ ++.+|++|++++.+++||+ ..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~-~l~~~~~~~~~~Fr~~~~~~---~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~-~~ 154 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGT-PITRNGAPPNYIFRVSADDS---IQAPFLVDEAVKRGGFKKVALLLDNTGWGR-SN 154 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCc-ccccCCCCCCCEEEeccChH---HHHHHHHHHHHHhcCCCeEEEEeccCchhh-hH
Confidence 99999999999999999887665 4431 8999999999 9999999987 4567999999999999999 99
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChh
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAAT 273 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 273 (860)
.+.+++.+++.|++++....++ .+..|+.+.+.+|+++++++|++.+...++..+++++++.|+..+ ++....
T Consensus 155 ~~~~~~~~~~~G~~v~~~~~~~---~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~----~~~~~~ 227 (347)
T cd06335 155 RKDLTAALAARGLKPVAVEWFN---WGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP----IISHWG 227 (347)
T ss_pred HHHHHHHHHHcCCeeEEEeeec---CCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc----EecccC
Confidence 9999999999999999888777 667899999999999999999999999999999999999997422 222111
Q ss_pred hhhcccCcchhhcccCceeEEEEecc---CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhh
Q 044527 274 MNFLHSMDSLVVESSMQGVVGFRRYV---PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLK 350 (860)
Q Consensus 274 ~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~ 350 (860)
........ ...+. ..|++....+. ++++..++|.++|+++++..... ...++.++..+||+++++++|+++++
T Consensus 228 ~~~~~~~~-~~g~~-~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~ag 303 (347)
T cd06335 228 LSGGNFIE-GAGPA-ANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQAG 303 (347)
T ss_pred CcCchhhh-ccchh-hcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHHhc
Confidence 11111111 11122 45555443322 35688999999999998753210 11235567889999999999999998
Q ss_pred cCCCChHHHHHHHHhc--ccccceeeE--Ee
Q 044527 351 TGQVSDEIFYKQIVNN--RFRGLSGDF--QF 377 (860)
Q Consensus 351 ~~~~~~~~l~~~l~~~--~~~g~tG~v--~F 377 (860)
... .+.+.+.|+++ .+.|+.|.. .|
T Consensus 304 ~~~--~~~v~~al~~~~~~~~G~~~~~~~~~ 332 (347)
T cd06335 304 STD--GRAIKRALENLKKPVEGLVKTYDKPF 332 (347)
T ss_pred CCC--HHHHHHHHHhccCCceeeecccCCCC
Confidence 655 37899999876 467777754 57
No 69
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3e-31 Score=286.69 Aligned_cols=316 Identities=12% Similarity=0.036 Sum_probs=259.3
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
|||++.|+||+. |+.+..|+++|+++||+.+++++++|+++++|++++|..+++.+.+|+.+++|.+|+ +.+ |..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~-S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWS-TGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCc-HHH
Confidence 589999999865 889999999999999999999999999999999999999999999999988898865 577 888
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCC-----CcEEEEEEecCCCCC
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFK-----WKEVILIHEDNTWGN 190 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~-----w~~v~ii~~~~~~g~ 190 (860)
+.++++++.+.+||+|+++++++ .+++ ++||+.|++. .++.++++++.+.+ .++|++|+.|+.||+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~-~~~~~~~~~~~Fr~~~~~~---~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~ 154 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGAT-LADDGAVFPYNFPVGPTYS---DQARALVQYIAEQEGGKLKGKKIALVYHDSPFGK 154 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchh-hccCCCCCCeeeeCCCCHH---HHHHHHHHHHHHhcccCCCCCeEEEEeCCCccch
Confidence 99999999999999999987766 6542 9999999999 99999999987654 799999999999999
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
...+.+++.+++.|++++....++ .+.+|+.+++.+++++++|+|++.+...++..+++++++.|+. ..++.+
T Consensus 155 -~~~~~~~~~~~~~G~~vv~~~~~~---~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~---~~~~~~ 227 (351)
T cd06334 155 -EPIEALKALAEKLGFEVVLEPVPP---PGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLD---DKFIGN 227 (351)
T ss_pred -hhHHHHHHHHHHcCCeeeeeccCC---CCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCC---ceEEEe
Confidence 999999999999999999887776 7789999999999999999999999999999999999999973 234443
Q ss_pred ChhhhhcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHh
Q 044527 271 AATMNFLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEK 348 (860)
Q Consensus 271 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~ 348 (860)
..... .. +.....+. .+|+++..++.+ ++|..++|.+.|+++++.. |+. ...++.++..+||+++++++||++
T Consensus 228 ~~~~~-~~-~~~~~g~~-~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~-~~~-~~~~~~~~~~gy~a~~~l~~Al~~ 302 (351)
T cd06334 228 WWSGD-EE-DVKPAGDA-AKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGS-GND-KEIGSVYYNRGVVNAMIMVEAIRR 302 (351)
T ss_pred eccCc-HH-HHHHhhhh-hcCcEEeecccCCCCchHHHHHHHHHHHccCCC-CCc-ccccccHHHHHHHHHHHHHHHHHH
Confidence 32211 11 11111133 567766655543 6689999999999888642 210 123467899999999999999999
Q ss_pred hhcCCCCh-----H------HHHHHHHhcccccceeeEEe
Q 044527 349 LKTGQVSD-----E------IFYKQIVNNRFRGLSGDFQF 377 (860)
Q Consensus 349 ~~~~~~~~-----~------~l~~~l~~~~~~g~tG~v~F 377 (860)
+++.++.. + .-.+.+++....|+.|+++|
T Consensus 303 ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 342 (351)
T cd06334 303 AQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSV 342 (351)
T ss_pred HHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCcee
Confidence 98766531 1 12345667778899999999
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=99.98 E-value=1.1e-29 Score=267.18 Aligned_cols=311 Identities=14% Similarity=0.125 Sum_probs=234.5
Q ss_pred CceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEec-CCCCHHHHHHHHHHhh-ccCCeEEEEec-C
Q 044527 40 SDEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRD-SQGDPFHALTTASNLM-QNVDLQAIICI-G 115 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D-~~~~~~~a~~~~~~li-~~~~v~aviGp-~ 115 (860)
+..|+||++|+.. . +.+.|+++|++.+|.+..+++ .+|+.++.. ...|++.+.+.+|+++ ++ ||.||+|| .
T Consensus 16 ~~~i~iG~if~~~-~---~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~-GV~AIfg~p~ 90 (382)
T cd06377 16 GHTVRLGALLVRA-P---APRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQ-GVSALLAFPQ 90 (382)
T ss_pred CCceeeeEEecCC-c---hHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhC-CeEEEEecCC
Confidence 4569999999976 2 579999999999999987766 888888887 4589999999999994 76 99999995 7
Q ss_pred CChhHHHHHHHhhcCCCCcEEecccCCCccc-cc--ceE--eecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCC
Q 044527 116 MTPTGAQILADLGSRAKIPIISLFTTLPNSL-TS--YSI--QIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGN 190 (860)
Q Consensus 116 ~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~l-s~--~~~--r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~ 190 (860)
+ +.++..+..+|+..+||+|+++..++ .. ++ +.+ ++.|+.. .++.|+.+++++|+|++|++||+.++...
T Consensus 91 s-~~~~~~v~sic~~l~IP~I~~~~~~~-~~~~~~~~~l~L~l~P~~~---~l~~a~~~ll~~~~W~~f~~iy~~~~gl~ 165 (382)
T cd06377 91 T-RPELVQLDFVSAALEIPVVSIVRREF-PRGSQNPFHLQMSWASPLS---TLLDVLLSVLQRNGWEDVSLVLCRERDPT 165 (382)
T ss_pred C-HHHHHHHHHHhcCCCCCEEEecCCcc-cccCCCceeEEEEecCCHH---HHHHHHHHHHHHCCCcEEEEEEecCcCHH
Confidence 7 88889999999999999999965443 22 22 434 5699999 99999999999999999999999886443
Q ss_pred cCCHHHHHHHHhhCC-----ceEeEEEeccCC-CCChHHH-HHHHHhhhcCC-CeEEEEEeCHHHHHHHHHHHHHcCCcc
Q 044527 191 DNTIPYLFDSLHDND-----IDIARRTSISLA-SSTHDQI-IEKLSMLKSLD-TKVFVVHMTHALASHLFLNAKKLGMMS 262 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g-----~~i~~~~~~~~~-~~~~~~~-~~~l~~i~~~~-~~viil~~~~~~~~~il~~a~~~gl~~ 262 (860)
.|++.++..+ ..+.... .+ . ..+..++ +..|++++++. +++|++.|+.+.+..+++++.+
T Consensus 166 -----~lq~l~~~~~~~~~~~~i~v~~-~~-~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~----- 233 (382)
T cd06377 166 -----GLLLLWTNHARFHLGSVLNLSR-ND-PSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP----- 233 (382)
T ss_pred -----HHHHHHHHhcccccCceEEEEe-cc-CccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc-----
Confidence 3444444432 1222222 21 1 0133445 99999999999 9999999999999999988654
Q ss_pred CCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHH
Q 044527 263 KGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAV 342 (860)
Q Consensus 263 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~l 342 (860)
.|+||+++.. ..+..... +. ..+++++.... ....++++||||+++
T Consensus 234 -~y~wIv~~~~--~le~~~~~--g~-nigLl~~~~~~----------------------------~~~l~ali~DAV~lv 279 (382)
T cd06377 234 -GPHWILGDPL--PPEALRTE--GL-PPGLLAHGETT----------------------------QPPLEAYVQDALELV 279 (382)
T ss_pred -ceEEEEcCCc--ChhhccCC--CC-CceEEEEeecc----------------------------cccHHHHHHHHHHHH
Confidence 4999998721 11111111 11 22333221000 012389999999999
Q ss_pred HHHHHhhh-------------cC--C--C----ChHHHHHHHHhcccccceeeEEeeCCee--cCCccEEEEEee--cCc
Q 044527 343 AKASEKLK-------------TG--Q--V----SDEIFYKQIVNNRFRGLSGDFQFVNGKL--TSSREFEIVNVI--GKT 397 (860)
Q Consensus 343 a~Al~~~~-------------~~--~--~----~~~~l~~~l~~~~~~g~tG~v~F~~g~~--~~~~~~~i~~~~--~~~ 397 (860)
|+|++.+. +| . . .|..+.++|++++++|.||+|.|++|.| ..+ .++|++++ ..+
T Consensus 280 A~a~~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~~g~R~~~~~-~l~I~~L~~~~~G 358 (382)
T cd06377 280 ARAVGSATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVTGSSQVHSSR-HFKVWSLRRDPVG 358 (382)
T ss_pred HHHHHHhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEccCeeecccc-eEEEEEeccccCC
Confidence 99999752 11 1 1 3789999999999999999999966888 787 99999998 433
Q ss_pred ---eEEeeeecCC
Q 044527 398 ---IKRVGFWNPT 407 (860)
Q Consensus 398 ---~~~vG~~~~~ 407 (860)
|++||+|++.
T Consensus 359 ~~~W~kVG~W~~~ 371 (382)
T cd06377 359 QPTWTTVGSWQGG 371 (382)
T ss_pred CccceEEEEecCC
Confidence 6999999986
No 71
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=99.98 E-value=2.2e-30 Score=280.25 Aligned_cols=312 Identities=21% Similarity=0.361 Sum_probs=253.7
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecC-CCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDS-QGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~-~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+||++++... ...+.|+++|++++|.++++++ .++.+.+.+. .++|..+++.+|+++.+++|.+|+||.+ +..+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~-s~~~ 76 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTS-SESA 76 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCC-HHHH
Confidence 4899998876 5788999999999999998875 6666666654 4899999999999996669999999999 9999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 196 (860)
.+++.+++.++||+|+++++++ .+++ +++|+.|++. .+++++++++.+++|++|++||+++++.. . .+.
T Consensus 77 ~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~~~~~p~~~---~~~~a~~~~l~~~~w~~v~iiy~~~~~~~-~-l~~ 150 (328)
T cd06351 77 SAVQSICDALEIPHISISGGSE-GLSDKEESSTTLQLYPSLE---DLADALLDLLEYYNWTKFAIIYDSDEGLS-R-LQE 150 (328)
T ss_pred HHHHHHhccCCCCeEEeecCcc-cccccccccceEEecCCHH---HHHHHHHHHHHHcCCcEEEEEEeCchHHH-H-HHH
Confidence 9999999999999999998877 6652 9999999999 99999999999999999999999987554 2 333
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCC-eEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDT-KVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~-~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
+.+.....+..+... .+. .+..+++..++++++.++ ++|+.++..+++..++++|.++||..++|+||+++....
T Consensus 151 ~~~~~~~~~~~v~~~-~~~---~~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~ 226 (328)
T cd06351 151 LLDESGIKGIQVTVR-RLD---LDDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLS 226 (328)
T ss_pred HHHhhcccCceEEEE-Eec---CCchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCcc
Confidence 333333334454443 333 333489999999999998 666555555999999999999999989999999998775
Q ss_pred hcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVS 355 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~ 355 (860)
..+.. ..... ..|++++....+..+...+|..+|.. ..+......+...++.+||+++++
T Consensus 227 ~~d~~--~~~~~-~~~i~g~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~d~~~~~------------- 286 (328)
T cd06351 227 DIDLE--PFQYG-PANITGFRLVDPDSPDVSQFLQRWLE----ESPGVNLRAPIYDAALLYDAVLLL------------- 286 (328)
T ss_pred ccchh--hhccC-CcceEEEEEeCCCchHHHHHHHhhhh----ccCCCCcCccchhhHhhhcEEEEE-------------
Confidence 43322 22333 68999999999999999999999832 223333445677889999998777
Q ss_pred hHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEee-cCceEEeeeecC
Q 044527 356 DEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVI-GKTIKRVGFWNP 406 (860)
Q Consensus 356 ~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~-~~~~~~vG~~~~ 406 (860)
||++.| ++|+|.++ .++|++++ ..+|+++|.|++
T Consensus 287 ----------------tg~i~f~~~g~r~~~-~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 ----------------TGTVSFDEDGVRSNF-TLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred ----------------EeeEEECCCCcccce-EEEEEEecCCCCceEEEEecC
Confidence 899999 99999999 99999999 889999999995
No 72
>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=99.98 E-value=4.4e-31 Score=284.76 Aligned_cols=311 Identities=15% Similarity=0.168 Sum_probs=231.1
Q ss_pred cCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecC------C-CCHHHHHHHHHHhhccCCe--EEEEecCCChhHH
Q 044527 51 MRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDS------Q-GDPFHALTTASNLMQNVDL--QAIICIGMTPTGA 121 (860)
Q Consensus 51 ~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~------~-~~~~~a~~~~~~li~~~~v--~aviGp~~~s~~~ 121 (860)
.++..|...+.|+++|++.+|++. +.+|...+.+. . .|...+.+++|+++++ ++ .|||||.+ +..+
T Consensus 6 ~~~~~~~~~~~A~~~Av~~~N~~~---~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~-gv~~~AIiGp~s-s~~a 80 (368)
T cd06383 6 MTEDDNDVYKQIIDDALSYINRNI---GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADS-AIVPHLVLDTTT-CGDA 80 (368)
T ss_pred ecccchHHHHHHHHHHHHHHhcCC---CCceEEEEecccccccccCCcHHHHHHHHHHHHHc-cCCcEEEECCCc-chhH
Confidence 445568899999999999999987 35666666665 4 5666777889999987 67 79999999 8999
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc--ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS--YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFD 199 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~--~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~ 199 (860)
..++.+++.++||+|+++.... .-.. +++|+.|++. .+++|+++++++|+|++|++||+++.+.. .....+.+
T Consensus 81 ~~V~si~~~~~IP~Is~s~~~~-~~~~~p~~ir~~Ps~~---~~~~Ai~dlI~~f~W~~v~iIYddd~gl~-~~l~~~l~ 155 (368)
T cd06383 81 SEIKSVTGALGIPTFSASYGQE-GDLEQPYLIQLMPPAD---DIVEAIRDIVSYYNITNAAILYDDDFVMD-HKYKSLLQ 155 (368)
T ss_pred HHHHHHHhccCCCEEEccCCCc-CcccCceEEEEeCChH---HHHHHHHHHHHHCCCcEEEEEEEcCchhh-HHHHHHHH
Confidence 9999999999999999864432 2112 9999999999 99999999999999999999997776432 23333333
Q ss_pred -HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHHHHHHHHHcCCccCCeEEEecChhhhhc
Q 044527 200 -SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASHLFLNAKKLGMMSKGYVWIATAATMNFL 277 (860)
Q Consensus 200 -~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 277 (860)
.....+.++. + ....++...++++++++++.||+.|. ++.+..++++|.++||++.+|+||+++......
T Consensus 156 ~~~~~~~~~v~-----~---~~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~ 227 (368)
T cd06383 156 NWPTRHVITII-----N---SIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIY 227 (368)
T ss_pred hHHhcCCEEEE-----e---ccchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhh
Confidence 2333344432 2 12356889999999999856666666 599999999999999999999999999987654
Q ss_pred ccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhc------
Q 044527 278 HSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKT------ 351 (860)
Q Consensus 278 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~------ 351 (860)
+...... . ..++.+++.........+++.++|.+. ..++.........++.+||||+++++|++.+..
T Consensus 228 dl~~~~~--~-~~Nitgfrl~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~ 301 (368)
T cd06383 228 DDLSCQL--R-NASIFVTRPMMDYQSSVRGALLRTDEP---TLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG 301 (368)
T ss_pred hhhhhcc--c-cCcEEEeeccccchhhhccceeeccCC---ccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC
Confidence 3222222 2 458999999655554447777665210 001111112345689999999999999996421
Q ss_pred CC------CChH-----------HHHHHHHhcccccceeeEEe-eCCeecCC
Q 044527 352 GQ------VSDE-----------IFYKQIVNNRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 352 ~~------~~~~-----------~l~~~l~~~~~~g~tG~v~F-~~g~~~~~ 385 (860)
+. +.|. .+.++|+.++|+|+||+|+| ++|+|.++
T Consensus 302 ~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~ 353 (368)
T cd06383 302 STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTK 353 (368)
T ss_pred CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeee
Confidence 11 1122 88999999999999999999 99988884
No 73
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.97 E-value=1.5e-29 Score=274.18 Aligned_cols=316 Identities=11% Similarity=0.143 Sum_probs=261.1
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|+. |.....|+++|++++| +++.+++++++++|+.++|..+.+.+.+|+.+++|.+||||.+ |..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~-s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVF-SNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCc-cHH
Confidence 599999999974 7789999999999997 5667799999999999999999999999998779999999998 888
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
+.++...+...++|+|+++++.+ .+++ ++||+.|++. .++..+++++...+|+++++++.++.||+ +..+
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~-~~~~~~~~~~~f~~~~~~~---~~~~~~~~~l~~~g~~~v~il~~~~~~~~-~~~~ 152 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPS-DLAGKLCSPNFFRTSWQND---QVHEAMGKYAADKGYKKVVIIAPDYAAGK-DAVA 152 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCc-cccccCCCCcEEEeeCChH---HhHHHHHHHHHHhCCceEEEEecCcchhH-HHHH
Confidence 88888999999999999987766 5542 8999999999 99999999999999999999999999999 8888
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.++ ..++....++ .+..|+.+++.++++.++|+|++..+...+..+++++++.|+.. ...++.+.....
T Consensus 153 ~~~~~~~---~~~~~~~~~~---~~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 225 (333)
T cd06332 153 GFKRTFK---GEVVEEVYTP---LGQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTD 225 (333)
T ss_pred HHHHhhc---EEEeeEEecC---CCCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCC
Confidence 9988887 4565555555 56678999999999999999999888889999999999999732 344554443322
Q ss_pred hcccCcchhhcccCceeEEEEeccC--CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCC
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVP--TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQ 353 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~ 353 (860)
. . ......++ ..|++...++.+ +++..++|.++|+++++. .+..++..+||+++++++|+++++...
T Consensus 226 ~-~-~~~~~~~~-~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~yda~~~~~~a~~~ag~~~ 294 (333)
T cd06332 226 Q-D-TLPAQGDA-AVGVLTALHWAPDLDNPANKRFVAAYKAAYGR--------VPSVYAAQGYDAAQLLDAALRAVGGDL 294 (333)
T ss_pred H-H-HHHhhchh-hcCeeeeeccCCCCCCHHHHHHHHHHHHHhCC--------CCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 1 0 11112233 567777666654 457889999999998864 256789999999999999999997654
Q ss_pred CChHHHHHHHHhcccccceeeEEe-eCCeecCC
Q 044527 354 VSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSS 385 (860)
Q Consensus 354 ~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~ 385 (860)
.+++.+.++|++.+|+|++|++.| ++|+...+
T Consensus 295 ~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 295 SDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred CCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 335789999999999999999999 88888773
No 74
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.97 E-value=1.1e-29 Score=276.29 Aligned_cols=328 Identities=13% Similarity=0.099 Sum_probs=255.2
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcc--cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCCh
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCK--TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTP 118 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~--~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s 118 (860)
+||++.|+||+. |.....++++|+++||..+++.+ ++|+++++|++++|..+++.+++|+++++|.+|+|+.+ |
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~-s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGT-P 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCC-c
Confidence 599999999865 88888999999999996655555 68999999999999999999999999989999999999 8
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCC--------cccc-c-ceEeecCCCchhHHHHHHHHHHHhhCC-CcEEEEEEecCC
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLP--------NSLT-S-YSIQIDQDDEASQSQARGISDFISVFK-WKEVILIHEDNT 187 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~--------~~ls-~-~~~r~~p~~~~~~~~~~ai~~~l~~~~-w~~v~ii~~~~~ 187 (860)
..+.++++++++.+||+|++.+..+ .... . ++||+.+++. .+..+++.+++..+ +++|++++.++.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~~~k~v~ii~~~~~ 156 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAE---DVVATYVGMWKQLETNKKVGILYPNDP 156 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHH---HHHHHHHHHHHhCCCCceEEEEeecCc
Confidence 8899999999999999998754311 0111 2 8899999888 88888888888777 999999999999
Q ss_pred CCCcCCHHHHH---HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 188 WGNDNTIPYLF---DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 188 ~g~~~~~~~l~---~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
||+ ...+.++ +.+++.|++++....++ .+.+|+.+++.+|+++++|+|++.+.++++..++++++++|+..+.
T Consensus 157 ~g~-~~~~~~~~~~~~~~~~G~~vv~~~~~~---~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~~ 232 (357)
T cd06337 157 DGN-AFADPVIGLPAALADAGYKLVDPGRFE---PGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPKI 232 (357)
T ss_pred hhH-HHHHhhhcccHHHHhCCcEEecccccC---CCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCCe
Confidence 998 7766655 56677999999888777 7789999999999999999999999999999999999999974322
Q ss_pred eEEEecCh-hhhhcccCcchhhcccCceeEEEEeccCC--------chhHHHHHHHHHHHhhccCCCCCCCCCChhHHHH
Q 044527 265 YVWIATAA-TMNFLHSMDSLVVESSMQGVVGFRRYVPT--------SKELHNFTLRWRREMYLNNPNAEVSELDAYGILA 335 (860)
Q Consensus 265 ~~~i~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (860)
..+.... ......... +. .+|++....+.+. ++..++|.++|+++++.. +.....++
T Consensus 233 -~~~~~~~~~~~~~~~~g----~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~~--------~~~~~~~~ 298 (357)
T cd06337 233 -VTIAKALLFPEDVEALG----DR-GDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGRQ--------WTQPLGYA 298 (357)
T ss_pred -EEEeccccCHHHHHHhh----hh-hcCccccceeccCCCcccccCCccHHHHHHHHHHHhCCC--------ccCcchHH
Confidence 1111111 111111111 12 3444433332222 345899999999988753 23456779
Q ss_pred hhHHHHHHHHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeecCce
Q 044527 336 YDTVWAVAKASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTI 398 (860)
Q Consensus 336 YDav~~la~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~ 398 (860)
||+++++++|++++++... ++.|.++|++.+++++.|++.| ++ ... ...|..+.+++|
T Consensus 299 ~~~~~~l~~Ai~~Ags~~d-~~~v~~aL~~~~~~~~~G~~~f~~~--~~~--~~~~~~~~~~~~ 357 (357)
T cd06337 299 HALFEVGVKALVRADDPDD-PAAVADAIATLKLDTVVGPVDFGNS--PIK--NVAKTPLVGGQW 357 (357)
T ss_pred HHHHHHHHHHHHHcCCCCC-HHHHHHHHHcCCcccceeeeecCCC--CCc--cccccccccCCC
Confidence 9999999999999986422 5799999999999999999999 54 333 566666665543
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=3.6e-28 Score=263.68 Aligned_cols=312 Identities=11% Similarity=0.098 Sum_probs=252.9
Q ss_pred EEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 43 VHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 43 i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
|+||++.|+||+. |+....|+++|+++||+.+++.++++++...|++++|..+.+.+++++++++|.+|||+.+ +.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~-s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVG-TP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCC-ch
Confidence 6899999999965 8889999999999999999998899999999999999999999999998669999999988 77
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccc---c-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLT---S-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls---~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
.+.++.+++...++|+|+++++++ .++ . ++||+.+++. ..+..+++++.+.+|+++++++.++.++. ...+
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~g~~~v~~l~~~~~~~~-~~~~ 154 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGAS-SLRDPPDRNVFNVRASYA---DEIAAIVRHLVTLGLKRIAVFYQDDAFGK-DGLA 154 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcH-HhcCCCCCceEEeCCChH---HHHHHHHHHHHHhCCceEEEEEecCcchH-HHHH
Confidence 777888999999999999876655 443 2 8999999999 99999999999999999999999988999 8999
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.+++.|++++....++ .+..++.+++.+++++++++|++..+...+..+++++++.|+.. ...+........
T Consensus 155 ~~~~~~~~~G~~~~~~~~~~---~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~-~~~~~~~~~~~~ 230 (336)
T cd06326 155 GVEKALAARGLKPVATASYE---RNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA-QFYNLSFVGADA 230 (336)
T ss_pred HHHHHHHHcCCCeEEEEeec---CCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-cEEEEeccCHHH
Confidence 99999999999988766666 55678999999999999999999998889999999999999743 222221111111
Q ss_pred hcccCcchhhcccCceeEEE--Ee--ccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhc
Q 044527 276 FLHSMDSLVVESSMQGVVGF--RR--YVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKT 351 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~--~~--~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~ 351 (860)
.. ...... .+|++.. .+ ...+.|..++|.+.|+++++.. .++.++..+||+++++++|+++++.
T Consensus 231 ~~----~~~g~~-~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-------~~~~~~~~~y~~~~~~~~a~~~~g~ 298 (336)
T cd06326 231 LA----RLLGEY-ARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPGA-------PPSYVSLEGYIAAKVLVEALRRAGP 298 (336)
T ss_pred HH----HHhhhh-hcceEEEEEecCccccCCHHHHHHHHHHHhhCCCC-------CCCeeeehhHHHHHHHHHHHHHcCC
Confidence 11 111122 4555432 22 2234678899999998877542 2456788999999999999999875
Q ss_pred CCCChHHHHHHHHhcccc-cceeeEEe
Q 044527 352 GQVSDEIFYKQIVNNRFR-GLSGDFQF 377 (860)
Q Consensus 352 ~~~~~~~l~~~l~~~~~~-g~tG~v~F 377 (860)
. .+++.++++|++++.. +..+.+.|
T Consensus 299 ~-~~~~~v~~al~~~~~~~~~g~~~~~ 324 (336)
T cd06326 299 D-PTRESLLAALEAMGKFDLGGFRLDF 324 (336)
T ss_pred C-CCHHHHHHHHHhcCCCCCCCeEEec
Confidence 4 3368999999998764 44458899
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=99.96 E-value=1.6e-28 Score=264.14 Aligned_cols=349 Identities=19% Similarity=0.248 Sum_probs=284.8
Q ss_pred eEEEEEEEecCC-----cchhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccC-CeEEEEec
Q 044527 42 EVHVGIILDMRS-----WTGKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNV-DLQAIICI 114 (860)
Q Consensus 42 ~i~IG~l~~~~~-----~~g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~-~v~aviGp 114 (860)
+..|++++|+.. ..|+....|+++|++++|..+.++| ++|+++..|++|++..+..++.+++... .-..++|+
T Consensus 41 ~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~mll~G 120 (865)
T KOG1055|consen 41 PRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLMLLGG 120 (865)
T ss_pred CceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchheeccC
Confidence 467777777752 2378999999999999999999999 9999999999999999999999998763 34567787
Q ss_pred CCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCC
Q 044527 115 GMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWG 189 (860)
Q Consensus 115 ~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g 189 (860)
| ++.+..++..+..++.-+++|++++| .+++ +|||+.|++. .......+++++|+|++|+.++.+.+--
T Consensus 121 -C-s~v~~~iaea~~~w~l~~lsy~~ssp-~ls~r~rfp~~frt~PS~~---~~np~rl~l~~~~~w~rvgt~~q~e~~f 194 (865)
T KOG1055|consen 121 -C-SSVTTLIAEAAKMWNLIVLSYGASSP-ALSNRKRFPTFFRTHPSAN---AHNPTRIKLLKKFGWKRVATLQQTEEVF 194 (865)
T ss_pred -C-CCcchHHHhhccccceeeecccCCCc-cccchhhcchhhhcCCccc---cCCcceeeechhcCcceeeeeeeehhhh
Confidence 9 99999999999999999999999999 9998 8999999999 8889999999999999999999988766
Q ss_pred CcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 190 NDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 190 ~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
. ...+.+...+.+.+++++.++.+. .|....+.+++..++++|+-..+...|+.+++++++.+|.+..|+|++
T Consensus 195 ~-~~~~dl~~~~~~~~ieiv~~qsf~------~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~ 267 (865)
T KOG1055|consen 195 S-STLNDLEARLKEAGIEIVFRQSFS------SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFL 267 (865)
T ss_pred c-chHHHHHHhhhccccEEEEeeccc------cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEE
Confidence 6 788999999999999999887654 345567788999999999999999999999999999999999999998
Q ss_pred cChhhhhcccC--------cchhhcccCceeEEEEec--cCCc------hhHHHHHHHHHHHhhccCCCCCCCCCChhHH
Q 044527 270 TAATMNFLHSM--------DSLVVESSMQGVVGFRRY--VPTS------KELHNFTLRWRREMYLNNPNAEVSELDAYGI 333 (860)
Q Consensus 270 ~~~~~~~~~~~--------~~~~~~~~~~g~~~~~~~--~~~~------~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (860)
..+....|... -.+..++ ++|.+++... ++.. ....+|...+..+.....+. ........
T Consensus 268 ~g~y~d~w~ev~~~~~~ctveem~~A-~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~---~~~~~~~~ 343 (865)
T KOG1055|consen 268 IGWYADNWWEITHPSENCTVEEMTEA-AEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEE---TGGFQEAP 343 (865)
T ss_pred EEeeccchhhccCchhhhhHHHHHHH-HhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccccc---ccCcccCc
Confidence 88776665421 1123445 6676665432 2211 12445555554443322111 12345678
Q ss_pred HHhhHHHHHHHHHHhhhcCCCC---------------hHHHHHHHHhcccccceeeEEeeCCeecCCccEEEEEeecCce
Q 044527 334 LAYDTVWAVAKASEKLKTGQVS---------------DEIFYKQIVNNRFRGLSGDFQFVNGKLTSSREFEIVNVIGKTI 398 (860)
Q Consensus 334 ~~YDav~~la~Al~~~~~~~~~---------------~~~l~~~l~~~~~~g~tG~v~F~~g~~~~~~~~~i~~~~~~~~ 398 (860)
++|||+|++|.|++++...... .+++.++|.+++|+|++|.|.|.+|+|.. -..|-|+++|++
T Consensus 344 ~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~geR~a--~t~ieQ~qdg~y 421 (865)
T KOG1055|consen 344 LAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSNGERMA--LTLIEQFQDGKY 421 (865)
T ss_pred hHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecchhhHH--HHHHHHHhCCce
Confidence 9999999999999988654311 68999999999999999999995599998 788889999999
Q ss_pred EEeeeecCCCC
Q 044527 399 KRVGFWNPTTG 409 (860)
Q Consensus 399 ~~vG~~~~~~~ 409 (860)
+++|+|+....
T Consensus 422 ~k~g~Yds~~D 432 (865)
T KOG1055|consen 422 KKIGYYDSTKD 432 (865)
T ss_pred Eeecccccccc
Confidence 99999998654
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=9.1e-28 Score=258.62 Aligned_cols=303 Identities=13% Similarity=0.107 Sum_probs=241.0
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||++.|++|.. |.....|+++|++++| |++++++++|+.+ |..+++.+.+|+.+ +|.+||||.+ |..
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in------G~~i~l~~~D~~~-~~~a~~~~~~li~~-~V~~iiG~~~-s~~ 71 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN------GASIELRVYDTAG-AAGAAAAARQAVAE-GADIIVGPLL-KEN 71 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc------CCCceEEEEeCCC-cccHHHHHHHHHHc-CCCEEEccCC-HHH
Confidence 599999999973 8899999999999999 4799999999999 99999999999986 9999999999 888
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFD 199 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~ 199 (860)
+.++++++...++|+|+++++.+ .... ++||+.+++. .++.++++++.+.++++|++++.++.||+ +..+.+++
T Consensus 72 ~~a~~~~~~~~~ip~i~~~~~~~-~~~~~~~f~~~~~~~---~~~~~~~~~~~~~g~k~vaii~~~~~~g~-~~~~~f~~ 146 (336)
T cd06339 72 VAALAAAAAELGVPVLALNNDES-VAAGPNLFYFGLSPE---DEARRAAEYARSQGKRRPLVLAPDGAYGQ-RVADAFRQ 146 (336)
T ss_pred HHHHHhhhccCCCCEEEccCCcc-ccCCCCEEEecCChH---HHHHHHHHHHHhcCccceEEEecCChHHH-HHHHHHHH
Confidence 88998999999999999875554 3324 8999999999 99999999998889999999999999999 99999999
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC---------------------CCeEEEEEeCHH-HHHHHHHHHHH
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL---------------------DTKVFVVHMTHA-LASHLFLNAKK 257 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~---------------------~~~viil~~~~~-~~~~il~~a~~ 257 (860)
.+++.|++|+....++ .+.+|+..++.+|++. ++|+|++.+.++ ++..+.+++..
T Consensus 147 ~~~~~G~~vv~~~~~~---~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~ 223 (336)
T cd06339 147 AWQQLGGTVVAIESYD---PSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLF 223 (336)
T ss_pred HHHHcCCceeeeEecC---CCHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhh
Confidence 9999999999888877 7899999999999998 999999988886 77777777766
Q ss_pred cCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCC-ChhHHHHh
Q 044527 258 LGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSEL-DAYGILAY 336 (860)
Q Consensus 258 ~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~~~~Y 336 (860)
.+....+..++.++.+... ..... ..+. .+|+....+.. +...+|.++|+++++. .| ..+++.+|
T Consensus 224 ~~~~~~~~~~~g~~~~~~~-~~~~~-~g~~-~~g~~~~~~~~---~~~~~f~~~y~~~~~~--------~p~~~~~a~~Y 289 (336)
T cd06339 224 YYGVPGDVPLYGTSRWYSG-TPAPL-RDPD-LNGAWFADPPW---LLDANFELRYRAAYGW--------PPLSRLAALGY 289 (336)
T ss_pred hccCcCCCCEEEeccccCC-CCCcc-cCcc-cCCcEEeCCCc---ccCcchhhhHHHHhcC--------CCCchHHHHHH
Confidence 6521123445655544321 11111 1122 45554433311 1223788888888864 24 67999999
Q ss_pred hHHHHHHHHHHhhhcCCCChHHHHHHHHhcccccceeeEEe-eCCeecC
Q 044527 337 DTVWAVAKASEKLKTGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTS 384 (860)
Q Consensus 337 Dav~~la~Al~~~~~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~ 384 (860)
||+.+++.++++.+.+. ..++...|+|++|.++| ++|+...
T Consensus 290 Da~~l~~~~~~~~~~~~-------al~~~~~~~g~~G~~~f~~~g~~~~ 331 (336)
T cd06339 290 DAYALAAALAQLGQGDA-------ALTPGAGFSGVTGVLRLDPDGVIER 331 (336)
T ss_pred hHHHHHHHHHHcccccc-------ccCCCCccccCcceEEECCCCeEEe
Confidence 99999998888764321 22234569999999999 8888765
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=99.95 E-value=6.8e-27 Score=249.74 Aligned_cols=292 Identities=13% Similarity=0.115 Sum_probs=228.1
Q ss_pred hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcE
Q 044527 56 GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPI 135 (860)
Q Consensus 56 g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~ 135 (860)
+.....|+++|+||||+.||++|++++++..|. ++|..+++.+++|+++ +|.+|+|+.+ |+.+.++.+++.+.++|+
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li~~-~V~~vvG~~~-S~~~~Av~~~a~~~~vp~ 86 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALLAQ-GVRFFVLDLP-AAALLALADAAKAKGALL 86 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHHHC-CCCEEEecCC-hHHHHHHHHHHHhCCcEE
Confidence 457889999999999999999999999999975 7899999999999964 8999999999 999999999999999999
Q ss_pred EecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeE
Q 044527 136 ISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIAR 210 (860)
Q Consensus 136 Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~ 210 (860)
|+++++++ .+++ |+||+.|++. .+++++++++...+.+++++|+.|++||+ ...+.+++.+++.|++|+.
T Consensus 87 i~~~a~~~-~lt~~~c~~~~Fr~~~~~~---~~~~ala~~~~~~g~kkvaii~~~~~~g~-~~~~~~~~~~~~~G~~vv~ 161 (347)
T TIGR03863 87 FNAGAPDD-ALRGADCRANLLHTLPSRA---MLADALAQYLAAKRWRRILLIQGPLPADA-LYADAFRRSAKRFGAKIVA 161 (347)
T ss_pred EeCCCCCh-HHhCCCCCCCEEEecCChH---hHHHHHHHHHHHcCCCEEEEEeCCCcccH-HHHHHHHHHHHHCCCEEEE
Confidence 99998888 7764 8999999999 99999999998779999999999999999 9999999999999999999
Q ss_pred EEeccCCCC--ChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhcccCcchhhccc
Q 044527 211 RTSISLASS--THDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESS 288 (860)
Q Consensus 211 ~~~~~~~~~--~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~ 288 (860)
.+.++ ... ..+++.......+.+++|+|++.....+....+.... +. ....+.
T Consensus 162 ~~~~~-~~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~---~~~~~g------------------- 216 (347)
T TIGR03863 162 ERPFT-FSGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL---PRPVAG------------------- 216 (347)
T ss_pred eEEec-cCCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc---cccccc-------------------
Confidence 88776 221 1234443233334589999998766544322111000 00 000000
Q ss_pred CceeEEEE-eccCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCCChHHHHHHHHhcc
Q 044527 289 MQGVVGFR-RYVPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQVSDEIFYKQIVNNR 367 (860)
Q Consensus 289 ~~g~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~~~~~l~~~l~~~~ 367 (860)
..|+.... .+..+.+..++|.++|+++|+. .|...++.+||++++++.|++++++.+ +++|+++|++++
T Consensus 217 ~~G~~~~~~~~~~~~~~~~~f~~~f~~~~g~--------~p~~~~a~aY~av~~~a~Ai~~AGs~d--~~aV~~aL~~~~ 286 (347)
T TIGR03863 217 SAGLVPTAWHRAWERWGATQLQSRFEKLAGR--------PMTELDYAAWLAVRAVGEAVTRTRSAD--PATLRDYLLSDE 286 (347)
T ss_pred ccCccccccCCcccchhHHHHHHHHHHHhCC--------CCChHHHHHHHHHHHHHHHHHHhcCCC--HHHHHHHHcCCC
Confidence 11221111 1123346789999999999865 346678999999999999999999877 599999999988
Q ss_pred c--cccee-eEEe-e-CCeecCCccEEEEE
Q 044527 368 F--RGLSG-DFQF-V-NGKLTSSREFEIVN 392 (860)
Q Consensus 368 ~--~g~tG-~v~F-~-~g~~~~~~~~~i~~ 392 (860)
+ .+..| ++.| + +|+... ...+.+
T Consensus 287 ~~~~~~~g~~~~~R~~Dhq~~~--~~~~~~ 314 (347)
T TIGR03863 287 FELAGFKGRPLSFRPWDGQLRQ--PVLLVH 314 (347)
T ss_pred ceecccCCCcceeeCCCccccc--ceEecc
Confidence 7 46777 6999 4 888887 444444
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=2e-26 Score=250.26 Aligned_cols=309 Identities=14% Similarity=0.078 Sum_probs=249.1
Q ss_pred EEEEEEecCCc---chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSW---TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||+++|++|+ .|.....|+++|++++|+.+++.++++++++.|++++|..+.+.+.+++.+++|.+|+|+.+ +..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~-s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSS-GAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEeccc-ccc
Confidence 59999999984 38999999999999999999999999999999999999999999999999889999999998 777
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccc-c-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-CCCcCCHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLT-S-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-WGNDNTIPYL 197 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls-~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~l 197 (860)
..++ +++...++|+|++.++++ .++ + +.|++.+++. .++..+++++...+.+++++++.++. ||+ ...+.+
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~-~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~-~~~~~~ 153 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSA-WELTSPNSFPFSGGTP---ASLTTWGDFAKDQGGTRAVALVTALSAAVS-AAAALL 153 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCc-hhhcCCCeEEecCCCc---chhHHHHHHHHHcCCcEEEEEEeCCcHHHH-HHHHHH
Confidence 6665 888899999999988777 666 3 7889999988 88999999998888999999987765 998 899999
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhc
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFL 277 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 277 (860)
++.+++.|++++....++ .+..|+...+.++++.++|+|++..+.+.+..+++++++.|+..+... ..........
T Consensus 154 ~~~~~~~G~~v~~~~~~~---~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~~-~~~~~~~~~~ 229 (341)
T cd06341 154 ARSLAAAGVSVAGIVVIT---ATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKVVL-SGTCYDPALL 229 (341)
T ss_pred HHHHHHcCCccccccccC---CCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCEEE-ecCCCCHHHH
Confidence 999999999988766655 456789999999999999999999999899999999999997543221 1111111111
Q ss_pred ccCcchhhcccCceeEEEEeccC---CchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhhcCCC
Q 044527 278 HSMDSLVVESSMQGVVGFRRYVP---TSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLKTGQV 354 (860)
Q Consensus 278 ~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~~~~~ 354 (860)
. ...++ .+|++....+.+ +.|..++|.+.+++..... ...++.++..+||+++++++|+++++....
T Consensus 230 ~----~~g~~-~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~-----~~~~~~~~~~~yda~~~~~~a~~~ag~~~~ 299 (341)
T cd06341 230 A----APGPA-LAGVYIAVFYRPFESGTPAVALYLAAMARYAPQL-----DPPEQGFALIGYIAADLFLRGLSGAGGCPT 299 (341)
T ss_pred H----hcCcc-cCceEEEeeeccccCCCHHHHHHHHHHHHhCCCC-----CCCcchHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 1 12234 677777666544 4688888887665433221 124678999999999999999999986432
Q ss_pred ChHH-HHHHHHhcccccceee
Q 044527 355 SDEI-FYKQIVNNRFRGLSGD 374 (860)
Q Consensus 355 ~~~~-l~~~l~~~~~~g~tG~ 374 (860)
++. +.++|++++.....|.
T Consensus 300 -~~~~v~~al~~~~~~~~~g~ 319 (341)
T cd06341 300 -RASQFLRALRAVTDYDAGGL 319 (341)
T ss_pred -hHHHHHHHhhcCCCCCCCCc
Confidence 566 9999999876544443
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=99.94 E-value=1.2e-25 Score=239.69 Aligned_cols=221 Identities=29% Similarity=0.346 Sum_probs=201.8
Q ss_pred EEEEEEecCC-----cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhcc----CCeEEEEec
Q 044527 44 HVGIILDMRS-----WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQN----VDLQAIICI 114 (860)
Q Consensus 44 ~IG~l~~~~~-----~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~----~~v~aviGp 114 (860)
+||++++.++ ..+.....++..|++++|++ +.++++++.+.|+++++..+...+.+++.. +++.+|+||
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~--~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~ 78 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND--LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGP 78 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc--CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECC
Confidence 4899999986 23677888999999999988 445999999999999999999999999875 689999999
Q ss_pred CCChhHHHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCC
Q 044527 115 GMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWG 189 (860)
Q Consensus 115 ~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g 189 (860)
.+ +..+.+++.+++.+++|+|+++++++ .+++ +++|+.|++. .+++++++++++++|++|++++++++++
T Consensus 79 ~~-s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~~~~~p~~~---~~~~a~~~~l~~~~w~~v~~v~~~~~~~ 153 (298)
T cd06269 79 SS-SSSAEAVASLLGALHIPQISYSATSP-LLSDKEQFPSFLRTVPSDS---SQAQAIVDLLKHFGWTWVGLVYSDDDYG 153 (298)
T ss_pred CC-chHHHHHHHHhccCCCcEEecccCch-hhcChhhCCCeEecCCCcH---HHHHHHHHHHHHCCCeEEEEEEecchhh
Confidence 99 99999999999999999999998888 7763 9999999999 9999999999999999999999999999
Q ss_pred CcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 190 NDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 190 ~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
. ...+.+++.+++.|+++.....++ ....++...+++++++++++|++++..+++..+++++.+.||. .+++||.
T Consensus 154 ~-~~~~~~~~~~~~~~~~v~~~~~~~---~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~ 228 (298)
T cd06269 154 R-RLLELLEEELEKNGICVAFVESIP---DGSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWII 228 (298)
T ss_pred H-HHHHHHHHHHHHCCeeEEEEEEcC---CCHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEE
Confidence 9 999999999999999999888766 5568999999999999999999999999999999999999998 8899999
Q ss_pred cChhhhh
Q 044527 270 TAATMNF 276 (860)
Q Consensus 270 ~~~~~~~ 276 (860)
++.+...
T Consensus 229 ~~~~~~~ 235 (298)
T cd06269 229 TDLWLTS 235 (298)
T ss_pred EChhhcc
Confidence 9887643
No 81
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.94 E-value=4.1e-25 Score=236.72 Aligned_cols=283 Identities=17% Similarity=0.222 Sum_probs=226.2
Q ss_pred EEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||+++|+||+. |+....|+++|+++||+ +++.++++++++.|+++++..+.+.+.+++.+++|.+|||+.+ +..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~-s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPST-TPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCC-CHH
Confidence 599999999865 88899999999999999 9988899999999999999999999999998779999999988 777
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYL 197 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l 197 (860)
+.++.+.+...++|+|+++++++ ..+. ++||+.+++. .++..+++++.+.||++|++++.++.+|. ...+.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~-~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~g~~~vail~~~~~~~~-~~~~~~ 153 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAA-IVEPKRKWVFKTPQNDR---LMAEAILADMKKRGVKTVAFIGFSDAYGE-SGLKEL 153 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCcc-ccCCCCCcEEEcCCCcH---HHHHHHHHHHHHcCCCEEEEEecCcHHHH-HHHHHH
Confidence 77888899999999999987654 4432 8999999999 99999999999999999999999988998 889999
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhhhc
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMNFL 277 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~~~ 277 (860)
++.+++.|++++....++ .+..++...+.++++.++|+|++..+...+..+++++++.|+..+ .+ .++.... .
T Consensus 154 ~~~~~~~G~~v~~~~~~~---~~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p--~~-~~~~~~~-~ 226 (312)
T cd06333 154 KALAPKYGIEVVADERYG---RTDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP--IY-QTHGVAS-P 226 (312)
T ss_pred HHHHHHcCCEEEEEEeeC---CCCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC--EE-eecCcCc-H
Confidence 999999999998766665 455678889999988899999999888888889999999996432 22 2222111 1
Q ss_pred ccCcchhhcccCceeEEEEe------cc----CCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHH
Q 044527 278 HSMDSLVVESSMQGVVGFRR------YV----PTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASE 347 (860)
Q Consensus 278 ~~~~~~~~~~~~~g~~~~~~------~~----~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~ 347 (860)
... ....++ .+|+..... .. +.++..++|.++|+++++.. .+..+++.+|||+++++ +.
T Consensus 227 ~~~-~~~g~~-~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~~-------~~~~~~~~~Yda~~~~~--~~ 295 (312)
T cd06333 227 DFL-RLAGKA-AEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGAG-------SVSTFGGHAYDALLLLA--VY 295 (312)
T ss_pred HHH-HHhhHh-hcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCCC-------CCCchhHHHHHHHHHHH--ee
Confidence 100 111123 455544321 11 22467899999999988653 25678999999999998 44
Q ss_pred hhhc
Q 044527 348 KLKT 351 (860)
Q Consensus 348 ~~~~ 351 (860)
.+..
T Consensus 296 ~~~~ 299 (312)
T cd06333 296 NMSP 299 (312)
T ss_pred ccCc
Confidence 4433
No 82
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.94 E-value=7.4e-25 Score=233.60 Aligned_cols=277 Identities=23% Similarity=0.317 Sum_probs=228.8
Q ss_pred EEEEEEecCCc---chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSW---TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||+++|++|. .|.....|+++|++++|+++++.++++++++.|+++++..+.+.+.+++.+++|.+||||.+ +..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~-~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVS-SGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCC-cHH
Confidence 59999999984 37889999999999999999888899999999999999999999999998878999999999 888
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
+.+++.++...+||+|++.+..+ .+++ ++||+.|++. .++..+++++++++|+++++++.++.++. ...+
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~-~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~v~iv~~~~~~~~-~~~~ 154 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAP-GLTDKKGYPYLFRTGPSDE---QQAEALADYIKEYNWKKVAILYDDDSYGR-GLLE 154 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCc-ccccccCCCCEEEecCCcH---HHHHHHHHHHHHcCCcEEEEEecCchHHH-HHHH
Confidence 88899999999999999988776 6542 8999999999 99999999999999999999999999998 8899
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.+++.|++++....++ .+.+++...++++++.++++|+++++...+..+++++++.|+. .++.|+..+.+..
T Consensus 155 ~~~~~~~~~g~~i~~~~~~~---~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~ 230 (299)
T cd04509 155 AFKAAFKKKGGTVVGEEYYP---LGTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLS 230 (299)
T ss_pred HHHHHHHHcCCEEEEEecCC---CCCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccC
Confidence 99999999999988766655 4446888999999988899999999889999999999999987 6788998876643
Q ss_pred hcccCcchhhcccCceeEEEEeccCCc--hhHHHHH---HHHHHHhhccCCCCCCCCCChhHHHHhhHHHH
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVPTS--KELHNFT---LRWRREMYLNNPNAEVSELDAYGILAYDTVWA 341 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~ 341 (860)
.... ....+. ..|.+...++.+.. +..+.|. ..++..++. .++.+++++||++++
T Consensus 231 ~~~~--~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~yda~~~ 290 (299)
T cd04509 231 DVLL--EAGGEA-AEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYED--------QPDYFAALAYDAVLL 290 (299)
T ss_pred HHHH--HHhHHh-hcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhCC--------CCChhhhhhcceeee
Confidence 3211 112233 66777776654433 3333443 333333221 467899999999987
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=99.91 E-value=1.7e-22 Score=215.22 Aligned_cols=276 Identities=20% Similarity=0.280 Sum_probs=227.4
Q ss_pred EEEEEEecCCc---chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMRSW---TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+||+++|++|+ .|.+...|+++|++++|+++++.++++++++.|+++++..+.+.+++++++ +|.+||||.+ +..
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~~~-~v~~iig~~~-~~~ 78 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELVDD-GVDAVIGPLS-SGV 78 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHHhC-CceEEEcCCc-chh
Confidence 58999999973 488999999999999999999888999999999999999999999999987 8999999999 888
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccc---c-ceEeecCCCchhHHHHHHHHHHHhhCC-CcEEEEEEecCCCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLT---S-YSIQIDQDDEASQSQARGISDFISVFK-WKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls---~-~~~r~~p~~~~~~~~~~ai~~~l~~~~-w~~v~ii~~~~~~g~~~~~~ 195 (860)
+.++...+...+||+|++.+..+ .+. . ++|++.|++. .+++++++++.+.+ |+++++++.++.++. ...+
T Consensus 79 ~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~-~~~~ 153 (298)
T cd06268 79 ALAAAPVAEEAGVPLISPGATSP-ALTGKGNPYVFRTAPSDA---QQAAALADYLAEKGKVKKVAIIYDDYAYGR-GLAA 153 (298)
T ss_pred HHhhHHHHHhCCCcEEccCCCCc-ccccCCCceEEEcccCcH---HHHHHHHHHHHHhcCCCEEEEEEcCCchhH-HHHH
Confidence 88889999999999999988776 554 2 8999999999 99999999998887 999999999999998 8999
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
.+++.+++.|++++....++ .+..++...+.++++.++++|++.+++..+..+++++++.|+ +..|+..+....
T Consensus 154 ~~~~~~~~~g~~i~~~~~~~---~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~ 227 (298)
T cd06268 154 AFREALKKLGGEVVAEETYP---PGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAA 227 (298)
T ss_pred HHHHHHHHcCCEEEEEeccC---CCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCC
Confidence 99999999999988766655 445678899999999999999999988999999999999986 456666655433
Q ss_pred hcccCcchhhcccCceeEEEEeccCCc--hhHHHHH-HHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHH
Q 044527 276 FLHSMDSLVVESSMQGVVGFRRYVPTS--KELHNFT-LRWRREMYLNNPNAEVSELDAYGILAYDTVWAVA 343 (860)
Q Consensus 276 ~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la 343 (860)
.... ....+. ..|++...++.+.. +....|. +.|++.++. .++.++..+||++.+++
T Consensus 228 ~~~~--~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 228 PALL--ELAGDA-AEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYGR--------PPDSYAAAAYDAVRLLA 287 (298)
T ss_pred HHHH--HhhhHh-hCCcEEeccCCCCCCChhhhHHHHHHHHHHhCC--------CcccchHHHHHHHHHHc
Confidence 2111 111223 56777766654432 3444554 667666653 46788999999999987
No 84
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.89 E-value=3.5e-21 Score=196.85 Aligned_cols=321 Identities=14% Similarity=0.071 Sum_probs=239.0
Q ss_pred hhHHHHHHHHHHHHHhccCCcccEEEE----------EEecC-CCC-HHHHHHHHHHhhccC-CeEEEEecCCChhHHHH
Q 044527 57 KITNSCISMAIADFYAVNTHCKTRLIL----------HSRDS-QGD-PFHALTTASNLMQNV-DLQAIICIGMTPTGAQI 123 (860)
Q Consensus 57 ~~~~~a~~~Av~~iN~~~~~l~~~l~~----------~~~D~-~~~-~~~a~~~~~~li~~~-~v~aviGp~~~s~~~~~ 123 (860)
+....|++.|++.+++....-|..+++ +..+. |++ .=+.++...+|+..+ .-.+++||.| .-++.+
T Consensus 18 ~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~C-tYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSC-TYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCcc-ceehhh
Confidence 457889999999988765333455555 44442 333 347777888887654 4578999999 999999
Q ss_pred HHHhhcCCCCcEEecccCCCccccc--ceEeecCCCchhHHHHHHHHHHH------hhCCCcEEEEEEecCCCCCcCC--
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTS--YSIQIDQDDEASQSQARGISDFI------SVFKWKEVILIHEDNTWGNDNT-- 193 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~--~~~r~~p~~~~~~~~~~ai~~~l------~~~~w~~v~ii~~~~~~g~~~~-- 193 (860)
+++....+++|+||.++-.- .... ++.|+.|+.. ..+..+.++. ++++|+++. ||.++.-.+ ..
T Consensus 97 ~~~~~~~~~~P~ISaGsfgl-scd~k~~LTR~~ppar---K~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~e-dCf~ 170 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFGL-SCDYKENLTRLLPPAR---KISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTE-DCFW 170 (380)
T ss_pred hhhhhhcCCCceEecccccc-CCCchhhhhhcCchHH---HHHHHHHHHHhcccccCCCCCceeE-EEcCCCCcc-ceee
Confidence 99999999999999987554 4433 8999999999 9999999999 589998655 888876443 32
Q ss_pred -HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecCh
Q 044527 194 -IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 194 -~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~ 272 (860)
.+++....+..+..+...... ....++..++++++ .+.||||+++.+++.+.++.+ ++...+|++|..+.
T Consensus 171 ~i~al~a~~~~f~~~~~~~~~l----~~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDl 241 (380)
T cd06369 171 YINALEAGVAYFSSALKFKELL----RTEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDL 241 (380)
T ss_pred EhHhhhhhhhhhhhcccceeee----cCchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEec
Confidence 456666666655555544332 34577888888765 567999999999999999886 44446899998887
Q ss_pred hhhhcccCcchhhcccCceeEEEEeccCCchhHHHHHHHHHHHhhccCCCCCCCCCC-hhHHHHhhHHHHHHHHHHhhhc
Q 044527 273 TMNFLHSMDSLVVESSMQGVVGFRRYVPTSKELHNFTLRWRREMYLNNPNAEVSELD-AYGILAYDTVWAVAKASEKLKT 351 (860)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~-~~~~~~YDav~~la~Al~~~~~ 351 (860)
...... .+....++ +++++.++...|+.+.+++. .|. +.... .+++..||||.++|+||++...
T Consensus 242 F~~sy~-~d~~a~~a-mqsVLvIT~~~p~~~~~~~~-----------~~f--n~~l~~~~aa~fyDaVLLYa~AL~EtL~ 306 (380)
T cd06369 242 FNDVYY-ENTTSPPY-MRNVLVLTLPPRNSTNNSSF-----------TTD--NSLLKDDYVAAYHDGVLLFGHVLKKFLE 306 (380)
T ss_pred ccchhc-cCcchHHH-HhceEEEecCCCCCcccccC-----------CCC--CcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 654331 12233445 78899998888766544331 111 11122 7899999999999999999876
Q ss_pred CCC--ChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEee--cCceEEeeeecCCCCc
Q 044527 352 GQV--SDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVI--GKTIKRVGFWNPTTGI 410 (860)
Q Consensus 352 ~~~--~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~--~~~~~~vG~~~~~~~~ 410 (860)
.+. .+.++.+.|+|.+|.|++|.+.+ ++|||.. +|.++.+. .+++++||.|+.....
T Consensus 307 ~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd~--dfsLl~ms~~tg~y~vV~~y~t~~n~ 368 (380)
T cd06369 307 SQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDRDV--NFTLLYTSTDTSKYKVLFEFDTSTNK 368 (380)
T ss_pred hCCCCCcHHHHHHHhCcceecCCCceEeCCCCCccC--ceEEEEeeCCCCCeEEEEEEECCCCe
Confidence 543 24789999999999999999999 9999999 89998876 4789999999985543
No 85
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.88 E-value=4.9e-21 Score=201.47 Aligned_cols=224 Identities=17% Similarity=0.232 Sum_probs=187.0
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHH----hCCC-ceeEEEEeecCCCCCccCCCHHHHHH
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAID----TLTF-EVPYEFIPFVDAGGRVAAGSYSDLID 528 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~----~l~f-~~~~~~~~~~~~~~~~~~g~~~g~~~ 528 (860)
.+.|+||+.. ++|||.+. +. ++++.||++|+++.|++ ++|- .+++++++. +|..++.
T Consensus 39 ~g~L~Vg~~~-~~pP~~f~--~~-----~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~----------~~~~~i~ 100 (302)
T PRK10797 39 NGVIVVGHRE-SSVPFSYY--DN-----QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI----------TSQNRIP 100 (302)
T ss_pred CCeEEEEEcC-CCCCcceE--CC-----CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc----------ChHhHHH
Confidence 4789999998 79999985 33 55799999997777655 6764 368888887 7888999
Q ss_pred HHHcCcccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhcccc
Q 044527 529 QVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPV 608 (860)
Q Consensus 529 ~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~ 608 (860)
.|.+|++|++++++++|++|.+.++||.||+..+..+++++.+.
T Consensus 101 ~L~~G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~------------------------------------ 144 (302)
T PRK10797 101 LLQNGTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGD------------------------------------ 144 (302)
T ss_pred HHHCCCccEEecCCccCcchhhcceecccEeeccEEEEEECCCC------------------------------------
Confidence 99999999999999999999999999999999999999988752
Q ss_pred CCCcCCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecC
Q 044527 609 NDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLG 688 (860)
Q Consensus 609 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~ 688 (860)
+..++++.+++||+..|
T Consensus 145 ---------------------------------------------------------------i~sl~dL~Gk~V~v~~g 161 (302)
T PRK10797 145 ---------------------------------------------------------------IKDFADLKGKAVVVTSG 161 (302)
T ss_pred ---------------------------------------------------------------CCChHHcCCCEEEEeCC
Confidence 22344559999999999
Q ss_pred CcHHHhhhcCC---CCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc--CccceeeccccccccCceEEEec
Q 044527 689 SVVPGALSNLN---FKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY--SAHYTTAAAKYTTSTNGFGFVFQ 763 (860)
Q Consensus 689 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~~~ 763 (860)
+....+++... .+..+++.+++.++++++|.+|++|+++.+...+.+...+. .+.++++++.+ ...+++++++
T Consensus 162 s~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~--~~~~~~~a~~ 239 (302)
T PRK10797 162 TTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQ--SQEAYGCMLR 239 (302)
T ss_pred CcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccC--CcCceeEEEe
Confidence 99888775421 12346788899999999999999999999988776654432 34577888777 7788999999
Q ss_pred cCCc-chHHHHHHHHHHhhcchHHHHHHHHcCCC
Q 044527 764 KGSP-LVHDISRAIARLREEGTLAKIENVWFNTQ 796 (860)
Q Consensus 764 k~sp-l~~~in~~i~~l~e~G~~~~~~~~~~~~~ 796 (860)
|+++ ++..+|.+|.+++++|.+++|.++|+...
T Consensus 240 k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~~ 273 (302)
T PRK10797 240 KDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKNP 273 (302)
T ss_pred CCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCCC
Confidence 9998 99999999999999999999999999973
No 86
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.87 E-value=7.4e-21 Score=195.89 Aligned_cols=220 Identities=24% Similarity=0.398 Sum_probs=186.1
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|+|++.. +++||.+. . ++++.|+++|+++++++++|. ++++.+. +|.+++.++.+|
T Consensus 24 ~~~l~v~~~~-~~~P~~~~---~-----~g~~~G~~vdl~~~ia~~lg~--~~~~~~~----------~~~~~~~~l~~G 82 (247)
T PRK09495 24 DKKLVVATDT-AFVPFEFK---Q-----GDKYVGFDIDLWAAIAKELKL--DYTLKPM----------DFSGIIPALQTK 82 (247)
T ss_pred CCeEEEEeCC-CCCCeeec---C-----CCceEEEeHHHHHHHHHHhCC--ceEEEeC----------CHHHHHHHHhCC
Confidence 3689999886 68999873 2 557899999999999999996 4555554 799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|+++++++.+++|.+.+.||.||+...+.+++++...
T Consensus 83 ~vDi~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------- 121 (247)
T PRK09495 83 NVDLALAGITITDERKKAIDFSDGYYKSGLLVMVKANNN----------------------------------------- 121 (247)
T ss_pred CcCEEEecCccCHHHHhhccccchheecceEEEEECCCC-----------------------------------------
Confidence 999998888999999999999999999999999987652
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
.+..++++.+++|++..++....
T Consensus 122 ---------------------------------------------------------~~~~~~dL~g~~I~v~~g~~~~~ 144 (247)
T PRK09495 122 ---------------------------------------------------------DIKSVKDLDGKVVAVKSGTGSVD 144 (247)
T ss_pred ---------------------------------------------------------CCCChHHhCCCEEEEecCchHHH
Confidence 02233345899999999988888
Q ss_pred hhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-CccceeeccccccccCceEEEeccCCcchHHH
Q 044527 694 ALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDI 772 (860)
Q Consensus 694 ~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~i 772 (860)
+++. ..+..+++.+++..+++++|.+|++|+++.+.....++.++. ..+++..+... ...+++++++|++.+++.+
T Consensus 145 ~l~~-~~~~~~i~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~a~~~~~~l~~~~ 221 (247)
T PRK09495 145 YAKA-NIKTKDLRQFPNIDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSL--EAQQYGIAFPKGSELREKV 221 (247)
T ss_pred HHHh-cCCCCceEEcCCHHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcc--cccceEEEEcCcHHHHHHH
Confidence 8865 345567888899999999999999999999998888887765 44677776666 6778999999999999999
Q ss_pred HHHHHHHhhcchHHHHHHHHcCC
Q 044527 773 SRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 773 n~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
|++|.+++++|.++++.+||+..
T Consensus 222 n~al~~~~~~g~~~~i~~k~~~~ 244 (247)
T PRK09495 222 NGALKTLKENGTYAEIYKKWFGT 244 (247)
T ss_pred HHHHHHHHHCCcHHHHHHHHcCC
Confidence 99999999999999999999986
No 87
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=99.85 E-value=1.1e-20 Score=192.29 Aligned_cols=223 Identities=24% Similarity=0.345 Sum_probs=182.2
Q ss_pred EEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCccc
Q 044527 457 LRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFD 536 (860)
Q Consensus 457 l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~D 536 (860)
||||+.. ++|||.+. ++ +++..|+++|+++++++++|+++ ++++. +|++++.+|.+|++|
T Consensus 1 l~V~~~~-~~~P~~~~--~~-----~~~~~G~~~dl~~~i~~~~g~~~--~~~~~----------~~~~~~~~l~~g~~D 60 (225)
T PF00497_consen 1 LRVGVDE-DYPPFSYI--DE-----DGEPSGIDVDLLRAIAKRLGIKI--EFVPM----------PWSRLLEMLENGKAD 60 (225)
T ss_dssp EEEEEES-EBTTTBEE--ET-----TSEEESHHHHHHHHHHHHHTCEE--EEEEE----------EGGGHHHHHHTTSSS
T ss_pred CEEEEcC-CCCCeEEE--CC-----CCCEEEEhHHHHHHHHhhccccc--ceeec----------ccccccccccccccc
Confidence 6899965 78999996 33 56899999999999999999854 44443 689999999999999
Q ss_pred EEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCcc
Q 044527 537 AAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGSR 616 (860)
Q Consensus 537 i~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 616 (860)
+++++++.+++|.+.++||.||+.....+++++.+.+.
T Consensus 61 ~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~------------------------------------------ 98 (225)
T PF00497_consen 61 IIIGGLSITPERAKKFDFSDPYYSSPYVLVVRKGDAPP------------------------------------------ 98 (225)
T ss_dssp EEESSEB-BHHHHTTEEEESESEEEEEEEEEETTSTCS------------------------------------------
T ss_pred cccccccccccccccccccccccchhheeeeccccccc------------------------------------------
Confidence 99999999999999999999999999999999753110
Q ss_pred cccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHHhhh
Q 044527 617 AHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPGALS 696 (860)
Q Consensus 617 ~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~~~~ 696 (860)
..+++.+.++.++++++..++...++++
T Consensus 99 ----------------------------------------------------~~~~~~~~dl~~~~i~~~~g~~~~~~l~ 126 (225)
T PF00497_consen 99 ----------------------------------------------------IKTIKSLDDLKGKRIGVVRGSSYADYLK 126 (225)
T ss_dssp ----------------------------------------------------TSSHSSGGGGTTSEEEEETTSHHHHHHH
T ss_pred ----------------------------------------------------cccccchhhhcCcccccccchhHHHHhh
Confidence 0023434455889999999998888886
Q ss_pred cCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-CccceeeccccccccCceEEEeccCCc-chHHHHH
Q 044527 697 NLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTSTNGFGFVFQKGSP-LVHDISR 774 (860)
Q Consensus 697 ~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~k~sp-l~~~in~ 774 (860)
.......+++.+.+.++++++|.+|++|+++.+...+.+++++. ........... ...+++++++++.+ +++.||+
T Consensus 127 ~~~~~~~~~~~~~~~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~n~ 204 (225)
T PF00497_consen 127 QQYPSNINIVEVDSPEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPI--SPSPVYFAVRKKNPELLEIFNK 204 (225)
T ss_dssp HHTHHTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEE--EEEEEEEEEETTTHHHHHHHHH
T ss_pred hhccchhhhcccccHHHHHHHHhcCCeeeeeccchhhhhhhhhccccccccccccc--ccceeEEeecccccHHHHHHHH
Confidence 52211457778999999999999999999999999999999887 32333324455 67788888888777 9999999
Q ss_pred HHHHHhhcchHHHHHHHHcCC
Q 044527 775 AIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 775 ~i~~l~e~G~~~~~~~~~~~~ 795 (860)
+|.+|+++|.++++.+||+++
T Consensus 205 ~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 205 AIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp HHHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHhCcHHHHHHHHHcCC
Confidence 999999999999999999874
No 88
>PRK11260 cystine transporter subunit; Provisional
Probab=99.85 E-value=6.8e-20 Score=190.82 Aligned_cols=222 Identities=22% Similarity=0.372 Sum_probs=187.6
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|+|++.. .+|||.+. ++ ++++.|+.+|+++.+++++|.+ +++++. +|.+++.++.+|
T Consensus 40 ~~~l~v~~~~-~~~P~~~~--~~-----~g~~~G~~~dl~~~i~~~lg~~--~e~~~~----------~~~~~~~~l~~G 99 (266)
T PRK11260 40 RGTLLVGLEG-TYPPFSFQ--GE-----DGKLTGFEVEFAEALAKHLGVK--ASLKPT----------KWDGMLASLDSK 99 (266)
T ss_pred CCeEEEEeCC-CcCCceEE--CC-----CCCEEEehHHHHHHHHHHHCCe--EEEEeC----------CHHHHHHHHhcC
Confidence 6789999886 68999874 33 5678999999999999999974 555554 699999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|+++++++.+++|.+.+.||.||+..+..+++++.....
T Consensus 100 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~~--------------------------------------- 140 (266)
T PRK11260 100 RIDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGNEGT--------------------------------------- 140 (266)
T ss_pred CCCEEEeccccCHHHHhccccCCceeecceEEEEEcCCcCC---------------------------------------
Confidence 99999888889999999999999999999999998765211
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
++.++++++++||+..|+.+..
T Consensus 141 ----------------------------------------------------------~~~~~dL~g~~Igv~~G~~~~~ 162 (266)
T PRK11260 141 ----------------------------------------------------------IKTAADLKGKKVGVGLGTNYEQ 162 (266)
T ss_pred ----------------------------------------------------------CCCHHHcCCCEEEEecCCcHHH
Confidence 2223344899999999999888
Q ss_pred hhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCc-chHHH
Q 044527 694 ALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSP-LVHDI 772 (860)
Q Consensus 694 ~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~sp-l~~~i 772 (860)
++++ ..+..++..+++..+++++|.+|++|+++.+.....++.++....+.+....+ ...++++++++++| +++.+
T Consensus 163 ~l~~-~~~~~~i~~~~~~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~v~~~~~~l~~~l 239 (266)
T PRK11260 163 WLRQ-NVQGVDVRTYDDDPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAF--SRQESGVALRKGNPDLLKAV 239 (266)
T ss_pred HHHH-hCCCCceEecCCHHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCcc--ccCceEEEEeCCCHHHHHHH
Confidence 8865 45566788899999999999999999999999888888776643456656666 77889999999998 99999
Q ss_pred HHHHHHHhhcchHHHHHHHHcCC
Q 044527 773 SRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 773 n~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
|++|.+++++|.++++.+||+..
T Consensus 240 n~~l~~~~~~g~~~~i~~k~~~~ 262 (266)
T PRK11260 240 NQAIAEMQKDGTLKALSEKWFGA 262 (266)
T ss_pred HHHHHHHHhCCcHHHHHHHhcCC
Confidence 99999999999999999999986
No 89
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.84 E-value=2.8e-19 Score=184.42 Aligned_cols=217 Identities=17% Similarity=0.265 Sum_probs=177.0
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhC-CCceeEEEEeecCCCCCccCCCHHHHHHHHHc
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTL-TFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYF 532 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l-~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~ 532 (860)
.++||||+.. ++|||.+.. ++ ++++.|+++|+++++++++ |..+++++.+. +|.....+|.+
T Consensus 37 ~g~l~vg~~~-~~pP~~~~~-~~-----~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~----------~~~~~~~~l~~ 99 (259)
T PRK11917 37 KGQLIVGVKN-DVPHYALLD-QA-----TGEIKGFEIDVAKLLAKSILGDDKKIKLVAV----------NAKTRGPLLDN 99 (259)
T ss_pred CCEEEEEECC-CCCCceeee-CC-----CCceeEeeHHHHHHHHHHhcCCCccEEEEEc----------ChhhHHHHHHC
Confidence 5799999997 799998752 22 5689999999999999994 86667777775 67778899999
Q ss_pred CcccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCc
Q 044527 533 QKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEF 612 (860)
Q Consensus 533 g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 612 (860)
|++|++++++++|++|.+.++||.||+..+..+++++++.
T Consensus 100 g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~---------------------------------------- 139 (259)
T PRK11917 100 GSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKN---------------------------------------- 139 (259)
T ss_pred CCccEEEecccCChhhhheeeeccCceeeceEEEEECCCC----------------------------------------
Confidence 9999999999999999999999999999999999998752
Q ss_pred CCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHH
Q 044527 613 QGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVP 692 (860)
Q Consensus 613 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~ 692 (860)
+..++++++++||+..++...
T Consensus 140 -----------------------------------------------------------~~s~~dL~g~~V~v~~gs~~~ 160 (259)
T PRK11917 140 -----------------------------------------------------------YKSLADMKGANIGVAQAATTK 160 (259)
T ss_pred -----------------------------------------------------------CCCHHHhCCCeEEEecCCcHH
Confidence 122334489999999999877
Q ss_pred HhhhcCC---CCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCc-c
Q 044527 693 GALSNLN---FKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSP-L 768 (860)
Q Consensus 693 ~~~~~~~---~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~sp-l 768 (860)
+.+.... ....++..+++..+.+++|.+|++|+++.+...+.++..+ ...++++.+ ...+++++++|+++ +
T Consensus 161 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~GrvDa~~~d~~~~~~~~~~---~~~~~~~~~--~~~~~~~a~~k~~~~l 235 (259)
T PRK11917 161 KAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDD---KSEILPDSF--EPQSYGIVTKKDDPAF 235 (259)
T ss_pred HHHHHhhHhcCCceeEEecCCHHHHHHHHHcCCCcEEEecHHHHHHhhhc---CCeecCCcC--CCCceEEEEeCCCHHH
Confidence 6654311 1123556788999999999999999999998877665554 234556667 77889999999998 9
Q ss_pred hHHHHHHHHHHhhcchHHHHHHHHc
Q 044527 769 VHDISRAIARLREEGTLAKIENVWF 793 (860)
Q Consensus 769 ~~~in~~i~~l~e~G~~~~~~~~~~ 793 (860)
+..+|+.|.+++. .+++|.+||-
T Consensus 236 ~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 236 AKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHhC
Confidence 9999999999965 7999999994
No 90
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.83 E-value=4.5e-19 Score=182.44 Aligned_cols=219 Identities=21% Similarity=0.365 Sum_probs=177.1
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
..+|||++.. ++|||.+. +. ++++.|+++|+++.+++++|+++ +++.. +|+.++.++.+|
T Consensus 20 ~~~l~v~~~~-~~~P~~~~--~~-----~g~~~G~~~dl~~~i~~~lg~~~--~~~~~----------~~~~~~~~l~~g 79 (243)
T PRK15007 20 AETIRFATEA-SYPPFESI--DA-----NNQIVGFDVDLAQALCKEIDATC--TFSNQ----------AFDSLIPSLKFR 79 (243)
T ss_pred CCcEEEEeCC-CCCCceee--CC-----CCCEEeeeHHHHHHHHHHhCCcE--EEEeC----------CHHHHhHHHhCC
Confidence 5789999976 68999975 33 56899999999999999999754 44443 799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|++++++..+++|.+.+.||.||+..+..++.+....
T Consensus 80 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~~~----------------------------------------- 118 (243)
T PRK15007 80 RVEAVMAGMDITPEREKQVLFTTPYYDNSALFVGQQGKY----------------------------------------- 118 (243)
T ss_pred CcCEEEEcCccCHHHhcccceecCccccceEEEEeCCCC-----------------------------------------
Confidence 999988888899999999999999999888777765431
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
+.++++++.+||+..|+...+
T Consensus 119 -----------------------------------------------------------~~~~dL~g~~Igv~~g~~~~~ 139 (243)
T PRK15007 119 -----------------------------------------------------------TSVDQLKGKKVGVQNGTTHQK 139 (243)
T ss_pred -----------------------------------------------------------CCHHHhCCCeEEEecCcHHHH
Confidence 122334899999999998888
Q ss_pred hhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeecccccc---ccCceEEEeccCCc-ch
Q 044527 694 ALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTT---STNGFGFVFQKGSP-LV 769 (860)
Q Consensus 694 ~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~k~sp-l~ 769 (860)
++.+ ..+..+.+.+++.++++++|.+|++|+++.+...+.++.++.. .+..+...+.. ...+++++++++++ ++
T Consensus 140 ~l~~-~~~~~~~~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 217 (243)
T PRK15007 140 FIMD-KHPEITTVPYDSYQNAKLDLQNGRIDAVFGDTAVVTEWLKDNP-KLAAVGDKVTDKDYFGTGLGIAVRQGNTELQ 217 (243)
T ss_pred HHHH-hCCCCeEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHhcCC-CceeecCcccccccCCcceEEEEeCCCHHHH
Confidence 8765 3445567778899999999999999999999988888776653 34443321100 23458999999887 99
Q ss_pred HHHHHHHHHHhhcchHHHHHHHHcC
Q 044527 770 HDISRAIARLREEGTLAKIENVWFN 794 (860)
Q Consensus 770 ~~in~~i~~l~e~G~~~~~~~~~~~ 794 (860)
..||++|.+++++|.++++.++|+.
T Consensus 218 ~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 218 QKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred HHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9999999999999999999999985
No 91
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.83 E-value=6e-19 Score=183.01 Aligned_cols=224 Identities=18% Similarity=0.268 Sum_probs=176.4
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
..+++|++.. ++|||.+. |+ ++++.|+++|+++++++++|.+ +++++. +|+.++.++..|
T Consensus 25 ~~~l~v~~~~-~~pPf~~~--~~-----~g~~~G~~vdl~~~ia~~lg~~--~~~~~~----------~~~~~~~~l~~g 84 (260)
T PRK15010 25 PETVRIGTDT-TYAPFSSK--DA-----KGDFVGFDIDLGNEMCKRMQVK--CTWVAS----------DFDALIPSLKAK 84 (260)
T ss_pred CCeEEEEecC-CcCCceeE--CC-----CCCEEeeeHHHHHHHHHHhCCc--eEEEeC----------CHHHHHHHHHCC
Confidence 5789999985 58999985 33 5689999999999999999975 555554 799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|++++++..|++|.+.++||.||+....+++++++...
T Consensus 85 ~~Di~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------- 124 (260)
T PRK15010 85 KIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPI---------------------------------------- 124 (260)
T ss_pred CCCEEEecCcCCHHHHhhcccccceEeccEEEEEECCCCC----------------------------------------
Confidence 9999988899999999999999999999999999887521
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
...++++.+++||+..|+....
T Consensus 125 ----------------------------------------------------------~~~~~dl~g~~Igv~~gs~~~~ 146 (260)
T PRK15010 125 ----------------------------------------------------------QPTLDSLKGKHVGVLQGSTQEA 146 (260)
T ss_pred ----------------------------------------------------------CCChhHcCCCEEEEecCchHHH
Confidence 0112344899999999998777
Q ss_pred hhhcCC-CCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHH-HHhcc-Cccceeecccccc---ccCceEEEeccCCc
Q 044527 694 ALSNLN-FKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRA-FLSKY-SAHYTTAAAKYTT---STNGFGFVFQKGSP 767 (860)
Q Consensus 694 ~~~~~~-~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~-~~~~~-~~~l~~~~~~~~~---~~~~~~~~~~k~sp 767 (860)
++.... ....++..+++.++++++|.+|++|+++.+.....+ +.++. ...+...+..+.. ...+++++++++.+
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 226 (260)
T PRK15010 147 YANETWRSKGVDVVAYANQDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDA 226 (260)
T ss_pred HHHHhcccCCceEEecCCHHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCH
Confidence 664311 112356667888999999999999999999877764 33332 3345554332200 22346799999987
Q ss_pred -chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 768 -LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 768 -l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
+++.+|++|.+|+++|.++++.+||+..
T Consensus 227 ~L~~~ln~~l~~l~~~G~~~~i~~ky~~~ 255 (260)
T PRK15010 227 ELTAAFNKALGELRQDGTYDKMAKKYFDF 255 (260)
T ss_pred HHHHHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 9999999999999999999999999975
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.82 E-value=1.1e-18 Score=180.54 Aligned_cols=219 Identities=25% Similarity=0.426 Sum_probs=180.8
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
+++|+|++.. +++||.+. ++ ++++.|+++|+++.+++++|. ++++++. +|..++.++.+|
T Consensus 23 ~~~l~v~~~~-~~~P~~~~--~~-----~g~~~G~~~dl~~~i~~~lg~--~~~~~~~----------~~~~~~~~l~~G 82 (250)
T TIGR01096 23 EGSVRIGTET-GYPPFESK--DA-----NGKLVGFDVDLAKALCKRMKA--KCKFVEQ----------NFDGLIPSLKAK 82 (250)
T ss_pred CCeEEEEECC-CCCCceEE--CC-----CCCEEeehHHHHHHHHHHhCC--eEEEEeC----------CHHHHHHHHhCC
Confidence 4689999975 68999875 33 668999999999999999996 5566665 799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|++++++..+++|.+.+.||.|++..+..++++.+...
T Consensus 83 ~~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~---------------------------------------- 122 (250)
T TIGR01096 83 KVDAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSDL---------------------------------------- 122 (250)
T ss_pred CcCEEEecCccCHHHhhccccccchhcCCeEEEEECCCCc----------------------------------------
Confidence 9999988888899999999999999999999999876520
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
.+.++++.+++|++..++....
T Consensus 123 ----------------------------------------------------------~~~~~dl~g~~i~~~~g~~~~~ 144 (250)
T TIGR01096 123 ----------------------------------------------------------AKTLEDLDGKTVGVQSGTTHEQ 144 (250)
T ss_pred ----------------------------------------------------------CCChHHcCCCEEEEecCchHHH
Confidence 1122234789999999998888
Q ss_pred hhhcCCCC-CcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccC--ccceeecccccccc-----CceEEEeccC
Q 044527 694 ALSNLNFK-DSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYS--AHYTTAAAKYTTST-----NGFGFVFQKG 765 (860)
Q Consensus 694 ~~~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~--~~l~~~~~~~~~~~-----~~~~~~~~k~ 765 (860)
++.+. .+ ..++..+.+.++++++|.+|++|+++.+...+.++.++.. +++.+++..+ .. ..++++++++
T Consensus 145 ~l~~~-~~~~~~~~~~~s~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~~~~~~~ 221 (250)
T TIGR01096 145 YLKDY-FKPGVDIVEYDSYDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSV--TDEKYFGDGYGIGLRKG 221 (250)
T ss_pred HHHHh-ccCCcEEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEecccc--ccccccCCceEEEEeCC
Confidence 87653 23 4467778899999999999999999999999998877652 2466665543 22 2488999999
Q ss_pred Cc-chHHHHHHHHHHhhcchHHHHHHHHc
Q 044527 766 SP-LVHDISRAIARLREEGTLAKIENVWF 793 (860)
Q Consensus 766 sp-l~~~in~~i~~l~e~G~~~~~~~~~~ 793 (860)
++ ++..+|++|.+|+++|.++.+.+||+
T Consensus 222 ~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 222 DTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred CHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 98 99999999999999999999999996
No 93
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.81 E-value=9.7e-19 Score=182.87 Aligned_cols=228 Identities=18% Similarity=0.154 Sum_probs=179.8
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|+|++. ++|||.+. ++ ++++.|+++|+++++++++|.+. +++... +|+.++..+.+|
T Consensus 32 ~~~l~v~~~--~~pP~~~~--~~-----~g~~~G~~~dl~~~i~~~lg~~~-~~~~~~----------~w~~~~~~l~~G 91 (275)
T TIGR02995 32 QGFARIAIA--NEPPFTYV--GA-----DGKVSGAAPDVARAIFKRLGIAD-VNASIT----------EYGALIPGLQAG 91 (275)
T ss_pred CCcEEEEcc--CCCCceeE--CC-----CCceecchHHHHHHHHHHhCCCc-eeeccC----------CHHHHHHHHHCC
Confidence 478999997 67999985 33 56789999999999999999641 344443 799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|+.+.++++|++|...++||.||+.....++++++....
T Consensus 92 ~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~--------------------------------------- 132 (275)
T TIGR02995 92 RFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKG--------------------------------------- 132 (275)
T ss_pred CcCEEeecccCCHHHHhccccccceeecceeEEEECCCCCC---------------------------------------
Confidence 99998888899999999999999999999999998875211
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
+-+..++..+.+.+||+..|+...+
T Consensus 133 -------------------------------------------------------i~~~~dl~~~~g~~Igv~~g~~~~~ 157 (275)
T TIGR02995 133 -------------------------------------------------------LKSYKDIAKNPDAKIAAPGGGTEEK 157 (275)
T ss_pred -------------------------------------------------------CCCHHHhccCCCceEEEeCCcHHHH
Confidence 0023333222478999999999988
Q ss_pred hhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-Cccceeeccccc-cccCceEEEeccCCc-chH
Q 044527 694 ALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYT-TSTNGFGFVFQKGSP-LVH 770 (860)
Q Consensus 694 ~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~-~~~~~~~~~~~k~sp-l~~ 770 (860)
+++..+.+..+++.+++.++++++|.+|++|+++.+...+.+++++. -+++..+..... ....+++++++++++ +++
T Consensus 158 ~l~~~~~~~~~i~~~~~~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 237 (275)
T TIGR02995 158 LAREAGVKREQIIVVPDGQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDKELRD 237 (275)
T ss_pred HHHHcCCChhhEEEeCCHHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCHHHHH
Confidence 88765555557788999999999999999999999999999887754 224443322110 011234888998887 999
Q ss_pred HHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 771 DISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 771 ~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
.||++|.+++++|.++++.+||-..
T Consensus 238 ~~n~~l~~~~~sG~~~~i~~ky~~~ 262 (275)
T TIGR02995 238 AFNVELAKLKESGEFAKIIAPYGFS 262 (275)
T ss_pred HHHHHHHHHHhChHHHHHHHHhCCC
Confidence 9999999999999999999999444
No 94
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.80 E-value=3.2e-18 Score=177.48 Aligned_cols=222 Identities=19% Similarity=0.269 Sum_probs=175.3
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
...|+|++.. .++||.+. +. ++++.|+++|+++++++++|.+ +++++. +|++++.++.+|
T Consensus 25 ~~~l~v~~~~-~~~P~~~~--~~-----~g~~~G~~vdi~~~ia~~lg~~--i~~~~~----------pw~~~~~~l~~g 84 (259)
T PRK15437 25 PQNIRIGTDP-TYAPFESK--NS-----QGELVGFDIDLAKELCKRINTQ--CTFVEN----------PLDALIPSLKAK 84 (259)
T ss_pred CCeEEEEeCC-CCCCccee--CC-----CCCEEeeeHHHHHHHHHHcCCc--eEEEeC----------CHHHHHHHHHCC
Confidence 4689999885 48999885 33 6689999999999999999974 555554 799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|+++++++.|++|.+.++||.||+..+.+++++++...
T Consensus 85 ~~D~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------- 124 (259)
T PRK15437 85 KIDAIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDI---------------------------------------- 124 (259)
T ss_pred CCCEEEecCCCCHHHhhhccccchhhcCceEEEEECCCCC----------------------------------------
Confidence 9999998899999999999999999999999999887520
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
...++++++.+||+..|+....
T Consensus 125 ----------------------------------------------------------~~~~~dl~g~~Igv~~g~~~~~ 146 (259)
T PRK15437 125 ----------------------------------------------------------QPTVESLKGKRVGVLQGTTQET 146 (259)
T ss_pred ----------------------------------------------------------CCChHHhCCCEEEEecCcHHHH
Confidence 0122344899999999998777
Q ss_pred hhhcCCCC-CcCccccCCHHHHHHHHhcCCcEEEEcchHHHHH-HHhcc-Cccceee-----ccccccccCceEEEeccC
Q 044527 694 ALSNLNFK-DSRLKKYNSAEEYANALSMGSISAIVDEIPYVRA-FLSKY-SAHYTTA-----AAKYTTSTNGFGFVFQKG 765 (860)
Q Consensus 694 ~~~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~-~~~~~-~~~l~~~-----~~~~~~~~~~~~~~~~k~ 765 (860)
+++....+ ..++..+++.++++++|.+|++|+++.+.....+ +.++. ...+.+. .+.+ ...+++++++++
T Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~--~~~~~~ia~~~~ 224 (259)
T PRK15437 147 FGNEHWAPKGIEIVSYQGQDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKL--FGVGTGMGLRKE 224 (259)
T ss_pred HHHhhccccCceEEecCCHHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccc--cCcceEEEEeCC
Confidence 76542211 2456778899999999999999999999877654 23322 2233332 1223 334578899888
Q ss_pred Cc-chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 766 SP-LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 766 sp-l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
.+ +++.+|++|.+|+++|.++++.+||+..
T Consensus 225 ~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~ 255 (259)
T PRK15437 225 DNELREALNKAFAEMRADGTYEKLAKKYFDF 255 (259)
T ss_pred CHHHHHHHHHHHHHHHHCCcHHHHHHHhcCC
Confidence 77 9999999999999999999999999985
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.76 E-value=2.1e-17 Score=185.41 Aligned_cols=220 Identities=18% Similarity=0.202 Sum_probs=173.0
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|||++.. +|+.+. +. ++...||++|+++++++++|.+++++.. .+|+.++.+|.+|
T Consensus 42 ~g~LrVg~~~---~P~~~~--~~-----~~~~~G~~~DLl~~ia~~LGv~~e~v~~-----------~~~~~ll~aL~~G 100 (482)
T PRK10859 42 RGELRVGTIN---SPLTYY--IG-----NDGPTGFEYELAKRFADYLGVKLEIKVR-----------DNISQLFDALDKG 100 (482)
T ss_pred CCEEEEEEec---CCCeeE--ec-----CCCcccHHHHHHHHHHHHhCCcEEEEec-----------CCHHHHHHHHhCC
Confidence 5789999984 344443 11 2234999999999999999986555422 2799999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|++++++++|++|.+.++||.||+.....+++++...
T Consensus 101 ~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~----------------------------------------- 139 (482)
T PRK10859 101 KADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQP----------------------------------------- 139 (482)
T ss_pred CCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCCC-----------------------------------------
Confidence 999998899999999999999999999999999987652
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
.+..++++++++|++..++...+
T Consensus 140 ---------------------------------------------------------~i~~l~dL~Gk~I~V~~gS~~~~ 162 (482)
T PRK10859 140 ---------------------------------------------------------RPRSLGDLKGGTLTVAAGSSHVE 162 (482)
T ss_pred ---------------------------------------------------------CCCCHHHhCCCeEEEECCCcHHH
Confidence 02233345899999999999887
Q ss_pred hhhcCC--CCCcCc--cccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEecc-CCc-
Q 044527 694 ALSNLN--FKDSRL--KKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQK-GSP- 767 (860)
Q Consensus 694 ~~~~~~--~~~~~~--~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k-~sp- 767 (860)
.++... .+..++ ..+.+.++++++|.+|++|+++.|...+.+..... +++.+..... ...+++++++| +++
T Consensus 163 ~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~-p~l~v~~~l~--~~~~~~~av~k~~~~~ 239 (482)
T PRK10859 163 TLQELKKKYPELSWEESDDKDSEELLEQVAEGKIDYTIADSVEISLNQRYH-PELAVAFDLT--DEQPVAWALPPSGDDS 239 (482)
T ss_pred HHHHHHHhCCCceEEecCCCCHHHHHHHHHCCCCCEEEECcHHHHHHHHhC-CCceeeeecC--CCceeEEEEeCCCCHH
Confidence 775321 233232 34578999999999999999999988776544333 3566655444 56789999999 466
Q ss_pred chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 768 LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 768 l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
|+..+|++|.+++++|.++++.+||+..
T Consensus 240 L~~~ln~~L~~i~~~G~l~~L~~kyfg~ 267 (482)
T PRK10859 240 LYAALLDFFNQIKEDGTLARLEEKYFGH 267 (482)
T ss_pred HHHHHHHHHHHhhcCCHHHHHHHHHhhh
Confidence 9999999999999999999999999987
No 96
>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=99.74 E-value=7.7e-17 Score=165.26 Aligned_cols=210 Identities=16% Similarity=0.148 Sum_probs=155.3
Q ss_pred eEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHH---HHHHc
Q 044527 456 KLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLI---DQVYF 532 (860)
Q Consensus 456 ~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~---~~l~~ 532 (860)
+||||+.. .+|||.+. +. .||++|++++|++++|. ++++++. +|++++ ..|.+
T Consensus 1 ~l~vg~~~-~~pPf~~~---------~~--~Gfdvdl~~~ia~~lg~--~~~~~~~----------~~~~~~~~~~~L~~ 56 (246)
T TIGR03870 1 TLRVCAAT-KEAPYSTK---------DG--SGFENKIAAALAAAMGR--KVVFVWL----------AKPAIYLVRDGLDK 56 (246)
T ss_pred CeEEEeCC-CCCCCccC---------CC--CcchHHHHHHHHHHhCC--CeEEEEe----------ccchhhHHHHHHhc
Confidence 47999988 79999983 22 69999999999999997 5566665 777766 69999
Q ss_pred CcccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCc
Q 044527 533 QKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEF 612 (860)
Q Consensus 533 g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 612 (860)
|++|+++ +++++++| +.||.||+..+.++++++.+...
T Consensus 57 g~~Dii~-~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~-------------------------------------- 94 (246)
T TIGR03870 57 KLCDVVL-GLDTGDPR---VLTTKPYYRSSYVFLTRKDRNLD-------------------------------------- 94 (246)
T ss_pred CCccEEE-eCCCChHH---HhcccCcEEeeeEEEEeCCCCCC--------------------------------------
Confidence 9999987 58888777 67999999999999999876211
Q ss_pred CCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHh--hhcCC-cEEEecCC
Q 044527 613 QGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIK--LASMD-NIGSQLGS 689 (860)
Q Consensus 613 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~--~~~~~-~i~~~~~~ 689 (860)
+..++ +++++ +||+..|+
T Consensus 95 -----------------------------------------------------------~~~~~d~~L~g~~~vgv~~gs 115 (246)
T TIGR03870 95 -----------------------------------------------------------IKSWNDPRLKKVSKIGVIFGS 115 (246)
T ss_pred -----------------------------------------------------------CCCccchhhccCceEEEecCC
Confidence 11111 24787 99999999
Q ss_pred cHHHhhhcCCCC------CcCccccC---------CHHHHHHHHhcCCcEEEEcchHHHHHHHhccCcccee--eccccc
Q 044527 690 VVPGALSNLNFK------DSRLKKYN---------SAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTT--AAAKYT 752 (860)
Q Consensus 690 ~~~~~~~~~~~~------~~~~~~~~---------~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~--~~~~~~ 752 (860)
..+.++++.... ..++..++ +..+++++|.+|++|+++.+...+.+++.+....+.+ +.+...
T Consensus 116 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (246)
T TIGR03870 116 PAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIPDDAT 195 (246)
T ss_pred hHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEecccccc
Confidence 999888753210 01122222 3578999999999999999877777766653222332 222110
Q ss_pred ---c--c--cCceEEEeccCCc-chHHHHHHHHHHhhcchHHHHHHHH
Q 044527 753 ---T--S--TNGFGFVFQKGSP-LVHDISRAIARLREEGTLAKIENVW 792 (860)
Q Consensus 753 ---~--~--~~~~~~~~~k~sp-l~~~in~~i~~l~e~G~~~~~~~~~ 792 (860)
+ . ..+++++++|+++ |++.||++|.+|+ |.+++|..+|
T Consensus 196 ~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 196 RSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 0 1 1135899999999 9999999999999 4899999998
No 97
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.73 E-value=1.4e-16 Score=201.71 Aligned_cols=224 Identities=13% Similarity=0.153 Sum_probs=183.0
Q ss_pred CCcccC-CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHH
Q 044527 448 PAGVGK-INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDL 526 (860)
Q Consensus 448 p~~~~~-g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~ 526 (860)
++.|.. .++|+|++.. .+|||.+. |. ++++.||++|+++.|++++|. ++++++. .+|..+
T Consensus 294 E~~wl~~~~~l~v~~~~-~~pP~~~~--d~-----~g~~~G~~~Dll~~i~~~~g~--~~~~v~~---------~~~~~~ 354 (1197)
T PRK09959 294 EKQWIKQHPDLKVLENP-YSPPYSMT--DE-----NGSVRGVMGDILNIITLQTGL--NFSPITV---------SHNIHA 354 (1197)
T ss_pred HHHHHHHCCceEEEcCC-CCCCeeEE--CC-----CCcEeeehHHHHHHHHHHHCC--eEEEEec---------CCHHHH
Confidence 344544 5789999987 68999996 44 678999999999999999996 5666664 367888
Q ss_pred HHHHHcCcccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhcc
Q 044527 527 IDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIER 606 (860)
Q Consensus 527 ~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~ 606 (860)
...+.+|++|++. ++..|++|.+.++||.||+..++++++++....
T Consensus 355 ~~~l~~g~~D~i~-~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~--------------------------------- 400 (1197)
T PRK09959 355 GTQLNPGGWDIIP-GAIYSEDRENNVLFAEAFITTPYVFVMQKAPDS--------------------------------- 400 (1197)
T ss_pred HHHHHCCCceEee-cccCCccccccceeccccccCCEEEEEecCCCC---------------------------------
Confidence 8999999999875 556799999999999999999999998765420
Q ss_pred ccCCCcCCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEe
Q 044527 607 PVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQ 686 (860)
Q Consensus 607 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~ 686 (860)
...+ .+++++|+.
T Consensus 401 -----------------------------------------------------------------~~~~--~~g~~vav~ 413 (1197)
T PRK09959 401 -----------------------------------------------------------------EQTL--KKGMKVAIP 413 (1197)
T ss_pred -----------------------------------------------------------------cccc--ccCCEEEEe
Confidence 0011 158899999
Q ss_pred cCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-Cccc-eeeccccccccCceEEEecc
Q 044527 687 LGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHY-TTAAAKYTTSTNGFGFVFQK 764 (860)
Q Consensus 687 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l-~~~~~~~~~~~~~~~~~~~k 764 (860)
.++...+++++ .++..+++.|++.++++++|.+|++|+++.+...+.|++++. ...+ ......+ ....++++++|
T Consensus 414 ~g~~~~~~~~~-~~p~~~~~~~~~~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~av~k 490 (1197)
T PRK09959 414 YYYELHSQLKE-MYPEVEWIKVDNASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGV--PNASLSFAFPR 490 (1197)
T ss_pred CCcchHHHHHH-HCCCcEEEEcCCHHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCC--CchheEEeeCC
Confidence 99988888865 456678999999999999999999999999999999998875 2233 3333344 56778999999
Q ss_pred CCc-chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 765 GSP-LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 765 ~sp-l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
++| |++.+|++|..|.++ .++++.+||+..
T Consensus 491 ~~~~L~~~lnk~l~~i~~~-~~~~i~~kW~~~ 521 (1197)
T PRK09959 491 GEPELKDIINKALNAIPPS-EVLRLTEKWIKM 521 (1197)
T ss_pred CCHHHHHHHHHHHHhCCHH-HHHHHHhhcccC
Confidence 999 999999999999998 889999999975
No 98
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.70 E-value=5.9e-16 Score=161.29 Aligned_cols=234 Identities=11% Similarity=0.142 Sum_probs=167.6
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhC-CCceeEEEEeecCCCCCccCCCHHHHHHHHHc
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTL-TFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYF 532 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l-~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~ 532 (860)
.++|++++. +||||.+. +. ++...|+..++++++++++ ++ ++++... +|++++..+ .
T Consensus 17 ~~~l~~~~~--~~pPf~~~--~~-----~~~~~G~~~~i~~~i~~~~~~~--~~~~~~~----------pw~r~l~~l-~ 74 (268)
T TIGR02285 17 KEAITWIVN--DFPPFFIF--SG-----PSKGRGVFDVILQEIRRALPQY--EHRFVRV----------SFARSLKEL-Q 74 (268)
T ss_pred cceeEEEec--ccCCeeEe--CC-----CCCCCChHHHHHHHHHHHcCCC--ceeEEEC----------CHHHHHHHH-h
Confidence 468999988 78999985 32 4567999999999999998 75 5555554 799999999 7
Q ss_pred CcccEEEeceeecccccceeeccccccc-cceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCC
Q 044527 533 QKFDAAVGDTTITANRSVYVDFTLPYTD-MGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDE 611 (860)
Q Consensus 533 g~~Di~~~~~~~t~~r~~~~~fs~p~~~-~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~ 611 (860)
|+.|.++.++++|++|.+.++||.||+. ...++++++.....+..+-.
T Consensus 75 ~~~d~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~~~~~d------------------------------- 123 (268)
T TIGR02285 75 GKGGVCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGVRDEQD------------------------------- 123 (268)
T ss_pred cCCCeEEeeccCCcchhhceeecCCccccCCceEEEccchhhhccccCC-------------------------------
Confidence 7777777789999999999999999975 57888888764211000000
Q ss_pred cCCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcH
Q 044527 612 FQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVV 691 (860)
Q Consensus 612 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~ 691 (860)
+-..+..+.++.++++|+..++..
T Consensus 124 --------------------------------------------------------~~~~~~~l~~l~g~~vgv~~g~~~ 147 (268)
T TIGR02285 124 --------------------------------------------------------GDVDLKKLLASKKKRLGVIASRSY 147 (268)
T ss_pred --------------------------------------------------------CCccHHHHhcCCCeEEEEecceec
Confidence 000112222347789999887665
Q ss_pred H----HhhhcCCCCC-cCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc---CccceeeccccccccCceEEEec
Q 044527 692 P----GALSNLNFKD-SRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY---SAHYTTAAAKYTTSTNGFGFVFQ 763 (860)
Q Consensus 692 ~----~~~~~~~~~~-~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~~~~~~~~ 763 (860)
. .+++...... .++..+++..+++++|..|++|+++.+...+.|++++. ...+...+........+++++++
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 227 (268)
T TIGR02285 148 GQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACP 227 (268)
T ss_pred cHHHHHHHHhCCcccceeeeccchHHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeC
Confidence 3 3333222211 23555677888999999999999999999999888743 22444443221002235789999
Q ss_pred cCC--c-chHHHHHHHHHHhhcchHHHHHHHHcCCC
Q 044527 764 KGS--P-LVHDISRAIARLREEGTLAKIENVWFNTQ 796 (860)
Q Consensus 764 k~s--p-l~~~in~~i~~l~e~G~~~~~~~~~~~~~ 796 (860)
|+. + ++..||++|.+|.++|.++++.+||+..+
T Consensus 228 k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~~~ 263 (268)
T TIGR02285 228 KTEWGRKVIADIDQALSELNVDPKYYKYFDRWLSPE 263 (268)
T ss_pred CCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCCHh
Confidence 975 3 99999999999999999999999999764
No 99
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.70 E-value=1.1e-15 Score=160.77 Aligned_cols=225 Identities=27% Similarity=0.404 Sum_probs=180.8
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCC-ccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHc
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINST-LTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYF 532 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~-~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~ 532 (860)
...++|++....++||.+. ++ . +++.||++|+++.++++++......+++. .|++++..+..
T Consensus 33 ~~~~~v~~~~~~~~p~~~~--~~-----~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~~----------~~~~~~~~l~~ 95 (275)
T COG0834 33 RGKLRVGTEATYAPPFEFL--DA-----KGGKLVGFDVDLAKAIAKRLGGDKKVEFVPV----------AWDGLIPALKA 95 (275)
T ss_pred cCeEEEEecCCCCCCcccc--cC-----CCCeEEeeeHHHHHHHHHHhCCcceeEEecc----------chhhhhHHHhc
Confidence 4678888886455698885 33 4 48999999999999999986444566665 89999999999
Q ss_pred CcccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCc
Q 044527 533 QKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEF 612 (860)
Q Consensus 533 g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~ 612 (860)
|++|+.++++++|++|.+.++||.||+..+..+++++.....
T Consensus 96 g~~D~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~-------------------------------------- 137 (275)
T COG0834 96 GKVDIIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIG-------------------------------------- 137 (275)
T ss_pred CCcCEEEeccccCHHHhccccccccccccCeEEEEECCCCcC--------------------------------------
Confidence 999999999999999999999999999999999999887311
Q ss_pred CCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCc--
Q 044527 613 QGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSV-- 690 (860)
Q Consensus 613 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~-- 690 (860)
+...+++.++++++..|++
T Consensus 138 -----------------------------------------------------------~~~~~DL~gk~v~v~~gt~~~ 158 (275)
T COG0834 138 -----------------------------------------------------------IKSLEDLKGKKVGVQLGTTDE 158 (275)
T ss_pred -----------------------------------------------------------cCCHHHhCCCEEEEEcCcchh
Confidence 2233455999999999998
Q ss_pred HHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHH--HhccCccceeecccccccc-CceEEEeccC--
Q 044527 691 VPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAF--LSKYSAHYTTAAAKYTTST-NGFGFVFQKG-- 765 (860)
Q Consensus 691 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~--~~~~~~~l~~~~~~~~~~~-~~~~~~~~k~-- 765 (860)
....... ..+...+..|++..+.+.+|.+|++|+++.|...+.+. ..+............ .. .+++++++|+
T Consensus 159 ~~~~~~~-~~~~~~~~~~~~~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~ 235 (275)
T COG0834 159 AEEKAKK-PGPNAKIVAYDSNAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPG--LSVEYLGIALRKGDD 235 (275)
T ss_pred HHHHHhh-ccCCceEEeeCCHHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccC--CCcceeEEEeccCCc
Confidence 4444433 33446788999999999999999999999999999884 333321223333333 34 6899999999
Q ss_pred CcchHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 766 SPLVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 766 spl~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
..+++.+|+.|.+++++|.++++.++|+..
T Consensus 236 ~~l~~~in~~l~~l~~~G~~~~i~~kw~~~ 265 (275)
T COG0834 236 PELLEAVNKALKELKADGTLQKISDKWFGP 265 (275)
T ss_pred HHHHHHHHHHHHHHHhCccHHHHHHHhcCc
Confidence 369999999999999999999999999985
No 100
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.67 E-value=2.6e-15 Score=153.28 Aligned_cols=213 Identities=15% Similarity=0.137 Sum_probs=159.6
Q ss_pred eEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcc
Q 044527 456 KLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKF 535 (860)
Q Consensus 456 ~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~ 535 (860)
.|||++.. .++||.+. ...|+++||++++++++|.++++++.++ .|..++..+.+|++
T Consensus 1 ~l~v~~~~-~~~P~~~~-----------~~~G~~~el~~~i~~~~g~~i~~~~~~~----------~~~~~~~~l~~g~~ 58 (232)
T TIGR03871 1 ALRVCADP-NNLPFSNE-----------KGEGFENKIAQLLADDLGLPLEYTWFPQ----------RRGFVRNTLNAGRC 58 (232)
T ss_pred CeEEEeCC-CCCCccCC-----------CCCchHHHHHHHHHHHcCCceEEEecCc----------chhhHHHHHhcCCc
Confidence 37899887 68999852 2379999999999999998777766554 45556778999999
Q ss_pred cEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCc
Q 044527 536 DAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGS 615 (860)
Q Consensus 536 Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 615 (860)
|++++ +++|.+.++||.||+..+.+++++++....
T Consensus 59 Di~~~----~~~r~~~~~fs~py~~~~~~lv~~~~~~~~----------------------------------------- 93 (232)
T TIGR03871 59 DVVIG----VPAGYEMVLTTRPYYRSTYVFVTRKDSLLD----------------------------------------- 93 (232)
T ss_pred cEEEe----ccCccccccccCCcEeeeEEEEEeCCCccc-----------------------------------------
Confidence 99875 577888999999999999999998875211
Q ss_pred ccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhh--hcCCcEEEecCCcHHH
Q 044527 616 RAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKL--ASMDNIGSQLGSVVPG 693 (860)
Q Consensus 616 ~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~--~~~~~i~~~~~~~~~~ 693 (860)
+..+++ +.+++||+..++....
T Consensus 94 --------------------------------------------------------~~~~~d~~l~g~~V~v~~g~~~~~ 117 (232)
T TIGR03871 94 --------------------------------------------------------VKSLDDPRLKKLRIGVFAGTPPAH 117 (232)
T ss_pred --------------------------------------------------------ccchhhhhhcCCeEEEEcCChHHH
Confidence 122222 4789999999999888
Q ss_pred hhhcCCCCCcCcc---------ccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeecccc----ccccCceEE
Q 044527 694 ALSNLNFKDSRLK---------KYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKY----TTSTNGFGF 760 (860)
Q Consensus 694 ~~~~~~~~~~~~~---------~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~~~~~ 760 (860)
++.+.+.. .+++ ...+..+++++|.+|++|+++.+...+.|++++....+.+..... .....++++
T Consensus 118 ~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (232)
T TIGR03871 118 WLARHGLV-ENVVGYSLFGDYRPESPPGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAM 196 (232)
T ss_pred HHHhcCcc-cccccccccccccccCCHHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEE
Confidence 88653321 1222 234678999999999999999998888888776422444432210 002345788
Q ss_pred EeccCCc-chHHHHHHHHHHhhcchHHHHHHHHcC
Q 044527 761 VFQKGSP-LVHDISRAIARLREEGTLAKIENVWFN 794 (860)
Q Consensus 761 ~~~k~sp-l~~~in~~i~~l~e~G~~~~~~~~~~~ 794 (860)
+++++++ ++..+|++|.++++ .++++.+||.-
T Consensus 197 ~~~~~~~~l~~~~n~~l~~~~~--~~~~i~~kyg~ 229 (232)
T TIGR03871 197 GVRKGDKAWKDELNAVLDRRQA--EIDAILREYGV 229 (232)
T ss_pred EEecCCHHHHHHHHHHHHHHHH--HHHHHHHHcCC
Confidence 8999888 99999999999864 79999999953
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.65 E-value=2.8e-15 Score=190.02 Aligned_cols=228 Identities=12% Similarity=0.125 Sum_probs=185.0
Q ss_pred CCcccC-CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHH
Q 044527 448 PAGVGK-INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDL 526 (860)
Q Consensus 448 p~~~~~-g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~ 526 (860)
++.|.. .++|+||+.. +++||.+. .|+ ++++.||++|+++.|++++|. ++++++. .+|+++
T Consensus 48 e~~~l~~~~~l~vgv~~-~~~p~~~~-~~~-----~g~~~G~~~D~l~~ia~~lG~--~~e~v~~---------~~~~~~ 109 (1197)
T PRK09959 48 ELRWLASKKNLVIAVHK-SQTATLLH-TDS-----QQRVRGINADYLNLLKRALNI--KLTLREY---------ADHQKA 109 (1197)
T ss_pred HHHHHhhCCeEEEEecC-CCCCCcee-ecC-----CCccceecHHHHHHHHHhcCC--ceEEEeC---------CCHHHH
Confidence 345554 7889999987 45454432 133 678999999999999999996 6677664 389999
Q ss_pred HHHHHcCcccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhcc
Q 044527 527 IDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIER 606 (860)
Q Consensus 527 ~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~ 606 (860)
+.++.+|++|++.+.++.+++|.+.++||.||+.....+++++...
T Consensus 110 l~~l~~g~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~---------------------------------- 155 (1197)
T PRK09959 110 MDALEEGEVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDS---------------------------------- 155 (1197)
T ss_pred HHHHHcCCCcEecCccccccccccchhcCCCccCCCceEEEeCCCC----------------------------------
Confidence 9999999999998888999999999999999999999999988652
Q ss_pred ccCCCcCCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEe
Q 044527 607 PVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQ 686 (860)
Q Consensus 607 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~ 686 (860)
...+.++.+++++++
T Consensus 156 -----------------------------------------------------------------~~~~~~l~~~~i~~~ 170 (1197)
T PRK09959 156 -----------------------------------------------------------------MRPLTSSKPVNIARV 170 (1197)
T ss_pred -----------------------------------------------------------------CCCcccccCeEEEEe
Confidence 111222378889999
Q ss_pred cCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-CccceeeccccccccCceEEEeccC
Q 044527 687 LGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTSTNGFGFVFQKG 765 (860)
Q Consensus 687 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~k~ 765 (860)
.|+...+++++ .+|..+++.|++..+++++|.+|++|+++.+...+.|+++++ -..+.+..... .......++++|+
T Consensus 171 ~g~~~~~~~~~-~~p~~~i~~~~s~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~-~~~~~~~~~~~~~ 248 (1197)
T PRK09959 171 ANYPPDEVIHQ-SFPKATIISFTNLYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYN-SPRQYNFFLTRKE 248 (1197)
T ss_pred CCCCCHHHHHH-hCCCCEEEeCCCHHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeecc-CCCCceeEEEcCC
Confidence 99988888876 577789999999999999999999999999999999998875 33555554322 0334567889999
Q ss_pred Cc-chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 766 SP-LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 766 sp-l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
+| +...+|++|..+.++|.. .+.+||+..
T Consensus 249 ~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 249 SVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred cHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 99 999999999999999877 899999975
No 102
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.62 E-value=3.4e-14 Score=143.07 Aligned_cols=217 Identities=25% Similarity=0.385 Sum_probs=174.9
Q ss_pred EEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCccc
Q 044527 457 LRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFD 536 (860)
Q Consensus 457 l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~D 536 (860)
|+|++.. .++||.+. ++ ++++.|+..++++.+++++|. ++++.+. .|.+++.++.+|++|
T Consensus 1 l~i~~~~-~~~p~~~~--~~-----~g~~~G~~~~~~~~~~~~~g~--~~~~~~~----------~~~~~~~~l~~g~~D 60 (218)
T cd00134 1 LTVGTAG-TYPPFSFR--DA-----NGELTGFDVDLAKAIAKELGV--KVKFVEV----------DWDGLITALKSGKVD 60 (218)
T ss_pred CEEecCC-CCCCeeEE--CC-----CCCEEeeeHHHHHHHHHHhCC--eEEEEeC----------CHHHHHHHHhcCCcC
Confidence 4677777 68999874 33 678999999999999999995 6666664 589999999999999
Q ss_pred EEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCcc
Q 044527 537 AAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGSR 616 (860)
Q Consensus 537 i~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 616 (860)
+++.....+.+|.+.+.|+.|+......++++++..
T Consensus 61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------------------------- 96 (218)
T cd00134 61 LIAAGMTITPERAKQVDFSDPYYKSGQVILVKKGSP-------------------------------------------- 96 (218)
T ss_pred EEeecCcCCHHHHhhccCcccceeccEEEEEECCCC--------------------------------------------
Confidence 998877778899999999999999999999998763
Q ss_pred cccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHHhhh
Q 044527 617 AHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPGALS 696 (860)
Q Consensus 617 ~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~~~~ 696 (860)
...++++.++++++..++....++.
T Consensus 97 -------------------------------------------------------~~~~~dl~g~~i~~~~~~~~~~~~~ 121 (218)
T cd00134 97 -------------------------------------------------------IKSVKDLKGKKVAVQKGSTAEKYLK 121 (218)
T ss_pred -------------------------------------------------------CCChHHhCCCEEEEEcCchHHHHHH
Confidence 1123344899999998887777776
Q ss_pred cCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCc-chHHHHHH
Q 044527 697 NLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSP-LVHDISRA 775 (860)
Q Consensus 697 ~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~sp-l~~~in~~ 775 (860)
.. .....+..+++.++.+++|.+|++|+++.+.....+..++....++++..........+++..++.++ +.+.++++
T Consensus 122 ~~-~~~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 200 (218)
T cd00134 122 KA-LPEAKVVSYDDNAEALAALENGRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKA 200 (218)
T ss_pred Hh-CCcccEEEeCCHHHHHHHHHcCCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHHHHHHHHH
Confidence 53 22446778889999999999999999999999888877665226766665421145556777777775 99999999
Q ss_pred HHHHhhcchHHHHHHHHc
Q 044527 776 IARLREEGTLAKIENVWF 793 (860)
Q Consensus 776 i~~l~e~G~~~~~~~~~~ 793 (860)
|.+|+++|.++.+.++|+
T Consensus 201 l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 201 LKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHhCccHHHHHHhhC
Confidence 999999999999999996
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.61 E-value=3.5e-14 Score=142.92 Aligned_cols=216 Identities=28% Similarity=0.467 Sum_probs=177.2
Q ss_pred eEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcc
Q 044527 456 KLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKF 535 (860)
Q Consensus 456 ~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~ 535 (860)
+|+|++.. .++||.+. ++ ++...|+..|+++.+.+++|+ ++++.+. +|..++..+.+|++
T Consensus 1 ~l~v~~~~-~~~p~~~~--~~-----~g~~~G~~~~~~~~~~~~~g~--~~~~~~~----------~~~~~~~~l~~g~~ 60 (219)
T smart00062 1 TLRVGTNG-DYPPFSFA--DE-----DGELTGFDVDLAKAIAKELGL--KVEFVEV----------SFDNLLTALKSGKI 60 (219)
T ss_pred CEEEEecC-CCCCcEEE--CC-----CCCcccchHHHHHHHHHHhCC--eEEEEec----------cHHHHHHHHHCCcc
Confidence 47899964 78999875 33 557999999999999999996 5555554 68999999999999
Q ss_pred cEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCc
Q 044527 536 DAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGS 615 (860)
Q Consensus 536 Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 615 (860)
|++++....+.+|...+.++.|+......++++++..
T Consensus 61 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------- 97 (219)
T smart00062 61 DVVAAGMTITPERAKQVDFSDPYYKSGQVILVRKDSP------------------------------------------- 97 (219)
T ss_pred cEEeccccCCHHHHhheeeccceeeceeEEEEecCCC-------------------------------------------
Confidence 9999877778888888999999999999999987652
Q ss_pred ccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHHhh
Q 044527 616 RAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPGAL 695 (860)
Q Consensus 616 ~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~~~ 695 (860)
+..+++++++++++..++....++
T Consensus 98 --------------------------------------------------------~~~~~dL~g~~i~~~~g~~~~~~~ 121 (219)
T smart00062 98 --------------------------------------------------------IKSLEDLKGKKVAVVAGTTGEELL 121 (219)
T ss_pred --------------------------------------------------------CCChHHhCCCEEEEecCccHHHHH
Confidence 122333488999999888888887
Q ss_pred hcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-Cccceeecccccccc-CceEEEeccCCc-chHHH
Q 044527 696 SNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTST-NGFGFVFQKGSP-LVHDI 772 (860)
Q Consensus 696 ~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~-~~~~~~~~k~sp-l~~~i 772 (860)
... .+..++..+.+..+.+.+|.+|++|+++.......+..++. ...+.++.... .. .++.++++++++ +.+.+
T Consensus 122 ~~~-~~~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 198 (219)
T smart00062 122 KKL-YPEAKIVSYDSQAEALAALKAGRADAAVADAPALAALVKQHGLPELKIVGDPL--DTPEGYAFAVRKGDPELLDKI 198 (219)
T ss_pred HHh-CCCceEEEcCCHHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCceeeccCCC--CCCcceEEEEECCCHHHHHHH
Confidence 653 33456777888999999999999999999999888877665 23677766654 44 788999999997 99999
Q ss_pred HHHHHHHhhcchHHHHHHHHc
Q 044527 773 SRAIARLREEGTLAKIENVWF 793 (860)
Q Consensus 773 n~~i~~l~e~G~~~~~~~~~~ 793 (860)
+++|.++.++|.++++.++|+
T Consensus 199 ~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 199 NKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHhCchHHHHHhccC
Confidence 999999999999999999985
No 104
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=99.52 E-value=1.3e-12 Score=136.18 Aligned_cols=214 Identities=22% Similarity=0.339 Sum_probs=171.7
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMR--SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+||+++|.+ +..+.....|++.|++++ +..+++.+.|+++++....+.+.+++.+ ++++++|+.+ +...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~-~~~~ 71 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-------GRGLEVILADSQSDPERALEALRDLIQQ-GVDGIIGPPS-SSSA 71 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-------CCceEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEecCC-CHHH
Confidence 589999988 344677888888888887 3578889999999998888888898877 8999999988 7666
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc--ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecC-CCCCcCCHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS--YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDN-TWGNDNTIPYLF 198 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~--~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~-~~g~~~~~~~l~ 198 (860)
..+...+...++|+|.++...+ .... +++++.+++. ..++.+++++.+.+|+++++++.+. .++. ...+.++
T Consensus 72 ~~~~~~~~~~~ip~v~~~~~~~-~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~-~~~~~~~ 146 (269)
T cd01391 72 LAVVELAAAAGIPVVSLDATAP-DLTGYPYVFRVGPDNE---QAGEAAAEYLAEKGWKRVALIYGDDGAYGR-ERLEGFK 146 (269)
T ss_pred HHHHHHHHHcCCcEEEecCCCC-ccCCCceEEEEcCCcH---HHHHHHHHHHHHhCCceEEEEecCCcchhh-HHHHHHH
Confidence 6578888999999999987765 4323 8899999999 9999999999999999999999888 6666 7789999
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC-CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhh
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL-DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAATM 274 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~-~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~ 274 (860)
+.+++.|+++......+ .....++....+.+++. ++++|++.++ ..+..+++++.+.|+...++.|+..+...
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 147 AALKKAGIEVVAIEYGD--LDTEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred HHHHhcCcEEEeccccC--CCccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 99999997776543333 11225667777777776 7899988877 88999999999999863456666655543
No 105
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.51 E-value=4.2e-15 Score=139.73 Aligned_cols=93 Identities=30% Similarity=0.534 Sum_probs=70.0
Q ss_pred ChhHHHHHHHHHHHHHHHhhhhccccCCCcCC-------cccccchhHHHHHHHHhhccc-cccccccchhhhHHHHHHH
Q 044527 583 KPNLWLTIAALFVLTGFVVWIIERPVNDEFQG-------SRAHQFGMIFWYSFSTLVFSQ-REKLFSNLSKFVVIVWVFV 654 (860)
Q Consensus 583 ~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~R~l~~~w~~~ 654 (860)
+++||++++++++++++++|++.+..+.+++. +...++.+++|++++.+++|+ ...|++++.|++.++|++|
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~s~s~Ril~~~w~l~ 80 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRPRSWSGRILLAFWWLF 80 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH------HHHHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccccchHHHHHHHHHHHH
Confidence 57999999999999999999999987766554 234568899999999999877 6679999999999999999
Q ss_pred HHHHHHHhhhccccccchhhH
Q 044527 655 VLILSSSYTATLASMLTIQQI 675 (860)
Q Consensus 655 ~lil~~~Yta~L~s~lt~~~~ 675 (860)
+++++++|+|+|+|+||.++.
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~ 101 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKY 101 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHH
T ss_pred HHHHHHHHHHHHHHHhcccCc
Confidence 999999999999999999887
No 106
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.41 E-value=3e-12 Score=127.87 Aligned_cols=220 Identities=14% Similarity=0.146 Sum_probs=174.2
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|||+|.++ |-++.. + .+...|+++++.+.+|+.||. ++++.+. .+-+.++.+|.+|
T Consensus 22 rGvLrV~tins---p~sy~~-~------~~~p~G~eYelak~Fa~yLgV--~Lki~~~---------~n~dqLf~aL~ng 80 (473)
T COG4623 22 RGVLRVSTINS---PLSYFE-D------KGGPTGLEYELAKAFADYLGV--KLKIIPA---------DNIDQLFDALDNG 80 (473)
T ss_pred cCeEEEEeecC---ccceec-c------CCCccchhHHHHHHHHHHhCC--eEEEEec---------CCHHHHHHHHhCC
Confidence 68999999984 434421 1 445679999999999999996 5555554 2568999999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQ 613 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~ 613 (860)
++|++.+++....+|.+.+.....|+..++.++.++++.-
T Consensus 81 ~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R---------------------------------------- 120 (473)
T COG4623 81 NADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR---------------------------------------- 120 (473)
T ss_pred CcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC----------------------------------------
Confidence 9999999999999999888888889999999999988720
Q ss_pred CcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHH
Q 044527 614 GSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPG 693 (860)
Q Consensus 614 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~ 693 (860)
-.+++++++..|.+..|+...+
T Consensus 121 ----------------------------------------------------------p~~l~~L~g~~i~v~~gs~~~~ 142 (473)
T COG4623 121 ----------------------------------------------------------PRSLGQLKGRQITVAKGSAHVE 142 (473)
T ss_pred ----------------------------------------------------------CCCHHHccCceeeccCCcHHHH
Confidence 1123344888999999988766
Q ss_pred hhhc---CCCCCcC--ccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCc-
Q 044527 694 ALSN---LNFKDSR--LKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSP- 767 (860)
Q Consensus 694 ~~~~---~~~~~~~--~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~sp- 767 (860)
.++. ..+|.-. ...-...++.++.+..|++|..+.|+..+..+.+-.. +|.+.-+.. ...++++.+|.++.
T Consensus 143 ~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gkldytiads~~is~~q~i~P-~laVafd~t--de~~v~Wy~~~~dd~ 219 (473)
T COG4623 143 DLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGKLDYTIADSVEISLFQRVHP-ELAVAFDLT--DEQPVAWYLPRDDDS 219 (473)
T ss_pred HHHHHHHhhcchhhhhhcccccHHHHHHHHhcCCcceeeeccHHHHHHHHhCc-cceeeeecc--cccCceeeccCCchH
Confidence 6642 2333321 2222357889999999999999999988876555544 788887777 78999999999765
Q ss_pred -chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 768 -LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 768 -l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
|...++.++..+.+.|.++.+.+||++.
T Consensus 220 tL~a~ll~F~~~~~e~g~larleeky~gH 248 (473)
T COG4623 220 TLSAALLDFLNEAKEDGLLARLEEKYLGH 248 (473)
T ss_pred HHHHHHHHHHHHhhcchHHHHHHHHHhcc
Confidence 9999999999999999999999999975
No 107
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.29 E-value=1.6e-10 Score=129.85 Aligned_cols=305 Identities=13% Similarity=0.170 Sum_probs=160.4
Q ss_pred eEEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCCh
Q 044527 42 EVHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTP 118 (860)
Q Consensus 42 ~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s 118 (860)
+=+|++++|+||.. |...+.||..|. +.... .+.++.++|+..++.. ....+.+.+ |+.+||||.. -
T Consensus 219 ~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~~---~~~~l~~~Dt~~~~~~--~~~~~a~~~-ga~~ViGPL~-k 288 (536)
T PF04348_consen 219 PQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADAD---SRPELRFYDTNADSAD--ALYQQAVAD-GADFVIGPLL-K 288 (536)
T ss_dssp ---EEEEE--SSTTHHHHHHHHHHHHHHH------TT-----S-EEEEETTTS-HH--HHHHHHHHT-T--EEE---S-H
T ss_pred ccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccccc---CCCceEEecCCCCCHH--HHHHHHHHc-CCCEEEcCCC-H
Confidence 46899999999976 788888999888 22211 4667888998766433 233444554 9999999999 7
Q ss_pred hHHHHHHHhhcC--CCCcEEecccCCCccccc---ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCC
Q 044527 119 TGAQILADLGSR--AKIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNT 193 (860)
Q Consensus 119 ~~~~~~~~~~~~--~~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~ 193 (860)
.....++..-.. ..||++.....+. .-+. |.|-..|. ..++.+++.+..-|+++..|+++++++|. ..
T Consensus 289 ~~V~~l~~~~~~~~~~vp~LaLN~~~~-~~~~~~l~~f~LspE-----dEA~q~A~~a~~~g~~~alvl~p~~~~g~-R~ 361 (536)
T PF04348_consen 289 SNVEALAQLPQLQAQPVPVLALNQPDN-SQAPPNLYQFGLSPE-----DEARQAAQKAFQDGYRRALVLAPQNAWGQ-RM 361 (536)
T ss_dssp HHHHHHHH-GG-GGTT-EEEES---TT-----TTEEE----HH-----HHHHHHHHHHHHTT--S-EEEEESSHHHH-HH
T ss_pred HHHHHHHhcCcccccCCceeeccCCCc-ccCccceEEEeCCcH-----HHHHHHHHHHHhcCCCCEEEEcCCChHHH-HH
Confidence 776666654432 4899999876554 3222 55666664 55899999999999999999999999999 99
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecChh
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATAAT 273 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 273 (860)
.++|.+.+++.|+.++....+. ...++...++.-.+.+.|.|++.+++.++..|--...-.. .....-+.++..
T Consensus 362 ~~aF~~~W~~~gg~~~~~~~~~----~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~~--a~~lPvyatS~~ 435 (536)
T PF04348_consen 362 AEAFNQQWQALGGQVAEVSYYG----SPADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFHF--AGDLPVYATSRS 435 (536)
T ss_dssp HHHHHHHHHHHHSS--EEEEES----STTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT-T---TT-EEEE-GGG
T ss_pred HHHHHHHHHHcCCCceeeEecC----CHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhccccc--CCCCCEEEeccc
Confidence 9999999999998886665554 3468888887666778999999999999987766654322 122222233322
Q ss_pred hhhcccCcchhhcccCceeEEEEe-c--cCCchhHHHHHHHHHHHhhccCCCCCCCCCChhHHHHhhHHHHHHHHHHhhh
Q 044527 274 MNFLHSMDSLVVESSMQGVVGFRR-Y--VPTSKELHNFTLRWRREMYLNNPNAEVSELDAYGILAYDTVWAVAKASEKLK 350 (860)
Q Consensus 274 ~~~~~~~~~~~~~~~~~g~~~~~~-~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~~~ 350 (860)
.... .+...... ..|+..... + .++.+....+...| +.. . ......-+.+|||..+..+ +..
T Consensus 436 ~~g~--~~~~~~~d-L~gv~f~d~Pwll~~~~~~~~~~~~~~----~~~----~-~~~~RL~AlG~DA~~L~~~-l~~-- 500 (536)
T PF04348_consen 436 YSGS--PNPSQDRD-LNGVRFSDMPWLLDPNSPLRQQLAALW----PNA----S-NSLQRLYALGIDAYRLAPR-LPQ-- 500 (536)
T ss_dssp --HH--T-HHHHHH-TTT-EEEE-GGGG---SHHHHHHH-HH----TTT------HHHHHHHHHHHHHHHHHHT-HHH--
T ss_pred cCCC--CCcchhhh-hcCCEEeccccccCCCchHHHHHHhhc----cCC----c-cHHHHHHHHHHHHHHHHHH-HHH--
Confidence 1111 11111122 566655433 2 23333333333322 110 0 0123345677777644321 221
Q ss_pred cCCCChHHHHHHHHhcccccceeeEEe-eCCeecCCccEEEEEeec
Q 044527 351 TGQVSDEIFYKQIVNNRFRGLSGDFQF-VNGKLTSSREFEIVNVIG 395 (860)
Q Consensus 351 ~~~~~~~~l~~~l~~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~ 395 (860)
.+.+.+..+.|.||.+++ ++|.... .....++++
T Consensus 501 ---------l~~~~~~~~~G~TG~L~~~~~g~i~R--~l~wa~f~~ 535 (536)
T PF04348_consen 501 ---------LRQFPGYRLDGLTGQLSLDEDGRIER--QLSWAQFRN 535 (536)
T ss_dssp ---------HHHSTT--EEETTEEEEE-TT-BEEE--E-EEEEEET
T ss_pred ---------HhhCCCCcccCCceeEEECCCCeEEE--eecceeecC
Confidence 222234568999999999 7776554 555555443
No 108
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.27 E-value=3e-11 Score=111.33 Aligned_cols=116 Identities=28% Similarity=0.407 Sum_probs=101.3
Q ss_pred HhhhcC---CcEEEecCCcHHHhhhcCCCCC----------cCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccC
Q 044527 675 IKLASM---DNIGSQLGSVVPGALSNLNFKD----------SRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYS 741 (860)
Q Consensus 675 ~~~~~~---~~i~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~ 741 (860)
++++.+ +++|+..|++.+.+++....+. .+++.|++..+++.+|.+|+ |+++.|...+.++.++.|
T Consensus 5 ~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-da~v~d~~~~~~~~~~~~ 83 (134)
T smart00079 5 VEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-YAFLMESTYLDYELSQNC 83 (134)
T ss_pred hHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-CEEEeehHhHHHHHhCCC
Confidence 344566 7999999999999997643221 25678899999999999999 999999999999888777
Q ss_pred ccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHHHHHHcC
Q 044527 742 AHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKIENVWFN 794 (860)
Q Consensus 742 ~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~~~~~ 794 (860)
.+.+++..+ ...+++++++|+++|++.+|.+|.+|.++|.++++.++|+.
T Consensus 84 -~~~~~~~~~--~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 84 -DLMTVGENF--GRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred -CeEEcCccc--CCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 788888878 78899999999999999999999999999999999999985
No 109
>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=99.24 E-value=2.3e-12 Score=97.54 Aligned_cols=63 Identities=24% Similarity=0.406 Sum_probs=51.5
Q ss_pred cceEeeeC--CCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHc
Q 044527 468 EFVNVVWD--PQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYF 532 (860)
Q Consensus 468 pf~~~~~~--~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~ 532 (860)
||++.+.+ ..++ +.+++|||+||+++||+.+||+++++.++++++|...+||+|+||+++|++
T Consensus 1 Pfvm~~~~~~~~~g--~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGENLTG--NDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSGSBG--GGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcccCC--CccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 78887666 2345 899999999999999999999999999999999988889999999999874
No 110
>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=98.84 E-value=1.6e-07 Score=97.77 Aligned_cols=205 Identities=13% Similarity=0.124 Sum_probs=145.1
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||+++|.++ +.......+++.|+++. .+++.+.|+.+++....+.+.+++.+ ++.++|+... +....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~---------g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~-~~~~~ 69 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA---------GYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPS-DLTAP 69 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc---------CCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecC-CCcch
Confidence 5899999863 33566677777777772 24566777778888888888888876 8999888666 44443
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
.....+...++|+|......+ . .++++++.+++. ..+..+++++...+-++++++..+.. ++. ...+.+++.
T Consensus 70 ~~~~~l~~~~ip~v~~~~~~~-~-~~~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~~~~~~~~~ 143 (264)
T cd01537 70 TIVKLARKAGIPVVLVDRDIP-D-GDRVPSVGSDNE---QAGYLAGEHLAEKGHRRIALLAGPLGSSTAR-ERVAGFKDA 143 (264)
T ss_pred hHHHHhhhcCCCEEEeccCCC-C-CcccceEecCcH---HHHHHHHHHHHHhcCCcEEEEECCCCCCcHH-HHHHHHHHH
Confidence 356777889999999986655 3 236677888888 88999999998888999999987655 444 567889999
Q ss_pred HhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcCC--CeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 201 LHDND-IDIARRTSISLASSTHDQIIEKLSMLKSLD--TKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 201 ~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.| .++...... ..+..+....+.++.+.+ +++++.. +...+..+++++.+.|+..+...-++
T Consensus 144 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 144 LKEAGPIEIVLVQEG---DWDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HHHcCCcChhhhccC---CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 98887 443332222 245566677777777665 5566544 44567778899999997544444443
No 111
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.77 E-value=9.8e-08 Score=98.77 Aligned_cols=198 Identities=16% Similarity=0.096 Sum_probs=135.6
Q ss_pred CeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCc
Q 044527 455 NKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQK 534 (860)
Q Consensus 455 ~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~ 534 (860)
.+|+||+.. ..+|+. +.+...++.+.+++++|.+ +++.+. ++|+.++..+.+|+
T Consensus 32 ~~l~vg~~~-~~~~~~--------------~~~~~~~l~~~l~~~~g~~--v~~~~~---------~~~~~~~~~l~~g~ 85 (254)
T TIGR01098 32 KELNFGILP-GENASN--------------LTRRWEPLADYLEKKLGIK--VQLFVA---------TDYSAVIEAMRFGR 85 (254)
T ss_pred CceEEEECC-CCCHHH--------------HHHHHHHHHHHHHHHhCCc--EEEEeC---------CCHHHHHHHHHcCC
Confidence 579999985 344433 2344578999999999874 454442 37999999999999
Q ss_pred ccEEEeceeecc---cccceeecccccccc------ceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhc
Q 044527 535 FDAAVGDTTITA---NRSVYVDFTLPYTDM------GIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIE 605 (860)
Q Consensus 535 ~Di~~~~~~~t~---~r~~~~~fs~p~~~~------~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~ 605 (860)
+|+++.+..... +|.....|+.|+... ...++++++..
T Consensus 86 ~Di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~~--------------------------------- 132 (254)
T TIGR01098 86 VDIAWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADSP--------------------------------- 132 (254)
T ss_pred ccEEEECcHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCCC---------------------------------
Confidence 999986654332 566667788876543 24677776542
Q ss_pred cccCCCcCCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEE
Q 044527 606 RPVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGS 685 (860)
Q Consensus 606 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~ 685 (860)
+++++++++++|++
T Consensus 133 ------------------------------------------------------------------i~~~~dL~gk~I~~ 146 (254)
T TIGR01098 133 ------------------------------------------------------------------IKSLKDLKGKTFAF 146 (254)
T ss_pred ------------------------------------------------------------------CCChHHhcCCEEEe
Confidence 22333448999998
Q ss_pred ec-CCcH-----HHhhhcC-CCCC----cCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc---Cccceeecccc
Q 044527 686 QL-GSVV-----PGALSNL-NFKD----SRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY---SAHYTTAAAKY 751 (860)
Q Consensus 686 ~~-~~~~-----~~~~~~~-~~~~----~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~---~~~l~~~~~~~ 751 (860)
.. ++.. ..++.+. +... .++....+..+.+++|.+|++|+.+.+......+.++. ...++++.+..
T Consensus 147 ~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 (254)
T TIGR01098 147 GDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIWKSP 226 (254)
T ss_pred eCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEEecC
Confidence 64 3221 1223222 2111 24445556788999999999999999998887766654 23677777655
Q ss_pred ccccCceEEEeccC-Cc-chHHHHHHHHHH
Q 044527 752 TTSTNGFGFVFQKG-SP-LVHDISRAIARL 779 (860)
Q Consensus 752 ~~~~~~~~~~~~k~-sp-l~~~in~~i~~l 779 (860)
...+++++++|+ .+ +++.+|++|..+
T Consensus 227 --~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 227 --LIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred --CCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 556789999999 55 999999998754
No 112
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.75 E-value=5.7e-08 Score=101.33 Aligned_cols=164 Identities=17% Similarity=0.185 Sum_probs=130.9
Q ss_pred CHHHHHHHHHcCcccEEEeceeecccccceeecccc--ccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHH
Q 044527 522 SYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLP--YTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGF 599 (860)
Q Consensus 522 ~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p--~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~ 599 (860)
+|+++...|.+|++|+++++..++.+|.+.++|+.| |....+++++|....
T Consensus 52 ~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~--------------------------- 104 (287)
T PRK00489 52 RPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSD--------------------------- 104 (287)
T ss_pred CcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCC---------------------------
Confidence 789999999999999999999999999999999888 677778888887652
Q ss_pred HhhhhccccCCCcCCcccccchhHHHHHHHHhhccccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhc
Q 044527 600 VVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLAS 679 (860)
Q Consensus 600 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~ 679 (860)
+..+++++
T Consensus 105 ------------------------------------------------------------------------i~sl~DL~ 112 (287)
T PRK00489 105 ------------------------------------------------------------------------WQGVEDLA 112 (287)
T ss_pred ------------------------------------------------------------------------CCChHHhC
Confidence 12244558
Q ss_pred CCcEEEecCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceE
Q 044527 680 MDNIGSQLGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFG 759 (860)
Q Consensus 680 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 759 (860)
++++++..+.....++.+.+. ..+++.+.+..+. .+..|..|+++.......++.++ .++++ +.. .....+
T Consensus 113 Gk~ia~~~~~~~~~~l~~~gi-~~~iv~~~gs~ea--a~~~G~aDaivd~~~~~~~l~~~---~L~~v-~~~--~~~~~~ 183 (287)
T PRK00489 113 GKRIATSYPNLTRRYLAEKGI-DAEVVELSGAVEV--APRLGLADAIVDVVSTGTTLRAN---GLKIV-EVI--LRSEAV 183 (287)
T ss_pred CCEEEEcCcHHHHHHHHHcCC-ceEEEECCCchhh--hhcCCcccEEEeeHHHHHHHHHC---CCEEE-Eee--eeeeEE
Confidence 999999888888888876554 3466667766665 56679999998877777665553 57777 555 677799
Q ss_pred EEecc--CCc-chHHHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 760 FVFQK--GSP-LVHDISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 760 ~~~~k--~sp-l~~~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
++.+| .+| .+..+|.++.+| .|.+..+..||+..
T Consensus 184 li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~~ 220 (287)
T PRK00489 184 LIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLMM 220 (287)
T ss_pred EEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEEE
Confidence 99999 677 889999999999 49999999999986
No 113
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.67 E-value=2.4e-06 Score=89.11 Aligned_cols=199 Identities=13% Similarity=0.161 Sum_probs=135.5
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++.|.. .........+++.|.++. .+++.+.++.+++....+.+.+++.+ ++.+||+...++....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~---------g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL---------GVELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc---------CceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhHH
Confidence 589999875 344566777888877772 25556677777888888888888877 8998876444133323
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC--CCCcCCHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT--WGNDNTIPYLF 198 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~l~ 198 (860)
.....+...++|+|......+ . .+.+..+.+++. ..+..+++.+... |-+++++++.... ++. ...+.++
T Consensus 71 ~~~~~l~~~~ip~V~~~~~~~-~-~~~~~~v~~d~~---~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~-~r~~gf~ 144 (267)
T cd01536 71 PALKKANAAGIPVVTVDSDID-G-GNRLAYVGTDNY---EAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQ-ERVKGFR 144 (267)
T ss_pred HHHHHHHHCCCcEEEecCCCC-c-cceeEEEecCHH---HHHHHHHHHHHHHhCCCceEEEEEcccccchHH-HHHHHHH
Confidence 344556678999999876554 2 124555667666 7788888888766 8899999987653 666 6778899
Q ss_pred HHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcCCCeE-EEEEeCHHHHHHHHHHHHHcCCc
Q 044527 199 DSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSLDTKV-FVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 199 ~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-iil~~~~~~~~~il~~a~~~gl~ 261 (860)
+.+++.| .++...... .....+..+.+.++.+..++. .+++++...+..+++++++.|+.
T Consensus 145 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~ 206 (267)
T cd01536 145 DALKEYPDIEIVAVQDG---NWDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK 206 (267)
T ss_pred HHHHhCCCcEEEEEecC---CCcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC
Confidence 9998884 665433222 233455667777776554433 33444456778899999999964
No 114
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=98.65 E-value=1.4e-06 Score=90.64 Aligned_cols=205 Identities=12% Similarity=0.073 Sum_probs=137.7
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++.|.. .+.......+++.+.++. +++ +.+.|+..++....+...+++.+ ++.+++.... +....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-------g~~--~~~~~~~~~~~~~~~~~~~~~~~-~~d~iii~~~-~~~~~ 69 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-------GYS--VLLCNSDEDPEKEREALELLLSR-RVDGIILAPS-RLDDE 69 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-------CCE--EEEEcCCCCHHHHHHHHHHHHHc-CcCEEEEecC-CcchH
Confidence 488999875 344555666666666652 234 45567778888888888888876 8988887655 44444
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
. ...+...++|+|......+ . ..+..+.+++. ..++.+++.+...|.+++++++.+.. ++. ...+.+++.
T Consensus 70 ~-~~~~~~~~ipvv~~~~~~~-~--~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~g~~~~ 141 (264)
T cd06267 70 L-LEELAALGIPVVLVDRPLD-G--LGVDSVGIDNR---AGAYLAVEHLIELGHRRIAFIGGPPDLSTAR-ERLEGYREA 141 (264)
T ss_pred H-HHHHHHcCCCEEEeccccc-C--CCCCEEeeccH---HHHHHHHHHHHHCCCceEEEecCCCccchHH-HHHHHHHHH
Confidence 4 6667889999999976554 3 34555666777 77888888888779999999987654 455 566788889
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCC--CeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLD--TKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.+.++....... ...+..+....+.++.++. +++|+.. +...+..+++++++.|+..++...++
T Consensus 142 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 142 LEEAGIPLDEELIVE-GDFSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HHHcCCCCCcceEEe-cccchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 988885443222222 1233455566666666555 5666543 55667788888899987533444333
No 115
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.61 E-value=1.2e-06 Score=92.55 Aligned_cols=307 Identities=10% Similarity=0.095 Sum_probs=188.5
Q ss_pred eEEEEEEEecCCcc---hhhHHHHHHHHHHHHHhccCCcc-cEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCC
Q 044527 42 EVHVGIILDMRSWT---GKITNSCISMAIADFYAVNTHCK-TRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMT 117 (860)
Q Consensus 42 ~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~~l~-~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~ 117 (860)
+=+|+.++|++|.. |...+.||..|-. +. .-.+ -..++.++|+...+..+ +...+..+++..|+||..
T Consensus 257 ~skiALLLPLtG~~a~~a~~IqdGF~aA~~---~~-~~~~~~~~~~~i~dT~~~~l~~---i~aqaqq~G~~~VVGPLl- 328 (604)
T COG3107 257 PSKIALLLPLTGQAAVFARTIQDGFLAAKN---AP-ATQTAQVAELKIYDTSAQPLDA---ILAQAQQDGADFVVGPLL- 328 (604)
T ss_pred chheeEEeccCChhHHHHHHHHHHHHHhcc---Cc-ccCCccccceeeccCCcccHHH---HHHHHHhcCCcEEecccc-
Confidence 56899999999965 7778888888765 11 1122 22788889988776554 445556679999999999
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCcc-ccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHH
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNS-LTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~-ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 195 (860)
-.....+..--. ..+|.+....++.+. ..+ .+|-.+|.|+ ++..++.+-.-|.+...++.+.+++|+ ..++
T Consensus 329 K~nVe~L~~~~q-~~i~vLALN~~~n~r~~~~~cyfaLSPEDE-----a~~AA~~l~~qG~R~plvlvPr~~lG~-Rv~~ 401 (604)
T COG3107 329 KPNVEALLASNQ-QPIPVLALNQPENSRNPAQLCYFALSPEDE-----ARDAANHLWDQGKRNPLVLVPRNDLGD-RVAN 401 (604)
T ss_pred chhHHHHHhCcC-CCCceeeecCCccccCcccceeeecChhHH-----HHHHHHHHHHccccCceEEecchHHHH-HHHH
Confidence 777666644332 678888776444312 122 6777788776 889999999999999999999999999 9999
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHh-----------------------hhcCC-CeEEEEEeCHHHHHHH
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSM-----------------------LKSLD-TKVFVVHMTHALASHL 251 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~-----------------------i~~~~-~~viil~~~~~~~~~i 251 (860)
+|.+++.+.|...+..+.+. ...+++..++. +.+.. .|.|++.+.++++..|
T Consensus 402 AF~~~Wq~~gg~~v~~~~fg----~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~I 477 (604)
T COG3107 402 AFNQEWQKLGGGTVLQQKFG----STSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALI 477 (604)
T ss_pred HHHHHHHHhcCCchhHhhcC----cHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHH
Confidence 99999999988655544433 12222222211 12223 7899999999888876
Q ss_pred HHHHHHcCCccCCeEEEecChhhhhcccCcchhhcccCceeEEEE---eccCCchhHHHHHHHHHHHhhccCCCCCCCCC
Q 044527 252 FLNAKKLGMMSKGYVWIATAATMNFLHSMDSLVVESSMQGVVGFR---RYVPTSKELHNFTLRWRREMYLNNPNAEVSEL 328 (860)
Q Consensus 252 l~~a~~~gl~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~---~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 328 (860)
--...-.+.. ..-.-+.++-.. .....++.... ++|+..-. ...+..|..+.....|..
T Consensus 478 KP~ia~~~~~-~~~p~yaSSr~~--~gT~~P~~~~~-m~GiqysdiP~l~~~~~p~~qq~a~~~p~-------------- 539 (604)
T COG3107 478 KPMIAMANGS-DSPPLYASSRSS--QGTNGPDFRLE-MEGIQYSDIPWLAQPNPPLMQQAAAAWPN-------------- 539 (604)
T ss_pred hhHHHhhcCC-CCcceeeecccc--ccCCCccHHHh-ccCccccCCchhcCCCchHHHHHHHhcCC--------------
Confidence 5444433321 221222222221 11122233333 55543321 123555666665555422
Q ss_pred ChhHHHHhhHHHHHHHHHHhhhcCCCChHHHHHH---HH---hcccccceeeEEe-eCCeecCCccEEEEEeecCceEEe
Q 044527 329 DAYGILAYDTVWAVAKASEKLKTGQVSDEIFYKQ---IV---NNRFRGLSGDFQF-VNGKLTSSREFEIVNVIGKTIKRV 401 (860)
Q Consensus 329 ~~~~~~~YDav~~la~Al~~~~~~~~~~~~l~~~---l~---~~~~~g~tG~v~F-~~g~~~~~~~~~i~~~~~~~~~~v 401 (860)
-|..+.++|.++..- .|.++ |+ +-..+|+||.++- ++..... .....+++.|..+++
T Consensus 540 ------~~sl~RLyAmGvDAw--------rLan~f~elrqV~G~~i~G~TG~Lsad~~c~I~R--~l~Waqy~~G~vvP~ 603 (604)
T COG3107 540 ------DYSLARLYAMGVDAW--------RLANHFSELRQVPGYQIDGLTGTLSADPDCVIER--KLSWAQYQQGQVVPV 603 (604)
T ss_pred ------chHHHHHHHhcchHH--------HHHHHhHHhhcCCCcccccccceeecCCCceEee--cchHHHhcCCCeeeC
Confidence 234456666655543 23332 22 2357899999998 5554444 555555555555544
No 116
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.61 E-value=2.4e-06 Score=89.95 Aligned_cols=197 Identities=14% Similarity=0.113 Sum_probs=134.8
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
+||++.+.+.+.-.....+++ +++|+.+..+|.++.+.+.|+.+++....+...+++.+ ++.++|+..+ +.. ..
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~g~~v~l~~~~~~~~~~~~~~~~~~l~~~-~vd~iI~~~~-~~~-~~ 74 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKEGKNVKIDYQNAQGDQSNLPTIARKFVAD-KPDLIVAIAT-PAA-QA 74 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccCCceEEEEEecCCCCHHHHHHHHHHHHhc-CCCEEEEcCc-HHH-HH
Confidence 589999866543333444444 56666666667899999999999999988888898876 8999998655 432 22
Q ss_pred HHHhhcCCCCcEEecccCCCccccc--------ceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC-CCCcC
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTS--------YSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT-WGNDN 192 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~--------~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~-~g~~~ 192 (860)
. .....++|+|..+..++ .... ....+..++. ..+..+++++.+. |.+++++++.+.. ++. .
T Consensus 75 ~--~~~~~~iPvV~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~-~ 147 (281)
T cd06325 75 A--ANATKDIPIVFTAVTDP-VGAGLVKSLEKPGGNVTGVSDL---VPVETQLELLKKLLPDAKTVGVLYNPSEANSV-V 147 (281)
T ss_pred H--HHcCCCCCEEEEecCCc-cccccccccccCCCceeCeecc---cchHHHHHHHHHHCCCCcEEEEEeCCCCccHH-H
Confidence 2 25667999998875443 2211 1122233444 5567777887765 9999999976543 566 6
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
..+.+++.+++.|++++... . ....++...++++.+. +++|++.. ...+..+++++.+.++
T Consensus 148 r~~g~~~~~~~~g~~~~~~~--~---~~~~~~~~~~~~~~~~-~dai~~~~-d~~a~~~~~~~~~~~~ 208 (281)
T cd06325 148 QVKELKKAAAKLGIEVVEAT--V---SSSNDVQQAAQSLAGK-VDAIYVPT-DNTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHHHHHHHhCCCEEEEEe--c---CCHHHHHHHHHHhccc-CCEEEEcC-chhHHhHHHHHHHHHH
Confidence 67889999999998876532 1 2345677777777653 57776554 4567788888888774
No 117
>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=98.55 E-value=5e-06 Score=87.00 Aligned_cols=201 Identities=11% Similarity=0.089 Sum_probs=133.8
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
|||+++|.... .-.....+++.++++ .+.-++++++.+.|+..++....+...+++.+ ++++||.....+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~----~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKE----LKKAGLISEFIVTSADGDVAQQIADIRNLIAQ-GVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHh----hhccCCeeEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhhhH
Confidence 58988875432 223344455555443 21113678889999999999888888888887 8999887544133233
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecC--CCCCcCCHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDN--TWGNDNTIPYLF 198 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~--~~g~~~~~~~l~ 198 (860)
.....+...++|+|......+ . ..+.++.+++. ..+..+++++.+. +-++++++..+. ..+. ...+.++
T Consensus 76 ~~l~~~~~~~iPvv~~~~~~~-~--~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~-~R~~g~~ 148 (272)
T cd06300 76 PVIEEACEAGIPVVSFDGTVT-T--PCAYNVNEDQA---EFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDE-DRYAGAK 148 (272)
T ss_pred HHHHHHHHCCCeEEEEecCCC-C--CceeEecCCHH---HHHHHHHHHHHHHcCCCceEEEEECCCCCcchH-HHHHHHH
Confidence 344556678999999875433 2 24666778887 8888888888765 788999997543 2344 5567889
Q ss_pred HHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcCCC--eEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 199 DSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSLDT--KVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 199 ~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~--~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
+.+++.+ +++..... ...+..+....+.++.++.+ ++|+...+. +..+++.+++.|+.
T Consensus 149 ~a~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~g~~ 209 (272)
T cd06300 149 EVLKEYPGIKIVGEVY---GDWDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQAGRD 209 (272)
T ss_pred HHHHHCCCcEEEeecC---CCCCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHcCCC
Confidence 9998887 77654322 12344556667777765544 544444333 88999999999973
No 118
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=98.35 E-value=4.2e-05 Score=80.14 Aligned_cols=199 Identities=10% Similarity=0.128 Sum_probs=125.0
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEE-EecCCChhHH
Q 044527 44 HVGIILDM-RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAI-ICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~av-iGp~~~s~~~ 121 (860)
+||++.|. +.+.-.....+++.|.++. ++++.+...|+..++....+...+++.+ +|.++ +.|.. +...
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~-~~~~ 71 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL-------GVSVDIQAAPSEGDQQGQLSIAENMINK-GYKGLLFSPIS-DVNL 71 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh-------CCeEEEEccCCCCCHHHHHHHHHHHHHh-CCCEEEECCCC-hHHh
Confidence 58999984 3333334445555555552 2577766667677887777777778776 78875 55655 4443
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC--CCCcCCHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~l 197 (860)
.+....+...++|+|......+ . +....+.+++. ..++.+++++... |.++++++..... ... ...+.+
T Consensus 72 ~~~~~~~~~~~iPvV~~~~~~~-~--~~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~-~r~~g~ 144 (275)
T cd06320 72 VPAVERAKKKGIPVVNVNDKLI-P--NATAFVGTDNK---ANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAE-QRTEGF 144 (275)
T ss_pred HHHHHHHHHCCCeEEEECCCCC-C--ccceEEecCcH---HHHHHHHHHHHHHhCCCceEEEEeCCCCCccHH-HHHHHH
Confidence 4445666778999998864322 1 22223466666 6788888888665 8899999975433 223 446789
Q ss_pred HHHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEE-EEeCHHHHHHHHHHHHHcCCc
Q 044527 198 FDSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFV-VHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 198 ~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vii-l~~~~~~~~~il~~a~~~gl~ 261 (860)
++.+++. |+++..... ......+....++++.++.+++-. ++.+...+..+++.+++.|+.
T Consensus 145 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 145 TEAIKKASGIEVVASQP---ADWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHHHhhCCCcEEEEecC---CCccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 9999998 887654321 123334445566666544444333 344556666788888999863
No 119
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.30 E-value=3.7e-05 Score=80.04 Aligned_cols=200 Identities=11% Similarity=0.143 Sum_probs=124.2
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
.||++.|... +.-.....+++.+.++. ++.+. +.++..++....+...+++.+ +++++|.... +....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-------g~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~-~~~~~ 69 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-------GYSLL--LATTDYDAEREADAVETLLRQ-RVDGLILTVA-DAATS 69 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-------CCEEE--EeeCCCCHHHHHHHHHHHHhc-CCCEEEEecC-CCCch
Confidence 3788887533 33344455555555441 23444 456667777777777777775 8998886433 22223
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEec---CCCCCcCCHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHED---NTWGNDNTIPYLFD 199 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~---~~~g~~~~~~~l~~ 199 (860)
.....+...++|+|..... + . .. +..+..++. ..+..+++++...|.++++++..+ .+++. ...+.+.+
T Consensus 70 ~~~~~~~~~~ipvV~~~~~-~-~-~~-~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~-~r~~gf~~ 141 (266)
T cd06282 70 PALDLLDAERVPYVLAYND-P-Q-PG-RPSVSVDNR---AAARDVAQALAALGHRRIAMLAGRLAASDRAR-QRYAGYRA 141 (266)
T ss_pred HHHHHHhhCCCCEEEEecc-C-C-CC-CCEEeeCcH---HHHHHHHHHHHHcCcccEEEeccccccCchHH-HHHHHHHH
Confidence 3456677889999887633 2 2 11 112345666 778888999888899999999743 22455 56788899
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhh-hcC-CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeE
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSML-KSL-DTKVFVVHMTHALASHLFLNAKKLGMMSKGYV 266 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i-~~~-~~~viil~~~~~~~~~il~~a~~~gl~~~~~~ 266 (860)
.+++.|+++....... .+..+....+.++ ++. .+++|+. ++...+..+++++++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di 206 (266)
T cd06282 142 AMRAAGLAPLPPVEIP---FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDL 206 (266)
T ss_pred HHHHcCCCCCccccCC---CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 9999987654322222 2333334444443 333 4566655 567777889999999997544333
No 120
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.26 E-value=0.00021 Score=72.29 Aligned_cols=198 Identities=15% Similarity=0.129 Sum_probs=130.2
Q ss_pred CceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 40 SDEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+.++||+....+.+.=.....|++-|+++.-- ..+++.....++|+..+.+.++++..+ +.+.|++-.+ +
T Consensus 28 ~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~G~------~n~~i~~~na~~~~~~a~~iarql~~~-~~dviv~i~t--p 98 (322)
T COG2984 28 ADQITVAITQFVEHPALDAAREGVKEALKDAGY------KNVKIDYQNAQGDLGTAAQIARQLVGD-KPDVIVAIAT--P 98 (322)
T ss_pred ccceeEEEEEeecchhHHHHHHHHHHHHHhcCc------cCeEEEeecCCCChHHHHHHHHHhhcC-CCcEEEecCC--H
Confidence 446779988888876444556666666666421 167777888899999999999999987 5566776544 3
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCccccc---ce-----EeecCCCchhHHHHHHHHHHHhh--CCCcEEEEEEecCC-C
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTS---YS-----IQIDQDDEASQSQARGISDFISV--FKWKEVILIHEDNT-W 188 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~---~~-----~r~~p~~~~~~~~~~ai~~~l~~--~~w~~v~ii~~~~~-~ 188 (860)
.+.++.. .-.++|+|-.+.++| .-.. .+ -=+.-+|. .-...-.+++++ -+.++++++|..++ .
T Consensus 99 ~Aq~~~s--~~~~iPVV~aavtd~-v~a~Lv~~~~~pg~NvTGvsD~---~~v~q~i~lik~~~Pnak~Igv~Y~p~E~n 172 (322)
T COG2984 99 AAQALVS--ATKTIPVVFAAVTDP-VGAKLVKSLEQPGGNVTGVSDL---LPVAQQIELIKALLPNAKSIGVLYNPGEAN 172 (322)
T ss_pred HHHHHHH--hcCCCCEEEEccCch-hhccCCccccCCCCceeecCCc---chHHHHHHHHHHhCCCCeeEEEEeCCCCcc
Confidence 4444433 333499998888776 2222 11 11233444 323333444444 37899999998876 6
Q ss_pred CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH---HHHHHHHHHHHcC
Q 044527 189 GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA---LASHLFLNAKKLG 259 (860)
Q Consensus 189 g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~---~~~~il~~a~~~g 259 (860)
.. ...+.++..+++.|++++... . .+..|....++.+. .++|+|+..++.. ....++..+.+.+
T Consensus 173 s~-~l~eelk~~A~~~Gl~vve~~-v----~~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~k 239 (322)
T COG2984 173 SV-SLVEELKKEARKAGLEVVEAA-V----TSVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAK 239 (322)
T ss_pred cH-HHHHHHHHHHHHCCCEEEEEe-c----CcccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhC
Confidence 66 788999999999999987543 2 23445555665554 6789999988753 3445566666665
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=98.18 E-value=9e-05 Score=77.26 Aligned_cols=202 Identities=14% Similarity=0.146 Sum_probs=125.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++.|... ..-.....+++.++++.| +.+ .+.|+..++....+....++++ +|+++|--.+ ... .
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~g-------~~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~-~~~-~ 68 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAHG-------YTL--LVASSGYDLDREYAQARKLLER-GVDGLALIGL-DHS-P 68 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHCC-------CEE--EEecCCCCHHHHHHHHHHHHhc-CCCEEEEeCC-CCC-H
Confidence 4899998543 334455556665555532 344 4467778888888888888876 7877653212 111 2
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecC---CCCCcCCHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDN---TWGNDNTIPYLFD 199 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~---~~g~~~~~~~l~~ 199 (860)
.....+...++|+|......+ .. + +..+..++. ..+..+++.+...|.++++++.... .++. ...+.|.+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~-~~-~-~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~-~r~~gf~~ 141 (268)
T cd06273 69 ALLDLLARRGVPYVATWNYSP-DS-P-YPCVGFDNR---EAGRLAARHLIALGHRRIAMIFGPTQGNDRAR-ARRAGVRA 141 (268)
T ss_pred HHHHHHHhCCCCEEEEcCCCC-CC-C-CCEEEeChH---HHHHHHHHHHHHCCCCeEEEEeccccCCccHH-HHHHHHHH
Confidence 333456778999999864333 21 1 222445666 7788888888777999999997542 2344 56788999
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeE
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYV 266 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~ 266 (860)
.+++.++.+.....+. .+....+....+.++.+ ..+++|+. ++...+..+++.+++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i 208 (268)
T cd06273 142 ALAEAGLELPELWQVE-APYSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDL 208 (268)
T ss_pred HHHHcCCCCCHHHeee-CCCcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCce
Confidence 9999886543221211 11223333444555543 34677664 566778889999999997544433
No 122
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.11 E-value=0.00025 Score=73.92 Aligned_cols=195 Identities=11% Similarity=0.088 Sum_probs=121.2
Q ss_pred EEEEEec-CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEE-EEecCCChhHHH
Q 044527 45 VGIILDM-RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQA-IICIGMTPTGAQ 122 (860)
Q Consensus 45 IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~a-viGp~~~s~~~~ 122 (860)
||++.|. +.+.......+++.+.++. ++.+ .+.++..++....+...+++.+ ++++ |+++.. +....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~-------g~~v--~~~~~~~~~~~~~~~~~~~~~~-~~dgii~~~~~-~~~~~ 70 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL-------GYEL--TVLDAQNDAAKQLNDIEDLITR-GVDAIIINPTD-SDAVV 70 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc-------CceE--EecCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCC-hHHHH
Confidence 7888875 3334556677777777762 2344 4566677888777777777776 7887 455655 44333
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecC--CCCCcCCHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDN--TWGNDNTIPYLF 198 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~--~~g~~~~~~~l~ 198 (860)
.....+...++|+|......+ .. +.+..+..++. ..+..+++.+... |-+++++++.+. .++. ...+.++
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~-~~-~~~~~v~~d~~---~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~-~r~~g~~ 144 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREAN-GG-EVVSQIASDNV---AGGKMAAEYLVKLLGGKGKVVELQGIPGASAAR-ERGKGFH 144 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCC-CC-ceEEEEccCcH---HHHHHHHHHHHHHhCCCceEEEEeCCCCCccHH-HHHHHHH
Confidence 444455677999999975433 11 12334555555 6678788887665 779999997643 2444 5678888
Q ss_pred HHHhh-CCceEeEEEeccCCCCChHHHHHHHHhhhcCC--CeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 199 DSLHD-NDIDIARRTSISLASSTHDQIIEKLSMLKSLD--TKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 199 ~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+.+++ .|+++...... ..+..+....+.++.+.. +++| ++.+...+..+++++.+.|+
T Consensus 145 ~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~ 205 (268)
T cd06323 145 EVVDKYPGLKVVASQPA---DFDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAAGK 205 (268)
T ss_pred HHHHhCCCcEEEecccC---CCCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHcCC
Confidence 89888 47776532211 122333334455554333 4443 44455566678889999986
No 123
>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=98.08 E-value=0.00022 Score=74.64 Aligned_cols=201 Identities=13% Similarity=0.076 Sum_probs=120.8
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhH
Q 044527 44 HVGIILDMR--SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~ 120 (860)
.||++.|.. .+.......+++.+.++. ++. +.+.++..++....+....++.+ +++++|- +.. +..
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~-------g~~--~~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~-~~~ 69 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED-------GVE--VIVLDANGDVARQAAQVEDLIAQ-KVDGIILWPTD-GQA 69 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc-------CCE--EEEEcCCcCHHHHHHHHHHHHHc-CCCEEEEecCC-ccc
Confidence 388899864 444667777888887772 134 45567778888887877777776 7988754 444 433
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccccc-ceEee-cCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCCCCC-cCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTS-YSIQI-DQDDEASQSQARGISDFISVF--KWKEVILIHEDNTWGN-DNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~-~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~g~-~~~~~ 195 (860)
.......+...++|+|......+ .... +++.. .+++. ..++.+++.+.+. |-++|++++.+..+.. ....+
T Consensus 70 ~~~~l~~~~~~~iPvV~~~~~~~-~~~~~~v~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~ 145 (275)
T cd06317 70 YIPGLRKAKQAGIPVVITNSNIS-EKGFEFIKSFTGPDDI---SQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQK 145 (275)
T ss_pred cHHHHHHHHHCCCcEEEeCCCCC-CCccchhhhhccccHH---HHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHH
Confidence 34444556778999998864332 2111 33222 33444 5666666666543 6689999976443322 03457
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhh-c--CCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLK-S--LDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~-~--~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
.+++.+++.|..+....... ......+....+.++. + ..+++|+. ++...+..+++++++.|+.
T Consensus 146 g~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 146 GFEDELAEVCPGVEVLDTQP-ADWDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHHHhhCCCCEEEeccC-CCCCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc
Confidence 88899988864333222221 1122233333344432 2 24677764 4555678899999999974
No 124
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=98.05 E-value=9.2e-05 Score=78.03 Aligned_cols=113 Identities=13% Similarity=0.038 Sum_probs=71.6
Q ss_pred hhhcCCcEEEe-cCCcHHH-----hh-hcCCCCCc---CccccC-CHHHHHHHHhcCCcEEEEcchHHHHHHHhccC---
Q 044527 676 KLASMDNIGSQ-LGSVVPG-----AL-SNLNFKDS---RLKKYN-SAEEYANALSMGSISAIVDEIPYVRAFLSKYS--- 741 (860)
Q Consensus 676 ~~~~~~~i~~~-~~~~~~~-----~~-~~~~~~~~---~~~~~~-~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~--- 741 (860)
++++++++++. .++.... .+ +..+.... +...+. +..+.+..|.+|++|+.+.+...+..+.+...
T Consensus 131 ~DL~Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~vDa~~~~~~~~~~~~~~~~~~~ 210 (288)
T TIGR03431 131 EDLKGKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGTVDAATTNDENLDRMIRKGQPDA 210 (288)
T ss_pred HHhCCCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCCCCeEeccHHHHHHHHHcCCCCc
Confidence 34489999986 3333211 11 22222211 123444 67889999999999999999887777665321
Q ss_pred -ccceeeccccccccCceEEEeccCC-c-chHHHHHHHHHHhhcchHHHHHH
Q 044527 742 -AHYTTAAAKYTTSTNGFGFVFQKGS-P-LVHDISRAIARLREEGTLAKIEN 790 (860)
Q Consensus 742 -~~l~~~~~~~~~~~~~~~~~~~k~s-p-l~~~in~~i~~l~e~G~~~~~~~ 790 (860)
..+++..... .....+++++++. + +++.+++++..+.+++..+++..
T Consensus 211 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~~ 260 (288)
T TIGR03431 211 MEDLRIIWKSP--LIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFEKI 260 (288)
T ss_pred hhheEEEEEcC--CCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHHhh
Confidence 2344443211 1224578899994 4 99999999999999976665433
No 125
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.00 E-value=0.00057 Score=71.59 Aligned_cols=199 Identities=12% Similarity=0.093 Sum_probs=118.4
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEE-EecCCChhHH
Q 044527 44 HVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAI-ICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~av-iGp~~~s~~~ 121 (860)
+||++.|.... .-.....+++.+.++. +++ +.+.++.+++....+...+++.. +++++ ++|.. +...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-------g~~--~~~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~~~-~~~~ 69 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-------GYD--AVELSAENSAKKELENLRTAIDK-GVSGIIISPTN-SSAA 69 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-------CCe--EEEecCCCCHHHHHHHHHHHHhc-CCCEEEEcCCc-hhhh
Confidence 47888875432 2223344444444431 133 44567778888777777787765 78877 56655 5444
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC------CCcEEEEEEecC--CCCCcCC
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF------KWKEVILIHEDN--TWGNDNT 193 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~------~w~~v~ii~~~~--~~g~~~~ 193 (860)
......+...++|+|......+ .. .++..+.+++. .-+..+++++.+. |-++++++.... ..+. ..
T Consensus 70 ~~~l~~~~~~~ipvV~~~~~~~-~~-~~~~~v~~d~~---~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~-~r 143 (277)
T cd06319 70 VTLLKLAAQAKIPVVIADIGAE-GG-DYVSYIKSDNY---EGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQ-KR 143 (277)
T ss_pred HHHHHHHHHCCCCEEEEecCCC-CC-ceEEEEeeccH---HHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHH-HH
Confidence 4556677788999998764322 11 13334555555 5566666655442 668999997543 3455 66
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeE-EEEEeCHHHHHHHHHHHHHcCCc
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKV-FVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-iil~~~~~~~~~il~~a~~~gl~ 261 (860)
.+.+++.+++.|.++..... . .+.+.......+.++.++.++. .+++.+...+..+++++++.|+.
T Consensus 144 ~~gf~~~l~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 144 TKGFKEAMKEAGCDLAGIRQ-Q-KDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHHHhcCCceEeecc-C-CCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC
Confidence 78899999999887543211 1 1223333344555554444443 22334455567889999999974
No 126
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.00 E-value=0.0011 Score=70.11 Aligned_cols=198 Identities=13% Similarity=0.097 Sum_probs=119.0
Q ss_pred EEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEE-EEecCCChhH
Q 044527 43 VHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQA-IICIGMTPTG 120 (860)
Q Consensus 43 i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~a-viGp~~~s~~ 120 (860)
-+||++.|... +.-.+...+++.++++.+ +++ .+.++..++....+...+++.+ ++.+ |++|.. +..
T Consensus 27 ~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G-------~~~--~~~~~~~d~~~~~~~~~~l~~~-~~dgiii~~~~-~~~ 95 (295)
T PRK10653 27 DTIALVVSTLNNPFFVSLKDGAQKEADKLG-------YNL--VVLDSQNNPAKELANVQDLTVR-GTKILLINPTD-SDA 95 (295)
T ss_pred CeEEEEecCCCChHHHHHHHHHHHHHHHcC-------CeE--EEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCCC-hHH
Confidence 47999998533 334556667777776622 343 4466667787777777777766 6764 456655 444
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh-CCC-cEEEEEEecCC--CCCcCCHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV-FKW-KEVILIHEDNT--WGNDNTIPY 196 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~-~~w-~~v~ii~~~~~--~g~~~~~~~ 196 (860)
.......+...++|+|......+ -.+.+..+.+++. .-++.+++++.. .+. .+++++..+.. ... ...+.
T Consensus 96 ~~~~l~~~~~~~ipvV~~~~~~~--~~~~~~~V~~D~~---~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~-~R~~g 169 (295)
T PRK10653 96 VGNAVKMANQANIPVITLDRGAT--KGEVVSHIASDNV---AGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAAR-ERGEG 169 (295)
T ss_pred HHHHHHHHHHCCCCEEEEccCCC--CCceeeEEccChH---HHHHHHHHHHHHHhCCCceEEEEEccCCCccHH-HHHHH
Confidence 34455667778999999864321 1113445556555 556777777655 354 36666654322 233 45688
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE-EEEeCHHHHHHHHHHHHHcCC
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF-VVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi-il~~~~~~~~~il~~a~~~gl 260 (860)
+++.+++.|+++..... ...+..+....+.++.++.++.- +++.+...+..+++++++.|+
T Consensus 170 f~~al~~~g~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~ 231 (295)
T PRK10653 170 FKQAVAAHKFNVLASQP---ADFDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK 231 (295)
T ss_pred HHHHHhhCCCEEEEecC---CCCCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC
Confidence 99999999987653221 11233334445556654444322 334455566678999999996
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=97.98 E-value=0.00042 Score=72.28 Aligned_cols=202 Identities=15% Similarity=0.158 Sum_probs=121.8
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 45 VGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 45 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
||++.|... ........|++.++++. ++.+.+...|. +.....+.+.+.+..++++++|.... ......
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~~~~~--~~~~~~~~~~~~l~~~~vdgiii~~~-~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDT-------GYQLVIEPCDS--GSPDLAERVRALLQRSRVDGVILTPP-LSDNPE 71 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhC-------CCeEEEEeCCC--CchHHHHHHHHHHHHCCCCEEEEeCC-CCCccH
Confidence 788887643 44566777777777642 25665554443 22234555666555558999887544 322334
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCC-cCCHHHHHHHHh
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGN-DNTIPYLFDSLH 202 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~-~~~~~~l~~~~~ 202 (860)
....+...++|+|......+ . .. ...+..+.. ..+..+++.+...|.++++++..+..+.. ....+.+++.++
T Consensus 72 ~~~~~~~~~ipvv~i~~~~~-~-~~-~~~V~~d~~---~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 72 LLDLLDEAGVPYVRIAPGTP-D-PD-SPCVRIDDR---AAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHHHhcCCCEEEEecCCC-C-CC-CCeEEeccH---HHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 44566778999998875444 2 11 112334555 66788888888789999999986654432 023577888888
Q ss_pred hCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 203 DNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 203 ~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
+.|+.+....... ......+-...+.++.+ .++++|+ +++...+..+++.+++.|...+.
T Consensus 146 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~ 207 (270)
T cd01545 146 EAGLPLDPELVAQ-GDFTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPD 207 (270)
T ss_pred HcCCCCChhhEEe-CCCChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 8887652111111 11122222234444432 3567766 45667888999999999975443
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=97.93 E-value=0.00093 Score=69.79 Aligned_cols=199 Identities=13% Similarity=0.003 Sum_probs=120.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEec-CCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICI-GMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp-~~~s~~~ 121 (860)
+||++.|... ..-.....+++-|.++.| +++ .+.++..++....+....++.. ++++||.. .. +...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g-------~~~--~~~~~~~~~~~~~~~l~~~~~~-~vdgii~~~~~-~~~~ 69 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALG-------GDL--RVYDAGGDDAKQADQIDQAIAQ-KVDAIIIQHGR-AEVL 69 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcC-------CEE--EEECCCCCHHHHHHHHHHHHHc-CCCEEEEecCC-hhhh
Confidence 4888888533 333455666666666532 343 4467778888777777788876 89988774 33 3333
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh--CCCcEEEEEEecC-CCCCcCCHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV--FKWKEVILIHEDN-TWGNDNTIPYLF 198 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~--~~w~~v~ii~~~~-~~g~~~~~~~l~ 198 (860)
......+...++|+|......+ . ..+..+.+++. ..++.+++.+.. .|.++++++...+ .... ...+.++
T Consensus 70 ~~~i~~~~~~~ipvV~~~~~~~-~--~~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~-~R~~g~~ 142 (273)
T cd06305 70 KPWVKRALDAGIPVVAFDVDSD-N--PKVNNTTQDDY---SLARLSLDQLVKDLGGKGNVGYVNVAGFPPLD-RRYDVWQ 142 (273)
T ss_pred HHHHHHHHHcCCCEEEecCCCC-C--CccceeeechH---HHHHHHHHHHHHHhCCCCCEEEEEccCCchHH-HHHHHHH
Confidence 4444456778999999875433 2 22334566666 778888888765 5889999997542 1222 3456777
Q ss_pred HHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcCCCeE---EEEEeCHHHHHHHHHHHHHcCCc
Q 044527 199 DSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSLDTKV---FVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 199 ~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v---iil~~~~~~~~~il~~a~~~gl~ 261 (860)
+.+++.+ +++....... ...+..+....++++.+..++. .|++.+...+..+++.+++.|+.
T Consensus 143 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ 208 (273)
T cd06305 143 AVLKAYPGIKEVAELGDV-SNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRT 208 (273)
T ss_pred HHHHHCCCcEEecccccc-cccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCC
Confidence 8887777 5544321111 1122233444555554444432 33444566777888899999964
No 129
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.92 E-value=0.00072 Score=70.68 Aligned_cols=207 Identities=14% Similarity=0.095 Sum_probs=123.4
Q ss_pred EEEEEEec-CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDM-RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||++.|. +.+.-.....+++.+.++. -+++.+.+...++..-.+....++.+ ++.++| .|.. ....
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~---------g~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~-~~~~ 69 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR---------GFDLKFADAQQKQENQISAIRSFIAQ-GVDVIILAPVV-ETGW 69 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc---------CCEEEEeCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCc-cccc
Confidence 48999984 3332233444444444442 23444566666777666777777776 788775 4444 3322
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccc--cceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC--CCCcCCHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLT--SYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT--WGNDNTIP 195 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls--~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~ 195 (860)
......+...++|+|......+ ... +++.++.+++. ..+..+++.+... +-++++++..+.. ... ...+
T Consensus 70 ~~~i~~~~~~~iPvV~~~~~~~-~~~~~~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~-~R~~ 144 (273)
T cd06309 70 DPVLKEAKAAGIPVILVDRGVD-VKDDSLYVTFIGSDFV---EEGRRAADWLAKATGGKGNIVELQGTVGSSVAI-DRKK 144 (273)
T ss_pred hHHHHHHHHCCCCEEEEecCcC-CccCcceeeEecCChH---HHHHHHHHHHHHHcCCCceEEEEeCCCCCchHH-HHHH
Confidence 3344556778999999875433 211 25677888887 8888888888765 8889999976533 222 3467
Q ss_pred HHHHHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhcC---CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 196 YLFDSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKSL---DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 196 ~l~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
.+++.+++. +.++.... . ......+....+.++.++ .+++| ++.+...+..+++.+.+.|+..++.+.+++
T Consensus 145 Gf~~~l~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig 219 (273)
T cd06309 145 GFAEVIKKYPNMKIVASQ--T-GDFTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVS 219 (273)
T ss_pred HHHHHHHHCCCCEEeecc--C-CcccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEe
Confidence 788888876 45544311 1 112223333444554433 35555 444556667788999999986555444443
No 130
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.91 E-value=0.0019 Score=67.49 Aligned_cols=209 Identities=11% Similarity=0.066 Sum_probs=118.7
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
|||++.|... +.-.....+++.+.++ .++++.+...++.+++....+...+++.. ++.++|-..+......
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~-------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE-------LGVKVTFQGPASETDVAGQVNLLENAIAR-GPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH-------cCCEEEEecCccCCCHHHHHHHHHHHHHh-CCCEEEEcCCChhhhH
Confidence 5899987533 2222333444444333 22566555444456777777777777776 7888775333022223
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCCCCC-cCCHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNTWGN-DNTIPYLFD 199 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~g~-~~~~~~l~~ 199 (860)
.....+...++|+|......+ .. ..+.-+.+++. ..+..+++++.+. |.++++++.....+.. ....+.+++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~-~~-~~~~~v~~d~~---~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN-SD-IAVSFVATDNV---AAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC-CC-cceEEEeeChH---HHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 343445568999999864322 11 12222444544 5667788777665 8999999975443322 034678888
Q ss_pred HHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeE-EEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 200 SLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKV-FVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 200 ~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~v-iil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
.+++. |+++..... . ..+..+-...+.++.++.+++ .|++.+...+..+++.+++.|+. .+...+.
T Consensus 148 a~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig 215 (273)
T cd06310 148 GLKEYPGIEIVATQY-S--DSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVG 215 (273)
T ss_pred HHHhCCCcEEEeccc-C--CcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEE
Confidence 99888 776543211 1 122233334555554433332 33455567788899999999974 3433333
No 131
>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=97.85 E-value=0.0015 Score=68.18 Aligned_cols=198 Identities=12% Similarity=0.081 Sum_probs=125.7
Q ss_pred EEEEEEecC-C-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCC-CHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIILDMR-S-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQG-DPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~-~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~-~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
|||++.|.. . +.-.....+++.|.++.| +.+.+ .++.+ ++....+...+++.. ++.++|....+...
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g-------~~v~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~ 70 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLG-------VDVEY--RGPETFDVADMARLIEAAIAA-KPDGIVVTIPDPDA 70 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhC-------CEEEE--ECCCCCCHHHHHHHHHHHHHh-CCCEEEEeCCChHH
Confidence 588888865 3 334566777777777732 45544 44444 777777777777776 88887763330332
Q ss_pred HHHHHHhhcCCCCcEEecccCCCccc--ccceEeecCCCchhHHHHHHHHHHHhh-CCCcEEEEEEecC--CCCCcCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSL--TSYSIQIDQDDEASQSQARGISDFISV-FKWKEVILIHEDN--TWGNDNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~l--s~~~~r~~p~~~~~~~~~~ai~~~l~~-~~w~~v~ii~~~~--~~g~~~~~~ 195 (860)
.......+...++|+|......+ .. ...+..+..++. ..+..+++.+.+ .|-++++++..+. ..+. ...+
T Consensus 71 ~~~~l~~~~~~~ipvV~~~~~~~-~~~~~~~~~~V~~d~~---~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~-~r~~ 145 (271)
T cd06312 71 LDPAIKRAVAAGIPVISFNAGDP-KYKELGALAYVGQDEY---AAGEAAGERLAELKGGKNVLCVIHEPGNVTLE-DRCA 145 (271)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCC-ccccccceEEeccChH---HHHHHHHHHHHHhcCCCeEEEEecCCCCccHH-HHHH
Confidence 33444556678999999875433 22 124566777777 889999999988 8999999997533 2344 5678
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
.+++.+++.++.+.... . ..+..+....++++.++ ++++| ++.+...+..+++.+++.|+.
T Consensus 146 g~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 146 GFADGLGGAGITEEVIE--T--GADPTEVASRIAAYLRANPDVDAV-LTLGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHHHHHhcCceeeEee--c--CCCHHHHHHHHHHHHHhCCCccEE-EEeCCccchHHHHHHHhcCCC
Confidence 88888888877543211 1 12233344445554333 34554 444455677788888999974
No 132
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.85 E-value=0.0014 Score=67.74 Aligned_cols=200 Identities=12% Similarity=0.145 Sum_probs=133.7
Q ss_pred EEEEEecCCcc-hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHHH
Q 044527 45 VGIILDMRSWT-GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGAQ 122 (860)
Q Consensus 45 IG~l~~~~~~~-g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~~ 122 (860)
||++.+..+.. -.....+++-|.++.+ ..+.+. .|..+++..-.+.+.+++++ ++.+|| .|.. +....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g-------~~~~~~-~~~~~d~~~q~~~i~~~i~~-~~d~Iiv~~~~-~~~~~ 70 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELG-------YEVEIV-FDAQNDPEEQIEQIEQAISQ-GVDGIIVSPVD-PDSLA 70 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHT-------CEEEEE-EESTTTHHHHHHHHHHHHHT-TESEEEEESSS-TTTTH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcC-------CEEEEe-CCCCCCHHHHHHHHHHHHHh-cCCEEEecCCC-HHHHH
Confidence 68888887643 5567788888888865 344444 78889999888999999987 798776 6666 65556
Q ss_pred HHHHhhcCCCCcEEecccC-CCcccccceEeecCCCchhHHHHHHHHHHHhhCC--CcEEEEEEecCCCCC-cCCHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTT-LPNSLTSYSIQIDQDDEASQSQARGISDFISVFK--WKEVILIHEDNTWGN-DNTIPYLF 198 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~-~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~--w~~v~ii~~~~~~g~-~~~~~~l~ 198 (860)
....-+...+||+|..... .+ .......+.++.. ..+..+++++.... -.+++++.....+.. ....+.++
T Consensus 71 ~~l~~~~~~gIpvv~~d~~~~~--~~~~~~~v~~d~~---~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~ 145 (257)
T PF13407_consen 71 PFLEKAKAAGIPVVTVDSDEAP--DSPRAAYVGTDNY---EAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFR 145 (257)
T ss_dssp HHHHHHHHTTSEEEEESSTHHT--TSTSSEEEEE-HH---HHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHH
T ss_pred HHHHHHhhcCceEEEEeccccc--cccceeeeeccHH---HHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHH
Confidence 6667788889999998755 12 1124455566666 78888888885532 268888865544322 13567788
Q ss_pred HHHhh-CCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 199 DSLHD-NDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 199 ~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
+.+++ .++++...... ...........+.++.+..+-..|++++...+..+.+...+.|+.
T Consensus 146 ~~l~~~~~~~~~~~~~~--~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~ 207 (257)
T PF13407_consen 146 DALKEYPGVEIVDEYEY--TDWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRA 207 (257)
T ss_dssp HHHHHCTTEEEEEEEEE--CTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCT
T ss_pred HHHhhcceeeeeeeeec--cCCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCc
Confidence 88888 45666553222 124455555555555444433344667778888899999999973
No 133
>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=97.84 E-value=0.0025 Score=66.56 Aligned_cols=199 Identities=12% Similarity=0.098 Sum_probs=120.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||++.|-.. +.-.....+++-|.++ .. .+.+.+.++..++..-.+...++++. +++++| .|.. +...
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~---~~-----~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~-~~~~ 70 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKV---LG-----GVELQFEDAKNDVATQLSQVENFIAQ-GVDAIIVVPVD-TAAT 70 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHH---cC-----CcEEEEeCCCCCHHHHHHHHHHHHHc-CCCEEEEecCc-hhhh
Confidence 5899988543 2233344444444444 02 34555667778888888888887776 788875 5655 4444
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC--CCCcCCHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~l 197 (860)
......+...++|+|......+ ...+.+..+..++. ..+..+++.+... +-++++++..... ... ...+.+
T Consensus 71 ~~~~~~l~~~~iPvv~~~~~~~-~~~~~~~~V~~d~~---~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~-~R~~gf 145 (272)
T cd06301 71 APIVKAANAAGIPLVYVNRRPE-NAPKGVAYVGSDEV---VAGRLQAEYVADKLGGKGNVAILMGPLGQSAQI-DRTKGV 145 (272)
T ss_pred HHHHHHHHHCCCeEEEecCCCC-CCCCeeEEEecChH---HHHHHHHHHHHHHhCCCccEEEEECCCCCccHH-HHHHHH
Confidence 4555567888999998865433 21123445666766 7778888877554 4469999976432 223 345788
Q ss_pred HHHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 198 FDSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 198 ~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
++.+++.| +++... .. ...........+.++.+. .+++| ++.+...+..+++.+++.|+.
T Consensus 146 ~~~l~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ 208 (272)
T cd06301 146 EEVLAKYPDIKVVEE--QT-ANWSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKS 208 (272)
T ss_pred HHHHHHCCCcEEEec--CC-CCccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCC
Confidence 88998887 443321 11 112222223444444322 35654 455666777899999999975
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=97.83 E-value=0.0013 Score=68.54 Aligned_cols=201 Identities=16% Similarity=0.129 Sum_probs=119.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||+++|... +.-.....+++-+.++. ++.+.+. .+..++..-.+...+++.. +++++|-..+ ... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~--~~~~~~~~~~~~i~~l~~~-~vdgiii~~~-~~~-~ 68 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-------KYNIILS--NSDNDKEKELKVLNNLLAK-QVDGIIFMGG-KIS-E 68 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-------CCeEEEE--eCCCCHHHHHHHHHHHHHh-cCCEEEEeCC-CCc-H
Confidence 3788887643 22233444554444432 2455544 3445666666666676664 8888774222 111 2
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC---CCCcCCHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT---WGNDNTIPYLFD 199 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~l~~ 199 (860)
.....+...++|+|......+ .. .+..+.+++. ..+..+++++...|-++++++..+.. ++. ...+.+++
T Consensus 69 ~~~~~l~~~~ipvV~~~~~~~-~~--~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~-~r~~gf~~ 141 (268)
T cd06298 69 EHREEFKRSPTPVVLAGSVDE-DN--ELPSVNIDYK---KAAFEATELLIKNGHKKIAFISGPLEDSINGD-ERLAGYKE 141 (268)
T ss_pred HHHHHHhcCCCCEEEEccccC-CC--CCCEEEECcH---HHHHHHHHHHHHcCCceEEEEeCCcccccchh-HHHHHHHH
Confidence 344445667999999875433 11 1223456666 77788888887788899999985543 455 66788999
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCC-CeEEEEEeCHHHHHHHHHHHHHcCCccCCe
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLD-TKVFVVHMTHALASHLFLNAKKLGMMSKGY 265 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~viil~~~~~~~~~il~~a~~~gl~~~~~ 265 (860)
.+++.|+++....... ...+.......++++.++. +++|+. ++...+..+++.+++.|+..++.
T Consensus 142 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~d 206 (268)
T cd06298 142 ALSEANIEFDESLIFE-GDYTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPED 206 (268)
T ss_pred HHHHcCCCCCHHHeEe-CCCChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccc
Confidence 9999886643211111 1122223334455555444 677765 55556788999999999764443
No 135
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.75 E-value=0.0018 Score=67.31 Aligned_cols=201 Identities=10% Similarity=0.102 Sum_probs=119.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
.||++.|... +.-.....+++.+.++. ++++ .+.++..++..-.+...+++++ ++.++|...+ .....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~-------g~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~-~~~~~ 69 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA-------GYTV--FLANSGEDVERQEQLLSTMLEH-GVAGIILCPA-AGTSP 69 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc-------CCeE--EEecCCCChHHHHHHHHHHHHc-CCCEEEEeCC-CCccH
Confidence 3788887543 33445666777666653 2444 3445556666666666666665 8998877554 33222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
.....+...++|+|......+ . ..+..+.++.. ..+..+++.+...|-++|+++..+.. ... ...+.|.+.
T Consensus 70 ~~~~~~~~~~ipvV~~~~~~~-~--~~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~-~r~~gf~~~ 142 (268)
T cd06289 70 DLLKRLAESGIPVVLVAREVA-G--APFDYVGPDNA---AGARLATEHLISLGHRRIAFIGGLEDSSTRR-ERLAGYRAA 142 (268)
T ss_pred HHHHHHHhcCCCEEEEeccCC-C--CCCCEEeecch---HHHHHHHHHHHHCCCCCEEEecCCccccchH-HHHHHHHHH
Confidence 344556778999998864333 2 11223455666 67777888887778899999975433 334 557888999
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
+++.|..+.....+. .+.........++++.+. .+++|+ +.+...+..+++.+++.|+..++
T Consensus 143 l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~ 206 (268)
T cd06289 143 LAEAGLPFDSELVVE-GPPSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGR 206 (268)
T ss_pred HHHcCCCCCchhEEe-cCcchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCc
Confidence 988875432211111 112222233344444333 456655 44555677789999999975443
No 136
>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=97.68 E-value=0.0032 Score=65.39 Aligned_cols=197 Identities=12% Similarity=0.068 Sum_probs=114.7
Q ss_pred EEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 45 VGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 45 IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
||++.|..+. .-.....+++-|.++ .+ +.+ .+.|+..++....+....++++ +|+++|.........
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~----~g---~~~--~~~~~~~~~~~~~~~~~~~~~~-~vdgiii~~~~~~~~-- 69 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE----AG---YGV--LLGDTRSDPEREQEYLDLLRRK-QADGIILLDGSLPPT-- 69 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH----cC---CeE--EEecCCCChHHHHHHHHHHHHc-CCCEEEEecCCCCHH--
Confidence 7888886542 223344455555544 22 444 4567767776665555555555 899887633302222
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDSL 201 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~~ 201 (860)
..... ..++|+|......+ . ..+..+..++. ..++.+++.+...|.++++++..+.. .+. ...+.|.+.+
T Consensus 70 ~~~~~-~~~ipvv~~~~~~~-~--~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~-~r~~gf~~~~ 141 (267)
T cd06284 70 ALTAL-AKLPPIVQACEYIP-G--LAVPSVSIDNV---AAARLAVDHLISLGHRRIALITGPRDNPLAR-DRLEGYRQAL 141 (267)
T ss_pred HHHHH-hcCCCEEEEecccC-C--CCcceEEeccc---HHHHHHHHHHHHcCCceEEEEcCCccchhHH-HHHHHHHHHH
Confidence 22233 34999998753222 1 12334556666 77888888888889999999976432 344 5678888999
Q ss_pred hhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccC
Q 044527 202 HDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSK 263 (860)
Q Consensus 202 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~ 263 (860)
++.|+++....... .+.+..+....+.++.+. .+++|+.. +...+..++++.++.|+..+
T Consensus 142 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p 203 (267)
T cd06284 142 AEAGLPADEELIQE-GDFSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVP 203 (267)
T ss_pred HHcCCCCCcceEEe-CCCChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCc
Confidence 88886532211111 112223333444444322 45666554 55567788999999997533
No 137
>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=97.64 E-value=0.0042 Score=66.92 Aligned_cols=202 Identities=15% Similarity=0.132 Sum_probs=119.2
Q ss_pred ceEEEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe--cCCC
Q 044527 41 DEVHVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC--IGMT 117 (860)
Q Consensus 41 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG--p~~~ 117 (860)
.+-.||+++|.. .+.-.....+++-+.++ . ++.+.+ .++..++..-.+....+.++ +++++|= +..
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~---~----g~~~~i--~~~~~~~~~~~~~~~~l~~~-~vdGiIi~~~~~- 126 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM---Y----KYNIIL--SNSDEDPEKEVQVLNTLLSK-QVDGIIFMGGTI- 126 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH---c----CCEEEE--EeCCCCHHHHHHHHHHHHhC-CCCEEEEeCCCC-
Confidence 456899999853 33333444455544443 1 245544 34444555545555556654 7887763 222
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC---CCCcCCH
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT---WGNDNTI 194 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~---~g~~~~~ 194 (860)
+ ......+...++|+|......+ . ..+..+.+++. .-+..+++.+...|.++++++..... .+. ...
T Consensus 127 ~---~~~~~~l~~~~iPvV~~~~~~~-~--~~~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~-~R~ 196 (329)
T TIGR01481 127 T---EKLREEFSRSPVPVVLAGTVDK-E--NELPSVNIDYK---QATKEAVGELIAKGHKSIAFVGGPLSDSINGE-DRL 196 (329)
T ss_pred C---hHHHHHHHhcCCCEEEEecCCC-C--CCCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEecCcccccchH-HHH
Confidence 1 2233445667999998764332 1 11233455665 66677888887789999999975432 234 567
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCe
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGY 265 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~ 265 (860)
+.|++.+++.|+++....... ......+-...+.++.+..+++|+. .+...|..+++.+++.|+..++-
T Consensus 197 ~Gf~~~l~~~g~~~~~~~~~~-~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~d 265 (329)
T TIGR01481 197 EGYKEALNKAGIQFGEDLVCE-GKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPED 265 (329)
T ss_pred HHHHHHHHHcCCCCCcceEEe-cCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCc
Confidence 888999999987654221111 1122233344555655566787665 55568888999999999754443
No 138
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=97.63 E-value=0.0037 Score=64.99 Aligned_cols=204 Identities=14% Similarity=0.112 Sum_probs=117.2
Q ss_pred EEEEEecC-----CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 45 VGIILDMR-----SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 45 IG~l~~~~-----~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
||+++|.. .+.......+++.++++ . ++.+.+...++. ....+.+.+++.+++++++|...+ ..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~---~----g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~-~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE---H----GYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRT-RP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH---C----CceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecC-CC
Confidence 78888853 23334445555444443 2 256655544432 233455666666557988876443 22
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l 197 (860)
.... ...+...++|+|......+ . .. +-.+.+++. ..+..+++.+...|-++++++..... .+. ...+.+
T Consensus 71 ~~~~-~~~~~~~~ipvV~~~~~~~-~-~~-~~~V~~d~~---~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf 142 (268)
T cd06271 71 DDPR-VALLLERGFPFVTHGRTEL-G-DP-HPWVDFDNE---AAAYQAVRRLIALGHRRIALLNPPEDLTFAQ-HRRAGY 142 (268)
T ss_pred CChH-HHHHHhcCCCEEEECCcCC-C-CC-CCeEeeCcH---HHHHHHHHHHHHcCCCcEEEecCccccchHH-HHHHHH
Confidence 2222 2345668999998864433 2 11 112345555 66777888887789999999975543 233 456888
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
++.+++.|..+.....+. ...+.......++++.+. .+++|+.. +...+..+++.+.+.|+..++..-++
T Consensus 143 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 143 RRALAEAGLPLDPALIVS-GDMTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHHHhCCCCCCceEEe-CCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 899998887642211111 112223333445554332 36666554 55677788999999997555444333
No 139
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.61 E-value=0.014 Score=62.67 Aligned_cols=209 Identities=12% Similarity=0.139 Sum_probs=130.4
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEE-EecCCChhHH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAI-ICIGMTPTGA 121 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~av-iGp~~~s~~~ 121 (860)
.+||++.+..+. .+..++.-++++.-..-+ ....+...|.+.++..-++...+++.+ ++.+| +.|.+ +...
T Consensus 34 ~~i~~~~~~~~~---~f~~~~~~g~~~~a~~~g---~~~~~~~~~~~~d~~~Q~~~i~~~ia~-~~daIiv~~~d-~~~~ 105 (322)
T COG1879 34 KTIGVVVPTLGN---PFFQAVRKGAEAAAKKLG---VVVAVVIADAQNDVAKQIAQIEDLIAQ-GVDAIIINPVD-PDAL 105 (322)
T ss_pred ceEEEEeccCCC---hHHHHHHHHHHHHHHHcC---CcEEEEecccccChHHHHHHHHHHHHc-CCCEEEEcCCC-hhhh
Confidence 789999987764 344445555555444422 256677778889999889999999876 88775 57888 8888
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh-CCC-cEEEEEEecCC--CCCcCCHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV-FKW-KEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~-~~w-~~v~ii~~~~~--~g~~~~~~~l 197 (860)
.+...-+...+||+|.+....+ .-......+..+.. ..++..++.+.+ ++- -++.++..... ... ...+.+
T Consensus 106 ~~~v~~a~~aGIpVv~~d~~~~-~~~~~~~~vg~dn~---~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~-~R~~G~ 180 (322)
T COG1879 106 TPAVKKAKAAGIPVVTVDSDIP-GPGDRVAYVGSDNY---KAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAE-ERVKGF 180 (322)
T ss_pred HHHHHHHHHCCCcEEEEecCCC-CCCceeEEEecCcH---HHHHHHHHHHHHHhCCCCeEEEEecCCCCchHH-HHHhhH
Confidence 8888999999999999986655 32222222333444 455555555533 221 34555554432 223 467888
Q ss_pred HHHHhhCCc--eEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 198 FDSLHDNDI--DIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 198 ~~~~~~~g~--~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
++.+.+.+. .++... . .+.+...-.+....+..+.+++-.+++. ...+....+.+++.|... .+.+.
T Consensus 181 ~~~l~~~~~~~~v~~~~--~-~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 181 RDALKEHPPDIEVVDVQ--T-GDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred HHHHHhCCCcEEEeecc--C-CcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEE
Confidence 999998875 433322 2 2233444455666666666676655554 444445566777788643 34444
No 140
>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=97.60 E-value=0.01 Score=61.98 Aligned_cols=202 Identities=12% Similarity=0.072 Sum_probs=116.7
Q ss_pred EEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHHH
Q 044527 45 VGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGAQ 122 (860)
Q Consensus 45 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~~ 122 (860)
||++.|.. .+.-.....+++-+.++..... ..+.+.+.+...++....+....++.+ ++.+|| .|.. +....
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~----~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vDgiii~~~~-~~~~~ 75 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY----PDVEFILVTASNDTEQQNAQQDLLINR-KIDALVILPFE-SAPLT 75 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC----CCeEEEEEcCCCCHHHHHHHHHHHHHc-CCCEEEEeCCC-chhhH
Confidence 78887643 3333456667777766654332 235556667666665555555556665 787665 4444 33322
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC-CCCcCCHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT-WGNDNTIPYLFD 199 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~l~~ 199 (860)
.....+...+||+|......+ .-......+.+++. ..+...++++... +.++++++..... ... ...+.+++
T Consensus 76 ~~i~~~~~~gIpvV~~d~~~~-~~~~~~~~V~~d~~---~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~-~R~~gf~~ 150 (274)
T cd06311 76 QPVAKAKKAGIFVVVVDRGLS-SPGAQDLYVAGDNY---GMGRVAGEYIATKLGGNGNIVVLRGIPTPIDN-ERVDAFDA 150 (274)
T ss_pred HHHHHHHHCCCeEEEEcCCCC-CCcccceEEcCCcH---HHHHHHHHHHHHHhCCCCeEEEEECCCCcchh-HHHHHHHH
Confidence 333445678999999865332 11111223456655 6677778877664 7889999975443 222 34678889
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
.+++.++++.... . .+.+.......+.++.+. ++++|+. .+...+..+++.+++.|+.
T Consensus 151 ~l~~~~~~~~~~~--~-~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 151 AIAKYPIKILDRQ--Y-ANWNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred HHhhCCcEEEecc--C-CCCcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC
Confidence 9988887665421 1 112222333444444322 3566544 3445577788888998863
No 141
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.57 E-value=0.003 Score=65.70 Aligned_cols=205 Identities=12% Similarity=0.060 Sum_probs=119.9
Q ss_pred EEEEEEecC--CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMR--SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
.||+++|.. ++.-.....+++.+.++. ++.+ .+.++..++..-.+....+... +++++|-........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-------g~~~--~~~~~~~~~~~~~~~~~~l~~~-~~dgiii~~~~~~~~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-------GYLL--LVVNTGGDDELEAEAVEALLDH-RVDGIIYATMYHREV 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-------CCEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCChh
Confidence 489999874 333445566666666552 2444 3344445555444555566655 788877643302221
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFD 199 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~ 199 (860)
.......++|+|......+ . ..+..+.+++. ..+..+++.+...|-++++++..+.. ... ...+.+.+
T Consensus 71 ---~~~~~~~~ipvv~~~~~~~-~--~~~~~v~~d~~---~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~-~R~~gf~~ 140 (269)
T cd06288 71 ---TLPPELLSVPTVLLNCYDA-D--GALPSVVPDEE---QGGYDATRHLLAAGHRRIAFINGEPWMLAAK-DRLKGYRQ 140 (269)
T ss_pred ---HHHHHhcCCCEEEEecccC-C--CCCCeEEEccH---HHHHHHHHHHHHcCCceEEEEeCCccchhHH-HHHHHHHH
Confidence 1223456899998864433 2 12344566777 77888888887779999999976543 223 45778888
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
.+++.|+++....... ...+..+....+.++.+. ++++| ++++...+..+++.+++.|+..++-+.+++
T Consensus 141 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 141 ALAEAGIPFDPDLVVH-GDWSADDGYEAAAALLDLDDRPTAI-FCGNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHHHcCCCCCHHHeEe-CCCChHHHHHHHHHHHhCCCCCCEE-EEeCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 9988886542111111 112222333344454333 46777 445666777889999999975444444443
No 142
>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=97.56 E-value=0.0051 Score=63.58 Aligned_cols=200 Identities=14% Similarity=0.143 Sum_probs=121.9
Q ss_pred EEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 45 VGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 45 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
||++.|-- .+.-.....+++.++++. ++++.+ .++..++..-.....+++.. +++++|.... ... ..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~--~~~~~~~~~~~~~i~~l~~~-~~dgii~~~~-~~~-~~ 69 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN-------GYQMLL--MNTNFSIEKEIEALELLARQ-KVDGIILLAT-TIT-DE 69 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC-------CCEEEE--EeCCCCHHHHHHHHHHHHhc-CCCEEEEeCC-CCC-HH
Confidence 78888743 333345666777666552 245543 45556777666777777765 8988876433 222 23
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEec-CC--CCCcCCHHHHHHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHED-NT--WGNDNTIPYLFDS 200 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~-~~--~g~~~~~~~l~~~ 200 (860)
....+...++|+|..+...+ . +..+.++.. ..+..+++.+.+.+-++++++... .. .+. ...+.+++.
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~----~-~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~-~r~~gf~~~ 140 (259)
T cd01542 70 HREAIKKLNVPVVVVGQDYP----G-ISSVVYDDY---GAGYELGEYLAQQGHKNIAYLGVSESDIAVGI-LRKQGYLDA 140 (259)
T ss_pred HHHHHhcCCCCEEEEeccCC----C-CCEEEECcH---HHHHHHHHHHHHcCCCcEEEEcCCcccchhHH-HHHHHHHHH
Confidence 44455667899999874332 1 223455666 778888888888888999999643 22 223 456788899
Q ss_pred HhhCCc-eEeEEEeccCCCCChHHHHHHHHhhhcCC-CeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 201 LHDNDI-DIARRTSISLASSTHDQIIEKLSMLKSLD-TKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 201 ~~~~g~-~i~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
+++.|. .+... .-. .........+.++.++. +++|+.. +...+..+++.+++.|+..++.+.+++
T Consensus 141 ~~~~~~~~~~~~-~~~---~~~~~~~~~~~~~l~~~~~~~i~~~-~d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 141 LKEHGICPPNIV-ETD---FSYESAYEAAQELLEPQPPDAIVCA-TDTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HHHcCCChHHee-ecc---CchhhHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 988887 22111 111 12222334444544333 5666544 456778899999999976555555554
No 143
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=97.54 E-value=0.0055 Score=63.75 Aligned_cols=204 Identities=11% Similarity=0.075 Sum_probs=117.5
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHHH
Q 044527 45 VGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGAQ 122 (860)
Q Consensus 45 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~~ 122 (860)
||++.|... +.-.....+++-|.++. ++++. +.++..++..-.+....+..+ ++++||= |.. .. ..
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~-~~-~~ 69 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQ-------GYNLI--LCNTEGDPERQRSYLRMLAQK-RVDGLLVMCSE-YD-QP 69 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHc-------CCEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEecCC-CC-hH
Confidence 788887543 33445556666665552 24554 345556676666666667665 7776653 322 22 22
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
....+....++|+|......+ . ..+..+..++. ..++.+++.+...|-++++++..... ... ...+.+.+.
T Consensus 70 ~~~~l~~~~~ipvV~i~~~~~-~--~~~~~V~~d~~---~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~-~r~~gf~~~ 142 (269)
T cd06275 70 LLAMLERYRHIPMVVMDWGPE-D--DFADKIQDNSE---EGGYLATRHLIELGHRRIGCITGPLEKAPAQ-QRLAGFRRA 142 (269)
T ss_pred HHHHHHhcCCCCEEEEecccC-C--CCCCeEeeCcH---HHHHHHHHHHHHCCCceEEEEeCCCCCccHH-HHHHHHHHH
Confidence 222333456999998864322 1 11222445555 66788888888889999999975432 223 456788889
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.|+++....... ...........++++.+. .+++| ++++...+..+++.+++.|...++.+.++
T Consensus 143 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 143 MAEAGLPVNPGWIVE-GDFECEGGYEAMQRLLAQPKRPTAV-FCGNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred HHHcCCCCCHHHhcc-CCCChHHHHHHHHHHHcCCCCCcEE-EECChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 988887653211111 112222333445555433 35554 45566777788999999997544444443
No 144
>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=97.54 E-value=0.0053 Score=64.18 Aligned_cols=204 Identities=11% Similarity=0.052 Sum_probs=114.1
Q ss_pred eEEEEEEEecCC--------cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe
Q 044527 42 EVHVGIILDMRS--------WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC 113 (860)
Q Consensus 42 ~i~IG~l~~~~~--------~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG 113 (860)
+=.||++.|... +.-.....+++-++++. + +++.+...+. +.. +.+.+.+.+.++++||-
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g---~~~~v~~~~~--~~~---~~~~~~l~~~~~dgiii 70 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER----G---YDLLLSFVSS--PDR---DWLARYLASGRADGVIL 70 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHc----C---CEEEEEeCCc--hhH---HHHHHHHHhCCCCEEEE
Confidence 346899998522 22233344444333332 2 5665544332 222 33444444447887753
Q ss_pred -cCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCC
Q 044527 114 -IGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGN 190 (860)
Q Consensus 114 -p~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~ 190 (860)
+.. .. . .....+...++|+|......+ . ..+..+.+++. ..+..+++++...|.++++++..+.. .+.
T Consensus 71 ~~~~-~~-~-~~~~~~~~~~ipvV~~~~~~~-~--~~~~~V~~d~~---~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~ 141 (275)
T cd06295 71 IGQH-DQ-D-PLPERLAETGLPFVVWGRPLP-G--QPYCYVGSDNV---GGGRLATEHLLARGRRRIAFLGGPQDMPEGE 141 (275)
T ss_pred eCCC-CC-h-HHHHHHHhCCCCEEEECCccC-C--CCCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEcCCCCcchhH
Confidence 322 12 1 223455678999998875444 2 23344566666 77888888888889999999976443 233
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
...+.+.+.+++.|.++....... .+.........+.++.++ .+++|+.. +...+..+++.+++.|+..++...+
T Consensus 142 -~r~~gf~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~i 218 (275)
T cd06295 142 -ERLEGYREALAEAGLPLDPRLVAP-GDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAV 218 (275)
T ss_pred -HHHHHHHHHHHHcCCCCChhhEEe-ccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEE
Confidence 456788899988875433211111 112223333445444333 45666555 4456677888889999754444433
Q ss_pred e
Q 044527 269 A 269 (860)
Q Consensus 269 ~ 269 (860)
+
T Consensus 219 i 219 (275)
T cd06295 219 V 219 (275)
T ss_pred E
Confidence 3
No 145
>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=97.50 E-value=0.0074 Score=62.70 Aligned_cols=202 Identities=13% Similarity=0.135 Sum_probs=115.7
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
.||++.|.... .-.....+++-+.++. + +.+.+ .++..++..-.+...+++.+ ++++||--.. ... .
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~----g---~~~~~--~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~-~~~-~ 68 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA----G---YQLLL--GNTGYSPEREEELLRTLLSR-RPAGLILTGL-EHT-E 68 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc----C---CEEEE--ecCCCCchhHHHHHHHHHHc-CCCEEEEeCC-CCC-H
Confidence 37888885432 2233444555555442 2 44433 44445555555556666665 7888764322 212 2
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
.....+...++|+|......+ . .....+..+.. ..+..+++.+...|-++++++..+.. ... ...+.+++.
T Consensus 69 ~~~~~~~~~~ipvv~~~~~~~-~--~~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~gf~~~ 141 (268)
T cd01575 69 RTRQLLRAAGIPVVEIMDLPP-D--PIDMAVGFSHA---EAGRAMARHLLARGYRRIGFLGARMDDTRAQ-QRLEGFRAA 141 (268)
T ss_pred HHHHHHHhcCCCEEEEecCCC-C--CCCCeEEeCcH---HHHHHHHHHHHHCCCCcEEEecCCCCcccHH-HHHHHHHHH
Confidence 233345567999998753322 1 12223455556 77888888888889999999987653 333 446778889
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeE
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYV 266 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~ 266 (860)
+++.|.......... ...........+.++.++ .+++|+ +++...+..+++.+.+.|...++..
T Consensus 142 l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~di 207 (268)
T cd01575 142 LRAAGLDPPLVVTTP-EPSSFALGRELLAELLARWPDLDAVF-CSNDDLALGALFECQRRGISVPEDI 207 (268)
T ss_pred HHHcCCCCCceeEec-cCCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCcce
Confidence 988886432221111 112223334455554333 467665 4555667788999999986544433
No 146
>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=97.49 E-value=0.0048 Score=64.27 Aligned_cols=201 Identities=10% Similarity=0.055 Sum_probs=117.6
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
.||++.|.. .+.-.....+++.++++. ++.+ .+.++..++....+....+++. +|.++|--.+ .....
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-------g~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgii~~~~-~~~~~ 69 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-------GYSL--LIANSLNDPERELEILRSFEQR-RMDGIIIAPG-DERDP 69 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-------CCEE--EEEeCCCChHHHHHHHHHHHHc-CCCEEEEecC-CCCcH
Confidence 388999853 333445666666666652 2443 4456666776666666666665 7888775333 22223
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~l~~~ 200 (860)
.....+...++|+|......+ .. +-.+..++. .-+..+++.+...|-++++++...... +. ...+.+.+.
T Consensus 70 ~~~~~~~~~~ipvV~i~~~~~---~~-~~~V~~d~~---~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~-~R~~Gf~~~ 141 (269)
T cd06281 70 ELVDALASLDLPIVLLDRDMG---GG-ADAVLFDHA---AGMRQAVEYLISLGHRRIALVGGGSNTRPGR-ERLEGYKAA 141 (269)
T ss_pred HHHHHHHhCCCCEEEEecccC---CC-CCEEEECcH---HHHHHHHHHHHHCCCcEEEEecCccccccHH-HHHHHHHHH
Confidence 444556677999998874332 11 122444554 555667777767799999999764332 22 345778899
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeE
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYV 266 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~ 266 (860)
+++.|+++.....+. .+. ...-...+.++.+ ..+++|+ +.+...+..+++.+.+.|+..++.+
T Consensus 142 ~~~~~~~~~~~~~~~-~~~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv 206 (269)
T cd06281 142 FAAAGLPPDPALVRL-STP-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDL 206 (269)
T ss_pred HHHcCCCCCHHHeec-CcH-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 998887642111111 111 2222334444432 3467775 4456667788999999997544433
No 147
>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=97.49 E-value=0.01 Score=61.49 Aligned_cols=206 Identities=13% Similarity=0.091 Sum_probs=117.5
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
.||+++|.... .....+...+++.-+..+ +.+ .+.++..++....+....++.. ++++++-... ......
T Consensus 1 ~igvi~~~~~~---~~~~~~~~~~~~~~~~~g---~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~-~~~~~~ 70 (264)
T cd06274 1 TIGLIIPDLEN---RSFARIAKRLEALARERG---YQL--LIACSDDDPETERETVETLIAR-QVDALIVAGS-LPPDDP 70 (264)
T ss_pred CEEEEeccccC---chHHHHHHHHHHHHHHCC---CEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEcCC-CCchHH
Confidence 38899986432 233334444444333322 444 3445555676666666667666 8887764333 222222
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDSL 201 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~~ 201 (860)
+. .+...++|+|......+ .. .+-.+..++. ..+..+++.+.+.|-++++++..... ... ...+.+++.+
T Consensus 71 ~~-~~~~~~ipvV~~~~~~~-~~--~~~~V~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~~ 142 (264)
T cd06274 71 YY-LCQKAGLPVVALDRPGD-PS--RFPSVVSDNR---DGAAELTRELLAAPPEEVLFLGGLPELSPSR-ERLAGFRQAL 142 (264)
T ss_pred HH-HHHhcCCCEEEecCccC-CC--CCCEEEEccH---HHHHHHHHHHHHCCCCcEEEEeCCCcccchH-HHHHHHHHHH
Confidence 33 35567899998864432 11 1222445555 66677888887788899999976543 233 4567888999
Q ss_pred hhCCceEeEEEeccCCCCChHHHHHHHHhhhcC---CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 202 HDNDIDIARRTSISLASSTHDQIIEKLSMLKSL---DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 202 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
++.|..+....... ...+...-...+.++.++ .+++|+ +++...|..+++..++.|+..++.+-++
T Consensus 143 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 143 ADAGLPVQPDWIYA-EGYSPESGYQLMAELLARLGRLPRALF-TTSYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred HHcCCCCCcceeec-CCCChHHHHHHHHHHHccCCCCCcEEE-EcChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 88886432211111 112222333444554332 367665 4466778889999999997545544443
No 148
>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=97.46 E-value=0.012 Score=61.29 Aligned_cols=205 Identities=12% Similarity=0.078 Sum_probs=116.7
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++.|..+ +.-.....+++-+.++ . ++++.+. ++..++..-.+....+... ++.++|--.+ .....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~---~----gy~v~~~--~~~~~~~~~~~~i~~~~~~-~~dgiii~~~-~~~~~ 69 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADA---R----GLSLVLC--ATRNRPERELTYLRWLDTN-HVDGLIFVTN-RPDDG 69 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHH---C----CCEEEEE--eCCCCHHHHHHHHHHHHHC-CCCEEEEeCC-CCCHH
Confidence 4888887533 3233444444444443 2 2555443 3334555444445555554 7888875333 21222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~l~~~ 200 (860)
.+..+. ..++|+|......+ .. ....+.+++. ..+..+++.+...|-++++++..+... .. ...+.+++.
T Consensus 70 ~~~~~~-~~~~pvV~i~~~~~-~~--~~~~V~~d~~---~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~-~R~~Gf~~a 141 (269)
T cd06293 70 ALAKLI-NSYGNIVLVDEDVP-GA--KVPKVFCDNE---QGGRLATRHLARAGHRRIAFVGGPDALISAR-ERYAGYREA 141 (269)
T ss_pred HHHHHH-hcCCCEEEECCCCC-CC--CCCEEEECCH---HHHHHHHHHHHHCCCceEEEEecCcccccHH-HHHHHHHHH
Confidence 233333 34799998875433 22 1233566777 788888888888899999999754432 22 346888999
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.|..+....... .+.+..+....+.++.+ ..+++|+. ++...+..+++.+.+.|...++.+-++
T Consensus 142 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 142 LAEAHIPEVPEYVCF-GDYTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HHHcCCCCChheEEe-cCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 998886543211111 11222333344555433 34676544 466677788999999997545444443
No 149
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.45 E-value=0.022 Score=59.13 Aligned_cols=194 Identities=13% Similarity=0.094 Sum_probs=114.2
Q ss_pred EEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHHH
Q 044527 45 VGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGAQ 122 (860)
Q Consensus 45 IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~~ 122 (860)
||++.|.... .-.....+++.+.++ . ++. +.+.++..++....+...+++++ +++++|- |.. +....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~----~---g~~--~~i~~~~~~~~~~~~~~~~~~~~-~vdgiii~~~~-~~~~~ 70 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK----Q---KVN--LIVSIANQDLNKQLSDVEDFITK-KVDAIVLSPVD-SKGIR 70 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh----c---CCE--EEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCCC-hhhhH
Confidence 7888876442 123334444444443 1 234 44566667777777777777776 8888765 444 33223
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC-CCCcCCHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT-WGNDNTIPYLFD 199 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~l~~ 199 (860)
.....+...++|+|......+ . ...+..+.+++. ..+...++++... |-+++++++..+. ... ...+.+++
T Consensus 71 ~~~~~~~~~~ipvV~~~~~~~-~-~~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~-~R~~gf~~ 144 (267)
T cd06322 71 AAIAKAKKAGIPVITVDIAAE-G-VAVVSHVATDNY---AGGVLAGELAAKVLNGKGQVAIIDYPTVQSVV-DRVRGFKE 144 (267)
T ss_pred HHHHHHHHCCCCEEEEcccCC-C-CceEEEEecChH---HHHHHHHHHHHHHhCCCceEEEEecCCCccHH-HHHHHHHH
Confidence 333446678999999864322 1 112334566665 6677777777654 7789999975432 223 45678888
Q ss_pred HHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 200 SLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 200 ~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
.+++. |+++.... . ..........+.++.+. ++++| ++.+...+..+++.+.+.|+
T Consensus 145 ~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 145 ALADYPNIKIVAVQ--P--GITRAEALTAAQNILQANPDLDGI-FAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHHhCCCcEEEEec--C--CCChHHHHHHHHHHHHhCCCCCEE-EEcCCcHHHHHHHHHHHCCC
Confidence 99888 88764321 1 11222233334444322 35654 44555577778899999996
No 150
>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=97.43 E-value=0.014 Score=60.79 Aligned_cols=200 Identities=12% Similarity=0.050 Sum_probs=117.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
.||+++|... +.-.....+++-+.++-| +++.+. ++..++..-.+....++++ ++++||--.+ .....
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~g-------~~~~~~--~~~~~~~~~~~~i~~~~~~-~vdgii~~~~-~~~~~ 69 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKAG-------KHLIIT--AGHHSAEKEREAIEFLLER-RCDALILHSK-ALSDD 69 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHCC-------CEEEEE--eCCCchHHHHHHHHHHHHc-CCCEEEEecC-CCCHH
Confidence 3888998643 334455666666665522 455543 3444555555566666665 7888775333 21211
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~l~~~ 200 (860)
. ...+...++|+|......+ ..... .+..++. ..++.+++.+...|-++++++..+... .. ...+.+++.
T Consensus 70 ~-~~~~~~~~ipvV~~~~~~~-~~~~~--~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~ 141 (268)
T cd06270 70 E-LIELAAQVPPLVLINRHIP-GLADR--CIWLDNE---QGGYLATEHLIELGHRKIACITGPLTKEDAR-LRLQGYRDA 141 (268)
T ss_pred H-HHHHhhCCCCEEEEeccCC-CCCCC--eEEECcH---HHHHHHHHHHHHCCCceEEEEeCCcccccHH-HHHHHHHHH
Confidence 1 3345667999998864333 22111 2456666 778888888888899999999764332 22 345778888
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
+++.|+++....... ......+....++++.++ .+++|+ +++...+..+++.+++.|+..++
T Consensus 142 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 142 LAEAGIALDESLIIE-GDFTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HHHcCCCCCcceEEE-CCCCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 888887542211111 112333444555555443 356554 44556777889999999975444
No 151
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=97.41 E-value=0.034 Score=60.16 Aligned_cols=208 Identities=10% Similarity=0.013 Sum_probs=116.6
Q ss_pred CceEEEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCC
Q 044527 40 SDEVHVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMT 117 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~ 117 (860)
..+-+||++.|.... .-.....+++-++++. ++++.+...+...+...-.+....++.+ ++.+|| .|..
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-------G~~l~i~~~~~~~~~~~q~~~i~~l~~~-~vdgIIl~~~~- 114 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL-------GVDLKVLEAGGYYNLAKQQQQLEQCVAW-GADAILLGAVT- 114 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh-------CCEEEEEcCCCCCCHHHHHHHHHHHHHh-CCCEEEEeCCC-
Confidence 357899999987543 2234455666655542 2444443222223444444556666665 788765 4544
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC-----CCcEEEEEEecCC--CCC
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF-----KWKEVILIHEDNT--WGN 190 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~-----~w~~v~ii~~~~~--~g~ 190 (860)
........ .+...++|+|....... .- .....+..++. ..++..++.+... |-.+++++..+.. ...
T Consensus 115 ~~~~~~~l-~~~~~giPvV~~~~~~~-~~-~~~~~V~~D~~---~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~ 188 (343)
T PRK10936 115 PDGLNPDL-ELQAANIPVIALVNGID-SP-QVTTRVGVSWY---QMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSK 188 (343)
T ss_pred hHHhHHHH-HHHHCCCCEEEecCCCC-Cc-cceEEEecChH---HHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHH
Confidence 33322222 45678999997742221 11 12233555665 6667777766543 4689999975432 222
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
...+.+++.+++.|++++.... . +.+...-...++++.+ .++++|+ ++...+..+++.+++.|+ ++.+.|
T Consensus 189 -~R~~Gf~~~l~~~~i~~~~~~~-~--~~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~--~~di~V 260 (343)
T PRK10936 189 -AVEQGFRAAIAGSDVRIVDIAY-G--DNDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL--TDKIKL 260 (343)
T ss_pred -HHHHHHHHHHhcCCCEEEEeec-C--CCcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC--CCCeEE
Confidence 3467788888888888764221 1 1222233334444432 2467775 445677778898999986 334444
Q ss_pred ec
Q 044527 269 AT 270 (860)
Q Consensus 269 ~~ 270 (860)
++
T Consensus 261 vg 262 (343)
T PRK10936 261 VS 262 (343)
T ss_pred EE
Confidence 43
No 152
>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=97.40 E-value=0.015 Score=60.23 Aligned_cols=205 Identities=12% Similarity=0.121 Sum_probs=119.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
.||++.|... ..-.....+++-|.++.| +.+ .+.+...++..-.+...+++.. ++++||=... .....
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~g-------~~~--~~~~~~~~~~~~~~~~~~l~~~-~~dgiii~~~-~~~~~ 69 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAHG-------YQV--LVCNSDNDPEKEKEYLESLLAY-QVDGLIVNPT-GNNKE 69 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHcC-------CEE--EEEcCCCCHHHHHHHHHHHHHc-CcCEEEEeCC-CCChH
Confidence 3788887643 333445566666666422 344 3445555666556666667765 7887763222 11222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-CC-CcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-WG-NDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-~g-~~~~~~~l~~~ 200 (860)
.+ ..+...++|+|......+ . ..+..+..++. ..++.+++.+...|-++++++..... .. .....+.+++.
T Consensus 70 ~l-~~~~~~~ipvV~~~~~~~-~--~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~ 142 (267)
T cd06283 70 LY-QRLAKNGKPVVLVDRKIP-E--LGVDTVTLDNY---EAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEA 142 (267)
T ss_pred HH-HHHhcCCCCEEEEcCCCC-C--CCCCEEEeccH---HHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHH
Confidence 33 345667999999875433 2 12233445656 77888888888889999999976543 11 10345778888
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCC--CeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLD--TKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+++.|.......... ...+..+....++++.++. +++|+.. +...+..+++.+++.|+..++.+.+
T Consensus 143 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v 210 (267)
T cd06283 143 LAEHGIGVNEELIEI-DDEDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGL 210 (267)
T ss_pred HHHcCCCCCcceeEe-cccchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEE
Confidence 888875322211111 1122344455666665443 5666444 5556677899999999754443333
No 153
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.39 E-value=0.011 Score=61.22 Aligned_cols=205 Identities=10% Similarity=0.080 Sum_probs=115.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||+++|... +.-.....+++-+.++.| +.+. +.++..++..-.+....++.. ++++||--.. .....
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~g-------~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~-~~~~~ 69 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAAG-------YSTI--IGNSDENPETENRYLDNLLSQ-RVDGIIVVPH-EQSAE 69 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHcC-------CEEE--EEeCCCCHHHHHHHHHHHHhc-CCCEEEEcCC-CCChH
Confidence 4898988543 333456666666665532 3444 334445665555555566655 8888764333 22222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
. ...+...++|+|......+ . .. +..+.+++. .-+..+++.+...|-++|+++..... ... ...+.+.+.
T Consensus 70 ~-~~~l~~~~ipvV~~~~~~~-~-~~-~~~v~~d~~---~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~-~R~~gf~~~ 141 (265)
T cd06299 70 Q-LEDLLKRGIPVVFVDREIT-G-SP-IPFVTSDPQ---PGMTEAVSLLVALGHKKIGYISGPQDTSTGR-ERLEAFRQA 141 (265)
T ss_pred H-HHHHHhCCCCEEEEecccC-C-CC-CCEEEECcH---HHHHHHHHHHHHcCCCcEEEEeCCCCcccHH-HHHHHHHHH
Confidence 3 3455667999998875433 2 11 112233444 44556667776778899999965443 222 345788889
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.|.++....... ......+....+.++.+..+++|+ +++...+..+++..++.|+..++-+.++
T Consensus 142 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~av~-~~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 142 CASLGLEVNEDLVVL-GGYSQESGYAGATKLLDQGATAII-AGDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HHHCCCCCChHhEEe-cCcchHHHHHHHHHHHcCCCCEEE-EcCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 988885432211111 112222333445555444577654 4556678888999999997544444443
No 154
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.37 E-value=0.019 Score=61.77 Aligned_cols=201 Identities=8% Similarity=0.046 Sum_probs=116.1
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCCh
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTP 118 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s 118 (860)
+..+||++.+-.+ ........+++-++++.| +.+. +.++..++..-.+....++.+ +++++|= +.. .
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g-------~~l~--i~~~~~~~~~~~~~i~~l~~~-~vDGiIi~~~~-~ 92 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESLG-------AKVF--VQSANGNEETQMSQIENMINR-GVDVLVIIPYN-G 92 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHcC-------CEEE--EECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCC-h
Confidence 4689999998543 333444455555554422 3444 456666777666666677765 7887753 333 2
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC---CCCcCCHH
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT---WGNDNTIP 195 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~---~g~~~~~~ 195 (860)
.........+...++|+|......+ . .+....+.+++. ..++.++++|...|-++++++..... .+. ...+
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~~-~-~~~~~~V~~D~~---~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~-~R~~ 166 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMIN-N-ADIDFYISFDNE---KVGELQAKALVDKVPQGNYFLMGGSPVDNNAK-LFRA 166 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCC-C-CCccEEEecCHH---HHHHHHHHHHHHhcCCCCEEEEeCCCCCccHH-HHHH
Confidence 2223444556778999999864322 1 112235677777 78888899887777788776543221 223 3456
Q ss_pred HHHHHHhhC---C-ceEeEEEeccCCCCChHHHHHHHHhhh-c--CCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 196 YLFDSLHDN---D-IDIARRTSISLASSTHDQIIEKLSMLK-S--LDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 196 ~l~~~~~~~---g-~~i~~~~~~~~~~~~~~~~~~~l~~i~-~--~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
.+++.+++. | +++....... .....+-...++++. + ..+++| ++.+...+..+++.++++|+.
T Consensus 167 gf~~~l~~~~~~~~i~~~~~~~~~--~~~~~~~~~~~~~lL~~~~~~~~aI-~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 167 GQMKVLKPYIDSGKIKVVGDQWVD--GWLPENALKIMENALTANNNKIDAV-VASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHhhhccCCCeEEecccCCC--CCCHHHHHHHHHHHHHhCCCCccEE-EECCCchHHHHHHHHHHCCCC
Confidence 777777653 4 4432221111 122223334444432 2 345654 556666777899999999964
No 155
>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=97.35 E-value=0.013 Score=60.77 Aligned_cols=197 Identities=10% Similarity=0.093 Sum_probs=114.0
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
.||+++|... +.-.....+++-+.++. ++++. +.++..++..-.+....+... ++++|| .|.. . ..
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-------~~~~~--~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~~-~-~~ 68 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-------GYSTF--VANTGDNPDAQRRAIEMLLDR-RVDGLILGDAR-S-DD 68 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-------CCEEE--EEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCC-C-Ch
Confidence 3789998643 22333444444444432 24553 344545665555555555555 788765 4433 2 22
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFD 199 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~ 199 (860)
.. ...+...++|+|......+ + ...+..++. .-+..+++.+...|-++++++..+.. .+. ...+.+.+
T Consensus 69 ~~-~~~~~~~~iPvv~~~~~~~----~-~~~V~~d~~---~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~-~R~~Gf~~ 138 (265)
T cd06285 69 HF-LDELTRRGVPFVLVLRHAG----T-SPAVTGDDV---LGGRLATRHLLDLGHRRIAVLAGPDYASTAR-DRLAGFRA 138 (265)
T ss_pred HH-HHHHHHcCCCEEEEccCCC----C-CCEEEeCcH---HHHHHHHHHHHHCCCccEEEEeCCcccccHH-HHHHHHHH
Confidence 23 3345667999998864332 1 122445555 67778888888889999999976543 233 44678888
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
.+++.|+++....... ...........+.++.+. .+++| ++.+...+..+++.+++.|+..++
T Consensus 139 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~ 203 (265)
T cd06285 139 ALAEAGIEVPPERIVY-SGFDIEGGEAAAEKLLRSDSPPTAI-FAVNDFAAIGVMGAARDRGLRVPD 203 (265)
T ss_pred HHHHcCCCCChhhEEe-CCCCHHHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCc
Confidence 8988887653211111 112222223444554332 35654 455666778899999999975433
No 156
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=97.35 E-value=0.014 Score=60.91 Aligned_cols=203 Identities=12% Similarity=0.089 Sum_probs=126.6
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||+++|.... .-.+...|++-+.++ .| +.+-+ .++..++..- +....+.++ +|+++|=... .....
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~----~G---y~l~l--~~t~~~~~~e-~~i~~l~~~-~vDGiI~~s~-~~~~~ 70 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEARE----HG---YQLLL--CNTGDDEEKE-EYIELLLQR-RVDGIILASS-ENDDE 70 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHH----TT---CEEEE--EEETTTHHHH-HHHHHHHHT-TSSEEEEESS-SCTCH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHH----cC---CEEEE--ecCCCchHHH-HHHHHHHhc-CCCEEEEecc-cCChH
Confidence 69999998653 233444444444444 22 55544 4455566655 555555555 8888764322 22335
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcE-EEEEEecCCCCC-cCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKE-VILIHEDNTWGN-DNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~-v~ii~~~~~~g~-~~~~~~l~~~ 200 (860)
.+..+.+. ++|+|....... ...+ +--+..++. .-+..+++.|.+.|-++ |+++..+..... ....+.++++
T Consensus 71 ~l~~~~~~-~iPvV~~~~~~~-~~~~-~~~V~~D~~---~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~A 144 (279)
T PF00532_consen 71 ELRRLIKS-GIPVVLIDRYID-NPEG-VPSVYIDNY---EAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDA 144 (279)
T ss_dssp HHHHHHHT-TSEEEEESS-SC-TTCT-SCEEEEEHH---HHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHc-CCCEEEEEeccC-Cccc-CCEEEEcch---HHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHH
Confidence 56666666 999999875533 2211 111233344 55677888888889999 999998765332 1456778999
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCe--EEEEEeCHHHHHHHHHHHHHcC-CccCCeE
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTK--VFVVHMTHALASHLFLNAKKLG-MMSKGYV 266 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~--viil~~~~~~~~~il~~a~~~g-l~~~~~~ 266 (860)
+++.|+++....... .+.+..+-...++++.+..++ +| ++++..-|...++.+.+.| +..+..+
T Consensus 145 l~~~Gl~~~~~~i~~-~~~~~~~g~~~~~~ll~~~p~idai-~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 145 LKEAGLPIDEEWIFE-GDFDYESGYEAARELLESHPDIDAI-FCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHHTTSCEEEEEEEE-SSSSHHHHHHHHHHHHHTSTT-SEE-EESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHHcCCCCCcccccc-cCCCHHHHHHHHHHHHhhCCCCEEE-EEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 999999665544433 234445555666666666565 54 6777888889999999999 6656544
No 157
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.35 E-value=0.019 Score=62.14 Aligned_cols=203 Identities=11% Similarity=0.108 Sum_probs=117.1
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
..-.||+++|... +.-.....+++-++++ .+ +.+- +.++..++....+....+..+ ++++||=-.. ..
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~g----~~~~--~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~-~~ 131 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---QG----RMVF--LLQGGKDGEQLAQRFSTLLNQ-GVDGVVIAGA-AG 131 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---cC----CEEE--EEeCCCCHHHHHHHHHHHHhC-CCCEEEEeCC-CC
Confidence 4568999998533 3334445555555443 22 3443 334445555555555556555 7887764222 21
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~l 197 (860)
........+...++|+|......+ . ..+-.+.+++. ..+..++++|...|.++++++..+... .. ...+.+
T Consensus 132 ~~~~~~~~l~~~~iPvV~~~~~~~--~-~~~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~-~R~~Gf 204 (342)
T PRK10014 132 SSDDLREMAEEKGIPVVFASRASY--L-DDVDTVRPDNM---QAAQLLTEHLIRNGHQRIAWLGGQSSSLTRA-ERVGGY 204 (342)
T ss_pred CcHHHHHHHhhcCCCEEEEecCCC--C-CCCCEEEeCCH---HHHHHHHHHHHHCCCCEEEEEcCCcccccHH-HHHHHH
Confidence 223444556778999998863222 1 11122455666 777888888888899999999754332 22 345778
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccC
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSK 263 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~ 263 (860)
++.+++.|+++.....+. ...........+.++.+. .+++|+ +.+...|..+++.+.+.|+..+
T Consensus 205 ~~al~~~g~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 205 CATLLKFGLPFHSEWVLE-CTSSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHHcCCCCCcceEec-CCCChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 899999887653221111 112222233444444333 456654 5567778888999999987543
No 158
>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=97.34 E-value=0.028 Score=58.89 Aligned_cols=202 Identities=12% Similarity=0.027 Sum_probs=110.4
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCC--CCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQ--GDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~--~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
|||+++|.... . .+...+.-.+++.=++.+ +.+.+...++. .++..-.+....++.+ +|++||=...+....
T Consensus 1 ~Igvi~~~~~~-~-~~~~~~~~~i~~~~~~~g---~~~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQI-S-DYWVRNIASFTARLEELN---IPYELTQFSSRPGIDHRLQSQQLNEALQS-KPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccH-H-HHHHHHHHHHHHHHHHcC---CcEEEEEeccCcccCHHHHHHHHHHHHHc-CCCEEEEcCCchhhH
Confidence 58999986310 0 122222223332222222 56666544432 3555555556666665 888876533302222
Q ss_pred HHHHHhhcCCCCcEEec-ccCCCcc--c-cc-ceEeecCCCchhHHHHHHHHHHHhh--CCCcEEEEEEecCC-CCCcCC
Q 044527 122 QILADLGSRAKIPIISL-FTTLPNS--L-TS-YSIQIDQDDEASQSQARGISDFISV--FKWKEVILIHEDNT-WGNDNT 193 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~-~a~~~~~--l-s~-~~~r~~p~~~~~~~~~~ai~~~l~~--~~w~~v~ii~~~~~-~g~~~~ 193 (860)
..+..+. ..++|.|.. ....+ . . .+ ....+.+++. .-+..+++.+.. .|.++++++..... .+. ..
T Consensus 75 ~~~~~l~-~~~~p~V~i~~~~~~-~~~~~~~~~~~~V~~d~~---~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~-~R 148 (280)
T cd06303 75 KLIERVL-ASGKTKIILQNITTP-VKAWLKHQPLLYVGFDHA---AGARLLADYFIKRYPNHARYAMLYFSPGYIST-AR 148 (280)
T ss_pred HHHHHHH-hCCCCeEEEeCCCCC-ccccccCCCceEeCCCHH---HHHHHHHHHHHHhcCCCcEEEEEECCCCcchh-HH
Confidence 3333433 456676655 22222 1 1 11 3344556665 667778888766 78899999975432 233 45
Q ss_pred HHHHHHHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 194 IPYLFDSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 194 ~~~l~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
.+.+++.+++. |+++... +. ......+....+.++.+. ++++| ++++...+..+++.+++.|+.
T Consensus 149 ~~gf~~al~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~A~g~l~al~~~G~~ 215 (280)
T cd06303 149 GDTFIDCVHARNNWTLTSE--FY-TDATRQKAYQATSDILSNNPDVDFI-YACSTDIALGASDALKELGRE 215 (280)
T ss_pred HHHHHHHHHhCCCceEEEe--ec-CCCCHHHHHHHHHHHHHhCCCCcEE-EECCcHHHHHHHHHHHHcCCC
Confidence 67888999887 7664332 12 122333334455555433 35555 456677788899999999974
No 159
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=97.34 E-value=0.017 Score=60.05 Aligned_cols=196 Identities=12% Similarity=0.066 Sum_probs=114.8
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
+||++.|.. .+.-.....+++.++++.| +.+.+...+...++..-.+....++.. ++.+||= |.. ....
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g-------~~~~~~~~~~~~~~~~~~~~i~~~~~~-~vdgiI~~~~~-~~~~ 71 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLG-------VSLKLLEAGGYPNLAKQIAQLEDCAAW-GADAILLGAVS-PDGL 71 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcC-------CEEEEecCCCCCCHHHHHHHHHHHHHc-CCCEEEEcCCC-hhhH
Confidence 588999853 3333455666776666543 444443222223444455566666665 7887753 333 2222
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCC-----cEEEEEEecCC--CCCcCCH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKW-----KEVILIHEDNT--WGNDNTI 194 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w-----~~v~ii~~~~~--~g~~~~~ 194 (860)
..+ ..+...++|+|......+ . .+....+..++. ..++.+++++.+.+- ++++++..... ... ...
T Consensus 72 ~~~-~~~~~~giPvV~~~~~~~-~-~~~~~~V~~d~~---~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~-~R~ 144 (268)
T cd06306 72 NEI-LQQVAASIPVIALVNDIN-S-PDITAKVGVSWY---EMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVK-AVE 144 (268)
T ss_pred HHH-HHHHHCCCCEEEeccCCC-C-cceeEEecCChH---HHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHH-HHH
Confidence 223 445678999998853222 1 112234566666 777888888866555 89999976443 233 456
Q ss_pred HHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 195 PYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+.+++.+++.++++.... . ...+...-...++++.+ .++++|+. ....+..+++.+++.|+
T Consensus 145 ~g~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 145 KGFRDALAGSAIEISAIK--Y-GDTGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHHHhhcCcEEeeec--c-CCccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 788899988888775421 1 11222333445555432 34677763 36777888999999986
No 160
>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=97.34 E-value=0.011 Score=61.35 Aligned_cols=203 Identities=13% Similarity=0.126 Sum_probs=114.9
Q ss_pred EEEEEEec------CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCC
Q 044527 44 HVGIILDM------RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMT 117 (860)
Q Consensus 44 ~IG~l~~~------~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~ 117 (860)
.||+++|. +.+.-.....+++-+.++. ++++.+. +.. ++..-.+...+++...++.++|-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-------g~~~~~~--~~~-~~~~~~~~~~~~~~~~~~dgiii~~~- 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-------GYDISLA--TGK-NEEELLEEVKKMIQQKRVDGFILLYS- 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-------CCEEEEe--cCC-CcHHHHHHHHHHHHHcCcCEEEEecC-
Confidence 37888884 2333344555666655552 2455543 333 23444555666665546777654322
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHH
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIP 195 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~ 195 (860)
... ......+...++|+|......+ .. ..+..+.+++. ..++.+++.+...|-++++++.....+ .. ...+
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~-~~-~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~ 142 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPED-DK-ENITYVDNDNI---QAGYDATEYLIKLGHKKIAFVGGDLDLEVTQ-DRLQ 142 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCC-CC-CCCCeEEECcH---HHHHHHHHHHHHcCCccEEEecCCcccHHHH-HHHH
Confidence 112 2233445677999999875433 21 11222444555 667778888877799999999755432 22 3467
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeE
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYV 266 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~ 266 (860)
.|++.+++.|+.+....... ...+.......+.++.++ ++++|+. .+...+..+++.+++.|+..++.+
T Consensus 143 gf~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv 213 (270)
T cd06294 143 GYKQALEDHGIPDRNEVIIS-LDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDL 213 (270)
T ss_pred HHHHHHHHcCCCCCcceEEe-cCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcce
Confidence 88899998885322111111 112223334455555433 3666655 466788889999999997544433
No 161
>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=97.32 E-value=0.024 Score=58.65 Aligned_cols=204 Identities=12% Similarity=0.124 Sum_probs=116.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
.||+++|-.. +.-.....+++-+.++. ++.+.+...+ ..++....+....++++ +++++|- +.. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-------~~~~~~~~~~-~~~~~~~~~~~~~l~~~-~vdgiii~~~~-~~~~ 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-------GYAVTLSMLA-EADEEALRAAVRRLLAQ-RVDGVIVNAPL-DDAD 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-------CCeEEEEeCC-CCchHHHHHHHHHHHhc-CCCEEEEeCCC-CChH
Confidence 3888888543 22334455555555552 2555554322 22344445555556555 7888763 333 2222
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCC-CcCCHHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWG-NDNTIPYLFDS 200 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g-~~~~~~~l~~~ 200 (860)
.... +...++|+|..... + . ..+..+..++. ..++.+++.+...|-++|+++..+.... .....+.+.+.
T Consensus 71 -~~~~-~~~~~ipvv~~~~~-~-~--~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~ 141 (264)
T cd01574 71 -AALA-AAPADVPVVFVDGS-P-S--PRVSTVSVDQE---GGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAA 141 (264)
T ss_pred -HHHH-HHhcCCCEEEEecc-C-C--CCCCEEEeCcH---HHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHH
Confidence 3333 34678999998743 2 2 22333556666 7788888888888999999997654321 11345778888
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC-CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL-DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~-~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
+++.|+++..... . +.+.......+.++.++ .+++| ++++...+..+++.+++.|...++..-+++
T Consensus 142 l~~~~~~~~~~~~-~--~~~~~~~~~~~~~~l~~~~~~ai-~~~~d~~a~g~~~~~~~~g~~ip~~i~ii~ 208 (264)
T cd01574 142 LEAAGIAPPPVLE-G--DWSAESGYRAGRELLREGDPTAV-FAANDQMALGVLRALHELGLRVPDDVSVVG 208 (264)
T ss_pred HHHCCCCcceeee-c--CCCHHHHHHHHHHHHhCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCccceEEec
Confidence 8888876643221 1 12223333444444333 35665 445666788899999999965444444433
No 162
>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=97.31 E-value=0.029 Score=59.08 Aligned_cols=201 Identities=9% Similarity=0.055 Sum_probs=113.3
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
+||++.|.. .+.-.....+++.+.++. ++++. +.+.. ++..-.....+++.. ++.++|= +.. +...
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~-~~~~~~~~i~~~~~~-~~dgiii~~~~-~~~~ 68 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-------GFTVV--KIDVP-DGEKVLSAIDNLGAQ-GAKGFVICVPD-VKLG 68 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-------CCEEE--EccCC-CHHHHHHHHHHHHHc-CCCEEEEccCc-hhhh
Confidence 488888753 333445566666666652 24544 44555 666555666666665 7887764 333 3334
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccc---c-ceEeecCCCchhHHHHHHHHHHH----hhCCC--cEEEEEEe-cC--CC
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLT---S-YSIQIDQDDEASQSQARGISDFI----SVFKW--KEVILIHE-DN--TW 188 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls---~-~~~r~~p~~~~~~~~~~ai~~~l----~~~~w--~~v~ii~~-~~--~~ 188 (860)
......+...++|+|......+ ... . .+..+..+.. ..+..+++++ ...|+ ++++++.. .. ..
T Consensus 69 ~~~~~~~~~~~iPvV~~~~~~~-~~~~~~~~~~~~V~~d~~---~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~ 144 (289)
T cd01540 69 PAIVAKAKAYNMKVVAVDDRLV-DADGKPMEDVPHVGMSAT---KIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDT 144 (289)
T ss_pred HHHHHHHHhCCCeEEEecCCCc-ccCCCccccceEecCCHH---HHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcc
Confidence 5555667789999998864332 211 1 2233444555 5555555544 34566 78998853 22 24
Q ss_pred CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeE-EEEEeCHHHHHHHHHHHHHcCCc
Q 044527 189 GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKV-FVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 189 g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~v-iil~~~~~~~~~il~~a~~~gl~ 261 (860)
.. ...+.+++.+++.|+.............+...-...+.++..+ .++. .+++++...+..+++...+.|+.
T Consensus 145 ~~-~R~~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~ 219 (289)
T cd01540 145 AK-PRTDGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIA 219 (289)
T ss_pred hh-hHHHHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCC
Confidence 44 5678889999888865321111110001112222344444333 3443 46666777788899999999986
No 163
>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=97.30 E-value=0.033 Score=57.97 Aligned_cols=198 Identities=17% Similarity=0.162 Sum_probs=115.3
Q ss_pred EEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||++.|-. .+.......+++-+.++ .++ +++ .+.++.+++..-.+...+++.+ ++++|| .|.. ....
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~~g---~~~--~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~~-~~~~ 70 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---YPD---VEL--IIADAADDNSKQVADIENFIRQ-GVDLLIISPNE-AAPL 70 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---cCC---cEE--EEEcCCCCHHHHHHHHHHHHHh-CCCEEEEecCc-hhhc
Confidence 488888743 22223334444433333 222 444 4456666777666777777765 777764 3333 3222
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCCC--CCcCCHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNTW--GNDNTIPYL 197 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~--g~~~~~~~l 197 (860)
......+...++|+|......+ . .+....+..++. ..+..+++++.+. |-++++++...... .. ...+.+
T Consensus 71 ~~~~~~~~~~~ipvV~~~~~~~-~-~~~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~-~R~~g~ 144 (270)
T cd06308 71 TPVVEEAYRAGIPVILLDRKIL-S-DKYTAYIGADNY---EIGRQAGEYIANLLPGKGNILEIWGLEGSSPAI-ERHDGF 144 (270)
T ss_pred hHHHHHHHHCCCCEEEeCCCCC-C-ccceEEeecCcH---HHHHHHHHHHHHHcCCCceEEEEECCCCCchHH-HHHHHH
Confidence 2333445668999998874332 1 113344666776 7788888887764 88999999754432 22 346788
Q ss_pred HHHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 198 FDSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 198 ~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
++.+++. |+++.... . ......+....+.++.+ .++++| ++.+...+..+++.+++.|+.
T Consensus 145 ~~~l~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~ 207 (270)
T cd06308 145 KEALSKYPKIKIVAQQ--D-GDWLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE 207 (270)
T ss_pred HHHHHHCCCCEEEEec--C-CCccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC
Confidence 8899888 87765321 1 11222222333444322 245654 455677777899999999975
No 164
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.29 E-value=0.029 Score=60.34 Aligned_cols=206 Identities=13% Similarity=0.094 Sum_probs=116.0
Q ss_pred ceEEEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+-.||+++|.. .+.-.....+++.+.++ . ++.+.+. ++..++....+....+... +++++|=......
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~----~---g~~~~~~--~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ----R---GYQLLIA--CSDDQPDNEMRCAEHLLQR-QVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH----c---CCEEEEE--eCCCCHHHHHHHHHHHHHc-CCCEEEEcCCCCC
Confidence 356899999853 33223344455444443 2 2455443 3334555444555555554 7888764222011
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l 197 (860)
....+ ..+...++|+|......+ . ..+-.+.+++. ..+..+++.|...|-++|+++..... .+. ...+.+
T Consensus 130 ~~~~~-~~l~~~~iPvV~v~~~~~-~--~~~~~V~~d~~---~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~-~R~~Gf 201 (328)
T PRK11303 130 EHPFY-QRLQNDGLPIIALDRALD-R--EHFTSVVSDDQ---DDAEMLAESLLKFPAESILLLGALPELSVSF-EREQGF 201 (328)
T ss_pred ChHHH-HHHHhcCCCEEEECCCCC-C--CCCCEEEeCCH---HHHHHHHHHHHHCCCCeEEEEeCccccccHH-HHHHHH
Confidence 22222 334567999998864322 1 11223455665 66777888887788999999976543 233 456788
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
.+.+++.|+.+..... .+....+-...+.++.+. .+++|+.. +...+..+++++.+.|+..++-+-+
T Consensus 202 ~~al~~~g~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~disv 270 (328)
T PRK11303 202 RQALKDDPREVHYLYA---NSFEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDLAI 270 (328)
T ss_pred HHHHHHcCCCceEEEe---CCCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEE
Confidence 9999998876433211 112222223344444332 46776554 5566778899999999755544433
No 165
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.26 E-value=0.02 Score=62.04 Aligned_cols=208 Identities=8% Similarity=0.043 Sum_probs=116.5
Q ss_pred eEEEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 42 EVHVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 42 ~i~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
+-+||+++|.... .-.....+++-+.++. + +.+ .+.++..++..-.+....++.+ ++++||--.. ...
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~----g---~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~-~~~ 127 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK----G---YTL--ILCNAWNNLEKQRAYLSMLAQK-RVDGLLVMCS-EYP 127 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC----C---CEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecC-CCC
Confidence 4589999987542 2333444555444432 2 343 3444555666655666666655 7887763212 112
Q ss_pred HHHHHHhhcC-CCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHH
Q 044527 121 AQILADLGSR-AKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 121 ~~~~~~~~~~-~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l 197 (860)
...+ ..+.. .++|+|......+ ... ......++.. ..+..+++.+...|-+++++|..... .+. ...+.|
T Consensus 128 ~~~~-~~l~~~~~iPvV~~d~~~~-~~~-~~~~v~~d~~---~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~-~R~~Gf 200 (341)
T PRK10703 128 EPLL-AMLEEYRHIPMVVMDWGEA-KAD-FTDAIIDNAF---EGGYLAGRYLIERGHRDIGVIPGPLERNTGA-GRLAGF 200 (341)
T ss_pred HHHH-HHHHhcCCCCEEEEecccC-CcC-CCCeEEECcH---HHHHHHHHHHHHCCCCcEEEEeCCccccchH-HHHHHH
Confidence 2223 33344 6999998864333 221 1122344444 55677777777778899999965432 333 446788
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
.+.+++.|+++....... .+....+....+.++.++ .+++|+ +++...+..+++.+.+.|...++.+.++
T Consensus 201 ~~~l~~~gi~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 201 MKAMEEANIKVPEEWIVQ-GDFEPESGYEAMQQILSQKHRPTAVF-CGGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHHHcCCCCChHHeEe-CCCCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 899999897754321111 112223334455554333 456665 4566677789999999996544444333
No 166
>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=97.26 E-value=0.037 Score=57.58 Aligned_cols=205 Identities=9% Similarity=0.028 Sum_probs=119.6
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||+++|.... .-.+...+++-+.++.+ ..+.+.+.++..++..-.+....++.+ ++.++| .|.. ....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~dgiIi~~~~-~~~~ 71 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLN-------PGVKVTVVSADYDLNKQVSQIDNFIAA-KVDLILLNAVD-SKGI 71 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhC-------CCeEEEEccCCCCHHHHHHHHHHHHHh-CCCEEEEeCCC-hhHh
Confidence 48899986442 23445566666666642 234455556667776555666666665 777654 4444 3332
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC-CCCcCCHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT-WGNDNTIPYLF 198 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~l~ 198 (860)
......+...++|+|......+ . ....+.+++. ..++.+++.+... |.++++++..... ... ...+.++
T Consensus 72 ~~~i~~~~~~~ipvv~~~~~~~-~---~~~~V~~d~~---~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~-~R~~g~~ 143 (271)
T cd06321 72 APAVKRAQAAGIVVVAVDVAAE-G---ADATVTTDNV---QAGEISCQYLADRLGGKGNVAILNGPPVSAVL-DRVAGCK 143 (271)
T ss_pred HHHHHHHHHCCCeEEEecCCCC-C---ccceeeechH---HHHHHHHHHHHHHhCCCceEEEEeCCCCchHH-HHHHHHH
Confidence 3333445667999999975433 2 1123556666 7778888888776 8999999976532 223 4467888
Q ss_pred HHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 199 DSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 199 ~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
+.+++. +++..... .. ...+...-...++++.+. .+++| ++.+...+..+++..++.|+ .+...+..
T Consensus 144 ~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~al~~~g~--~di~v~g~ 213 (271)
T cd06321 144 AALAKYPGIKLLSDD-QN-GKGSRDGGLRVMQGLLTRFPKLDGV-FAINDPTAIGADLAAKQAGR--NDIKITSV 213 (271)
T ss_pred HHHHhCCCcEEEeee-cC-CCCChhhHHHHHHHHHHhCCCCCEE-EECCchhHHHHHHHHHHcCC--CCcEEEEe
Confidence 888887 56532211 11 111212222344444333 45665 44566677788899999996 34444433
No 167
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.24 E-value=0.057 Score=58.04 Aligned_cols=205 Identities=15% Similarity=0.140 Sum_probs=110.0
Q ss_pred CceEEEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCC
Q 044527 40 SDEVHVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMT 117 (860)
Q Consensus 40 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~ 117 (860)
.++.+||++.+-. .+.-.....+++-+.++. ++ ..+.+.++..++....+....++.+ +|.++|= +..
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g~-----~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~- 91 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA---PD-----VQLLMNDSQNDQSKQNDQIDVLLAK-GVKALAINLVD- 91 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhc---CC-----eEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeccC-
Confidence 4458899999743 333334445555554442 22 2344456656666665666666665 7887764 333
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCc-cccc--ceEeecCCCchhHHHHHHHHHHHhh------------CCCcEEEEE
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPN-SLTS--YSIQIDQDDEASQSQARGISDFISV------------FKWKEVILI 182 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~-~ls~--~~~r~~p~~~~~~~~~~ai~~~l~~------------~~w~~v~ii 182 (860)
+.........+...++|+|......+. .+.+ ....+..++. .-++.+++++.+ .|-.++++|
T Consensus 92 ~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~---~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i 168 (330)
T PRK15395 92 PAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSK---ESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLL 168 (330)
T ss_pred HHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChH---HHHHHHHHHHHHHHhhccccccCCCCceEEEEE
Confidence 333344345566789999999753220 1111 1223455555 555555554432 133344555
Q ss_pred EecCC--CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC----CCeEEEEEeCHHHHHHHHHHHH
Q 044527 183 HEDNT--WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL----DTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 183 ~~~~~--~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~----~~~viil~~~~~~~~~il~~a~ 256 (860)
..... ... ...+.+++.+++.|+.+....... ...+..+-...+.++.++ .+++|+ +++...+..+++.++
T Consensus 169 ~g~~~~~~~~-~R~~G~~~al~~~g~~~~~~~~~~-~~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~ 245 (330)
T PRK15395 169 KGEPGHPDAE-ARTTYVIKELNDKGIKTEQLQLDT-AMWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALK 245 (330)
T ss_pred ecCCCCchHH-HHHHHHHHHHHhcCCCeeeeeccc-CCcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHH
Confidence 44322 222 346778888888887654321111 111222333444554332 345554 556677788999999
Q ss_pred HcCC
Q 044527 257 KLGM 260 (860)
Q Consensus 257 ~~gl 260 (860)
+.|+
T Consensus 246 ~~Gl 249 (330)
T PRK15395 246 AHNK 249 (330)
T ss_pred hcCC
Confidence 9996
No 168
>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=97.23 E-value=0.023 Score=58.92 Aligned_cols=201 Identities=11% Similarity=0.083 Sum_probs=110.5
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
.||+++|.... .....+...+++.-++.+ +.+.+ .++..++..-.+....+.++ +++++|--.+ ......
T Consensus 1 ~i~vi~~~~~~---~~~~~~~~gi~~~~~~~g---y~~~~--~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~-~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFAS---PFYGRILKGMERGLNGSG---YSPII--ATGHWNQSRELEALELLKSR-RVDALILLGG-DLPEEE 70 (265)
T ss_pred CEEEEECCCCC---chHHHHHHHHHHHHHHCC---CEEEE--EeCCCCHHHHHHHHHHHHHC-CCCEEEEeCC-CCChHH
Confidence 37888875332 223333333333333322 45544 44445665444555556555 7888763222 211122
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDSL 201 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~~ 201 (860)
+..+ . .++|+|......+ .. .+-.+..++. ..+..+++.+...|-++++++..+.. ... ...+.+++.+
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~-~~--~~~~V~~d~~---~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~gf~~~~ 141 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVP-GP--GAASIAVDNF---QGGYLATQHLIDLGHRRIAHITGPRGHIDAR-DRLAGYRKAL 141 (265)
T ss_pred HHHH-h-cCCCEEEECCCcC-CC--CCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEeCccccchhh-HHHHHHHHHH
Confidence 2222 3 4899998875433 21 1223445666 67777888777779999999976532 223 4567788888
Q ss_pred hhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCe
Q 044527 202 HDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGY 265 (860)
Q Consensus 202 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~ 265 (860)
++.|+.+.....+. ...........+.++.++ .+++|+ +++...+..+++.+++.|+..++.
T Consensus 142 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~d 205 (265)
T cd06290 142 EEAGLEVQPDLIVQ-GDFEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPED 205 (265)
T ss_pred HHcCCCCCHHHEEe-cCCCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 88887643211111 112222223345554433 356654 456777888899999999754443
No 169
>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=97.22 E-value=0.06 Score=56.34 Aligned_cols=199 Identities=13% Similarity=0.122 Sum_probs=114.4
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||++.|... +.-.....+++.+.++. ++.+ .+.+..+++..-.+....++.. ++++|| .+.. +...
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-------g~~v--~~~~~~~~~~~~~~~i~~~~~~-~~Dgiii~~~~-~~~~ 69 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-------GYEL--ISTDAQGDLTKQIADVEDLLTR-GVNVLIINPVD-PEGL 69 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-------CCEE--EEEcCCCCHHHHHHHHHHHHHc-CCCEEEEecCC-ccch
Confidence 5888888543 22334555555555542 1343 4456666776666666677765 787765 3433 3332
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh-CCCc--EEEEEEecC--CCCCcCCHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV-FKWK--EVILIHEDN--TWGNDNTIPY 196 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~-~~w~--~v~ii~~~~--~~g~~~~~~~ 196 (860)
......+...++|+|......+ .....+..+..++. ..++.+++.+.+ .|-+ +++++..+. ..+. ...+.
T Consensus 70 ~~~i~~~~~~~iPvV~~~~~~~-~~~~~~~~v~~d~~---~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~-~R~~g 144 (282)
T cd06318 70 VPAVAAAKAAGVPVVVVDSSIN-LEAGVVTQVQSSNA---KNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQ-ARRDG 144 (282)
T ss_pred HHHHHHHHHCCCCEEEecCCCC-CCcCeEEEEecCcH---HHHHHHHHHHHHHhCCCCceEEEEECCCCCchHh-HHHHh
Confidence 3333455678999999875333 21123344566666 778888888755 6754 899987543 2345 56678
Q ss_pred HHHHHhhCCce------EeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 197 LFDSLHDNDID------IARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 197 l~~~~~~~g~~------i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+++.+++.|+. +....... ......+-...+.++... ++++| ++.+...+..+++.+++.|+
T Consensus 145 f~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~al~~~g~ 214 (282)
T cd06318 145 FLLGVSEAQLRKYGKTNFTIVAQGY-GDWTREGGLKAMEDLLVAHPDINVV-YSENDDMALGAMRVLAEAGK 214 (282)
T ss_pred HHHHHhhCcccccccCCeEEEecCC-CCCCHHHHHHHHHHHHHhCCCcCEE-EECCcchHHHHHHHHHHcCC
Confidence 88999887642 11111011 112222323344444322 35555 44455567788999999997
No 170
>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=97.22 E-value=0.045 Score=57.78 Aligned_cols=200 Identities=14% Similarity=0.090 Sum_probs=112.9
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~~ 122 (860)
|||++.+.... .+...+..++++.-.+.+ +++.+ ..++.+++..-.+....++.+ ++++|| .|.. .....
T Consensus 1 ~i~~i~~~~~~---~~~~~~~~gi~~~a~~~g---~~~~~-~~~~~~~~~~~~~~l~~~~~~-~~dgiii~~~~-~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGS---DWSNAQVRGAKDEFAKLG---IEVVA-TTDAQFDPAKQVADIETTISQ-KPDIIISIPVD-PVSTA 71 (294)
T ss_pred CeEEEecCCCC---hHHHHHHHHHHHHHHHcC---CEEEE-ecCCCCCHHHHHHHHHHHHHh-CCCEEEEcCCC-chhhh
Confidence 58888874322 233344444444333322 45543 235567777667777777776 787764 3433 22223
Q ss_pred HHHHhhcCCCCcEEecccCCCcccc---cceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCCC--CCcCCHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLT---SYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNTW--GNDNTIP 195 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls---~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~--g~~~~~~ 195 (860)
.....+...++|+|......+ ... +++.-+..++. .-+..+++++... +-++++++..+.+. .. ...+
T Consensus 72 ~~i~~~~~~~iPvV~~~~~~~-~~~~~~~~~~~v~~d~~---~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~-~R~~ 146 (294)
T cd06316 72 AAYKKVAEAGIKLVFMDNVPS-GLEHGKDYAGIVTDDNY---GNGQIAADALAKALPGKGKVGLIYHGADYFVTN-QRDQ 146 (294)
T ss_pred HHHHHHHHcCCcEEEecCCCc-ccccCcceEEEEccCcH---HHHHHHHHHHHHHhCCCceEEEEeCCCCcccHH-HHHH
Confidence 334556678999998875433 222 13334555555 6678888888665 77899999764432 22 3467
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
.+.+.+++.+..+....... . .+.......++++.+ ..+++|+. .+...+..+++.+++.|+
T Consensus 147 gf~~~l~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~ 210 (294)
T cd06316 147 GFKETIKKNYPDITIVAEKG-I-DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR 210 (294)
T ss_pred HHHHHHHHhCCCcEEEeecC-C-cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC
Confidence 78888876654332221111 1 111222334444432 24555544 456678889999999996
No 171
>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=97.21 E-value=0.021 Score=59.45 Aligned_cols=201 Identities=9% Similarity=0.016 Sum_probs=115.9
Q ss_pred EEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHHH
Q 044527 45 VGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGAQ 122 (860)
Q Consensus 45 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~~ 122 (860)
||++.|.. ...-.....+++-+.++. ++++. +.++..++..-.+....++++ +++++| .+.. ...
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~-------g~~~~--~~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~~-~~~-- 68 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAA-------GYDVV--LSESGRRTSPERQWVERLSAR-RTDGVILVTPE-LTS-- 68 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHc-------CCeEE--EecCCCchHHHHHHHHHHHHc-CCCEEEEecCC-CCh--
Confidence 78888754 333445555665555542 24544 445445554444555566665 788775 3333 222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
.....+...++|+|....... .- ..+..+.+++. ..++.+++.+...|.++++++..+.. ... ...+.|.+.
T Consensus 69 ~~~~~~~~~~ipvV~i~~~~~-~~-~~~~~v~~d~~---~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~-~r~~gf~~~ 142 (270)
T cd06296 69 AQRAALRRTGIPFVVVDPAGD-PD-ADVPSVGATNW---AGGLAATEHLLELGHRRIGFITGPPDLLCSR-ARLDGYRAA 142 (270)
T ss_pred HHHHHHhcCCCCEEEEecccC-CC-CCCCEEEeCcH---HHHHHHHHHHHHcCCCcEEEEcCCCcchhHH-HHHHHHHHH
Confidence 224556678999999875432 11 11223566666 77888888887789999999975433 233 456888888
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeE
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYV 266 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~ 266 (860)
+++.++.+....... ...........+.++.+ ..+++|+ +.+...+..+++...+.|+..++.+
T Consensus 143 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i 208 (270)
T cd06296 143 LAEAGIPVDPALVRE-GDFSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDL 208 (270)
T ss_pred HHHcCCCCChHHhee-CCCCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCce
Confidence 888876543211111 11222333344444433 2345554 4466677789999999997544433
No 172
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.21 E-value=0.047 Score=56.89 Aligned_cols=168 Identities=9% Similarity=0.014 Sum_probs=104.1
Q ss_pred EEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHHHHHHHhhcCCCCcEEecccCCCcccc-cceEeecCCCch
Q 044527 82 ILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGAQILADLGSRAKIPIISLFTTLPNSLT-SYSIQIDQDDEA 159 (860)
Q Consensus 82 ~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls-~~~~r~~p~~~~ 159 (860)
.+.+.+...++..-.+...+++.+ ++.+||= |.. +.........+...++|+|......+ ... ..+..+.+++.
T Consensus 31 ~~~~~~~~~d~~~~~~~i~~~~~~-~vdgiii~~~~-~~~~~~~i~~~~~~~iPvV~~~~~~~-~~~~~~~~~v~~d~~- 106 (272)
T cd06313 31 DVTWYGGALDAVKQVAAIENMASQ-GWDFIAVDPLG-IGTLTEAVQKAIARGIPVIDMGTLIA-PLQINVHSFLAPDNY- 106 (272)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCCC-hHHhHHHHHHHHHCCCcEEEeCCCCC-CCCCceEEEECCCcH-
Confidence 334456666888777778888876 7887654 444 33333333445567999999875433 211 12344567776
Q ss_pred hHHHHHHHHHHHhhC--CCcEEEEEEecCCC--CCcCCHHHHHHHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcC
Q 044527 160 SQSQARGISDFISVF--KWKEVILIHEDNTW--GNDNTIPYLFDSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSL 234 (860)
Q Consensus 160 ~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~--g~~~~~~~l~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~ 234 (860)
..++.+++.+... |.++++++..+... .. ...+.+++.+++.+ .++... .. ...........++++.+.
T Consensus 107 --~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~-~R~~gf~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~l~~ 180 (272)
T cd06313 107 --FMGASVAQALCNAMGGKGKIAMLQGALGHTGAQ-GRAQGFNDVIKKYPDIEVVDE--QP-ANWDVSKAARIWETWLTK 180 (272)
T ss_pred --HHHHHHHHHHHHHcCCCceEEEEECCCCCcchh-HHHHHHHHHHHhCCCCEEEec--cC-CCCCHHHHHHHHHHHHHh
Confidence 7788888888665 88899999765332 23 45788888998875 554431 11 112223334455554433
Q ss_pred --CCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 235 --DTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 235 --~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
.+++| ++.+...+..+++.+++.|+
T Consensus 181 ~~~~~ai-~~~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 181 YPQLDGA-FCHNDSMALAAYQIMKAAGR 207 (272)
T ss_pred CCCCCEE-EECCCcHHHHHHHHHHHcCC
Confidence 35554 44566677788999999996
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=97.19 E-value=0.044 Score=57.67 Aligned_cols=199 Identities=12% Similarity=0.096 Sum_probs=113.2
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||+++|... ..-.....+++-+.++.| +. +.+.++..++..-.+...+++.. ++.+|| .|.. +...
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~g-------~~--~~~~~~~~~~~~~~~~i~~~~~~-~vdgiii~~~~-~~~~ 69 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKELG-------AE--VIVQNANGDPAKQISQIENMIAK-GVDVLVIAPVD-GEAL 69 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHcC-------CE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecCC-hhhH
Confidence 4899998533 223344455555555421 33 44556667777766777777766 788766 4433 3333
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC------CCcEEEEEEecCCCCC-cCCH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF------KWKEVILIHEDNTWGN-DNTI 194 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~------~w~~v~ii~~~~~~g~-~~~~ 194 (860)
......+...++|+|......+ .. +...-+..++. ..++.+++.+... |-.+++++..+..... ....
T Consensus 70 ~~~l~~l~~~~ipvV~~~~~~~-~~-~~~~~v~~d~~---~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~ 144 (288)
T cd01538 70 ASAVEKAADAGIPVIAYDRLIL-NS-NVDYYVSFDNE---KVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFF 144 (288)
T ss_pred HHHHHHHHHCCCCEEEECCCCC-CC-CcceEEEeChH---HHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHH
Confidence 3444556678999999875544 22 11112344444 5566666666544 8889999976543222 0345
Q ss_pred HHHHHHHhhCC----ceEeEEEeccCCCCChHHHHHHHHhhhcC---CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 195 PYLFDSLHDND----IDIARRTSISLASSTHDQIIEKLSMLKSL---DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 195 ~~l~~~~~~~g----~~i~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
+.|++.+++.+ +++.... .. ...+...-...+.++.++ .+++|+ +.+...+..+++..++.|+.
T Consensus 145 ~gf~~~l~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~l~~~~~~~~~I~-~~~d~~a~g~~~al~~~g~~ 215 (288)
T cd01538 145 NGAMSVLKPLIDSGKITIVGEV-AT-PDWDPETAQKRMENALTANYNKVDGVL-AANDGTAGGAIAALKAAGLA 215 (288)
T ss_pred HHHHHHHHhccccCCeeEEecc-cc-CCCCHHHHHHHHHHHHHhCCCCccEEE-eCCcHHHHHHHHHHHHcCCC
Confidence 77788888887 4443221 11 112222233444454333 345553 44566777788999999964
No 174
>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=97.17 E-value=0.065 Score=56.84 Aligned_cols=204 Identities=14% Similarity=0.150 Sum_probs=113.7
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||++.|... ..-.....+++-+.++.+ ..+.+.+.+...++..-.+...+++.. ++.++| .|.. +...
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~-------~g~~~~~~~~~~~~~~q~~~i~~l~~~-~vdgiii~~~~-~~~~ 71 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG-------GKVEFTFYDAKNNQSTQNEQIDTALAK-GVDLLAVNLVD-PTAA 71 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC-------CCeeEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEecCc-hhhH
Confidence 5899988543 223345556666665541 234455567667777776777777776 788755 4555 4444
Q ss_pred HHHHHhhcCCCCcEEecccCCCcc--ccc--ceEeecCCCchhHHHHHHHHHHHhhC--CCc-----------EEEEEEe
Q 044527 122 QILADLGSRAKIPIISLFTTLPNS--LTS--YSIQIDQDDEASQSQARGISDFISVF--KWK-----------EVILIHE 184 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~--ls~--~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~-----------~v~ii~~ 184 (860)
......+...++|+|......+ . ..+ .+..+.+++. ..++..++++... +-+ .++++..
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~-~~~~~~~~~~~~V~~d~~---~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g 147 (303)
T cd01539 72 QTVINKAKQKNIPVIFFNREPE-EEDIKSYDKAYYVGTDAE---QSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKG 147 (303)
T ss_pred HHHHHHHHHCCCCEEEeCCCCc-ccccccccccceeeecHH---HHHHHHHHHHHHHhhccccccccCCCCceEEEEEEc
Confidence 4555556778999998864322 1 111 2334555655 5666666666442 211 2444544
Q ss_pred cCCC--CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhh-cC--CCeEEEEEeCHHHHHHHHHHHHHcC
Q 044527 185 DNTW--GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLK-SL--DTKVFVVHMTHALASHLFLNAKKLG 259 (860)
Q Consensus 185 ~~~~--g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~-~~--~~~viil~~~~~~~~~il~~a~~~g 259 (860)
+... .. ...+.+++.+++.|..+....... ...........+.++. +. .+++|+ +.+...+..+++.+++.|
T Consensus 148 ~~~~~~~~-~R~~gf~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~L~~~~~~~~ai~-~~~d~~a~g~~~al~~~g 224 (303)
T cd01539 148 EPGHPDAI-ARTKYSIETLNDAGIKTEELASDT-ANWDRAQAKDKMDALLLKYGDKIEAVI-ANNDAMALGAIEALQKYG 224 (303)
T ss_pred CCCCchhh-hhhhhHHHHHHhcCCCeEEEEeec-CCCCHHHHHHHHHHHHHhcCCCccEEE-ECCchHHHHHHHHHHHcC
Confidence 3222 22 346778889988887654322211 1222223333444443 32 256554 445556667888888888
Q ss_pred CccC
Q 044527 260 MMSK 263 (860)
Q Consensus 260 l~~~ 263 (860)
...+
T Consensus 225 ~~~p 228 (303)
T cd01539 225 YNKG 228 (303)
T ss_pred CCcC
Confidence 6543
No 175
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.17 E-value=0.037 Score=59.45 Aligned_cols=208 Identities=9% Similarity=0.071 Sum_probs=115.5
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCCh
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTP 118 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s 118 (860)
++-.||+++|... +.-.....+++-+.++ . ++.+.+ .++..++..-.+....+.+. +|+++|= |...+
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~---~----g~~~~~--~~~~~~~~~~~~~~~~l~~~-~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE---R----GYSLVL--CNTEGDEQRMNRNLETLMQK-RVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH---c----CCEEEE--EeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCcc
Confidence 3467999998643 3333445555555544 2 245544 44455666555555566655 7887663 32202
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHH
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPY 196 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~ 196 (860)
..... .+....++|+|....... . .....+..++. .-+..+++.+...|-+++++|..... ... ...+.
T Consensus 125 ~~~~~--~l~~~~~iPvV~i~~~~~-~--~~~~~v~~d~~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~G 195 (327)
T PRK10423 125 QPSRE--IMQRYPSVPTVMMDWAPF-D--GDSDLIQDNSL---LGGDLATQYLIDKGYTRIACITGPLDKTPAR-LRLEG 195 (327)
T ss_pred hhhHH--HHHhcCCCCEEEECCccC-C--CCCCEEEEChH---HHHHHHHHHHHHcCCCeEEEEeCCccccchH-HHHHH
Confidence 11111 122224899998864222 1 11122334444 45677888888889999999965432 233 45688
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.+++.|+++.....+. .+.....-...+.++.+. .+++| ++++...+..+++.+++.|+..++-+-++
T Consensus 196 f~~al~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 196 YRAAMKRAGLNIPDGYEVT-GDFEFNGGFDAMQQLLALPLRPQAV-FTGNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHHcCCCCCcceEEe-CCCChHHHHHHHHHHhcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8999999987653221111 112222223344444333 45665 44566677889999999997655544443
No 176
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.16 E-value=0.03 Score=58.02 Aligned_cols=191 Identities=13% Similarity=0.101 Sum_probs=109.8
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 45 VGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 45 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
||++.|... +.-.....+++-++++ . ++++.+...++ +. ...+...+++.. +++++|--.+ .... .
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~---~----g~~~~~~~~~~--~~-~~~~~i~~~~~~-~vdgiii~~~-~~~~-~ 68 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA---R----GYQPLLINTDD--DE-DLDAALRQLLQY-RVDGVIVTSG-TLSS-E 68 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH---C----CCeEEEEcCCC--CH-HHHHHHHHHHHc-CCCEEEEecC-CCCH-H
Confidence 788887543 2223334444333332 2 25666554443 22 233444555554 8888775333 2222 2
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDSL 201 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~~ 201 (860)
..+.+...++|+|......+ . +.+..+.+++. ..++.+++.+...|-++++++..+.. ... ...+.+.+.+
T Consensus 69 ~~~~~~~~~ipvV~~~~~~~-~--~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~~ 141 (266)
T cd06278 69 LAEECRRNGIPVVLINRYVD-G--PGVDAVCSDNY---EAGRLAAELLLAKGCRRIAFIGGPADTSTSR-ERERGFRDAL 141 (266)
T ss_pred HHHHHhhcCCCEEEECCccC-C--CCCCEEEEChH---HHHHHHHHHHHHCCCceEEEEcCCCcccchH-HHHHHHHHHH
Confidence 34556678999999864433 1 23344666777 88888889888889999999986543 233 4567888899
Q ss_pred hhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcC
Q 044527 202 HDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLG 259 (860)
Q Consensus 202 ~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~g 259 (860)
++.|.++.... .. ..+..+....+.++.+. .+++|+.. +...+..+++..++.+
T Consensus 142 ~~~~~~~~~~~-~~--~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 142 AAAGVPVVVEE-AG--DYSYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQEG 197 (266)
T ss_pred HHcCCChhhhc-cC--CCCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhc
Confidence 88887643221 11 12223333444444333 45665444 4555667777777654
No 177
>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=97.16 E-value=0.037 Score=58.83 Aligned_cols=202 Identities=17% Similarity=0.107 Sum_probs=117.0
Q ss_pred EEEEEecC-C-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhcc-CCeEEEEe-cCCChhH
Q 044527 45 VGIILDMR-S-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQN-VDLQAIIC-IGMTPTG 120 (860)
Q Consensus 45 IG~l~~~~-~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~-~~v~aviG-p~~~s~~ 120 (860)
||+++|.. . +.-.....+++.+.++. ++.+.+ .++..++..-......++.+ .+|.+||= |.. . .
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~-~-~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTNEK-S-V 70 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCc-c-c
Confidence 78888764 3 22334455555555442 245544 35555666666666666653 26887653 333 2 2
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccc------------cceEeecCCCchhHHHHHHHHHHHhhCCCcE--------EE
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLT------------SYSIQIDQDDEASQSQARGISDFISVFKWKE--------VI 180 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls------------~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~--------v~ 180 (860)
.......+...++|+|......+ ... .++-.+.+++. ..++.+++.+.+.+-++ ++
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~-~~~~~~~~~~~~~~~~~~~~V~~d~~---~~g~~~~~~l~~~g~~~~~~~g~~~i~ 146 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLT-EAQARELGPPREKFPDWLGQLLPNDE---EAGYLMAEALISQARSVQAPGGRIDLL 146 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCC-cchhhcccccccccCceeeeeccCcH---HHHHHHHHHHHHHhhcccCCCCceeEE
Confidence 33344556678999998875433 211 12455667777 77888888887666553 77
Q ss_pred EEEecCC--CCCcCCHHHHHHHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHH
Q 044527 181 LIHEDNT--WGNDNTIPYLFDSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNA 255 (860)
Q Consensus 181 ii~~~~~--~g~~~~~~~l~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a 255 (860)
++..... ... ...+.+++.+++.| ..+... .. .......-...+.++.++ ++++|+ +.+...+..+++.+
T Consensus 147 ~i~~~~~~~~~~-~R~~Gf~~~~~~~g~~~~~~~--~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al 221 (305)
T cd06324 147 AISGDPTTPAAI-LREAGLRRALAEHPDVRLRQV--VY-AGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAA 221 (305)
T ss_pred EEeCCCCChHHH-HHHHHHHHHHHHCCCceEeee--ec-CCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHH
Confidence 7764332 223 45677888998887 443221 11 112233334455554332 456654 55677778899999
Q ss_pred HHcCCccCCeE
Q 044527 256 KKLGMMSKGYV 266 (860)
Q Consensus 256 ~~~gl~~~~~~ 266 (860)
++.|+..++.+
T Consensus 222 ~~~g~~vp~di 232 (305)
T cd06324 222 KEAGRKPGRDV 232 (305)
T ss_pred HHcCCCcCCCE
Confidence 99997644433
No 178
>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=97.15 E-value=0.04 Score=57.39 Aligned_cols=207 Identities=10% Similarity=0.074 Sum_probs=119.0
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCC-Chh-H
Q 044527 45 VGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGM-TPT-G 120 (860)
Q Consensus 45 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~-~s~-~ 120 (860)
||++.|... +.-.....+++-++++ . ++.+. +.++..++..-.+....+..+ +++++|= |.. ... .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~----~---g~~~~--~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ----Y---GYTVL--LCNTYRGGVSEADYVEDLLAR-GVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH----C---CCEEE--EEeCCCChHHHHHHHHHHHHc-CCCEEEEeCCCCCcccc
Confidence 788888643 2233444555555554 2 24553 445555666666666677766 7887663 222 011 1
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPYLF 198 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~l~ 198 (860)
.......+...++|+|......+ .-. .+-.+..++. ..+..+++.+...|-++++++...... .. ...+.++
T Consensus 72 ~~~~i~~~~~~~ipvV~i~~~~~-~~~-~~~~V~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~ 145 (273)
T cd06292 72 DHSHYERLAERGLPVVLVNGRAP-PPL-KVPHVSTDDA---LAMRLAVRHLVALGHRRIGFASGPGRTVPRR-RKIAGFR 145 (273)
T ss_pred hhHHHHHHHhCCCCEEEEcCCCC-CCC-CCCEEEECcH---HHHHHHHHHHHHCCCceEEEEeCCcccccHH-HHHHHHH
Confidence 22223345677999999875443 211 1223555666 778888888888899999999754332 23 4467888
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+.+++.|+......... ...+.......+.++....+++|+ +++...+..+++...+.|+..++-+-++
T Consensus 146 ~~~~~~~~~~~~~~i~~-~~~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 146 AALEEAGLEPPEALVAR-GMFSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHHcCCCCChhheEe-CCCCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 88988886432111111 112222333344444434477654 4566677788899999997544444443
No 179
>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=97.13 E-value=0.035 Score=59.72 Aligned_cols=204 Identities=10% Similarity=0.115 Sum_probs=114.8
Q ss_pred ceEEEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCCh
Q 044527 41 DEVHVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTP 118 (860)
Q Consensus 41 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s 118 (860)
.+-.||+++|.. .+.-.....+++-++++ . ++.+.+ .+...++..-.+....+..+ +++++|- |.. .
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~----~---gy~~~i--~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~-~ 127 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE----A---GYQLLI--ACSDDNPDQEKVVIENLLAR-QVDALIVASCM-P 127 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH----C---CCEEEE--EeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCC-C
Confidence 356899999843 33333344444444432 2 245544 34444555545555555555 7887653 433 2
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHH
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPY 196 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~ 196 (860)
..... ...+...++|+|......+ .. .+-.+.+++. .-+..+++.+...|.++++++..... ... ...+.
T Consensus 128 ~~~~~-~~~l~~~~iPvV~~~~~~~-~~--~~~~V~~dn~---~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~G 199 (327)
T TIGR02417 128 PEDAY-YQKLQNEGLPVVALDRSLD-DE--HFCSVISDDV---DAAAELIERLLSQHADEFWYLGAQPELSVSR-DRLAG 199 (327)
T ss_pred CChHH-HHHHHhcCCCEEEEccccC-CC--CCCEEEeCcH---HHHHHHHHHHHHCCCCeEEEEeCcccchhHH-HHHHH
Confidence 12222 3344567999998875433 21 1222445555 55666777777788899999975443 223 45678
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC---CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL---DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+++.+++.|+....... ......+-...+.++.+. .+++|+. ++...+..+++.+++.| ..++-+-+
T Consensus 200 f~~al~~~~~~~~~~~~---~~~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvsv 269 (327)
T TIGR02417 200 FRQALKQATLEVEWVYG---GNYSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLHL 269 (327)
T ss_pred HHHHHHHcCCChHhEEe---CCCChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcceE
Confidence 88999888875322111 112222233444554332 3677655 45567788999999999 55544433
No 180
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.12 E-value=0.052 Score=58.23 Aligned_cols=201 Identities=13% Similarity=0.110 Sum_probs=126.6
Q ss_pred ceEEEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+-.||+++|-- ++.-.+...|++.+.++- -..+.+.++..++..-.+....+.+. +|+++|=-.. .
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~---------gy~~~l~~~~~~~~~e~~~~~~l~~~-~vdGiIi~~~--~ 124 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREA---------GYSLLLANTDDDPEKEREYLETLLQK-RVDGLILLGE--R 124 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHc---------CCEEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecC--C
Confidence 457799999932 223334555555555442 23444555555666655555556555 8988764322 1
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecC--CCCCcCCHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDN--TWGNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~--~~g~~~~~~~l 197 (860)
........+...++|+|......+ .. .+..+.+++. .-++.+++.+...|-++++++.... ..+. ...+.+
T Consensus 125 ~~~~~~~~l~~~~~P~V~i~~~~~-~~--~~~~V~~Dn~---~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~-~R~~Gf 197 (333)
T COG1609 125 PNDSLLELLAAAGIPVVVIDRSPP-GL--GVPSVGIDNF---AGAYLATEHLIELGHRRIAFIGGPLDSSASR-ERLEGY 197 (333)
T ss_pred CCHHHHHHHHhcCCCEEEEeCCCc-cC--CCCEEEEChH---HHHHHHHHHHHHCCCceEEEEeCCCccccHh-HHHHHH
Confidence 223344456666999998875433 11 3445566776 7788899999999999999999873 3334 567899
Q ss_pred HHHHhhCCceE--eEEEeccCCCCChHHHHHHHHhhhcCC---CeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 198 FDSLHDNDIDI--ARRTSISLASSTHDQIIEKLSMLKSLD---TKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 198 ~~~~~~~g~~i--~~~~~~~~~~~~~~~~~~~l~~i~~~~---~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
.+.+++.|+.. .....-. ....+-...+.++.... +++| ++++...|..+++.+.+.|+..++
T Consensus 198 ~~al~~~~~~~~~~~i~~~~---~~~~~g~~~~~~ll~~~~~~ptAi-f~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 198 RAALREAGLPINPEWIVEGD---FSEESGYEAAERLLARGEPRPTAI-FCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHHHCCCCCCcceEEecC---CChHHHHHHHHHHHhcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCC
Confidence 99999999875 2222211 23334444444444322 6666 566777889999999999975444
No 181
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=97.08 E-value=0.037 Score=57.19 Aligned_cols=197 Identities=11% Similarity=0.027 Sum_probs=116.3
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
+||++.|... +.-.....+++.+.++.| +.+.+ .++..++....+....+... ++.+||= |.. .. .
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~g-------~~~~~--~~~~~~~~~~~~~i~~l~~~-~vdgiii~~~~-~~-~ 68 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKHG-------YKVVL--LQTNYDKEKELEYLELLKTK-QVDGLILCSRE-ND-W 68 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHcC-------CEEEE--EeCCCChHHHHHHHHHHHHc-CCCEEEEeCCC-CC-H
Confidence 3788888643 334566677777766532 45544 45555666555666666665 7887663 332 22 2
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFD 199 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~ 199 (860)
..+..+.+ .+ |+|..... . . ...-.+.+++. ..+..+++.+...|-++++++..+.. ... ...+.+.+
T Consensus 69 ~~~~~~~~-~~-pvv~~~~~-~-~--~~~~~v~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~Gf~~ 138 (260)
T cd06286 69 EVIEPYTK-YG-PIVLCEEY-D-S--KNISSVYIDHY---EAFYEALKYLIQKGYRKIAYCIGRKKSLNSQ-SRKKAYKD 138 (260)
T ss_pred HHHHHHhc-CC-CEEEEecc-c-C--CCCCEEEECCh---HHHHHHHHHHHHCCCceEEEEcCCcccchhH-HHHHHHHH
Confidence 33333333 34 88876532 2 1 11223556666 77888888888889999999976532 333 45678889
Q ss_pred HHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 200 SLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 200 ~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
.+++.|+++.....+. ......+-...+.++.+ ..+++| ++++...+..+++.+++.|+..++
T Consensus 139 ~l~~~~~~~~~~~i~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ip~ 203 (260)
T cd06286 139 ALEEYGLTPDEEWIFE-GCFTIEDGERIGHQLLKMKDRPDAI-FTGSDEVAAGIITEAKKQGIRVPE 203 (260)
T ss_pred HHHHcCCCCChHheEe-CCCCHHHHHHHHHHHHcCCCCCCEE-EEcchHHHHHHHHHHHHcCCCCCc
Confidence 9999886643211111 11222233344455443 345655 466677788899999999975444
No 182
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.08 E-value=0.044 Score=59.35 Aligned_cols=206 Identities=12% Similarity=0.093 Sum_probs=112.8
Q ss_pred ceEEEEEEEec-CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDM-RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+-.||+++|. +.+.-.....+++-+.++ .+ +.+ .+.+...++..-.+....++.+ +++++|--.. ..
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~---~g----~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~-~~ 126 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH---TG----NFL--LIGNGYHNEQKERQAIEQLIRH-RCAALVVHAK-MI 126 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH---cC----CEE--EEEeCCCCHHHHHHHHHHHHhc-CCCEEEEecC-CC
Confidence 45789999874 233223344444444433 22 343 3445555665555555566655 7887763221 11
Q ss_pred HHHHHHHhhcCCCCc-EEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHH
Q 044527 120 GAQILADLGSRAKIP-IISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPY 196 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip-~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~ 196 (860)
....+..+.. ++| +|......+ ... +-.+.+++. .-+..+++.+...|.+++++|..... ... ...+.
T Consensus 127 ~~~~~~~~~~--~~p~vV~i~~~~~-~~~--~~~V~~Dn~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~G 197 (343)
T PRK10727 127 PDAELASLMK--QIPGMVLINRILP-GFE--NRCIALDDR---YGAWLATRHLIQQGHTRIGYLCSNHSISDAE-DRLQG 197 (343)
T ss_pred ChHHHHHHHh--cCCCEEEEecCCC-CCC--CCEEEECcH---HHHHHHHHHHHHCCCccEEEEeCCccccchH-HHHHH
Confidence 1122333333 677 676653322 111 112455555 66677777787789999999975543 233 45688
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
|++.+++.|+.+....... .+.....-...++++.+. .+++|+ +.+...+..+++.+++.|+..++-+-+
T Consensus 198 f~~al~~~gi~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~disV 269 (343)
T PRK10727 198 YYDALAESGIPANDRLVTF-GEPDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEISL 269 (343)
T ss_pred HHHHHHHCCCCCChhhEEe-CCCChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceeE
Confidence 8999999987643211111 112222223344444333 356654 556777888999999999755544433
No 183
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.07 E-value=0.007 Score=64.64 Aligned_cols=106 Identities=17% Similarity=0.130 Sum_probs=59.4
Q ss_pred HhhhcCCcEEEecCCcHHHhhh----cCCCCCcCc-cccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeecc
Q 044527 675 IKLASMDNIGSQLGSVVPGALS----NLNFKDSRL-KKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAA 749 (860)
Q Consensus 675 ~~~~~~~~i~~~~~~~~~~~~~----~~~~~~~~~-~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~ 749 (860)
++++.+++|++..++..+..+. +.+.+...+ ..+.+..+...++.+|++|+++...++......+...++.....
T Consensus 124 ~~dL~Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~vDa~~~~ep~~~~~~~~~~~~~~~~~~ 203 (314)
T PRK11553 124 VADLKGHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGNVDAWAIWDPYYSAALLQGGVRVLKDGT 203 (314)
T ss_pred HHHhCCCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCCCCEEEEcCcHHHHHHhcCCcEEeecCc
Confidence 3445899999887776655543 333332222 23446678889999999999988877766554443212222222
Q ss_pred ccccccCceEEEeccCC--cchHHHHHHHHHHhhc
Q 044527 750 KYTTSTNGFGFVFQKGS--PLVHDISRAIARLREE 782 (860)
Q Consensus 750 ~~~~~~~~~~~~~~k~s--pl~~~in~~i~~l~e~ 782 (860)
.+ ......+.+++.. -..+.+++++..+.+.
T Consensus 204 ~~--~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A 236 (314)
T PRK11553 204 DL--NQTGSFYLAARPYAEKNGAFIQQVLATLTEA 236 (314)
T ss_pred cc--CcCceEEEEcHHHHHHCHHHHHHHHHHHHHH
Confidence 23 2223233333321 1555566666555554
No 184
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.05 E-value=0.28 Score=52.27 Aligned_cols=201 Identities=11% Similarity=0.065 Sum_probs=114.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
+||++.|... +.-.....+++-+.++. ++++.+...+...++....+...+++.+ ++++||- |.. +...
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-------g~~v~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~-~~~~ 96 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL-------GVSVDIFASPSEGDFQSQLQLFEDLSNK-NYKGIAFAPLS-SVNL 96 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc-------CCeEEEecCCCCCCHHHHHHHHHHHHHc-CCCEEEEeCCC-hHHH
Confidence 6999998643 22233444444444432 2566654334445666666667777766 7887754 333 3322
Q ss_pred HHHHHhhcCCCCcEEecccCCCc-ccc--c--ceEeecCCCchhHHHHHHHHHHHhh-CCC--cEEEEEEecCC--CCCc
Q 044527 122 QILADLGSRAKIPIISLFTTLPN-SLT--S--YSIQIDQDDEASQSQARGISDFISV-FKW--KEVILIHEDNT--WGND 191 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~-~ls--~--~~~r~~p~~~~~~~~~~ai~~~l~~-~~w--~~v~ii~~~~~--~g~~ 191 (860)
.+....+...++|+|......+. .+. + ...-+.+++. ..++..++++.+ .|- ++++++..+.. ...
T Consensus 97 ~~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~---~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~- 172 (311)
T PRK09701 97 VMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNV---AVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGE- 172 (311)
T ss_pred HHHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchH---HHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHH-
Confidence 22223345679999998754320 111 1 2233556666 778888887744 453 79999865433 233
Q ss_pred CCHHHHHHHHhhCC-ceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 192 NTIPYLFDSLHDND-IDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 192 ~~~~~l~~~~~~~g-~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
...+.+++.+++.| +++..... . .....+-...++++.+. .+++| ++.+...+..+++.+++.|..
T Consensus 173 ~R~~Gf~~al~~~~~~~~~~~~~-~--~~~~~~~~~~~~~ll~~~~~~~~I-~~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 173 ARRNGATEAFKKASQIKLVASQP-A--DWDRIKALDVATNVLQRNPNIKAI-YCANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred HHHHHHHHHHHhCCCcEEEEecC-C--CCCHHHHHHHHHHHHHhCCCCCEE-EECCcchHHHHHHHHHHcCCC
Confidence 45678889998887 76543221 1 12222233444554333 35654 456666788889999999963
No 185
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.04 E-value=0.035 Score=57.70 Aligned_cols=201 Identities=11% Similarity=0.008 Sum_probs=112.6
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 45 VGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 45 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
||++.|... +.-.....+++.+.++. ++.+.+...++ + ....+...+++...+|++||=-.. ... ..
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~-------gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~-~~~-~~ 69 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQ-------RYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASY-DLT-ER 69 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHC-------CCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecC-ccC-hH
Confidence 788888643 33344555555555552 25666544332 2 222233333333447877653222 222 23
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--------CCCcCCHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--------WGNDNTIP 195 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--------~g~~~~~~ 195 (860)
....+...++|+|......+ .. ..+.+++. .-+..+++.|... .++++++..... .+. ...+
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~-~~----~~v~~d~~---~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~-~R~~ 139 (269)
T cd06297 70 LAERRLPTERPVVLVDAENP-RF----DSFYLDNR---LGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFA-ERRA 139 (269)
T ss_pred HHHHHhhcCCCEEEEccCCC-CC----CEEEECcH---HHHHHHHHHHHHh-CCceEEEeCccccccccccccHH-HHHH
Confidence 33445667999998875333 21 12345666 6677777777666 789999865322 233 4578
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
.+++.+++.|+++.....+. .+....+....+.++.+. .+++| ++++...+..+++.+++.|...++...++
T Consensus 140 gf~~~~~~~g~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAI-TDHSEEGGRLAMRHLLEKASPPLAV-FASADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHcCCCCChhhEEe-CCCChhhHHHHHHHHHcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 88999999888654321111 112223334455555433 34555 44466678889999999997655554444
No 186
>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=97.04 E-value=0.031 Score=57.82 Aligned_cols=198 Identities=11% Similarity=0.008 Sum_probs=107.1
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
|||+++|... ....+...+..++++.-++. ++.+ .+.++. ++....+....+... ++++||=... . ....
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~---gy~~--~~~~~~-~~~~~~~~~~~l~~~-~vdgiii~~~-~-~~~~ 70 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL---GVEV--KYVESV-EDADYEPNLRQLAAQ-GYDLIFGVGF-G-FMDA 70 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc---CceE--EEEecC-CHHHHHHHHHHHHHc-CCCEEEECCc-c-hhHH
Confidence 5899998411 11134444444555543332 2443 344444 555544555556555 7887765333 2 2233
Q ss_pred HHHhhcC-CCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC-CCcEEEEEEecC-CCCCcCCHHHHHHH
Q 044527 124 LADLGSR-AKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF-KWKEVILIHEDN-TWGNDNTIPYLFDS 200 (860)
Q Consensus 124 ~~~~~~~-~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~-~w~~v~ii~~~~-~~g~~~~~~~l~~~ 200 (860)
+...+.. .++|++......+ . ...+-.+..++. .-++.++.++... |-++++++..+. .... ...+.|++.
T Consensus 71 ~~~~~~~~~~ipvv~~~~~~~-~-~~~~~~v~~d~~---~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~-~R~~Gf~~~ 144 (260)
T cd06304 71 VEKVAKEYPDVKFAIIDGVVD-A-PPNVASYVFREY---EGSYLAGVLAALMTKTGKVGFVGGMPIPEVN-RFINGFAAG 144 (260)
T ss_pred HHHHHHHCCCCEEEEecCccC-C-CCCeeeeecchH---HHHHHHHHHHHHhccCCceEEEeccccHHHH-HHHHHHHHH
Confidence 4344443 3789888764333 2 011122333433 4444455666554 889999997543 2223 446788899
Q ss_pred HhhCCceEeEEEeccCCCC-ChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcC
Q 044527 201 LHDNDIDIARRTSISLASS-THDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLG 259 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g 259 (860)
+++.|..+....... ... +...-...++++.+..+++| ++.+...+..+++++++.|
T Consensus 145 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 145 AKSVNPDITVLVIYT-GSFFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHHhCCCcEEEEEEe-cCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 998886543321111 112 12233345556555567775 6667777778899999888
No 187
>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=97.02 E-value=0.035 Score=57.62 Aligned_cols=196 Identities=12% Similarity=0.021 Sum_probs=105.1
Q ss_pred EEEEEEecC----CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 44 HVGIILDMR----SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 44 ~IG~l~~~~----~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
+||++.|.. .+.-.....|++.+.++ .+ +.+.+. +.. ++..-.+....+... +|.+||--.. .
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~----~g---y~~~i~--~~~-~~~~~~~~i~~l~~~-~vdgiI~~~~-~- 67 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE----LG---IEYKYV--ESK-SDADYEPNLEQLADA-GYDLIVGVGF-L- 67 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH----cC---CeEEEE--ecC-CHHHHHHHHHHHHhC-CCCEEEEcCc-c-
Confidence 589999852 22233444455555554 22 444443 332 344334445555554 8988875322 2
Q ss_pred HHHHHHHhhcCC-CCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh-CCCcEEEEEEecCCCCCcCCHHHH
Q 044527 120 GAQILADLGSRA-KIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV-FKWKEVILIHEDNTWGNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~-~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~l 197 (860)
............ ++|++..+...+ ...+ +-.+..++. .-+..++.++.. .|-++++++..+.........+.+
T Consensus 68 ~~~~~~~~~~~~~~~PiV~i~~~~~-~~~~-~~~v~~d~~---~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf 142 (265)
T cd06354 68 LADALKEVAKQYPDQKFAIIDAVVD-DPPN-VASIVFKEE---EGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGF 142 (265)
T ss_pred hHHHHHHHHHHCCCCEEEEEecccC-CCCc-EEEEEecch---hHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHH
Confidence 122344455554 899998864333 2111 223334444 444444566654 388999999754321220223678
Q ss_pred HHHHhhCC---ceEeEEEeccCCCCC-hHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcC
Q 044527 198 FDSLHDND---IDIARRTSISLASST-HDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLG 259 (860)
Q Consensus 198 ~~~~~~~g---~~i~~~~~~~~~~~~-~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g 259 (860)
++.+++.| ..+....... ...+ ..+-...++++.++++++| ++.+...+..+++.+++.|
T Consensus 143 ~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ll~~~pdaI-~~~nd~~A~gv~~al~~~g 206 (265)
T cd06354 143 EAGVKYVNPGVPDIEVLVQYA-GSFNDPAKGKEIAQAMYDQGADVI-FAAAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHHhccCCCceEEEEEc-CcccCHHHHHHHHHHHHHCCCcEE-EECCCCCchHHHHHHHhcC
Confidence 88888888 6543221111 1122 2233345566555567875 4446667778899999887
No 188
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.01 E-value=0.2 Score=53.85 Aligned_cols=199 Identities=9% Similarity=0.028 Sum_probs=108.7
Q ss_pred EEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhH
Q 044527 43 VHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTG 120 (860)
Q Consensus 43 i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~ 120 (860)
.+|+++....+ +.-.....|++-|.++. ++++.+. ..+..++..-++...+++++ +|.+|+- |.. +..
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~-------G~~v~~~-~~~~~d~~~q~~~i~~li~~-~vdgIiv~~~d-~~a 93 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL-------GVDVTYD-GPTEPSVSGQVQLINNFVNQ-GYNAIIVSAVS-PDG 93 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh-------CCEEEEE-CCCCCCHHHHHHHHHHHHHc-CCCEEEEecCC-HHH
Confidence 47998876554 32334555666655543 2556542 23445666666777788876 8887654 555 555
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecC-CCchhHHHHHHHHHHHhh-C--CCcEEEEEEecCCCCC-cCCHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQ-DDEASQSQARGISDFISV-F--KWKEVILIHEDNTWGN-DNTIP 195 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p-~~~~~~~~~~ai~~~l~~-~--~w~~v~ii~~~~~~g~-~~~~~ 195 (860)
..+...-+...+||+|.+.+..+ . ....+-+.+ ++. ..++.+++.+.+ . +-.+++++........ ....+
T Consensus 94 l~~~l~~a~~~gIpVV~~d~~~~-~-~~~~~~V~~~~~~---~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~ 168 (336)
T PRK15408 94 LCPALKRAMQRGVKVLTWDSDTK-P-ECRSYYINQGTPE---QLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVK 168 (336)
T ss_pred HHHHHHHHHHCCCeEEEeCCCCC-C-ccceEEEecCCHH---HHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHH
Confidence 55666667888999999875433 2 121222222 223 456555555543 2 3468998875432111 02345
Q ss_pred HHHHHHhhC--CceEeEEEeccCCCCChHHHHHHHHhhhcCCC--eEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 196 YLFDSLHDN--DIDIARRTSISLASSTHDQIIEKLSMLKSLDT--KVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 196 ~l~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~--~viil~~~~~~~~~il~~a~~~gl 260 (860)
.+++.+.+. +++++.... . ..+...-....+++.++.+ ++|+.. +...+...+++.++.|+
T Consensus 169 g~~~~l~~~~p~~~vv~~~~-~--~~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 169 EAKAKIAKEHPGWEIVTTQF-G--YNDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHHHhhCCCCEEEeecC-C--CCcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHHHhCCC
Confidence 666666543 566654321 1 1223333345555554444 455433 33344457888888885
No 189
>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=96.99 E-value=0.021 Score=60.28 Aligned_cols=181 Identities=15% Similarity=0.154 Sum_probs=105.2
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
+||++-..+.+.-.+...|++-++++..-. . ..+++...+..+|+..+.+.+.++... +++.|+--. +.++..
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~---~-~~~~~~~~~a~~d~~~~~~~~~~l~~~-~~DlIi~~g--t~aa~~ 73 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYD---E-KNVEIEYKNAEGDPEKLRQIARKLKAQ-KPDLIIAIG--TPAAQA 73 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT-----C-CCEEEEEEE-TT-HHHHHHHHHHHCCT-S-SEEEEES--HHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCc---c-ccEEEEEecCCCCHHHHHHHHHHHhcC-CCCEEEEeC--cHHHHH
Confidence 588888887765455667777776654322 2 467888889999999988888877665 777777543 345555
Q ss_pred HHHhhcCCCCcEEecccCCCccccc----------ceEeecCCCchhHHHHHHHHHHHhh-C-CCcEEEEEEecCCC-CC
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTS----------YSIQIDQDDEASQSQARGISDFISV-F-KWKEVILIHEDNTW-GN 190 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~----------~~~r~~p~~~~~~~~~~ai~~~l~~-~-~w~~v~ii~~~~~~-g~ 190 (860)
+....... +|+|-.+.++| ...+ ++.-+. +. ...+.-.+++++ + +-++++++|+++.- +.
T Consensus 74 ~~~~~~~~-iPVVf~~V~dp-~~~~l~~~~~~~~~nvTGv~--~~---~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~ 146 (294)
T PF04392_consen 74 LAKHLKDD-IPVVFCGVSDP-VGAGLVDSLDRPGKNVTGVS--ER---PPIEKQLELIKKLFPDAKRIGVLYDPSEPNSV 146 (294)
T ss_dssp HHHH-SS--S-EEEECES-T-TTTTS-S-SSS--SSEEEEE--E------HHHHHHHHHHHSTT--EEEEEEETT-HHHH
T ss_pred HHHhcCCC-cEEEEEeccCh-hhhhccccccCCCCCEEEEE--CC---cCHHHHHHHHHHhCCCCCEEEEEecCCCccHH
Confidence 55554443 99998887666 3322 222222 22 223344444444 3 46899999987653 33
Q ss_pred cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 191 DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 191 ~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
...+.+++.+++.|++++... + .+..++...++.+.+ +.+++++..+.
T Consensus 147 -~~~~~~~~~a~~~g~~l~~~~-v----~~~~~~~~~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 147 -AQIEQLRKAAKKLGIELVEIP-V----PSSEDLEQALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp -HHHHHHHHHHHHTT-EEEEEE-E----SSGGGHHHHHHHHCT-T-SEEEE-S-H
T ss_pred -HHHHHHHHHHHHcCCEEEEEe-c----CcHhHHHHHHHHhhc-cCCEEEEECCc
Confidence 567788888899999987543 2 345677788887754 56888776654
No 190
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=96.98 E-value=0.0093 Score=61.00 Aligned_cols=118 Identities=11% Similarity=0.020 Sum_probs=73.1
Q ss_pred hhHhhhcCCcEEEecCCcH------HHhh-hcCCCCC---cCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc--
Q 044527 673 QQIKLASMDNIGSQLGSVV------PGAL-SNLNFKD---SRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY-- 740 (860)
Q Consensus 673 ~~~~~~~~~~i~~~~~~~~------~~~~-~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-- 740 (860)
+.+++++|+++++...+.. ...+ ++.++.. -+.+...+.+..++.|.+|++|+.+......+-+....
T Consensus 98 ~~l~dL~Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~~Da~~~~~~~~~~~~~~~~~ 177 (243)
T PF12974_consen 98 TSLADLKGKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGKADAAAIPSDAFERLEAEGPD 177 (243)
T ss_dssp -SHHHHGGSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTSSSEEEEEHHHHHHHHHH-HH
T ss_pred CChhhcCCCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCCccEEEEechhHHHHHHccCc
Confidence 3445569999998754432 2233 3334332 13334568888999999999999999988877766542
Q ss_pred -CccceeeccccccccCceEEEeccCCc--chHHHHHHHHHHhhcchHHHHHHHH
Q 044527 741 -SAHYTTAAAKYTTSTNGFGFVFQKGSP--LVHDISRAIARLREEGTLAKIENVW 792 (860)
Q Consensus 741 -~~~l~~~~~~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G~~~~~~~~~ 792 (860)
.++++++..-- ......++.+++-| .++.+-.+++.+..+-.-..+.+.+
T Consensus 178 ~~~~~rvl~~s~--~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 178 IPSQLRVLWTSP--PYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHTTEEEEEEEE--EEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred ccccEEEEEEeC--CCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 34677776532 22344677777765 9999999999999754444444444
No 191
>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=96.94 E-value=0.072 Score=55.45 Aligned_cols=206 Identities=13% Similarity=0.154 Sum_probs=119.2
Q ss_pred EEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChh---H
Q 044527 45 VGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPT---G 120 (860)
Q Consensus 45 IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~---~ 120 (860)
||++.|.... .+...+...+++.-++.+ +.+ .+.++..++....+...+++.. +|+++| .|.. +. .
T Consensus 2 igvv~~~~~~---~~~~~~~~gi~~~~~~~g---~~~--~~~~~~~~~~~~~~~i~~l~~~-~vdgii~~~~~-~~~~~~ 71 (273)
T cd01541 2 IGVITTYISD---YIFPSIIRGIESVLSEKG---YSL--LLASTNNDPERERKCLENMLSQ-GIDGLIIEPTK-SALPNP 71 (273)
T ss_pred eEEEeCCccc---hhHHHHHHHHHHHHHHcC---CEE--EEEeCCCCHHHHHHHHHHHHHc-CCCEEEEeccc-cccccc
Confidence 7888875332 233334444444433322 344 4455667777777777788776 888876 3332 21 1
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-CCCcCCHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-WGNDNTIPYLFD 199 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~l~~ 199 (860)
.......+...++|+|......+ .. .+..+..++. .-+..+++.+...|.++++++...+. .+. ...+.+++
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~-~~--~~~~V~~D~~---~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~-~r~~g~~~ 144 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYE-EL--NFPSLVLDDE---KGGYKATEYLIELGHRKIAGIFKADDLQGV-KRMKGFIK 144 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCC-CC--CCCEEEECcH---HHHHHHHHHHHHcCCcCEEEecCCCcccHH-HHHHHHHH
Confidence 11223345667999998875433 21 2234566666 77788888888889999999875432 233 44577888
Q ss_pred HHhhCCceEeEE--EeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 200 SLHDNDIDIARR--TSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 200 ~~~~~g~~i~~~--~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
.+++.|..+... .... ...........++++.+ ..+++| ++.+...+..+++.+++.|+..++.+-++
T Consensus 145 ~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 145 AYREHGIPFNPSNVITYT-TEEKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHHcCCCCChHHEEecc-ccchhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 888888643211 1111 11111233444555433 345665 45666777789999999997555444443
No 192
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.93 E-value=0.057 Score=55.86 Aligned_cols=200 Identities=13% Similarity=0.112 Sum_probs=114.9
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
.||+++|... +.-.....+++.++++ . ++++.+ .++..++..-......+... +++++| .|.. ....
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~---~----g~~~~~--~~~~~~~~~~~~~i~~l~~~-~~dgiii~~~~-~~~~ 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR---A----GLRVIL--CNTDEDPEKEAMYLELMEEE-RVTGVIFAPTR-ATLR 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH---C----CCEEEE--EeCCCCHHHHHHHHHHHHhC-CCCEEEEeCCC-CCch
Confidence 3889988654 2234455566666655 2 256544 44445665444444555554 677654 3433 2222
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-CCCcCCHHHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-WGNDNTIPYLFDS 200 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~l~~~ 200 (860)
... +...++|+|......+ . .. +-.+..++. .-+..+++.+...|-++++++..... ... ...+.+++.
T Consensus 70 --~~~-~~~~~iPvV~~~~~~~-~-~~-~~~v~~d~~---~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~-~R~~gf~~~ 139 (263)
T cd06280 70 --RLA-ELRLSFPVVLIDRAGP-A-GR-VDAVVLDNR---AAARTLVEHLVAQGYRRIGGLFGNASTTGA-ERRAGYEDA 139 (263)
T ss_pred --HHH-HHhcCCCEEEECCCCC-C-CC-CCEEEECcH---HHHHHHHHHHHHCCCceEEEEeCCCCCCHH-HHHHHHHHH
Confidence 222 3456899998875433 2 11 112344555 67788888888889999999975432 222 446788889
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
+++.|+..... ... ....+....+.++... .+++| ++.+...+..+++.+++.|+..++-..+.
T Consensus 140 ~~~~~~~~~~~-~~~---~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~ii 205 (263)
T cd06280 140 MRRHGLAPDAR-FVA---PTAEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLALA 205 (263)
T ss_pred HHHcCCCCChh-hcc---cCHHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 98888764321 112 2222223344444322 45665 45666678889999999997655444443
No 193
>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=96.92 E-value=0.11 Score=54.95 Aligned_cols=198 Identities=11% Similarity=0.028 Sum_probs=111.8
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
+||++.+... +.-.....+++-+.++ .+ +++.+. .++..++....+....++.+ ++.+||- +.. +...
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~----~g---~~v~~~-~~~~~d~~~~~~~i~~~~~~-~~DgiIi~~~~-~~~~ 70 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE----LG---VDAIYV-GPTTADAAGQVQIIEDLIAQ-GVDAIAVVPND-PDAL 70 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH----hC---CeEEEE-CCCCCCHHHHHHHHHHHHhc-CCCEEEEecCC-HHHH
Confidence 4888887433 2233445555555555 22 444432 24446676666666677665 7887764 333 3322
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhC-CC-cEEEEEEecCCC--CCcCCHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVF-KW-KEVILIHEDNTW--GNDNTIPY 196 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~-~w-~~v~ii~~~~~~--g~~~~~~~ 196 (860)
......+...++|+|......+ . .+ .+....+++. ..+..+++++.+. +- ++++++..+... .. ...+.
T Consensus 71 ~~~~~~~~~~~iPvV~v~~~~~-~-~~~~~~~v~~D~~---~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~-~R~~G 144 (298)
T cd06302 71 EPVLKKAREAGIKVVTHDSDVQ-P-DNRDYDIEQADNK---AIGETLMDSLAEQMGGKGEYAIFVGSLTATNQN-AWIDA 144 (298)
T ss_pred HHHHHHHHHCCCeEEEEcCCCC-C-CcceeEEeccCHH---HHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchH-HHHHH
Confidence 3444455678999998874333 2 11 2333455666 7778888887665 43 699999754432 22 34578
Q ss_pred HHHHHhhCC---ceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 197 LFDSLHDND---IDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 197 l~~~~~~~g---~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
+++.+++.| +++.. ... ...+...-...++++.++ .+++|+ +.+...+..+++.+++.|+.
T Consensus 145 f~~~l~~~g~~~~~~~~--~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 145 AKAYQKEKYYPMLELVD--RQY-GDDDADKSYQTAQELLKAYPDLKGII-GPTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHHHHhhcCCCCeEEeC--ccc-CCCCHHHHHHHHHHHHHhCCCceEEE-ECCCcchhHHHHHHHhcCCC
Confidence 888998886 23221 111 112222323344444332 345544 44566788889999999974
No 194
>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=96.91 E-value=0.15 Score=53.04 Aligned_cols=196 Identities=14% Similarity=0.105 Sum_probs=107.3
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH-
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA- 121 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~- 121 (860)
+||++...+.+.-.....+++.+.++. ++.+.+. .++..++..-.+....++.+ +|+++| .|.. ....
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-------g~~~~~~-~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~-~~~~~ 70 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-------GVDVEFV-VPQQGTVNAQLRMLEDLIAE-GVDGIAISPID-PKAVI 70 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-------CCeEEEe-CCCCCCHHHHHHHHHHHHhc-CCCEEEEecCC-hhHhH
Confidence 478777655443334444555544442 1444443 12334666555666666665 888766 4544 3322
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCC--CCCcCCHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNT--WGNDNTIPYL 197 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~l 197 (860)
..+..+ .. ++|+|......+ .. +.+.-+..++. .-++.+++++.+. +-.+++++..... ... ...+.+
T Consensus 71 ~~l~~~-~~-~ipvV~~~~~~~-~~-~~~~~V~~D~~---~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~-~R~~gf 142 (271)
T cd06314 71 PALNKA-AA-GIKLITTDSDAP-DS-GRYVYIGTDNY---AAGRTAGEIMKKALPGGGKVAIFVGSLGADNAK-ERIQGI 142 (271)
T ss_pred HHHHHH-hc-CCCEEEecCCCC-cc-ceeEEEccChH---HHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHH-HHHHHH
Confidence 333443 45 999999874332 21 11222445555 6677788777553 3446666664432 233 456788
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
++.+++.|+++.... .. .....+....++++.+. .+++|+.. +...+..++..+++.|+.
T Consensus 143 ~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~g~~ 204 (271)
T cd06314 143 KDAIKDSKIEIVDTR-GD--EEDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAAGKL 204 (271)
T ss_pred HHHHhcCCcEEEEEe-cC--ccCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHcCCC
Confidence 999999998765421 11 12233344455555433 35666543 444555677888888864
No 195
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.89 E-value=0.084 Score=54.78 Aligned_cols=197 Identities=15% Similarity=0.112 Sum_probs=108.5
Q ss_pred EEEEEecC----CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 45 VGIILDMR----SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 45 IG~l~~~~----~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
||+++|.. ...-.....+++-+.++ . ++++.+...|. +...-.+....+... ++++||-... ...
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~----~---g~~~~~~~~~~--~~~~~~~~~~~l~~~-~vdgiii~~~-~~~ 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKK----Y---GYNLILKFVSD--EDEEEFELPSFLEDG-KVDGIILLGG-IST 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHH----c---CCEEEEEeCCC--ChHHHHHHHHHHHHC-CCCEEEEeCC-CCh
Confidence 78888862 22233344445444443 2 25666655543 322222222234444 8888875333 222
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPYLF 198 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~l~ 198 (860)
. ....+...++|+|......+ .. . +-.+..++. ..+..+++.+...|.++++++...... .. ...+.|.
T Consensus 71 ~--~~~~l~~~~ipvV~~~~~~~-~~-~-~~~V~~d~~---~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~ 141 (268)
T cd06277 71 E--YIKEIKELGIPFVLVDHYIP-NE-K-ADCVLTDNY---SGAYAATEYLIEKGHRKIGFVGDPLYSPSFE-ERYEGYK 141 (268)
T ss_pred H--HHHHHhhcCCCEEEEccCCC-CC-C-CCEEEecch---HHHHHHHHHHHHCCCCcEEEECCCCCCcchH-HHHHHHH
Confidence 1 24456677999998864433 21 1 112444555 666767777777799999999765432 22 3457788
Q ss_pred HHHhhCCceEeEEEeccCCC-CChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 199 DSLHDNDIDIARRTSISLAS-STHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~-~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
+.+++.|+++....... .. .....+...+++.. ..+++| ++++...+..+++.+++.|+..++
T Consensus 142 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~-~~~~ai-~~~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 142 KALLDHGIPFNEDYDIT-EKEEDEEDIGKFIDELK-PLPTAF-FCSNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHHHcCCCCCcceEEE-cchhHHHHHHHHHhcCC-CCCCEE-EECCcHHHHHHHHHHHHcCCCCCC
Confidence 99998887654321111 11 12233444443322 236654 444566677788888999975433
No 196
>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=96.86 E-value=0.19 Score=52.33 Aligned_cols=201 Identities=13% Similarity=0.079 Sum_probs=107.7
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
+||++.|... ..-.....+++-+.++.+-. ...+.... ....++..-.+....+ .. +++++| .+.. ....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~----~~~~~~~~-~~~~~~~~~~~~i~~~-~~-~vdgiii~~~~-~~~~ 72 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA----RIRVRIHF-VESFDPAALAAALLRL-GA-RSDGVALVAPD-HPQV 72 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc----CceEEEEE-ccCCCHHHHHHHHHHH-Hh-cCCEEEEeCCC-cHHH
Confidence 5888887543 22334455555555553221 12222222 2234555444444444 44 787765 3433 3332
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhC-C--CcEEEEEEecCC--CCCcCCHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVF-K--WKEVILIHEDNT--WGNDNTIPY 196 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~-~--w~~v~ii~~~~~--~g~~~~~~~ 196 (860)
......+...++|+|......+ .- +.+..+..++. ..+...++++... | -++++++..... ... ...+.
T Consensus 73 ~~~i~~~~~~~ipvV~~~~~~~-~~-~~~~~V~~d~~---~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~-~R~~g 146 (275)
T cd06307 73 RAAVARLAAAGVPVVTLVSDLP-GS-PRAGYVGIDNR---AAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHE-EREMG 146 (275)
T ss_pred HHHHHHHHHCCCcEEEEeCCCC-CC-ceeeEEccChH---HHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchH-HHHHH
Confidence 2333455567999998864333 21 12223455555 6666667766553 4 469999976443 223 44678
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
+++.+++.+..+....... ...+..+....++++.+ .++++|+...+. +..+++.+++.|+.
T Consensus 147 f~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~ 210 (275)
T cd06307 147 FRSVLREEFPGLRVLETLE-GLDDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA 210 (275)
T ss_pred HHHHHHhhCCCcEEEeecc-CCCChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC
Confidence 8889988776554322222 12222333345555432 356777666543 36889999999963
No 197
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=96.86 E-value=0.091 Score=54.39 Aligned_cols=198 Identities=17% Similarity=0.104 Sum_probs=110.6
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCChhHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTPTGA 121 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s~~~ 121 (860)
.||++.|... ..-.....+++-+.++ .+ +++. +.++..++..-.+....+... ++.++|- |.. +..
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~----~g---~~~~--~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~~~-~~~- 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK----KG---YKLI--LCNSDNDPEKEREYLEMLRQN-QVDGIIAGTHN-LGI- 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH----CC---CeEE--EecCCccHHHHHHHHHHHHHc-CCCEEEEecCC-cCH-
Confidence 3788887433 2223344444444433 22 4444 344545665555555555554 7877663 333 221
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC---CCCcCCHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT---WGNDNTIPYLF 198 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~l~ 198 (860)
..+...++|+|......+ +.+-.+.+++. ..++.+++.+...|.++++++..... ... ...+.+.
T Consensus 69 ----~~~~~~gipvv~~~~~~~----~~~~~V~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~-~r~~gf~ 136 (265)
T cd06291 69 ----EEYENIDLPIVSFDRYLS----ENIPIVSSDNY---EGGRLAAEELIERGCKHIAHIGGPNNTVSPTN-LRYEGFL 136 (265)
T ss_pred ----HHHhcCCCCEEEEeCCCC----CCCCeEeechH---HHHHHHHHHHHHcCCcEEEEEccCcccccchH-HHHHHHH
Confidence 234567999999875432 21223455555 67788888887789999999975443 233 4467889
Q ss_pred HHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 199 DSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 199 ~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+.+++.|+++..... . ...+..+....+.++.++ .+++|+. .+...+..+++...+.|+..++.+-+
T Consensus 137 ~~l~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~di~v 205 (265)
T cd06291 137 DVLKENGLEVRIIEI-Q-ENFDDAEKKEEIKELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPEDLQI 205 (265)
T ss_pred HHHHHcCCCCChhee-e-ccccchHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEE
Confidence 999888876432111 1 111112223344444333 3455544 44556778899999999754443333
No 198
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.75 E-value=0.14 Score=55.05 Aligned_cols=206 Identities=14% Similarity=0.090 Sum_probs=115.4
Q ss_pred ceEEEEEEEec-CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDM-RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+-.||++.|. +.+.-.....+++-+.++ . ++++.+ .+...++..-.+....++.. +++++|-... ..
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~---~----g~~~~~--~~~~~~~~~~~~~~~~~~~~-~vdgiI~~~~-~~ 130 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDA---H----GYQTML--AHYGYKPEMEQERLESMLSW-NIDGLILTER-TH 130 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHH---C----CCEEEE--ecCCCCHHHHHHHHHHHHhc-CCCEEEEcCC-CC
Confidence 34579999884 333333444455555443 2 245544 44445555444445555554 7888764222 11
Q ss_pred HHHHHHHhhcCCCCcEEecccCC-CcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-CCCcCCHHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTL-PNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-WGNDNTIPYL 197 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~-~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~l 197 (860)
. ......+...++|+|...... + .. . ..+.+++. .-+..+++.|...|.++++++..... ... ...+.+
T Consensus 131 ~-~~~~~~l~~~~iPvV~~~~~~~~-~~--~-~~V~~Dn~---~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~-~R~~Gf 201 (331)
T PRK14987 131 T-PRTLKMIEVAGIPVVELMDSQSP-CL--D-IAVGFDNF---EAARQMTTAIIARGHRHIAYLGARLDERTI-IKQKGY 201 (331)
T ss_pred C-HHHHHHHHhCCCCEEEEecCCCC-CC--C-ceEEeCcH---HHHHHHHHHHHHCCCceEEEEcCCCcccHH-HHHHHH
Confidence 2 222334566799999763221 2 11 1 12556666 66777888888889999999965432 122 346788
Q ss_pred HHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 198 FDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 198 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
++.+++.|+.... .... .......-...++++.+. .+++|+ +++...|..+++.+++.|+..++-+-++
T Consensus 202 ~~al~~~g~~~~~-~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 202 EQAMLDAGLVPYS-VMVE-QSSSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHHHHHcCCCccc-eeec-CCCChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 8999988863211 1111 111112223344454433 456654 5567788889999999998665544443
No 199
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.75 E-value=0.077 Score=55.64 Aligned_cols=195 Identities=15% Similarity=0.178 Sum_probs=110.6
Q ss_pred EEEEEec------CCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCCh
Q 044527 45 VGIILDM------RSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTP 118 (860)
Q Consensus 45 IG~l~~~------~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s 118 (860)
||++.|. +.+.-.....+++-+.++ . ++.+.+...+. .. +....+.. .+++++|--.. .
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~---~----g~~~~~~~~~~---~~---~~~~~~~~-~~~dgiii~~~-~ 66 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA---A----GVNLLLLPASS---ED---SDSALVVS-ALVDGFIVYGV-P 66 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH---C----CCEEEEecCcc---HH---HHHHHHHh-cCCCEEEEeCC-C
Confidence 8889886 223234455555555544 2 24555543322 12 22233444 48888876433 2
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecC------------
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDN------------ 186 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~------------ 186 (860)
... .....+...++|+|...... . ...-.+.+++. ..+..+++++...|-++++++..+.
T Consensus 67 ~~~-~~~~~~~~~~ipvV~~~~~~--~--~~~~~v~~d~~---~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~ 138 (283)
T cd06279 67 RDD-PLVAALLRRGLPVVVVDQPL--P--PGVPSVGIDDR---AAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDE 138 (283)
T ss_pred CCh-HHHHHHHHcCCCEEEEecCC--C--CCCCEEeeCcH---HHHHHHHHHHHHcCCCcEEEecCcccccccccccccc
Confidence 222 23444567899999886432 2 12233556666 7788888988888999999997542
Q ss_pred -------CCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHH
Q 044527 187 -------TWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKK 257 (860)
Q Consensus 187 -------~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~ 257 (860)
.... ...+.+.+.+++.|+++.....+.............+.++.++ .+++| ++++...+..+++.+++
T Consensus 139 ~~~~~~~~~~~-~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~gv~~al~~ 216 (283)
T cd06279 139 RLASATFSVAR-ERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAI-LCMSDVLALGALQVARE 216 (283)
T ss_pred cccccccccHH-HHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEE-EECCcHHHHHHHHHHHH
Confidence 1122 3467788888888865322111110112223444555555433 34554 45566677789999999
Q ss_pred cCCccCC
Q 044527 258 LGMMSKG 264 (860)
Q Consensus 258 ~gl~~~~ 264 (860)
.|+..++
T Consensus 217 ~g~~ip~ 223 (283)
T cd06279 217 LGLRVPE 223 (283)
T ss_pred cCCCCCC
Confidence 9975443
No 200
>PRK09492 treR trehalose repressor; Provisional
Probab=96.70 E-value=0.096 Score=55.92 Aligned_cols=192 Identities=14% Similarity=0.116 Sum_probs=111.2
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
..-+||++.|... +.-.....++ .+++++.| +.+ .+.++..++....+....+... +|+++|-...+..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i---~~~~~~~g----y~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTM---LPAFYEQG----YDP--IIMESQFSPEKVNEHLGVLKRR-NVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHH---HHHHHHcC----CeE--EEEecCCChHHHHHHHHHHHhc-CCCEEEEeCCCcc
Confidence 3468999998532 2222333333 34444443 444 4455556666555555555554 7988875332022
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEec-C--CCCCcCCHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHED-N--TWGNDNTIPY 196 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~-~--~~g~~~~~~~ 196 (860)
.. ......++|++......+ . +-.+.+++. .-+..+++.+...|-++++++... . ..+. ...+.
T Consensus 131 ~~----~~l~~~~~pvv~i~~~~~-~----~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~-~R~~G 197 (315)
T PRK09492 131 TE----EMLAPWQDKLVLLARDAK-G----FSSVCYDDE---GAIKLLMQRLYDQGHRHISYLGVDHSDVTTGK-RRHQA 197 (315)
T ss_pred cH----HHHHhcCCCEEEEeccCC-C----CcEEEECcH---HHHHHHHHHHHHcCCCeEEEEcCCcccchhHH-HHHHH
Confidence 22 223344668777653222 1 223455655 666777788878899999999632 2 2334 56788
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+++.+++.|+++... .. ......-...++++.+.++++|+ +++...+..+++.+++.|+
T Consensus 198 f~~al~~~g~~~~~~--~~--~~~~~~~~~~~~~~l~~~~~ai~-~~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 198 YLAFCKQHKLTPVAA--LG--GLSMQSGYELVAKVLTPETTALV-CATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHHcCCCceee--cC--CCCchHHHHHHHHHhhcCCCEEE-EcCcHHHHHHHHHHHHcCC
Confidence 999999999875431 11 11222222344444445688775 4456778889999999996
No 201
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.69 E-value=0.13 Score=54.59 Aligned_cols=208 Identities=12% Similarity=0.067 Sum_probs=115.7
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe-cCCCh
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC-IGMTP 118 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG-p~~~s 118 (860)
++-+||++.|... ..-.....+++-+.++.+ +.+.+ .+...+...-.+....+... ++++||= |.. .
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g-------~~~~~--~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~-~ 102 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEHG-------YLVLI--GDCAHQNQQEKTFVNLIITK-QIDGMLLLGSR-L 102 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHCC-------CEEEE--EeCCCChHHHHHHHHHHHHc-CCCEEEEecCC-C
Confidence 4578999998543 334445556666655531 34433 34444554444555555554 7887763 222 1
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC--CCcCCHHH
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW--GNDNTIPY 196 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~--g~~~~~~~ 196 (860)
.. .... .......|++..+...+ ... +..+..++. ..+..+++.+...|-++++++...... .. ...+.
T Consensus 103 ~~-~~~~-~~~~~~~pvv~~~~~~~-~~~--~~~V~~Dn~---~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~-~R~~G 173 (309)
T PRK11041 103 PF-DASK-EEQRNLPPMVMANEFAP-ELE--LPTVHIDNL---TAAFEAVNYLHELGHKRIACIAGPEEMPLCH-YRLQG 173 (309)
T ss_pred Ch-HHHH-HHHhcCCCEEEEccccC-CCC--CCEEEECcH---HHHHHHHHHHHHcCCceEEEEeCCccccchH-HHHHH
Confidence 11 1111 12222346776553332 211 222455666 677778888877899999999755432 22 35788
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
|++.+++.|+++....... ...........+.++.+. .+++|+. ++...+..+++..++.|+..++-..+++
T Consensus 174 f~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 174 YVQALRRCGITVDPQYIAR-GDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred HHHHHHHcCCCCCHHHeEe-CCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 8999999887654211111 112223333455555433 3677664 5666777889999999975444444443
No 202
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.67 E-value=0.066 Score=55.50 Aligned_cols=195 Identities=10% Similarity=0.049 Sum_probs=110.3
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
+||++.|.+.+.......+++-+.++. ++ +.+-+. +. +. .+....+ .+.+|+++|-... +...
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~g---~~~~~~--~~--~~---~~~~~~l-~~~~vdGiI~~~~-~~~~-- 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---GP---WSIYLE--PR--GL---QEPLRWL-KDWQGDGIIARID-DPEM-- 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---CC---eEEEEe--cc--cc---hhhhhhc-cccccceEEEECC-CHHH--
Confidence 489999965444444555555555442 22 444432 22 11 2233334 3448888875333 2222
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCC-CCcCCHHHHHHHHh
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTW-GNDNTIPYLFDSLH 202 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~-g~~~~~~~l~~~~~ 202 (860)
...+...++|+|......+ . ..+-.+..++. ..+..+++.+...|-++++++...... .. ...+.+++.++
T Consensus 64 -~~~l~~~~~PvV~~~~~~~-~--~~~~~v~~d~~---~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~-~R~~gf~~~~~ 135 (265)
T cd01543 64 -AEALQKLGIPVVDVSGSRE-K--PGIPRVTTDNA---AIGRMAAEHFLERGFRHFAFYGLPGARWSD-EREEAFRQLVA 135 (265)
T ss_pred -HHHHhhCCCCEEEEeCccC-C--CCCCEEeeCHH---HHHHHHHHHHHHCCCcEEEEEcCCCCHHHH-HHHHHHHHHHH
Confidence 2334567999999875433 2 12345666776 777888888888899999999755431 12 34578889999
Q ss_pred hCCceEeEEEeccC-CCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCC
Q 044527 203 DNDIDIARRTSISL-ASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKG 264 (860)
Q Consensus 203 ~~g~~i~~~~~~~~-~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~ 264 (860)
+.|..+........ ...+..+....+.++.++ .+++| ++++...+..+++.+++.|+..++
T Consensus 136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~ 199 (265)
T cd01543 136 EAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGI-FACTDARARQLLEACRRAGIAVPE 199 (265)
T ss_pred HcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEE-EecChHHHHHHHHHHHHhCCCCCC
Confidence 98877521111110 011112223344444322 35654 555677788889999999975443
No 203
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=96.65 E-value=0.28 Score=51.75 Aligned_cols=203 Identities=11% Similarity=0.041 Sum_probs=109.1
Q ss_pred EEEEEEecCCc-chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhH-
Q 044527 44 HVGIILDMRSW-TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTG- 120 (860)
Q Consensus 44 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~- 120 (860)
+||++.|.... .-.....+++-+.++ . ++.+.+...+...++..-.+....++.+ ++.+|| .|.. ...
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~---~----g~~v~~~~~~~~~~~~~~~~~i~~l~~~-~vDgiIi~~~~-~~~~ 71 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH---L----GVELKVLEAGGYPNLDKQLAQIEQCKSW-GADAILLGTVS-PEAL 71 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH---h----CCEEEEEcCCCCCCHHHHHHHHHHHHHc-CCCEEEEecCC-hhhh
Confidence 58988885432 222333344444433 1 2455554333333555555566666665 888876 3433 222
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh-CC----CcEEEEEEecCC--CCCcCC
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV-FK----WKEVILIHEDNT--WGNDNT 193 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~-~~----w~~v~ii~~~~~--~g~~~~ 193 (860)
...+.. +. .++|+|......+ . .+.+..+..++. .-+..+++.+.. +. -.+++++..... ... ..
T Consensus 72 ~~~l~~-~~-~~iPvV~~~~~~~-~-~~~~~~V~~D~~---~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~-~R 143 (295)
T TIGR02955 72 NHDLAQ-LT-KSIPVFALVNQID-S-NQVKGRVGVDWY---QMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTK-PV 143 (295)
T ss_pred hHHHHH-Hh-cCCCEEEEecCCC-c-cceeEEEeecHH---HHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchh-HH
Confidence 233333 33 4899987632211 1 112333555555 666777777655 11 347999976543 233 45
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEec
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIAT 270 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~ 270 (860)
.+.+++.+++.|+++.... . ...+...-...++++.+ ..+++| +++...+..+++.+++.|+ ++-+.+++
T Consensus 144 ~~Gf~~al~~~g~~~~~~~--~-~~~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~--~~dv~vvg 215 (295)
T TIGR02955 144 TQGFRAALEGSDVEISAIL--W-ADNDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM--TQQIKLVS 215 (295)
T ss_pred HHHHHHHHhcCCcEEEEEe--c-CCCcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc--cCCeEEEE
Confidence 7789999998888765421 1 11222333344555433 245754 4566667788888888875 33344443
No 204
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.65 E-value=0.17 Score=54.77 Aligned_cols=206 Identities=11% Similarity=0.044 Sum_probs=112.4
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+-.||+++|... +.-.....+++-+.++. + +.+ .+.++..++..-.+....+..+ +++++|--.. ..
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~----g---y~~--~~~~~~~~~~~~~~~i~~l~~~-~vdGiIi~~~-~~ 126 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH----Q---KYV--LIGNSYHEAEKERHAIEVLIRQ-RCNALIVHSK-AL 126 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC----C---CEE--EEEcCCCChHHHHHHHHHHHhc-CCCEEEEeCC-CC
Confidence 3567999998533 32334444555544432 2 343 3445545555544455555554 7887663221 11
Q ss_pred HHHHHHHhhcCCCCc-EEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHH
Q 044527 120 GAQILADLGSRAKIP-IISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPY 196 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip-~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~ 196 (860)
....+..+.. ++| +|......+ .. + +..+..++. .-+..+++++...|-+++++|..... .+. ...+.
T Consensus 127 ~~~~~~~~~~--~~p~vV~i~~~~~-~~-~-~~~V~~D~~---~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~-~R~~G 197 (346)
T PRK10401 127 SDDELAQFMD--QIPGMVLINRVVP-GY-A-HRCVCLDNV---SGARMATRMLLNNGHQRIGYLSSSHGIEDDA-MRRAG 197 (346)
T ss_pred ChHHHHHHHh--cCCCEEEEecccC-CC-C-CCEEEECcH---HHHHHHHHHHHHCCCCeEEEEeCCCcCcchH-HHHHH
Confidence 1122333333 355 676654333 21 1 122444555 55667778887789999999975443 233 45788
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+++.+++.|+.+....... .......-...+.++.+ ..+++|+ +++...+..+++.+++.|+..++-+-+
T Consensus 198 f~~al~~~gi~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~disv 269 (346)
T PRK10401 198 WMSALKEQGIIPPESWIGT-GTPDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLSI 269 (346)
T ss_pred HHHHHHHcCCCCChhheec-CCCChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 9999999987643211111 11222222234444433 2467665 556778888999999999765544433
No 205
>PRK09526 lacI lac repressor; Reviewed
Probab=96.59 E-value=0.25 Score=53.43 Aligned_cols=205 Identities=9% Similarity=0.093 Sum_probs=114.4
Q ss_pred ceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEe--cCCC
Q 044527 41 DEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIIC--IGMT 117 (860)
Q Consensus 41 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviG--p~~~ 117 (860)
.+-.||+++|... ..-.....+++-+.++ . ++.+.+...++ .++..-.+....+... +++++|- |..
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~---~----g~~~~i~~~~~-~~~~~~~~~l~~l~~~-~vdGiii~~~~~- 131 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ---L----GYSVVISMVER-SGVEACQAAVNELLAQ-RVSGVIINVPLE- 131 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH---C----CCEEEEEeCCC-ChHHHHHHHHHHHHhc-CCCEEEEecCCC-
Confidence 3467999998533 2223344555555443 2 25665543322 2233333444555554 7888764 434
Q ss_pred hhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHH
Q 044527 118 PTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIP 195 (860)
Q Consensus 118 s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~ 195 (860)
+.....+. ....++|+|..... + . ..+..+.+++. .-+..++++|...|.++++++..... ... ...+
T Consensus 132 ~~~~~~~~--~~~~~iPvV~~d~~-~-~--~~~~~V~~d~~---~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~-~R~~ 201 (342)
T PRK09526 132 DADAEKIV--ADCADVPCLFLDVS-P-Q--SPVNSVSFDPE---DGTRLGVEHLVELGHQRIALLAGPESSVSAR-LRLA 201 (342)
T ss_pred cchHHHHH--hhcCCCCEEEEecc-C-C--CCCCEEEECcH---HHHHHHHHHHHHCCCCeEEEEeCCCccccHH-HHHH
Confidence 33222221 22358999987642 2 1 11233455665 66677888888889999999975432 222 3467
Q ss_pred HHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 196 YLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
.+++.+++.|+++..... .+....+-...+.++.+. .+++|+ +++...+..+++.+++.|+..++-+-++
T Consensus 202 Gf~~al~~~gi~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~disvi 273 (342)
T PRK09526 202 GWLEYLTDYQLQPIAVRE---GDWSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQISVI 273 (342)
T ss_pred HHHHHHHHcCCCcceEEe---CCCchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 788999998886533211 112222222334444332 456654 5566778889999999997655444333
No 206
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=96.57 E-value=0.016 Score=61.46 Aligned_cols=103 Identities=15% Similarity=0.132 Sum_probs=57.2
Q ss_pred HhhhcCCcEEEecCCcHHHh----hhcCCCCCcCcccc-CCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeecc
Q 044527 675 IKLASMDNIGSQLGSVVPGA----LSNLNFKDSRLKKY-NSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAA 749 (860)
Q Consensus 675 ~~~~~~~~i~~~~~~~~~~~----~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~ 749 (860)
+++++|++||+..++..... ++..+.....+..+ -...+...++.+|++|+.+...+......++.. .+.....
T Consensus 95 ~~DLkGK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~G~vDa~~~~~p~~~~~~~~g~-~~~~~~~ 173 (300)
T TIGR01729 95 PEDLKGKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNLKPPQIVAAWQRGDIDAAYVWPPALSELLKSGK-VISDSEQ 173 (300)
T ss_pred hhHcCCCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEecCcHHHHHHHHcCCcCEEEEecHHHHHHHhcCc-EEecchh
Confidence 34559999999876654433 33334433333322 245678999999999999998887655444321 1111111
Q ss_pred c--cccccCceEEEeccC----Cc-chHHHHHHHHHH
Q 044527 750 K--YTTSTNGFGFVFQKG----SP-LVHDISRAIARL 779 (860)
Q Consensus 750 ~--~~~~~~~~~~~~~k~----sp-l~~~in~~i~~l 779 (860)
. . +.....++++++. .| ..+.|.+++.+.
T Consensus 174 ~~~~-~~~~~~~~~~~~~~~~~~p~~~~~~~~a~~~a 209 (300)
T TIGR01729 174 VGAW-GAPTFDGWVVRKDFAEKNPEFVAAFTKVLADA 209 (300)
T ss_pred cccc-CCCceeEEEECHHHHHHCHHHHHHHHHHHHHH
Confidence 1 1 0111235666555 55 666665555543
No 207
>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=96.29 E-value=0.12 Score=53.09 Aligned_cols=196 Identities=10% Similarity=-0.032 Sum_probs=105.2
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
+||++++- +.....+..+..-+++++.++.+ .+ +.+.+...++....+..++++++ +...||+... ....+
T Consensus 1 kva~l~~g-~~~D~~~n~~~~~G~~~~~~~~g---v~--~~~~e~~~~~~~~~~~i~~~~~~-g~dlIi~~g~--~~~~~ 71 (258)
T cd06353 1 KVAFVYVG-PIGDQGWNYAHDEGRKAAEKALG---VE--VTYVENVPEGADAERVLRELAAQ-GYDLIFGTSF--GFMDA 71 (258)
T ss_pred CEEEEEeC-CCCccchhHHHHHHHHHHHHhcC---Ce--EEEEecCCchHhHHHHHHHHHHc-CCCEEEECch--hhhHH
Confidence 57888872 22122344444555555554432 33 44445444677777888888876 8999998443 44455
Q ss_pred HHHhhcCC-CCcEEecccC--CCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHH
Q 044527 124 LADLGSRA-KIPIISLFTT--LPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDS 200 (860)
Q Consensus 124 ~~~~~~~~-~ip~Is~~a~--~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~ 200 (860)
+..++..+ ++.++..... .| .+..+.|+..... .++-.++..+.+ -.+|++|...+..........|.+-
T Consensus 72 ~~~vA~~~p~~~F~~~d~~~~~~-Nv~~~~~~~~e~~----ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 72 ALKVAKEYPDVKFEHCSGYKTAP-NVGSYFARIYEGR----YLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHHCCCCEEEECCCCCCCC-CeeeEechhhHHH----HHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHH
Confidence 55555544 4444443322 22 2221333332221 344445555543 3589999776432211345566666
Q ss_pred HhhCCceEeEEEeccCCCC-ChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcC
Q 044527 201 LHDNDIDIARRTSISLASS-THDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLG 259 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~g 259 (860)
++..+-++.....+. .+. +...-....+.+.+.++|+|+..+. ...+++++++.|
T Consensus 145 ~~~~~p~~~v~~~~~-g~~~D~~~a~~~a~~l~~~G~DvI~~~~~---~~g~~~aa~~~g 200 (258)
T cd06353 145 ARSVNPDATVKVIWT-GSWFDPAKEKEAALALIDQGADVIYQHTD---SPGVIQAAEEKG 200 (258)
T ss_pred HHHHCCCcEEEEEEe-cCCCCcHHHHHHHHHHHHCCCcEEEecCC---ChHHHHHHHHhC
Confidence 654444333322222 112 2223345556677889999888872 245778888877
No 208
>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=96.29 E-value=0.25 Score=50.91 Aligned_cols=199 Identities=13% Similarity=0.080 Sum_probs=109.5
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++.|... ..-.....+++-+.++ .+ +.+.+...+ ++... ...+... ++.++|-..+ .....
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~----~g---~~~~~~~~~---~~~~~---~~~l~~~-~vdgii~~~~-~~~~~ 65 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK----NG---YNMNVSITP---SLAEA---EDLFKEN-RFDGVIIFGE-SASDV 65 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH----cC---CEEEEEecc---cHHHH---HHHHHHc-CcCEEEEeCC-CCChH
Confidence 3788888643 2233444455554443 22 455554433 23222 2334444 7887763222 22222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDS 200 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~ 200 (860)
.+ ..+...++|+|...... . ..+-.+..++. ..+..+++.+...|-++++++..... ... ...+.+++.
T Consensus 66 ~~-~~~~~~~ipvV~~~~~~--~--~~~~~V~~d~~---~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~-~R~~gf~~~ 136 (261)
T cd06272 66 EY-LYKIKLAIPVVSYGVDY--D--LKYPIVNVDNE---KAMELAVLYLAEKGHKKIAYIGDLSLDRRQR-KRFKGFLET 136 (261)
T ss_pred HH-HHHHHcCCCEEEEcccC--C--CCCCEEEEChH---HHHHHHHHHHHHcCchhEEEeecccccccHH-HHHHHHHHH
Confidence 22 34456889999876432 1 11122455666 77788888888889999999976543 222 346788889
Q ss_pred HhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCC--CeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 201 LHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLD--TKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 201 ~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~--~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
+++.|+.+....... ...........+.++.+.. +++| ++++...+..+++.+++.|+..++.+-+
T Consensus 137 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~vp~dv~v 204 (261)
T cd06272 137 CDENGISISDSHIDV-DGLSAEGGDNAAKKLLKESDLPTAI-ICGSYDIALGVLSALNKQGISIPEDIEI 204 (261)
T ss_pred HHHcCCCCCHHHeee-CCCCHHHHHHHHHHHHcCCCCCCEE-EECCcHHHHHHHHHHHHhCCCCCCceEE
Confidence 988886432211111 1122223334455544333 5554 5556667788999999999754443333
No 209
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=95.97 E-value=0.43 Score=50.74 Aligned_cols=192 Identities=14% Similarity=0.078 Sum_probs=107.2
Q ss_pred ceEEEEEEEecC-CcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 41 DEVHVGIILDMR-SWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 41 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
.+-.||+++|.- ...-.....++.- ...+.+ +.+- +.++..++....+....+... +++++|--..+..
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~---~~~~~g----y~~~--i~~~~~~~~~~~~~~~~l~~~-~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLP---VFYTAG----YDPI--IMESQFSPQLTNEHLSVLQKR-NVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHH---HHHHCC----CeEE--EecCCCChHHHHHHHHHHHhc-CCCEEEEeCCCCC
Confidence 345799999742 2221222333333 233232 4443 344545665544444444444 7887764222011
Q ss_pred HHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEec-C--CCCCcCCHHH
Q 044527 120 GAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHED-N--TWGNDNTIPY 196 (860)
Q Consensus 120 ~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~-~--~~g~~~~~~~ 196 (860)
... .....++|+|..+...+ . +-.+.+++. .-+..+++.+...|-+++++|..+ . ..+. ...+.
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~~-~----~~~V~~D~~---~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~-~R~~g 194 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDTG-G----FSSVCYDDY---GAIELLMANLYQQGHRHISFLGVDPSDKTTGL-MRHNA 194 (311)
T ss_pred CHH----HHHhcCCCEEEEecCCC-C----ccEEEeCcH---HHHHHHHHHHHHcCCCcEEEEccCcccchhHH-HHHHH
Confidence 111 22345778887764322 1 223455655 666777888888899999999732 2 2344 55788
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+++.+++.|++.... . ......+....++++.+.++++| ++++...|..+++.+.+.|.
T Consensus 195 f~~a~~~~gi~~~~~---~-~~~~~~~~~~~~~~~l~~~~tAi-~~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 195 YLAYCESANLEPIYQ---T-GQLSHESGYVLTDKVLKPETTAL-VCATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHHcCCCceee---e-CCCCHHHHHHHHHHHHhcCCCEE-EECCcHHHHHHHHHHHHcCC
Confidence 999999999863221 1 11222222334444434467766 46677788889999999985
No 210
>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=95.77 E-value=0.81 Score=48.43 Aligned_cols=167 Identities=10% Similarity=0.067 Sum_probs=96.1
Q ss_pred EEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhH
Q 044527 83 LHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQ 161 (860)
Q Consensus 83 ~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~ 161 (860)
+.+.++..++..-.+....++.+ +|.+|| .|.. +.........+...++|+|......+ .. .....+.+++.
T Consensus 31 v~~~~~~~~~~~q~~~i~~l~~~-~vDgIIi~~~~-~~~~~~~l~~~~~~~iPvV~~d~~~~-~~-~~~~~V~~d~~--- 103 (302)
T TIGR02634 31 VFVQSANGNEAKQISQIENLIAR-GVDVLVIIPQN-GQVLSNAVQEAKDEGIKVVAYDRLIN-DA-DIDFYLSFDNE--- 103 (302)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCC-hhHHHHHHHHHHHCCCeEEEecCcCC-CC-CccEEEecCHH---
Confidence 34556667777666777777766 787765 3433 33334444556778999998864433 21 12233455555
Q ss_pred HHHHHHHHHHhhCCCc-EEEEEEecCC--CCCcCCHHHHHHHHhhC----CceEeEEEeccCCCCChHHHHHHHHhhhc-
Q 044527 162 SQARGISDFISVFKWK-EVILIHEDNT--WGNDNTIPYLFDSLHDN----DIDIARRTSISLASSTHDQIIEKLSMLKS- 233 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~-~v~ii~~~~~--~g~~~~~~~l~~~~~~~----g~~i~~~~~~~~~~~~~~~~~~~l~~i~~- 233 (860)
.-++.+++.+...+-+ +++++..+.. ... ...+.+++.+++. ++.+....... .....+....++++..
T Consensus 104 ~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~-~R~~g~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ll~~ 180 (302)
T TIGR02634 104 KVGEMQARAVLEAAPKGNYFLMGGSPTDNNAK-LLRGGQMKVLQPAIDSGDIKIVGDQWVD--GWLPENALRIMENALTA 180 (302)
T ss_pred HHHHHHHHHHHhhCCCCCEEEEeCCCCCcchH-HHHHHHHHHHhhhccCCCeEEecCcCCC--CCCHHHHHHHHHHHHHh
Confidence 7778888888766655 7888765422 222 2346667777753 35543221111 1223334455555432
Q ss_pred --CCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 234 --LDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 234 --~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
..+++|+. ++...+..+++.+++.|+
T Consensus 181 ~~~~~~aI~~-~~D~~A~g~~~al~~~g~ 208 (302)
T TIGR02634 181 NDNKVDAVVA-SNDATAGGAIQALTAQGL 208 (302)
T ss_pred CCCCccEEEE-CCCchHHHHHHHHHHCCC
Confidence 24666544 455567778899999986
No 211
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=95.70 E-value=0.51 Score=48.95 Aligned_cols=197 Identities=10% Similarity=-0.007 Sum_probs=105.7
Q ss_pred EEEEEEecCCc--chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhH
Q 044527 44 HVGIILDMRSW--TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~~~~~~--~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~ 120 (860)
+||++.+.+.. .+......+..++++..++.+ +.+.+...+ .+. .... .+++++| .+.. +.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~g---~~~~~~~~~--~~~--------~~~~-~~vdgii~~~~~-~~- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQELG---IELTKFFRD--DDL--------LEIL-EDVDGIIAIGKF-SQ- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHcC---CEEEEEecc--chh--------HHhc-cCcCEEEEecCC-CH-
Confidence 58888885421 122233333334444433322 455544322 211 1122 3677665 3322 22
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCC-------CCCcCC
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNT-------WGNDNT 193 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~-------~g~~~~ 193 (860)
.....+...++|+|......+ . ..+-.+..++. ..+..+++.+.+.|-++++++..... ... ..
T Consensus 65 --~~~~~~~~~~~pvV~~~~~~~-~--~~~~~v~~D~~---~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~-~R 135 (270)
T cd01544 65 --EQLAKLAKLNPNLVFVDSNPA-P--DGFDSVVPDFE---QAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIED-PR 135 (270)
T ss_pred --HHHHHHHhhCCCEEEECCCCC-C--CCCCEEEECHH---HHHHHHHHHHHHcCCCcEEEECCCcccccccchhhh-HH
Confidence 333445567899998864322 1 12223556666 77777888888789999999976543 223 34
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC----CCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEE
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL----DTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWI 268 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~----~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i 268 (860)
.+.+++.+++.|.. .....+. .+.+..+....++++.+. .+++| ++++...+..+++.+++.|+..++-..|
T Consensus 136 ~~gf~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~v 211 (270)
T cd01544 136 ETAFREYMKEKGLY-DPELIYI-GDFTVESGYQLMKEALKSLGDNLPTAF-FIASDPMAIGALRALQEAGIKVPEDVSV 211 (270)
T ss_pred HHHHHHHHHHcCCC-ChheEee-CCCCHHHHHHHHHHHHhccCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 67788899888841 1101111 112222223344443322 35655 4457778888999999999754443333
No 212
>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=95.64 E-value=2.5 Score=44.65 Aligned_cols=198 Identities=10% Similarity=0.084 Sum_probs=100.4
Q ss_pred EEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEe-cCCCCHHHHHHHHHHhhccCCeEEEE-ecCCChhHH
Q 044527 45 VGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSR-DSQGDPFHALTTASNLMQNVDLQAII-CIGMTPTGA 121 (860)
Q Consensus 45 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~-D~~~~~~~a~~~~~~li~~~~v~avi-Gp~~~s~~~ 121 (860)
||++.+... +.-.....+++-+.++.+ + ..+++. ++..++..-.+....++++ ++.+|| .|.. +...
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~g-------~-~~~i~~~~~~~d~~~q~~~i~~l~~~-~vdgiIi~~~~-~~~~ 70 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKELG-------S-VYIIYTGPTGTTAEGQIEVVNSLIAQ-KVDAIAISAND-PDAL 70 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHhC-------C-eeEEEECCCCCCHHHHHHHHHHHHHc-CCCEEEEeCCC-hHHH
Confidence 566766433 222334445555555432 1 122222 3456777666777777766 787754 3444 4443
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH-hhC-CCcEEEEEEecCCCCC-cCCHHHHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI-SVF-KWKEVILIHEDNTWGN-DNTIPYLF 198 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l-~~~-~w~~v~ii~~~~~~g~-~~~~~~l~ 198 (860)
......+...+||+|......+ . ......+...|. ...++..++.+ ++. +-.+|+++..+..... ....+.++
T Consensus 71 ~~~l~~~~~~giPvV~~~~~~~-~-~~~~~~v~~~Dn--~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 71 VPALKKAMKRGIKVVTWDSGVA-P-EGRNLFLNQASA--DLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHHHHCCCEEEEeCCCCC-C-CceeEEEecCCH--HHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 4444556678999998864433 2 112333333333 03344444443 222 2369999976532211 02346666
Q ss_pred HHHhhCC---ceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 199 DSLHDND---IDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 199 ~~~~~~g---~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+.+++.| .++.... . .......-...++++.+. ++++|+. .+...+...++.+++.|+
T Consensus 147 ~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~ 209 (302)
T TIGR02637 147 KELKDPKYPKVKLVATV--Y-GDDDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKL 209 (302)
T ss_pred HHHhhccCCCCEEEeee--c-CCchHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCC
Confidence 7666543 3433221 1 112233334445554433 3455554 345666777888888885
No 213
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=95.60 E-value=0.3 Score=50.83 Aligned_cols=107 Identities=7% Similarity=-0.010 Sum_probs=72.9
Q ss_pred hhHhhhcCCcEEEecCCcHHHhh------hcCC-CCC---cCccccCC-HHHHHHHHhcCCcEEEEcchHHHHHHHhcc-
Q 044527 673 QQIKLASMDNIGSQLGSVVPGAL------SNLN-FKD---SRLKKYNS-AEEYANALSMGSISAIVDEIPYVRAFLSKY- 740 (860)
Q Consensus 673 ~~~~~~~~~~i~~~~~~~~~~~~------~~~~-~~~---~~~~~~~~-~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~- 740 (860)
+.++++++++++...-....-++ ...+ .+. -.-+.+.. -+.++..|.+|++|+...............
T Consensus 137 ~sl~dlkgk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~~~~~~~ 216 (299)
T COG3221 137 KSLEDLKGKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSARGLLKKAAP 216 (299)
T ss_pred chHHHhcCCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCCceEEeccHHHHhhhhhccc
Confidence 34446699999987544443333 2222 111 12233333 788999999999999999877776655544
Q ss_pred C---ccceeeccccccccCceEEEeccCCc--chHHHHHHHHHHhh
Q 044527 741 S---AHYTTAAAKYTTSTNGFGFVFQKGSP--LVHDISRAIARLRE 781 (860)
Q Consensus 741 ~---~~l~~~~~~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e 781 (860)
. .+++++..-- ......++++++-| +++++..++..+.+
T Consensus 217 ~~~~~~l~vi~~S~--~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 217 EGVAEKLRVIWKSP--LIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred ccchhhceEEEecC--CCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 2 4777776644 44556788999987 99999999999976
No 214
>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=94.94 E-value=0.3 Score=49.05 Aligned_cols=93 Identities=14% Similarity=0.142 Sum_probs=72.1
Q ss_pred HHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccC-C-----CCChHHHHHHHHhhhcCCC
Q 044527 163 QARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISL-A-----SSTHDQIIEKLSMLKSLDT 236 (860)
Q Consensus 163 ~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~-~-----~~~~~~~~~~l~~i~~~~~ 236 (860)
-+.|+.+-++++|.+|++++.+ |-. ...+.+++.+++.|++|+....+.. . ..+..++...+.++...++
T Consensus 107 ~~~A~~~AL~alg~~RIalvTP---Y~~-~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~a 182 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLTP---YTP-ETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDA 182 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEECC---CcH-HHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCC
Confidence 3678888899999999999976 666 8889999999999999987644441 0 1233455666666667899
Q ss_pred eEEEEEeCHHHHHHHHHHHH-HcC
Q 044527 237 KVFVVHMTHALASHLFLNAK-KLG 259 (860)
Q Consensus 237 ~viil~~~~~~~~~il~~a~-~~g 259 (860)
|+|++.|..=....++.++. ++|
T Consensus 183 DAifisCTnLrt~~vi~~lE~~lG 206 (239)
T TIGR02990 183 DALFLSCTALRAATCAQRIEQAIG 206 (239)
T ss_pred CEEEEeCCCchhHHHHHHHHHHHC
Confidence 99999999888888888884 455
No 215
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=94.69 E-value=0.19 Score=53.72 Aligned_cols=43 Identities=7% Similarity=-0.011 Sum_probs=31.2
Q ss_pred HHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEece
Q 044527 490 IDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDT 542 (860)
Q Consensus 490 ~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~ 542 (860)
..+.+.++++++ .+++++.+. +.....+..|.+|++|+++...
T Consensus 48 ~~la~~~~~~~~-~i~v~~~~~---------~~~~~~~~~l~~G~~D~~~~~~ 90 (320)
T TIGR02122 48 GAIAQLINKKSG-KLRVRVQST---------GGSVENVNLLEAGEADLAIVQS 90 (320)
T ss_pred HHHHHHHhccCC-CeeEEEEeC---------cchHHHHHHHhCCCCcEEEEcc
Confidence 467777878876 256666653 2456789999999999998653
No 216
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=94.57 E-value=5.3 Score=41.55 Aligned_cols=203 Identities=9% Similarity=0.018 Sum_probs=104.2
Q ss_pred EEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
+||++.|... +.-.....+++.+.++. + +. +.+.++..++..-.+....++.+ +|++||=.........
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~----g---y~--~~~~~~~~~~~~~~~~i~~l~~~-~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI----G---WN--LRILDGRGSEAGQAAALNQAIAL-KPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc----C---cE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEcCCCHHHHH
Confidence 4888887533 22223444444444332 1 34 34455656776655666666655 7887664222022222
Q ss_pred HHHHhhcCCCCcEEecccCCCcccc-c--ceEeecCCCchhHHHHHHHHHHHhhC--CCcEEEEEEecCCCCCcC--CHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLT-S--YSIQIDQDDEASQSQARGISDFISVF--KWKEVILIHEDNTWGNDN--TIP 195 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls-~--~~~r~~p~~~~~~~~~~ai~~~l~~~--~w~~v~ii~~~~~~g~~~--~~~ 195 (860)
.....+...++|+|......+..-. + .+..+..++. ..++.++++|... |-++++++.... ... . ..+
T Consensus 72 ~~~~~~~~~~iPvV~~d~~~~~~~~~~~~~~~~v~~D~~---~~~~~~~~~L~~~~~G~~~i~~i~~~~-~~~-~~~r~~ 146 (280)
T cd06315 72 AELELAQKAGIPVVGWHAGPEPGPIEEPGIFYNVTTDPL---AVAEVAALYAIANSGGKAGVVIFTDSR-FSI-AKAKAN 146 (280)
T ss_pred HHHHHHHHCCCCEEEecCCCCCCcccCCceeEEecCCHH---HHHHHHHHHHHHHcCCCceEEEEeCCC-Ccc-HHHHHH
Confidence 3334455679999998753210111 1 1334555555 6677788877665 889999986432 221 1 124
Q ss_pred HHHHHHhhC-CceEeEEEeccCCCCChHHHHHHHHhhhc---CCCeEEEEEeCHHHHHHHHHHHHHcCCccC
Q 044527 196 YLFDSLHDN-DIDIARRTSISLASSTHDQIIEKLSMLKS---LDTKVFVVHMTHALASHLFLNAKKLGMMSK 263 (860)
Q Consensus 196 ~l~~~~~~~-g~~i~~~~~~~~~~~~~~~~~~~l~~i~~---~~~~viil~~~~~~~~~il~~a~~~gl~~~ 263 (860)
.++..+++. +..+....... ............+++.+ ..+++| ++++...+..+++.+++.|+..+
T Consensus 147 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~ai-~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 147 AMKEIIEACKGCTVLSIEDVP-ISRTATRMPALTARLLQRYGDKWTHS-LAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHHHHhCCCCEEEEecccC-cchhhhhhHHHHHHHHHhcCccccee-cccchhhhHHhHHHHHHhcccCC
Confidence 455555443 33332111111 11111111133344332 235654 56666677888999999997544
No 217
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=94.32 E-value=0.12 Score=50.91 Aligned_cols=192 Identities=11% Similarity=0.129 Sum_probs=99.8
Q ss_pred CccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEece-e----e--cccccceeec
Q 044527 482 TLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDT-T----I--TANRSVYVDF 554 (860)
Q Consensus 482 ~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~-~----~--t~~r~~~~~f 554 (860)
..+++|+.--|...+.+ .++.+.+-+.. .-..-++.|.+|+.|+++.+- . + .....-..+|
T Consensus 23 Sr~YEGLATGl~~~f~~-~~ip~~~aymR-----------Ga~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~f 90 (232)
T PF14503_consen 23 SRRYEGLATGLYEQFEE-SGIPLNFAYMR-----------GAENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEF 90 (232)
T ss_dssp SHHHHHHHHHHHCTTT---TS-EEEEE-S------------HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE-
T ss_pred hhhhHHHHHHHHHHhcc-CCCceEEEeec-----------cchHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEee
Confidence 44789999999888887 77766666665 346789999999999998662 1 1 1222334556
Q ss_pred cccccccceEEEEecCCCCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCcccccchhHHHHHHHHhhcc
Q 044527 555 TLPYTDMGIGMIVPIDQNNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFS 634 (860)
Q Consensus 555 s~p~~~~~~~~lv~~~~~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 634 (860)
-.--+.+.-.++.+.+....
T Consensus 91 G~~sYvs~Hvli~~~~~~~~------------------------------------------------------------ 110 (232)
T PF14503_consen 91 GPGSYVSEHVLIFRDGEKKE------------------------------------------------------------ 110 (232)
T ss_dssp -TTSSS--EEEEEETT-GGG------------------------------------------------------------
T ss_pred CCCCcccceEEEEecCCccc------------------------------------------------------------
Confidence 44444444555555444211
Q ss_pred ccccccccchhhhHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEecCCcHHHhhhcCCCCCcCccccC-CHHH
Q 044527 635 QREKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYN-SAEE 713 (860)
Q Consensus 635 ~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 713 (860)
+..|.++|+-..|.-+..+.+..++..++..++ ...+
T Consensus 111 ------------------------------------------i~dGmRVGiD~~S~Dq~~LT~~~~~gk~Ve~Vei~Y~q 148 (232)
T PF14503_consen 111 ------------------------------------------IEDGMRVGIDPSSIDQKILTEAEFEGKNVEFVEIPYNQ 148 (232)
T ss_dssp -----------------------------------------------EEEE-TT-HHHHHHHHHHHTTS--EEEE--HHH
T ss_pred ------------------------------------------eeeeeEeecCCCCccHHHHHHHHhCCCceEEEEecHHH
Confidence 226889999999988877765445555555444 5678
Q ss_pred HHHHHhcCCcEEEEcchHHHHHHHhccCccceeecc---ccccccCceEEEeccCCc-chHHHHHHHHHHhhcchHHHHH
Q 044527 714 YANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAA---KYTTSTNGFGFVFQKGSP-LVHDISRAIARLREEGTLAKIE 789 (860)
Q Consensus 714 ~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~~~~~~~~k~sp-l~~~in~~i~~l~e~G~~~~~~ 789 (860)
.++.+.+|++||.+.+... ..... . .+...+- ......+.-.+.++|+++ +...+++ +.+...+-.++
T Consensus 149 ~~~~l~~g~IDA~IWN~d~--i~~~~-~-~l~~~~l~~~~~~~~~seAVivi~~~~~~i~~ll~~----~id~~~vl~iQ 220 (232)
T PF14503_consen 149 LLELLRSGEIDAAIWNYDE--IEDKN-F-GLKYVPLKDDPMSKDASEAVIVIRKDNEPIKALLRK----LIDVEKVLEIQ 220 (232)
T ss_dssp HHHHHHHTS--EEEEE--H--HCCHH-C-TEEEEE--SSCHHHHTT-EEEEEETT-HHHHHHHHH----H--HHHHHHHH
T ss_pred HHHHHHCCCccEEEECCcc--ccccc-C-CeeEEeCCchHHHHhcCeeEEEEeCCCHHHHHHHHH----hcCHHHHHHHH
Confidence 9999999999999998652 11111 1 2222211 110023456788899985 4444443 33445556666
Q ss_pred HHHcCC
Q 044527 790 NVWFNT 795 (860)
Q Consensus 790 ~~~~~~ 795 (860)
++-...
T Consensus 221 ~~V~~g 226 (232)
T PF14503_consen 221 KKVLEG 226 (232)
T ss_dssp HHHHTT
T ss_pred HHHHcC
Confidence 666553
No 218
>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=94.26 E-value=6.6 Score=39.39 Aligned_cols=207 Identities=14% Similarity=0.134 Sum_probs=121.5
Q ss_pred eEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecC--CCCHHHHHHHHHHhhccCCeEEEEecCCChh
Q 044527 42 EVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDS--QGDPFHALTTASNLMQNVDLQAIICIGMTPT 119 (860)
Q Consensus 42 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~--~~~~~~a~~~~~~li~~~~v~aviGp~~~s~ 119 (860)
..+||++.+..+ .+.+..+|++..+++.-.. .+..+++-+ ..+-+..+.....|.+++.+-+||=...-++
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpG 74 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPG 74 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS--
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcc
Confidence 589998876544 4567778888888876544 555555532 3556778888889999988988875443366
Q ss_pred HHHHHHHhhcC-CCCcEEecccC-CCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCC---
Q 044527 120 GAQILADLGSR-AKIPIISLFTT-LPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNT--- 193 (860)
Q Consensus 120 ~~~~~~~~~~~-~~ip~Is~~a~-~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~--- 193 (860)
++.+...+=+. -.|..|+-... +|..++. -=.-+.+... ..+..++...+.+|.+.+.-+....+-+. ..
T Consensus 75 t~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aDi~~~~D~~---~~G~~i~~~Ak~mGAktFVh~sfprhms~-~~l~~ 150 (275)
T PF12683_consen 75 TAEAFRKIKEKRPDILLIAGEPHEDPEVISSAADIVVNPDEI---SRGYTIVWAAKKMGAKTFVHYSFPRHMSY-ELLAR 150 (275)
T ss_dssp -HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSSEEEE--HH---HHHHHHHHHHHHTT-S-EEEEEETTGGGS-HHHHH
T ss_pred hHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccCeEeccchh---hccHHHHHHHHHcCCceEEEEechhhcch-HHHHH
Confidence 77777776544 46666655433 2211222 1223345555 78899999999999999999876655444 32
Q ss_pred -HHHHHHHHhhCCceEeEEEeccCCCCC-----hHHH--HHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 194 -IPYLFDSLHDNDIDIARRTSISLASST-----HDQI--IEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 194 -~~~l~~~~~~~g~~i~~~~~~~~~~~~-----~~~~--~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
.+.+++..++.|++.+.... |.+..+ ..+| ..+-+.+++.+.++-+.+++...-..+++++.+.|.
T Consensus 151 Rr~~M~~~C~~lGi~fv~~ta-PDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 151 RRDIMEEACKDLGIKFVEVTA-PDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHHCT--EEEEEE----SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHcCCeEEEEeC-CCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 45566777889999887643 201111 1222 122245667799999999999999999999999883
No 219
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=94.12 E-value=0.35 Score=49.65 Aligned_cols=61 Identities=23% Similarity=0.140 Sum_probs=40.3
Q ss_pred cCCcEEE-ecCCcHHHhh----hcCCCCC---cCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc
Q 044527 679 SMDNIGS-QLGSVVPGAL----SNLNFKD---SRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY 740 (860)
Q Consensus 679 ~~~~i~~-~~~~~~~~~~----~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~ 740 (860)
++++|++ ..++...-.+ ++.++.. .+++.++. .+...++.+|++|+++...++.....++.
T Consensus 120 kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~iDa~~~~eP~~~~~~~~g 188 (252)
T PF13379_consen 120 KGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGEIDAAVLWEPFASQAEAKG 188 (252)
T ss_dssp STEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-SEEEEETTHHHHHHHTT
T ss_pred CCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCCcCEEEecCCHHHHHHhcc
Confidence 7889999 4556554333 3444444 34555555 89999999999999999988877766555
No 220
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=93.92 E-value=0.44 Score=47.54 Aligned_cols=55 Identities=24% Similarity=0.186 Sum_probs=36.5
Q ss_pred hhHhhhcCCcEEEecCCcHHHhh----hcCCCCCcCccccCC-HHHHHHHHhcCCcEEEE
Q 044527 673 QQIKLASMDNIGSQLGSVVPGAL----SNLNFKDSRLKKYNS-AEEYANALSMGSISAIV 727 (860)
Q Consensus 673 ~~~~~~~~~~i~~~~~~~~~~~~----~~~~~~~~~~~~~~~-~~~~~~~l~~g~~~~~i 727 (860)
+.+.+++|++|++..++.....+ +..+....++..... ..+...+|.+|++|+.+
T Consensus 86 ~~~~DLkGK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~vDa~~ 145 (216)
T PF09084_consen 86 KSPADLKGKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQVDAAI 145 (216)
T ss_dssp SSGGGGTTSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTSSSEEE
T ss_pred CCHHHhCCCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCCCCEEE
Confidence 34445699999998876544333 444554455554433 56666799999999988
No 221
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=93.66 E-value=0.78 Score=48.03 Aligned_cols=67 Identities=13% Similarity=0.116 Sum_probs=43.1
Q ss_pred hHhhhcCCcEEEecCCcHHHhh----hcCCCCCcCcc-ccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc
Q 044527 674 QIKLASMDNIGSQLGSVVPGAL----SNLNFKDSRLK-KYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY 740 (860)
Q Consensus 674 ~~~~~~~~~i~~~~~~~~~~~~----~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~ 740 (860)
.++++.|++|++..++.....+ +..+.+...+. .+.+..+...++.+|++|+++...+.......+.
T Consensus 95 s~~dL~Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~vda~~~~~p~~~~~~~~~ 166 (288)
T TIGR01728 95 TVADLKGKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQVDAWAIWEPWGSALVEEG 166 (288)
T ss_pred CHHHcCCCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCCCCEEEeccchHhHHhhcc
Confidence 3445589999987665544333 33344333332 2345678899999999999999887766655443
No 222
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=93.57 E-value=8.3 Score=41.37 Aligned_cols=158 Identities=13% Similarity=0.048 Sum_probs=86.2
Q ss_pred CHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCC-CCcEEecccCCCccccc---ceEeecCCCchhHHHHHH
Q 044527 91 DPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRA-KIPIISLFTTLPNSLTS---YSIQIDQDDEASQSQARG 166 (860)
Q Consensus 91 ~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~-~ip~Is~~a~~~~~ls~---~~~r~~p~~~~~~~~~~a 166 (860)
+.....+...++.++ +...|+|... .-..++..++.++ ++.++-..+.-+ .-.| +.||..-.. .++-.
T Consensus 82 ~~~~~~~~~~~~a~~-g~~lI~~~gf--~~~d~~~~va~~~Pd~~F~iid~~~~-~~~Nv~s~~f~~~ega----yL~G~ 153 (345)
T COG1744 82 SEADYERALRALAED-GYDLIFGTGF--AFSDALEKVAAEYPDVKFVIIDGVVK-KEDNVASYVFREYEGA----YLAGV 153 (345)
T ss_pred chhHHHHHHHHHHhc-CCCEEEEecc--chhhHHHHHHHHCCCCEEEEecCccC-CCCceEEEEeccccHH----HHHHH
Confidence 345556666667665 6677777554 3445555566655 444444433222 1213 667665543 34444
Q ss_pred HHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCC-ChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 167 ISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASS-THDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 167 i~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~-~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
++..+.+ -.+++.|..-+.-....+...|..-++..+-++.....+. .+. +...-....+.+.++++|||+-.+++
T Consensus 154 ~AA~~sk--~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~i~v~v~~~-gsf~D~~k~k~~a~~li~~GaDVI~~~ag~ 230 (345)
T COG1744 154 AAAKMSK--SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPDIKVKVVYV-GSFSDPAKGKEAANALIDQGADVIYPAAGG 230 (345)
T ss_pred HHHHhhc--CCceeEEecccchhhHHHHHHHHHHHHhhCCCccEEEEEe-cCccChHHHHHHHHHHHhcCCCEEEecCCC
Confidence 4444433 3466666544432211456667766666655444333332 111 22233447778889999999888876
Q ss_pred HHHHHHHHHHHHcCC
Q 044527 246 ALASHLFLNAKKLGM 260 (860)
Q Consensus 246 ~~~~~il~~a~~~gl 260 (860)
..... +.+|++.+.
T Consensus 231 ~~~gv-~~~A~~~~~ 244 (345)
T COG1744 231 TGVGV-FQAAKELGA 244 (345)
T ss_pred CcchH-HHHHHHhCC
Confidence 55443 336777773
No 223
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=93.04 E-value=0.35 Score=39.19 Aligned_cols=55 Identities=20% Similarity=0.315 Sum_probs=46.7
Q ss_pred cccchhHHHHHHHHhhccc-c-ccccccchhhhHHHHHHHHHHHHHHhhhccccccc
Q 044527 617 AHQFGMIFWYSFSTLVFSQ-R-EKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLT 671 (860)
Q Consensus 617 ~~~~~~~~~~~~~~~~~~~-~-~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt 671 (860)
..++.+++|+++.++...| + ..|.+..+|++.+.+.++++.+.+...+.+++.++
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4578899999999999987 4 47888889999999999999999999999887664
No 224
>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=92.80 E-value=5 Score=41.48 Aligned_cols=155 Identities=12% Similarity=0.069 Sum_probs=89.7
Q ss_pred cCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEe
Q 044527 105 NVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHE 184 (860)
Q Consensus 105 ~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~ 184 (860)
..+|+++|-... ......+. .+...++|+|......+ . ...+-.+..++. .-+..+++.+...|-+++++|..
T Consensus 54 ~~~vdgiIi~~~-~~~~~~~~-~l~~~~iPvV~i~~~~~-~-~~~~~~V~~d~~---~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 54 ALDIDGAILVEP-MADDPQVA-RLRQRGIPVVSIGRPPG-D-RTDVPYVDLQSA---ATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred ccCcCeEEEecC-CCCCHHHH-HHHHcCCCEEEeCCCCC-C-CCCCCeEeeCcH---HHHHHHHHHHHHcCCCcEEEEeC
Confidence 447887653212 11112233 34456999998864321 0 111223345555 66677888888889999999975
Q ss_pred cCC--CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC--CCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 185 DNT--WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL--DTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 185 ~~~--~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~--~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
... ... ...+.+++.+++.|+...... .. ...+..+-...++++.+. .+++|+ +++...+..+++.+++.|+
T Consensus 127 ~~~~~~~~-~R~~gf~~a~~~~g~~~~~~~-~~-~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl 202 (269)
T cd06287 127 SARRNSYL-EAEAAYRAFAAEHGMPPVVLR-VD-EAGGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGR 202 (269)
T ss_pred CcccccHH-HHHHHHHHHHHHcCCCcceeE-ec-CCCChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCC
Confidence 432 223 456788899998887543211 11 112223333444554332 466664 5577788889999999998
Q ss_pred ccCCeEEEec
Q 044527 261 MSKGYVWIAT 270 (860)
Q Consensus 261 ~~~~~~~i~~ 270 (860)
..++-+-+++
T Consensus 203 ~vP~dvsvig 212 (269)
T cd06287 203 AVPDQLRVVT 212 (269)
T ss_pred CCCCceEEEe
Confidence 6665444443
No 225
>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=92.78 E-value=5.2 Score=37.91 Aligned_cols=70 Identities=14% Similarity=0.186 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++++++... .+..++..+.+|++|+++..... ....+. ..++.....+++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~~----------~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~ 77 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVEG----------GSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLV 77 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEEC----------ChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEE
Confidence 345677788877764 356666654 56789999999999999865433 222222 456777788888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++++.
T Consensus 78 ~~~~~ 82 (197)
T cd05466 78 VPPDH 82 (197)
T ss_pred ecCCC
Confidence 87664
No 226
>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=92.48 E-value=3.6 Score=40.09 Aligned_cols=179 Identities=15% Similarity=0.114 Sum_probs=110.2
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-.+++..+.++.. ++++.+... +...+++.|.+|++|+++..... ....+. ..++....+++++
T Consensus 20 ~l~~~l~~~~~~~P-~i~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~ 84 (209)
T PF03466_consen 20 LLPPLLAEFRERHP-NIRIEIREG----------DSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVV 84 (209)
T ss_dssp THHHHHHHHHHHST-TEEEEEEEE----------SHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHCC-CcEEEEEec----------cchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeee
Confidence 44788999988886 467777664 67899999999999999865443 222222 5788888899998
Q ss_pred ecCCC-CCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCcccccchhHHHHHHHHhhccccccccccchhh
Q 044527 568 PIDQN-NNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKF 646 (860)
Q Consensus 568 ~~~~~-~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~ 646 (860)
++... .. .
T Consensus 85 ~~~~pl~~--------------------------------~--------------------------------------- 93 (209)
T PF03466_consen 85 SPDHPLAQ--------------------------------K--------------------------------------- 93 (209)
T ss_dssp ETTSGGGT--------------------------------T---------------------------------------
T ss_pred eccccccc--------------------------------c---------------------------------------
Confidence 87752 00 0
Q ss_pred hHHHHHHHHHHHHHHhhhccccccchhhHhhhcCCcEEEe-cCCcHHHhh----hcCCCCCcCccccCCHHHHHHHHhcC
Q 044527 647 VVIVWVFVVLILSSSYTATLASMLTIQQIKLASMDNIGSQ-LGSVVPGAL----SNLNFKDSRLKKYNSAEEYANALSMG 721 (860)
Q Consensus 647 l~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~~~~i~~~-~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~l~~g 721 (860)
.-++.++ +.+..+... .+......+ +..+.........++.......+.+|
T Consensus 94 ---------------------~~i~~~d---L~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g 149 (209)
T PF03466_consen 94 ---------------------KPITLED---LADYPLILLSPGSPYRDQLDRWLREHGFSPNIVIEVDSFESILSLVASG 149 (209)
T ss_dssp ---------------------SSSSGGG---GTTSEEEEESTTTSHHHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHTT
T ss_pred ---------------------ccchhhh---hhhccccccccccccccccccccccccccccccccccchhhhccccccc
Confidence 0012222 355555443 233333333 33333333445678899999999999
Q ss_pred CcEEEEcchHHHHHHHhccCccce--eeccccccccCceEEEeccCCcchHHHHHHHHHHhh
Q 044527 722 SISAIVDEIPYVRAFLSKYSAHYT--TAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLRE 781 (860)
Q Consensus 722 ~~~~~i~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e 781 (860)
..-+++-+.....+. ... .++ .+.+.- ....+.++.+++.+....+...+..+++
T Consensus 150 ~gi~~~p~~~~~~~~-~~~--~l~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 150 DGIAILPDSLAQDEL-ESG--ELVFLPLPDPP--LPRPIYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp SEBEEEEHHHHHHHH-HCT--TEEEEEESSST--EEEEEEEEEETTGTTHHHHHHHHHHHHH
T ss_pred cceeecCcccccccc-cCC--CEEEEECCCCC--CceEEEEEEECCCCCCHHHHHHHHHHHH
Confidence 855554444333333 322 233 233312 3477888999998877777777776655
No 227
>cd08418 PBP2_TdcA The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold. TdcA, a member of the LysR family, activates the expression of the anaerobically-regulated tdcABCDEFG operon which is involved in the degradation of L-serine and L-threonine to acetate and propionate, respectively. The tdc operon is comprised of one regulatory gene tdcA and six structural genes, tdcB to tdcG. The expression of the tdc operon is affected by several transcription factors including the cAMP receptor protein (CRP), integration host factor (IHF), histone-like protein (HU), and the operon specific regulators TdcA and TcdR. TcdR is divergently transcribed from the operon and encodes a small protein that is required for efficient expression of the Escherichia coli tdc operon. This substrate-binding domain shows significant homology to the type 2 periplasmic binding
Probab=91.22 E-value=12 Score=35.79 Aligned_cols=72 Identities=13% Similarity=0.116 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-..++..+.++.. ++++.+... +...+...+.+|++|+++...... .....+ -+.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v 79 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYEG----------QLSSLLPELRDGRLDFAIGTLPDE-MYLKEL-ISEPLFESDFVVV 79 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEeC----------cHHHHHHHHHcCCCcEEEEecCCC-CCCcce-eEEeecCCceEEE
Confidence 445778888888875 356666543 567899999999999998532211 111222 2467777888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 80 ~~~~~ 84 (201)
T cd08418 80 ARKDH 84 (201)
T ss_pred eCCCC
Confidence 76654
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=91.08 E-value=21 Score=37.65 Aligned_cols=200 Identities=12% Similarity=0.016 Sum_probs=105.0
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCC-CHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQG-DPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~-~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
.+++++.+-.-.+ ..+-.++-.+++++.++. ..+++...+... ++....+...+++++ +...||++.. .-.
T Consensus 2 ~~v~~~~~g~~~D-~g~n~~~~~G~~~~~~~~----~~i~~~~~e~~~~~~~~~~~~~~~~~~~-g~dlIi~~g~--~~~ 73 (306)
T PF02608_consen 2 KKVALLDPGGIND-KGFNQSAYEGLKRAEKEL----DGIEIIYVENVPETDADYEEAIRQLADQ-GYDLIIGHGF--EYS 73 (306)
T ss_dssp EEEEEESSS-CCC-SSHHHHHHHHHHHHHHHC----TTEEEEEEES-S-TCHHHHHHHHHHHHT-T-SEEEEESG--GGH
T ss_pred eEEEEEECCCCCC-ccHHHHHHHHHHHHHHHc----CCceEEEEecCCccHHHHHHHHHHHHHc-CCCEEEEccH--HHH
Confidence 3566666654322 223344444455554442 134555555443 455666666677665 8888888554 455
Q ss_pred HHHHHhhcCC-CCcEEecccCCCccc-cc---ceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEE---ecCC-CCCcC
Q 044527 122 QILADLGSRA-KIPIISLFTTLPNSL-TS---YSIQIDQDDEASQSQARGISDFISVFKWKEVILIH---EDNT-WGNDN 192 (860)
Q Consensus 122 ~~~~~~~~~~-~ip~Is~~a~~~~~l-s~---~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~---~~~~-~g~~~ 192 (860)
.++..++..+ ++-++......+ .- .| +.||.... ..++-.++.++.+- .+++++. ..+. .-. .
T Consensus 74 ~~~~~vA~~yPd~~F~~~d~~~~-~~~~Nv~~~~f~~~e~----~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~-~ 145 (306)
T PF02608_consen 74 DALQEVAKEYPDTKFIIIDGYID-APEPNVISITFREEEA----SFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVN-R 145 (306)
T ss_dssp HHHHHHHTC-TTSEEEEESS----ST-TTEEEEEE-HHHH----HHHHHHHHHHHHSS--TEEEEEEEEES--SCTTH-H
T ss_pred HHHHHHHHHCCCCEEEEEecCcC-CCCCcEEEEEccccch----hHHHHHHHHHHhcc--CcccccccccCCCcHhHH-H
Confidence 5666777766 555555544333 22 23 44444332 15555666666543 4888888 4332 222 4
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCCh-HHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTH-DQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~-~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
+...|..-++..+-++.....+. .+..+ ..-...-..+.+.++|+|+..+.. ....+++++++.|.
T Consensus 146 ~~~gF~~Ga~~~np~i~v~~~~~-gs~~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 146 FINGFIAGAKYVNPDIKVNVSYT-GSFNDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHHHHTTTT-EEEEEE--SSSS-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHHHHHHHhCcCceEEEEEc-CCcCchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 55667777766655544433333 22333 333445566778999999987664 44557888888884
No 229
>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=90.91 E-value=11 Score=38.35 Aligned_cols=137 Identities=12% Similarity=0.026 Sum_probs=83.6
Q ss_pred CCeEEEE--ecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhh--CCCcEEEE
Q 044527 106 VDLQAII--CIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISV--FKWKEVIL 181 (860)
Q Consensus 106 ~~v~avi--Gp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~--~~w~~v~i 181 (860)
.+|.++| ++.. +. ......+...++|+|......+ ...+ +..+..++. .-+..+++.+.. .|-+++++
T Consensus 51 ~~vdGvIi~~~~~-~~--~~~~~~~~~~~~PvV~i~~~~~-~~~~-~~~V~~D~~---~~~~~a~~~L~~~~~G~~~Ia~ 122 (247)
T cd06276 51 GKYSGYVVMPHFK-NE--IQYFLLKKIPKEKLLILDHSIP-EGGE-YSSVAQDFE---KAIYNALQEGLEKLKKYKKLIL 122 (247)
T ss_pred cCCCEEEEecCCC-Cc--HHHHHHhccCCCCEEEEcCcCC-CCCC-CCeEEEccH---HHHHHHHHHHHHHhcCCCEEEE
Confidence 3677665 3222 11 1133455557899998874332 2111 223455665 667777788877 89999999
Q ss_pred EEecCC-CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 182 IHEDNT-WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 182 i~~~~~-~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
|..... .+. ...+.+++.+++.|+.... ... .... .+ .++++ |++.+...|..+++.+++.|+
T Consensus 123 i~~~~~~~~~-~R~~gf~~~l~~~g~~~~~--~~~---~~~~----~~-----~~~~a-i~~~~d~~A~g~~~~l~~~g~ 186 (247)
T cd06276 123 VFPNKTAIPK-EIKRGFERFCKDYNIETEI--IND---YENR----EI-----EKGDL-YIILSDTDLVFLIKKARESGL 186 (247)
T ss_pred EecCccHhHH-HHHHHHHHHHHHcCCCccc--ccc---cchh----hc-----cCCcE-EEEeCHHHHHHHHHHHHHcCC
Confidence 975442 344 5678889999999976432 111 1110 00 12354 566788888999999999997
Q ss_pred ccCCeE
Q 044527 261 MSKGYV 266 (860)
Q Consensus 261 ~~~~~~ 266 (860)
..++-+
T Consensus 187 ~iP~di 192 (247)
T cd06276 187 LLGKDI 192 (247)
T ss_pred cCCcee
Confidence 655443
No 230
>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=90.62 E-value=2.7 Score=44.78 Aligned_cols=65 Identities=15% Similarity=0.130 Sum_probs=44.1
Q ss_pred HhhhcCCcEEEecCCcHHHhh----hcCCCCCcCccccC-CHHHHHHHHhcCCcEEEEcchHHHHHHHhc
Q 044527 675 IKLASMDNIGSQLGSVVPGAL----SNLNFKDSRLKKYN-SAEEYANALSMGSISAIVDEIPYVRAFLSK 739 (860)
Q Consensus 675 ~~~~~~~~i~~~~~~~~~~~~----~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~ 739 (860)
+++++|++|++..++..+-++ +..++....+...+ ...+...++.+|++|+.+...++......+
T Consensus 101 vaDLKGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~~d~~aAl~~G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 101 LADLKGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSDADIVAAFITKDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred HHHcCCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCChHHHHHHHhcCCCcEEEEcCchHHHHHhC
Confidence 345599999998887765444 33444433333332 446788999999999999888876554443
No 231
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=89.78 E-value=14 Score=39.47 Aligned_cols=149 Identities=10% Similarity=-0.008 Sum_probs=83.6
Q ss_pred CCeEEEEe-cCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEe
Q 044527 106 VDLQAIIC-IGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHE 184 (860)
Q Consensus 106 ~~v~aviG-p~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~ 184 (860)
.+|+++|- |.. +. .....+...++|+|......+ . .+ +-.+..++. .-+..+++.+...|.++++++..
T Consensus 113 ~~vDgiI~~~~~-~~---~~~~~l~~~~~pvV~~~~~~~-~-~~-~~~V~~D~~---~~~~~a~~~l~~~G~~~i~~i~~ 182 (327)
T PRK10339 113 KNVTGILIVGKP-TP---ALRAAASALTDNICFIDFHEP-G-SG-YDAVDIDLA---RISKEIIDFYINQGVNRIGFIGG 182 (327)
T ss_pred ccCCEEEEeCCC-CH---HHHHHHHhcCCCEEEEeCCCC-C-CC-CCEEEECHH---HHHHHHHHHHHHCCCCeEEEeCC
Confidence 36777653 322 22 223344566899998764322 1 11 122455555 66677888888889999999965
Q ss_pred cCC--CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc--CCCeEEEEEeCHHHHHHHHHHHHHcCC
Q 044527 185 DNT--WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS--LDTKVFVVHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 185 ~~~--~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~--~~~~viil~~~~~~~~~il~~a~~~gl 260 (860)
... ... ...+.+.+.++..|+. .....+. .+....+....++++.+ ..+++| ++++...|..+++.+++.|+
T Consensus 183 ~~~~~~~~-~R~~gf~~~~~~~g~~-~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~ 258 (327)
T PRK10339 183 EDEPGKAD-IREVAFAEYGRLKQVV-REEDIWR-GGFSSSSGYELAKQMLAREDYPKAL-FVASDSIAIGVLRAIHERGL 258 (327)
T ss_pred ccccchhh-HHHHHHHHHHHHcCCC-Chhheee-cCcChhHHHHHHHHHHhCCCCCCEE-EECCcHHHHHHHHHHHHcCC
Confidence 433 222 3456777788877761 1101111 11122223334444433 245655 45566778889999999997
Q ss_pred ccCCeEEE
Q 044527 261 MSKGYVWI 268 (860)
Q Consensus 261 ~~~~~~~i 268 (860)
..++-+-|
T Consensus 259 ~vP~di~v 266 (327)
T PRK10339 259 NIPQDISL 266 (327)
T ss_pred CCCCceEE
Confidence 55544433
No 232
>TIGR00035 asp_race aspartate racemase.
Probab=89.75 E-value=2.9 Score=42.10 Aligned_cols=88 Identities=17% Similarity=0.143 Sum_probs=53.1
Q ss_pred CHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHH
Q 044527 91 DPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDF 170 (860)
Q Consensus 91 ~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~ 170 (860)
++...+..+.+.+.+.++.+++=|.. +.... ...+-+..++|+|+.. ++.++-
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCN-Tah~~-~~~l~~~~~iPii~i~-------------------------~~~~~~ 111 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCN-TAHKF-AEDIQKAIGIPLISMI-------------------------EETAEA 111 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCc-cHHHH-HHHHHHhCCCCEechH-------------------------HHHHHH
Confidence 35555555555555568998887766 43332 4455555678887752 122223
Q ss_pred HhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEe
Q 044527 171 ISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIA 209 (860)
Q Consensus 171 l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~ 209 (860)
++..+.++|+++.+... -....+++.+++.|++++
T Consensus 112 ~~~~~~~~VgvLaT~~T----~~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 112 VKEDGVKKAGLLGTKGT----MKDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHcCCCEEEEEecHHH----HHhHHHHHHHHHCCCEEE
Confidence 34457789999976543 222447778888887765
No 233
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=89.62 E-value=21 Score=37.69 Aligned_cols=72 Identities=11% Similarity=0.116 Sum_probs=48.0
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-..++..+.++.. ++++.+... ....++..+.+|++|+++..-......... -.+.++....+++++
T Consensus 109 ~~~~~l~~~~~~~P-~v~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~-~~~~~l~~~~~~~v~ 176 (305)
T CHL00180 109 LMPRLIGLFRQRYP-QINVQLQVH----------STRRIAWNVANGQIDIAIVGGEVPTELKKI-LEITPYVEDELALII 176 (305)
T ss_pred HHHHHHHHHHHHCC-CceEEEEeC----------CHHHHHHHHHcCCccEEEEcCccCcccccc-eeEEEeccCcEEEEE
Confidence 34678888888764 355666543 568899999999999998532111111111 235788888888888
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 177 ~~~~ 180 (305)
T CHL00180 177 PKSH 180 (305)
T ss_pred CCCC
Confidence 7764
No 234
>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=89.60 E-value=19 Score=34.20 Aligned_cols=70 Identities=9% Similarity=0.127 Sum_probs=48.6
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++++.+... +...+...|.+|++|+++..... ....+ -..++....++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~~----------~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v 77 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVEY----------GGKKVEQAVLNGELDVGITVLPV---DEEEF-DSQPLCNEPLVAV 77 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEEc----------CcHHHHHHHHcCCCCEEEEeccc---ccCCc-eeEEeccccEEEE
Confidence 455789999998875 466666653 55789999999999999854322 11222 2467778888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (197)
T cd08438 78 LPRGH 82 (197)
T ss_pred ecCCC
Confidence 87654
No 235
>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=89.44 E-value=16 Score=34.92 Aligned_cols=70 Identities=14% Similarity=0.137 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++++.+... +.+.+...+.+|++|+++... +.....+ -+.++....++++
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~~----------~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v 77 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVPL----------DRDDLEEALESGEIDLAIGVF---PELPPGL-RSQPLFEDRFVCV 77 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEeccC----------CHHHHHHHHHcCCCCEEEeec---ccCCCcc-chhhhhcCceEEE
Confidence 445677888888764 345555543 667899999999999998542 2222222 2467888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 78 ~~~~~ 82 (200)
T cd08417 78 ARKDH 82 (200)
T ss_pred ecCCC
Confidence 87654
No 236
>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=89.12 E-value=21 Score=33.89 Aligned_cols=71 Identities=13% Similarity=0.035 Sum_probs=48.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+...++..+.++.. ++++.+... +...+...+.+|++|+++... +.....+ -..++.....++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~ 76 (193)
T cd08442 12 AVRLPPLLAAYHARYP-KVDLSLSTG----------TTGALIQAVLEGRLDGAFVAG---PVEHPRL-EQEPVFQEELVL 76 (193)
T ss_pred hhhhHHHHHHHHHHCC-CceEEEEeC----------CcHHHHHHHHCCCccEEEEeC---CCCCCCc-EEEEeecCcEEE
Confidence 3445788999988875 356666543 557899999999999988532 2222222 246677788888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 v~~~~~ 82 (193)
T cd08442 77 VSPKGH 82 (193)
T ss_pred EecCCC
Confidence 877654
No 237
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=89.00 E-value=1.8 Score=47.40 Aligned_cols=80 Identities=8% Similarity=0.107 Sum_probs=62.5
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
...+.+.++.+|.+++.++++..-... +..+.+.+.+++.|+++.....+. +++..++.....+.+++.++|+||-.+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~~-g~~~~v~~~L~~~~i~~~~f~~v~-~np~~~~v~~~~~~~~~~~~D~IiaiG 96 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTKL-GMAGDVQKALEERNIFSVIYDGTQ-PNPTTENVAAGLKLLKENNCDSVISLG 96 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEeCCCC-CCcCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 355777888899999999986544444 678899999999998865444444 566778888999999999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 97 GG 98 (383)
T PRK09860 97 GG 98 (383)
T ss_pred Cc
Confidence 53
No 238
>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=89.00 E-value=23 Score=34.19 Aligned_cols=73 Identities=10% Similarity=0.074 Sum_probs=48.9
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++++.+... +...+++.|.+|++|+++............+. +.++.....+++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~ 80 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVHA----------EQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVI 80 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEEC----------ChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEE
Confidence 455788999988874 356666653 66899999999999999864321100012232 357777788888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++++.
T Consensus 81 ~~~~h 85 (202)
T cd08468 81 ASRDH 85 (202)
T ss_pred EeCCC
Confidence 87654
No 239
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=88.73 E-value=17 Score=38.63 Aligned_cols=85 Identities=16% Similarity=0.168 Sum_probs=55.2
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|+||+... .. ..+-.+++..+.++.. .+++.+... +...++..|.+|
T Consensus 92 ~g~l~Ig~~~~--~~-----------------~~~l~~~l~~~~~~~p-~i~l~~~~~----------~~~~~~~~L~~g 141 (313)
T PRK12684 92 QGNLTIATTHT--QA-----------------RYALPAAIKEFKKRYP-KVRLSILQG----------SPTQIAEMVLHG 141 (313)
T ss_pred CCeEEEEechH--HH-----------------HHHhHHHHHHHHHHCC-CceEEEEeC----------ChHHHHHHHHCC
Confidence 36799998731 21 2334788888888775 356666543 567899999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
++|+++..-.... ...+ -+.|+.....++++++..
T Consensus 142 ~~D~~i~~~~~~~--~~~l-~~~~l~~~~~~~v~~~~~ 176 (313)
T PRK12684 142 QADLAIATEAIAD--YKEL-VSLPCYQWNHCVVVPPDH 176 (313)
T ss_pred CcCEEEeecCCCC--CCCc-eEEEeccceEEEEeCCCC
Confidence 9999975321111 1122 256777777888776654
No 240
>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=88.53 E-value=1.3 Score=41.56 Aligned_cols=98 Identities=12% Similarity=0.183 Sum_probs=62.8
Q ss_pred HHHHhhCCCcEEEEEEecCC--CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHH-hhhcCCCeEEEEEeC
Q 044527 168 SDFISVFKWKEVILIHEDNT--WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLS-MLKSLDTKVFVVHMT 244 (860)
Q Consensus 168 ~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~-~i~~~~~~viil~~~ 244 (860)
++.+...|.++++++..... +.. ...+.+++.+++.|+......... .....+...... .+++..+++|| +++
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~-~r~~gf~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~pdaii-~~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSR-ERLEGFREALKEHGIEFEELIFFS--DDDSEDAREAQLLWLRRLRPDAII-CSN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHH-HHHHHHHHHHHHTTSEEEGEEEEE--SSSHHHHHHHHHHHHHTCSSSEEE-ESS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHH-HHHHHHHHHHHHCCCCCCeeEeec--CCcchhHHHHHHHHHhcCCCcEEE-EcC
Confidence 35677789999999994432 333 457788999999999865444333 123333322222 23334677664 488
Q ss_pred HHHHHHHHHHHHHcCCccCCeEEEe
Q 044527 245 HALASHLFLNAKKLGMMSKGYVWIA 269 (860)
Q Consensus 245 ~~~~~~il~~a~~~gl~~~~~~~i~ 269 (860)
...+..+++.+.+.|+..+.-+.++
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEE
Confidence 8999999999999998655433343
No 241
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=88.52 E-value=2.3 Score=45.65 Aligned_cols=80 Identities=8% Similarity=0.125 Sum_probs=68.2
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.+|++|+-+|++..-... +..+.+.+.+++.|+++.....+. +++..+.....+..+++.++|.||..+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~-g~~~~v~~~L~~~~i~~~if~~v~-p~P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKL-GLLDKVLDSLDAAGIEYEVFDEVE-PEPTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccc-hhHHHHHHHHHhcCCeEEEecCCC-CCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 466777788899999999998876666 789999999999998887766666 778888899999999999999999987
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 95 GG 96 (377)
T COG1454 95 GG 96 (377)
T ss_pred Cc
Confidence 54
No 242
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=88.35 E-value=9.9 Score=36.39 Aligned_cols=91 Identities=7% Similarity=0.107 Sum_probs=63.1
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccC-CCC--C---hHHHHHHHHhhhcCCCeE
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISL-ASS--T---HDQIIEKLSMLKSLDTKV 238 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~-~~~--~---~~~~~~~l~~i~~~~~~v 238 (860)
-|+.+-|+.++.+++.++.+ |-. +..+.-.+.++++|++|+....+-. .+. + ....-...+++..-++|.
T Consensus 107 ~Avv~aL~al~a~ri~vlTP---Y~~-evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Da 182 (238)
T COG3473 107 TAVVEALNALGAQRISVLTP---YID-EVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADA 182 (238)
T ss_pred HHHHHHHHhhCcceEEEecc---chh-hhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCe
Confidence 35666788899999999976 555 7888889999999999987544331 111 1 122334456667889999
Q ss_pred EEEEeCHHHHHHHHHHH-HHcC
Q 044527 239 FVVHMTHALASHLFLNA-KKLG 259 (860)
Q Consensus 239 iil~~~~~~~~~il~~a-~~~g 259 (860)
|++.|..-....++... ++.|
T Consensus 183 iFiSCTnlRt~eii~~lE~~~G 204 (238)
T COG3473 183 IFISCTNLRTFEIIEKLERDTG 204 (238)
T ss_pred EEEEeeccccHHHHHHHHHHhC
Confidence 99999766666666665 3455
No 243
>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=88.25 E-value=16 Score=35.09 Aligned_cols=70 Identities=16% Similarity=0.089 Sum_probs=48.0
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +.+.+...|.+|++|+++..... ....+ .+.|+....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~~----------~~~~~~~~l~~g~~D~~i~~~~~---~~~~l-~~~~l~~~~~~~v 77 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVRL----------PVDELEEALESGEIDLAIGYLPD---LGAGF-FQQRLFRERYVCL 77 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEec----------CccCHHHHhhCCCceEEEEcCCC---Ccccc-eEEEeecCceEEE
Confidence 345678888888875 356666543 45678999999999999854321 12223 3578888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (201)
T cd08459 78 VRKDH 82 (201)
T ss_pred EcCCC
Confidence 87664
No 244
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=88.21 E-value=34 Score=35.25 Aligned_cols=206 Identities=11% Similarity=0.078 Sum_probs=116.5
Q ss_pred CceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeE-EEEecCCCh
Q 044527 40 SDEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQ-AIICIGMTP 118 (860)
Q Consensus 40 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~-aviGp~~~s 118 (860)
.++..||+..|--... ++..-=...+++.+.-+ .+.. +.+-.++...-+.....++++ ++. .||+|.. +
T Consensus 23 ~~d~~IGis~~d~~~e--RW~~D~~~~~~~~e~~g----~k~~--~q~A~~~~~~Q~~qien~i~q-g~~vlvi~a~d-~ 92 (341)
T COG4213 23 AKDGVIGISMPDLRSE--RWIKDRDAFVKKAEALG----AKVD--VQSADGDEEKQLAQIENMINQ-GVKVLVIGAID-G 92 (341)
T ss_pred ccCCeEEEEcCChhHh--hhhhhhHHHHHHHHhcc----chhh--hhhhccChhHHHHHHHHHHhc-CCCEEEEEecc-c
Confidence 4568899888754321 22221222233333322 3433 344456777778888999998 775 5689999 8
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCch-hHHHHHHHHHHHhhCC---CcEEEEEE-ecCC-----C
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEA-SQSQARGISDFISVFK---WKEVILIH-EDNT-----W 188 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~-~~~~~~ai~~~l~~~~---w~~v~ii~-~~~~-----~ 188 (860)
.+...+...+...+||+|+|.---+ . .+.=|-++-.... .+.|++++.+-++... -..+.++. +.++ +
T Consensus 93 ~~l~~~i~~A~~~gikViaYDRlI~-n-~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA~lf 170 (341)
T COG4213 93 GVLSNAVEKAKSEGIKVIAYDRLIN-N-ADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNAKLF 170 (341)
T ss_pred hhHHHHHHHHHHcCCeEEEeecccc-c-CCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcchHHH
Confidence 8888888999999999999964433 2 2221222223321 3567777766665433 23344443 3222 1
Q ss_pred CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhh---cCCCeEEEEEeCHHHHHHHHHHHHHcCCc
Q 044527 189 GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLK---SLDTKVFVVHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 189 g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~---~~~~~viil~~~~~~~~~il~~a~~~gl~ 261 (860)
-. +..+.++..+..-.+.++.....+ ....+.-...++++. ..+.+.|+.. +...+...+......|+.
T Consensus 171 ~~-G~m~VLkp~idsGkik~~Ge~~~d--~W~ps~Aq~~men~lta~~~~vdaVvA~-nDgtagGaI~aL~a~Gl~ 242 (341)
T COG4213 171 FA-GAMKVLKPLIDSGKIKVVGEQWTD--GWLPSNAQQIMENLLTANYNDIDAVVAP-NDGTAGGAIAALKAQGLA 242 (341)
T ss_pred Hh-cHHHHHHHHhhCCceEEeeecccc--ccCHHHHHHHHHHHHhcccCceeEEEcC-CCchhHHHHHHHHhcccC
Confidence 11 334555555555567776655544 222233333333332 3445666444 447777888888888975
No 245
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=88.03 E-value=20 Score=37.75 Aligned_cols=85 Identities=7% Similarity=0.049 Sum_probs=56.7
Q ss_pred CeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCc
Q 044527 455 NKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQK 534 (860)
Q Consensus 455 ~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~ 534 (860)
+.|+|++... .. ..+..+++..+.++.. ++++.+... +..++..+|.+|+
T Consensus 95 g~l~I~~~~~--~~-----------------~~~l~~~l~~~~~~~p-~i~~~~~~~----------~~~~~~~~l~~g~ 144 (302)
T PRK09791 95 GQINIGMGAS--IA-----------------RSLMPAVISRFHQQHP-QVKVRIMEG----------QLVSMINELRQGE 144 (302)
T ss_pred eEEEEEechH--HH-----------------HhhhHHHHHHHHHHCC-CeEEEEEeC----------ChHHHHHHHHCCC
Confidence 6799988832 22 2344788888888875 455555542 5678999999999
Q ss_pred ccEEEeceeecccccceeeccccccccceEEEEecCC
Q 044527 535 FDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 535 ~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
+|+++...... .....+. ..|+....+++++++..
T Consensus 145 ~Di~i~~~~~~-~~~~~~~-~~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 145 LDFTINTYYQG-PYDHEFT-FEKLLEKQFAVFCRPGH 179 (302)
T ss_pred ccEEEEecCCc-cccccee-EEEeccceEEEEEcCCC
Confidence 99988532111 1112233 47888888988887665
No 246
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=88.01 E-value=21 Score=34.90 Aligned_cols=89 Identities=16% Similarity=0.144 Sum_probs=58.7
Q ss_pred CCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhc-CCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHH
Q 044527 90 GDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGS-RAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGIS 168 (860)
Q Consensus 90 ~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~-~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~ 168 (860)
.++...+..+.+-+++-|+.+++=|.+ ++..+++-.+ .-+||+|+. .++-+
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~N---T~H~~~d~iq~~~~iPllhI-------------------------idaTa 109 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPTN---TMHKVADDIQKAVGIPLLHI-------------------------IDATA 109 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeCC---cHHHHHHHHHHhcCCCeehH-------------------------HHHHH
Confidence 345555544444445558999988776 5555555444 668888764 34555
Q ss_pred HHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeE
Q 044527 169 DFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIAR 210 (860)
Q Consensus 169 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~ 210 (860)
+-+++-|.+||+++.....- .....++.++++|++++.
T Consensus 110 ~~ik~~g~kkvgLLgT~~Tm----~~~fY~~~l~~~gievvv 147 (230)
T COG1794 110 KAIKAAGAKKVGLLGTRFTM----EQGFYRKRLEEKGIEVVV 147 (230)
T ss_pred HHHHhcCCceeEEeeccchH----HhHHHHHHHHHCCceEec
Confidence 56777799999999876532 234567889999988754
No 247
>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=88.00 E-value=20 Score=34.31 Aligned_cols=69 Identities=14% Similarity=0.079 Sum_probs=46.3
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-.+++..+.++.. ++++.+... +...++..+.+|++|+++.... .....+ -..++.....++++
T Consensus 15 ~l~~~l~~~~~~~P-~i~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~ 79 (200)
T cd08411 15 LLPRLLPALRQAYP-KLRLYLRED----------QTERLLEKLRSGELDAALLALP---VDEPGL-EEEPLFDEPFLLAV 79 (200)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEeC----------cHHHHHHHHHcCCccEEEEecc---CCCCCc-eEEEeeccceEEEe
Confidence 55788888888875 356666643 5678999999999999985321 111222 24567777777777
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 80 ~~~~ 83 (200)
T cd08411 80 PKDH 83 (200)
T ss_pred cCCC
Confidence 6554
No 248
>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=87.93 E-value=5.9 Score=37.75 Aligned_cols=102 Identities=7% Similarity=0.047 Sum_probs=71.5
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhC--CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDN--DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF 239 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi 239 (860)
.....+.+.+...+ .++.++..+. +..+.+.+.+++. |+.|+.... ...+..+...+++.|+++++|+|
T Consensus 35 dl~~~l~~~~~~~~-~~ifllG~~~-----~~~~~~~~~l~~~yP~l~ivg~~~---g~f~~~~~~~i~~~I~~~~pdiv 105 (172)
T PF03808_consen 35 DLFPDLLRRAEQRG-KRIFLLGGSE-----EVLEKAAANLRRRYPGLRIVGYHH---GYFDEEEEEAIINRINASGPDIV 105 (172)
T ss_pred HHHHHHHHHHHHcC-CeEEEEeCCH-----HHHHHHHHHHHHHCCCeEEEEecC---CCCChhhHHHHHHHHHHcCCCEE
Confidence 44566666555555 4888988766 4556677777776 677776443 22456778889999999999999
Q ss_pred EEEeCHHHHHHHHHHHHHcCCccCCeEEEecChhhh
Q 044527 240 VVHMTHALASHLFLNAKKLGMMSKGYVWIATAATMN 275 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~~~ 275 (860)
++.+..+.-..++...++.. +..+|+..++...
T Consensus 106 ~vglG~PkQE~~~~~~~~~l---~~~v~i~vG~~~d 138 (172)
T PF03808_consen 106 FVGLGAPKQERWIARHRQRL---PAGVIIGVGGAFD 138 (172)
T ss_pred EEECCCCHHHHHHHHHHHHC---CCCEEEEECchhh
Confidence 99999888887877776654 2337777666543
No 249
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=87.91 E-value=2.2 Score=46.78 Aligned_cols=80 Identities=8% Similarity=0.005 Sum_probs=62.5
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.+|.+++.++++..-... +..+.+.+.+++.|+++.....+. +++........++..++.++|+||-.+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~~-g~~~~v~~~L~~~gi~~~~~~~v~-~~P~~~~v~~~~~~~r~~~~D~IiavG 114 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQA-GMTAGLTRSLAVKGIAMTLWPCPV-GEPCITDVCAAVAQLRESGCDGVIAFG 114 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEECCCC-CCcCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 355777888899888888776554444 678889999999999876544444 566677888899999999999999988
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 115 GG 116 (395)
T PRK15454 115 GG 116 (395)
T ss_pred Ch
Confidence 64
No 250
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=87.55 E-value=28 Score=36.64 Aligned_cols=70 Identities=14% Similarity=0.085 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
++-..++..+.+... .+++.+... +-+.+++++.+|++|+++.......+ . -.+.++....++++
T Consensus 104 ~~~~~~l~~~~~~~P-~v~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~~~--~--l~~~~l~~~~~~~~ 168 (305)
T PRK11151 104 YLLPHIIPMLHQTFP-KLEMYLHEA----------QTHQLLAQLDSGKLDCAILALVKESE--A--FIEVPLFDEPMLLA 168 (305)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEEeC----------CHHHHHHHHHcCCccEEEEecCCCCC--C--eEEEEeccCcEEEE
Confidence 344677888887764 356666653 55789999999999999864322111 1 24688899999998
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 169 ~~~~h 173 (305)
T PRK11151 169 VYEDH 173 (305)
T ss_pred ecCCC
Confidence 87654
No 251
>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=87.02 E-value=19 Score=36.82 Aligned_cols=80 Identities=11% Similarity=0.027 Sum_probs=47.5
Q ss_pred CHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-CccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHH
Q 044527 710 SAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKI 788 (860)
Q Consensus 710 ~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~ 788 (860)
...+...++.+|++|+.+....++.-.--.. .+.+. ....- .+.--.+++++..--.+.+.+.+..+++.-.-+.+
T Consensus 170 ~~~~~~~al~~g~vDaa~v~~~~~~~agl~~~~~~i~-~e~~~--~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i 246 (258)
T TIGR00363 170 ETSQLPRALDDPKVDLAVINTTYAGQVGLNPQDDGVF-VEDKD--SPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAA 246 (258)
T ss_pred CHHHHHHHhhcccccEEEEChHHHHHcCCCcCcCcee-ecCCC--CCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHH
Confidence 3456778899999999998877554321111 11111 11111 12223556666544678888888888887777777
Q ss_pred HHHH
Q 044527 789 ENVW 792 (860)
Q Consensus 789 ~~~~ 792 (860)
.++|
T Consensus 247 ~~~~ 250 (258)
T TIGR00363 247 QKHF 250 (258)
T ss_pred HHHc
Confidence 6664
No 252
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=86.43 E-value=3.3 Score=45.41 Aligned_cols=80 Identities=9% Similarity=0.151 Sum_probs=61.2
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
...+.+.++.+|.+++.++++..-+-. +..+.+.+.+++.|+++.....+. +++...+....++.+++.++|+||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~-g~~~~v~~~L~~~g~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKC-GVVAKVTDVLDAAGLAYEIYDGVK-PNPTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhC-cchHHHHHHHHHCCCeEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355777888889999999987654444 578899999999998875443344 455667788888899999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 96 GG 97 (382)
T PRK10624 96 GG 97 (382)
T ss_pred Ch
Confidence 53
No 253
>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=86.13 E-value=31 Score=32.67 Aligned_cols=72 Identities=14% Similarity=0.127 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +.+.+++.+.+|++|+++..-... .....+ .+.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v 79 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVPG----------LSAELLARVDAGELDAAIVVEPPF-PLPKDL-VWTPLVREPLVLI 79 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEeC----------CcHHHHHHHHCCCCCEEEEcCCCC-ccccCc-eEEEcccCcEEEE
Confidence 445788888888874 356666543 568899999999999998532111 101222 3567778888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 80 ~~~~~ 84 (195)
T cd08427 80 APAEL 84 (195)
T ss_pred ECCCC
Confidence 77654
No 254
>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=86.10 E-value=3.1 Score=46.10 Aligned_cols=80 Identities=14% Similarity=0.156 Sum_probs=62.5
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++.+++.++++..-+.. ...+.+.+.+++.|+++.....+. +++........++..++.++|+||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~-g~~~~v~~~L~~~gi~~~~f~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQL-PPVKVVLDSLEAAGINFEVYDDVR-VEPTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhc-chHHHHHHHHHHcCCcEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677788899999999987765544 567889999999998876543444 456677888888999999999999987
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 89 GG 90 (414)
T cd08190 89 GG 90 (414)
T ss_pred Cc
Confidence 54
No 255
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=86.09 E-value=39 Score=35.83 Aligned_cols=97 Identities=8% Similarity=0.058 Sum_probs=61.2
Q ss_pred HhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeecc--ccccccCceEEEeccCCcchH
Q 044527 693 GALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAA--KYTTSTNGFGFVFQKGSPLVH 770 (860)
Q Consensus 693 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~k~spl~~ 770 (860)
.++...+.........++....++.+..|.--+++-.. .... . ..+.+..... .. ....+.++.+++.+...
T Consensus 209 ~~~~~~~~~~~~~~~~~s~~~~~~~v~~g~Gi~~lp~~-~~~~-~--~~~~L~~~~~~~~~--~~~~~~l~~~~~~~~~~ 282 (316)
T PRK12679 209 DAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQ-SSGE-Q--EESNLIRLDTRHLF--DANTVWLGLKRGQLQRN 282 (316)
T ss_pred HHHHHcCCCceEEEEeccHHHHHHHHHcCCcEEEeccc-cccc-c--cCCcEEEEECcccC--CCceEEEEEeCCchhhH
Confidence 34443343333344567888888999999744444433 2222 1 1224544332 23 34578899999999888
Q ss_pred HHHHHHHHHhhcchHHHHHHHHcCC
Q 044527 771 DISRAIARLREEGTLAKIENVWFNT 795 (860)
Q Consensus 771 ~in~~i~~l~e~G~~~~~~~~~~~~ 795 (860)
.+..++..+.+.=-.+.+.+..+.+
T Consensus 283 ~~~~f~~~~~~~~~~~~~~~~~~~~ 307 (316)
T PRK12679 283 YVWRFLELCNAGLSVEDIKRQVMEN 307 (316)
T ss_pred HHHHHHHHHhcccCHHHHHHHHhhc
Confidence 8888888887776778888877765
No 256
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria.
Probab=85.67 E-value=50 Score=34.58 Aligned_cols=70 Identities=13% Similarity=0.082 Sum_probs=47.7
Q ss_pred eHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 489 CIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 489 ~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
-.+++..+.++.. ++++.+... +...++.++.+|++|++++.... +.....+ -..|+.....+++++
T Consensus 108 ~~~~l~~~~~~~P-~~~i~~~~~----------~~~~~~~~l~~g~~D~~i~~~~~-~~~~~~~-~~~~l~~~~~~~~~~ 174 (300)
T TIGR02424 108 MPEVVKRFLARAP-RLRVRIMTG----------PNAYLLDQLRVGALDLVVGRLGA-PETMQGL-SFEHLYNEPVVFVVR 174 (300)
T ss_pred hHHHHHHHHHhCC-CcEEEEEeC----------chHHHHHHHHCCCCCEEEEecCC-cccccce-eeeeecCCceEEEEc
Confidence 3678888888875 456666653 55789999999999999853322 1122222 246788888888887
Q ss_pred cCC
Q 044527 569 IDQ 571 (860)
Q Consensus 569 ~~~ 571 (860)
+..
T Consensus 175 ~~h 177 (300)
T TIGR02424 175 AGH 177 (300)
T ss_pred CCC
Confidence 654
No 257
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=85.56 E-value=5.3 Score=42.57 Aligned_cols=61 Identities=18% Similarity=0.081 Sum_probs=40.1
Q ss_pred hHhhhcCCcEEEecCCcHHH----hhhcCCCCCcCccccC-CHHHHHHHHhcCCcEEEEcchHHHH
Q 044527 674 QIKLASMDNIGSQLGSVVPG----ALSNLNFKDSRLKKYN-SAEEYANALSMGSISAIVDEIPYVR 734 (860)
Q Consensus 674 ~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~~~i~~~~~~~ 734 (860)
.+++++|++|++..++.... +++..+.....+...+ ...+...++.+|++|+.+...+...
T Consensus 116 s~~DLkGK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~Al~~G~VDAa~~~~p~~~ 181 (320)
T PRK11480 116 KPEDLIGKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAWQRGDIDGAYVWAPAVN 181 (320)
T ss_pred ChHHcCCCEEecCCCCchHHHHHHHHHHcCCCHhheEEEECCcHHHHHHHHcCCcCEEEEcchHHH
Confidence 34455999999976654433 3344455444444332 3567889999999999887776654
No 258
>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=85.55 E-value=3.7 Score=44.84 Aligned_cols=78 Identities=8% Similarity=0.084 Sum_probs=60.8
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.++.+++.++++...+.. ...+.+.+.+++.|+++.....+. +++........+...+..++|.||-.+.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~-~~~~~v~~~L~~~g~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~d~IIaiGG 90 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAAL-GLVARVLALLEDAGLAAALFDEVP-PNPTEAAVEAGLAAYRAGGCDGVIAFGG 90 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEeCCCC-CCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45677788889899999987654444 578899999999998876443444 5566778888899999999999998765
No 259
>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=84.98 E-value=12 Score=37.18 Aligned_cols=73 Identities=14% Similarity=0.037 Sum_probs=44.1
Q ss_pred ccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhc
Q 044527 707 KYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREE 782 (860)
Q Consensus 707 ~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~ 782 (860)
...+..+..+.+.+|++++.+......... .... .....++.. .....+++++.|+++..+.-.++|..|.+.
T Consensus 134 ~~~~~~~~~~~~~~Ge~~~~~~~~~~~~~~-~~~~-~~~~~P~~~-~~~~~~~~ai~k~a~~~~~A~~fi~fl~s~ 206 (216)
T TIGR01256 134 YGEDVRQALQFVETGNAPAGIVALSDVIPS-KKVG-SVATFPEDL-YKPIRYPAVIVKGGKNNAAAKAFIDYLKSP 206 (216)
T ss_pred ecCcHHHHHHHHHcCCCCEEeeehhhhccc-CCcc-EEEEeCccc-cCCccccEEEEECCCChHHHHHHHHHHcCH
Confidence 344667788899999998887655332111 1112 223334332 034467899999998777666666666554
No 260
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=84.84 E-value=30 Score=36.91 Aligned_cols=84 Identities=17% Similarity=0.114 Sum_probs=55.1
Q ss_pred CeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCc
Q 044527 455 NKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQK 534 (860)
Q Consensus 455 ~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~ 534 (860)
+.|+||+... . ...+-.+++..+.++.. ++++.+... +.+.++..+.+|+
T Consensus 93 g~l~Ig~~~~--~-----------------~~~~l~~~l~~f~~~~P-~i~i~i~~~----------~~~~~~~~L~~g~ 142 (324)
T PRK12681 93 GSLYIATTHT--Q-----------------ARYALPPVIKGFIERYP-RVSLHMHQG----------SPTQIAEAAAKGN 142 (324)
T ss_pred CeEEEEechh--H-----------------HHHhhHHHHHHHHHHCC-CcEEEEEeC----------CHHHHHHHHHcCC
Confidence 6899998831 1 12344778888888875 456666553 6789999999999
Q ss_pred ccEEEeceeecccccceeeccccccccceEEEEecCC
Q 044527 535 FDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 535 ~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
+|+++.... ......+. ..|+.....++++++..
T Consensus 143 iDl~i~~~~--~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 143 ADFAIATEA--LHLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred CCEEEecCc--ccCCCCeE-EEEeccceeEEEeCCCC
Confidence 999985321 11122222 35677777777776553
No 261
>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=84.80 E-value=32 Score=32.74 Aligned_cols=71 Identities=10% Similarity=0.074 Sum_probs=48.8
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.. ++++.+... +...++..+.+|++|+++.... .....+ .+.|+.....++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~ 76 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVEG----------NQEELEEGLRSGELDLALTYDL---DLPEDI-AFEPLARLPPYV 76 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEEC----------CHHHHHHHHHcCCCcEEEEcCC---CCCccc-ceeeeeccceEE
Confidence 4556788999988875 356666653 5678999999999999985321 112222 257788888887
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 ~~~~~~ 82 (198)
T cd08412 77 WLPADH 82 (198)
T ss_pred EecCCC
Confidence 776654
No 262
>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=84.75 E-value=4.2 Score=44.47 Aligned_cols=79 Identities=10% Similarity=0.163 Sum_probs=61.1
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.++.+++.++++..-... ...+.+.+.+++.|+++.....+. +++...+....++.+++.++|.||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~-~~~~~v~~~L~~~~~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKA-GLIDPLLASLEAAGIEVTVFDDVE-ADPPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhC-ccHHHHHHHHHHcCCeEEEECCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45667788888899999887654344 578889999999998876444444 5566778888999999999999998875
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 93 G 93 (376)
T cd08193 93 G 93 (376)
T ss_pred c
Confidence 4
No 263
>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=84.66 E-value=4.2 Score=44.42 Aligned_cols=79 Identities=11% Similarity=0.173 Sum_probs=61.0
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++-+++.++++...+.. ...+.+.+.+++.|+++.....+. +++........++.+++.++|+||..+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~-g~~~~v~~~L~~~g~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKL-GLLDKVLEALEGAGIEYAVYDGVP-PDPTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhc-ccHHHHHHHHHhcCCeEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677788888899999987654444 567889999999998776544444 556677888899999999999999876
Q ss_pred C
Q 044527 244 T 244 (860)
Q Consensus 244 ~ 244 (860)
.
T Consensus 92 G 92 (374)
T cd08189 92 G 92 (374)
T ss_pred C
Confidence 5
No 264
>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=84.61 E-value=37 Score=32.18 Aligned_cols=71 Identities=10% Similarity=0.074 Sum_probs=49.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+..+++..+.+... ++++.+... ....+...+.+|++|+++..... . ...+ .+.|+.....++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~ 76 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHTL----------SSSTVVEAVLSGQADLGLASLPL--D-HPGL-ESEPLASGRAVC 76 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEec----------chHHHHHHHHcCCccEEEEeCCC--C-CCcc-eeeeecccceEE
Confidence 3455789999988874 356666553 56789999999999999853221 1 1222 367888888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 v~~~~~ 82 (196)
T cd08415 77 VLPPGH 82 (196)
T ss_pred EEcCCC
Confidence 887653
No 265
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=84.56 E-value=29 Score=36.57 Aligned_cols=68 Identities=12% Similarity=0.064 Sum_probs=44.3
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+...++..+.++.. ++++.+... ....+...+.+|++|+++..-... ...+ .+.|+....+.+++
T Consensus 106 ~~~~~l~~~~~~~p-~i~l~~~~~----------~~~~~~~~l~~g~~Di~i~~~~~~---~~~~-~~~~l~~~~~~lv~ 170 (305)
T PRK11233 106 LTMPLLQAVRAEFP-GIVLYLHEN----------SGATLNEKLMNGQLDMAVIYEHSP---VAGL-SSQPLLKEDLFLVG 170 (305)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEEC----------CcHHHHHHHHCCCCCEEEEcCCcC---CCCc-EEEEEeeeeEEEEE
Confidence 33567888888763 345555442 456888999999999998532111 1122 35678888888887
Q ss_pred ecC
Q 044527 568 PID 570 (860)
Q Consensus 568 ~~~ 570 (860)
+++
T Consensus 171 ~~~ 173 (305)
T PRK11233 171 TQD 173 (305)
T ss_pred cCc
Confidence 655
No 266
>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=84.50 E-value=32 Score=32.98 Aligned_cols=68 Identities=13% Similarity=0.071 Sum_probs=45.3
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-..++..+.++.. ++++.+... +. .+++.+.+|++|+++..-.. ....+. ..|+....+++++
T Consensus 14 ~l~~~i~~~~~~~P-~i~l~i~~~----------~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~ 77 (200)
T cd08462 14 LLPPVIERVAREAP-GVRFELLPP----------DD-QPHELLERGEVDLLIAPERF---MSDGHP-SEPLFEEEFVCVV 77 (200)
T ss_pred HHHHHHHHHHHHCC-CCEEEEecC----------Ch-hHHHHHhcCCeeEEEecCCC---CCCCce-eeeeeccceEEEE
Confidence 44678888888775 356666542 44 89999999999999853211 112222 4577788888887
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 78 ~~~h 81 (200)
T cd08462 78 WADN 81 (200)
T ss_pred cCCC
Confidence 6654
No 267
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold. The NAC is a LysR-type transcription regulator that activates expression of operons such as hut (histidine utilization) and ure (urea utilization), allowing use of non-preferred (poor) nitrogen sources, and represses expression of operons, such as glutamate dehydrogenase (gdh), allowing assimilation of the preferred nitrogen source. The expression of the nac gene is fully dependent on the nitrogen regulatory system (NTR) and the sigma54-containing RNA polymerase (sigma54-RNAP). In response to nitrogen starvation, NTR system activates the expression of nac, and NAC activates the expression of hut, ure, and put (proline utilization). NAC is not involved in the transcription of Sigma70-RNAP operons such as glnA, which directly respond by the NTR system, but activates the transcription of sigma70-RNAP dependent operons such as hut.
Probab=84.33 E-value=39 Score=32.19 Aligned_cols=70 Identities=11% Similarity=0.105 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +...+...+.+|++|+++... +.....+ -+.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~----------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~ 77 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVEG----------LSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLV 77 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEec----------CcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEE
Confidence 345788888888875 356666543 446889999999999998532 2222222 3567888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 78 ~~~~~ 82 (198)
T cd08433 78 GPADA 82 (198)
T ss_pred ecCCC
Confidence 86654
No 268
>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family. TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family.
Probab=84.31 E-value=28 Score=35.69 Aligned_cols=98 Identities=13% Similarity=0.069 Sum_probs=60.2
Q ss_pred hhHhhhcCCcEEEecCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc--Cccceeeccc
Q 044527 673 QQIKLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY--SAHYTTAAAK 750 (860)
Q Consensus 673 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~--~~~l~~~~~~ 750 (860)
..+++++++++++..++...+.++..+. ..+ +....|...+|.+|.+|+.+........ .+-. .+.+...+
T Consensus 129 ~s~~Dl~G~kir~~~~~~~~~~~~~~Ga---~~v-~~~~~e~~~aL~~G~vDg~~~~~~~~~~-~~~~ev~~y~~~~~-- 201 (257)
T TIGR00787 129 TKPEDLKGLKIRIPNSPMNEAQFKALGA---NPE-PMAFSEVYTALQTGVVDGQENPLSNVYS-SKFYEVQKYLSMTN-- 201 (257)
T ss_pred CChHHhCCCEEecCCCHHHHHHHHHcCC---ccc-ccCHHHHHHHHHcCCcccccCCHHHHhh-cchhhhcchheecC--
Confidence 3455679999999877777777776532 223 6677899999999999999877544322 1111 32333222
Q ss_pred cccccCceEEEeccCC--cchHHHHHHHHHH
Q 044527 751 YTTSTNGFGFVFQKGS--PLVHDISRAIARL 779 (860)
Q Consensus 751 ~~~~~~~~~~~~~k~s--pl~~~in~~i~~l 779 (860)
. ......+.+.+.. .|-+....+|...
T Consensus 202 ~--~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 202 H--GYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred C--cccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 2 3455667777763 2555555555443
No 269
>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=84.30 E-value=4.5 Score=44.24 Aligned_cols=80 Identities=10% Similarity=0.105 Sum_probs=61.0
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.+|.+++.++++..-.-. +..+.+.+.+++.|+++.....+. +++.........+.+++.++|.||..+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~-g~~~~v~~~L~~~~i~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKF-GVADKVTDLLDEAGIAYELFDEVK-PNPTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhc-cchHHHHHHHHHCCCeEEEECCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677788889899999987654433 578899999999998776543344 456677888888889999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 95 GG 96 (379)
T TIGR02638 95 GG 96 (379)
T ss_pred Ch
Confidence 64
No 270
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=84.28 E-value=5.1 Score=41.29 Aligned_cols=92 Identities=17% Similarity=0.202 Sum_probs=74.3
Q ss_pred ceEeecCCCchhHHHHHH----HHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHH
Q 044527 149 YSIQIDQDDEASQSQARG----ISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQI 224 (860)
Q Consensus 149 ~~~r~~p~~~~~~~~~~a----i~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~ 224 (860)
+-|-+.|+.. ..+++ ++.-++..|.|++.++++..-.-. ...+..++.++++|+++....... +++...++
T Consensus 42 ~af~m~~s~~---rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~-~~~~~a~~~L~~~~I~~~vyD~v~-~ePtv~s~ 116 (465)
T KOG3857|consen 42 VAFFMIPSTS---RFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKL-GLVKVAQDSLEENGINVEVYDKVQ-PEPTVGSV 116 (465)
T ss_pred eeEEeccchh---hhcchhHHHHHHHHHhcCccceEEeeCCChhhc-ccHHHHHHHHHHcCCceEEecCcc-CCCchhhH
Confidence 6666777776 65554 455578899999999998776655 778899999999999998766666 66778889
Q ss_pred HHHHHhhhcCCCeEEEEEeCH
Q 044527 225 IEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 225 ~~~l~~i~~~~~~viil~~~~ 245 (860)
...++-.+....|.++..+.+
T Consensus 117 ~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHhcccceEEEEcCc
Confidence 999999999999999888754
No 271
>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=83.94 E-value=4.7 Score=44.02 Aligned_cols=80 Identities=14% Similarity=0.134 Sum_probs=61.9
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++.+|+.+|++...+.. +..+.+.+.+++.|+++.....+. +++........++.+++.++|.||-.+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~~-g~~~~v~~~L~~~gi~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVKL-GLVDKLTDSLKKEGIESAIFDDVV-SEPTDESVEEGVKLAKEGGCDVIIALG 88 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhc-chHHHHHHHHHHCCCeEEEECCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345667777778899999986655544 578889999999998876544455 566677888899999999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 89 GG 90 (375)
T cd08194 89 GG 90 (375)
T ss_pred Cc
Confidence 54
No 272
>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=83.76 E-value=5.2 Score=43.67 Aligned_cols=80 Identities=8% Similarity=0.133 Sum_probs=61.7
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++.+++.++++...+.. ...+.+.+.+++.|+++.....+. .++...+....++.+++.++|.||..+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~-~~~~~v~~~L~~~~~~~~~~~~~~-~~p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKT-GVLDKVIDSLKEAGIEVVIFDGVE-PNPTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhC-ccHHHHHHHHHHcCCeEEEECCCC-CCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 356777788888899999987665544 677889999999998776433344 456677888999999999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 89 GG 90 (370)
T cd08551 89 GG 90 (370)
T ss_pred Cc
Confidence 53
No 273
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=83.73 E-value=39 Score=35.74 Aligned_cols=71 Identities=10% Similarity=0.128 Sum_probs=48.5
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-.+++..+.+... ++++.+... ....++.+|.+|++|+++...... ..... --..|+....+++++
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~-l~~~~l~~~~~~lv~ 177 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYEA----------QLSSFLPAIRDGRLDFAIGTLSNE-MKLQD-LHVEPLFESEFVLVA 177 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEeC----------CHHHHHHHHHcCCCcEEEecCCcc-cccCC-eeEEEEecccEEEEE
Confidence 34688888888764 356666654 668999999999999998532211 11122 235788888888888
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 178 ~~~~ 181 (312)
T PRK10341 178 SKSR 181 (312)
T ss_pred cCCC
Confidence 7654
No 274
>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=83.47 E-value=35 Score=32.50 Aligned_cols=70 Identities=10% Similarity=-0.010 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++++... +.+.+...+.+|++|+++.... .....+ -+.++....++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~~----------~~~~~~~~l~~~~~Di~i~~~~---~~~~~~-~~~~l~~~~~~lv 77 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRDL----------ESDNLEAQLERGEVDLALTTPE---YAPDGL-RSRPLFEERYVCV 77 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEeeC----------CcccHHHHHhcCCCcEEEecCc---cCCccc-eeeeeecCcEEEE
Confidence 455788888888875 355665542 3457899999999999985321 111222 2567888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (198)
T cd08461 78 TRRGH 82 (198)
T ss_pred EcCCC
Confidence 87654
No 275
>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=83.43 E-value=44 Score=32.68 Aligned_cols=70 Identities=11% Similarity=0.070 Sum_probs=48.4
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++++.+... +...+.+.+.+|++|+++.... .....+ -..|+.....+++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~~----------~~~~~~~~l~~g~~Di~i~~~~---~~~~~l-~~~~l~~~~~~~v 77 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRPV----------TRLDLAEQLDLGRIDLVIGIFE---QIPPRF-RRRTLFDEDEVWV 77 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEeeC----------ChhhHHHHHHCCCccEEEecCC---CCCccc-eeeeeeccceEEE
Confidence 345678888888775 356666543 5678999999999999986432 112223 2578888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (221)
T cd08469 78 MRKDH 82 (221)
T ss_pred EeCCC
Confidence 87664
No 276
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=83.35 E-value=2.1 Score=46.86 Aligned_cols=92 Identities=12% Similarity=0.263 Sum_probs=76.0
Q ss_pred hHHHHHHHHHHHHHHHhhhhccccCCCcCCcccccchhHHHHHHHHhhccc--cccccccchhhhHHHHHHHHHHHHHHh
Q 044527 585 NLWLTIAALFVLTGFVVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQ--REKLFSNLSKFVVIVWVFVVLILSSSY 662 (860)
Q Consensus 585 ~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Y 662 (860)
.+|..-++.+++.+.++++.+.-...+-.+....++..++|+..-+++..| ...|..|.+|++..+..++++-+.+.=
T Consensus 235 Tt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFALP 314 (654)
T KOG1419|consen 235 TTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFALP 314 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhcc
Confidence 578888899999999999999886555555556688899999999998877 557999999999999999999888888
Q ss_pred hhccccccchhhHh
Q 044527 663 TATLASMLTIQQIK 676 (860)
Q Consensus 663 ta~L~s~lt~~~~~ 676 (860)
.+.|-|=+++.--+
T Consensus 315 AGILGSGfALKVQe 328 (654)
T KOG1419|consen 315 AGILGSGFALKVQE 328 (654)
T ss_pred cccccchhhhhhHH
Confidence 88888877664443
No 277
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=83.28 E-value=7.6 Score=39.34 Aligned_cols=103 Identities=17% Similarity=0.258 Sum_probs=62.3
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
.-+.+++++++.+++.+|++...|.. ..+.+.+.+++.|+++....... ...+..+......+++..++|+|+-.+.
T Consensus 8 ~~l~~~l~~~~~~~~lvv~d~~t~~~--~g~~v~~~l~~~g~~v~~~~~~~-~~~~~~~~~~~~~~~~~~~~d~ii~vGg 84 (250)
T PF13685_consen 8 DKLPEILSELGLKKVLVVTDENTYKA--AGEKVEESLKSAGIEVAVIEEFV-GDADEDEVEKLVEALRPKDADLIIGVGG 84 (250)
T ss_dssp GGHHHHHGGGT-SEEEEEEETTHHHH--HHHHHHHHHHTTT-EEEEEE-EE----BHHHHHHHHTTS--TT--EEEEEES
T ss_pred HHHHHHHHhcCCCcEEEEEcCCHHHH--HHHHHHHHHHHcCCeEEEEecCC-CCCCHHHHHHHHHHhcccCCCEEEEeCC
Confidence 34567888888899999998776543 66789999999999987433222 2344556667777777788898887777
Q ss_pred HHHHHHHHHH-HHHcCCccCCeEEEecChhh
Q 044527 245 HALASHLFLN-AKKLGMMSKGYVWIATAATM 274 (860)
Q Consensus 245 ~~~~~~il~~-a~~~gl~~~~~~~i~~~~~~ 274 (860)
+ ....+.|- |.+++ ..|+-+.|....
T Consensus 85 G-~i~D~~K~~A~~~~---~p~isVPTa~S~ 111 (250)
T PF13685_consen 85 G-TIIDIAKYAAFELG---IPFISVPTAASH 111 (250)
T ss_dssp H-HHHHHHHHHHHHHT-----EEEEES--SS
T ss_pred c-HHHHHHHHHHHhcC---CCEEEecccccc
Confidence 6 44445444 45666 456666666544
No 278
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=83.26 E-value=52 Score=34.30 Aligned_cols=70 Identities=9% Similarity=-0.010 Sum_probs=48.7
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++.+.+... +...++..+.+|++|+++.... ...+. -.+.++....++++
T Consensus 104 ~~l~~~l~~~~~~~p-~~~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~---~~~~~-l~~~~l~~~~~~~~ 168 (296)
T PRK11242 104 YLIGPLIDAFHARYP-GITLTIREM----------SQERIEALLADDELDVGIAFAP---VHSPE-IEAQPLFTETLALV 168 (296)
T ss_pred hhhHHHHHHHHHHCC-CCEEEEEeC----------CHHHHHHHHHCCCCcEEEEecC---CCCcc-eeEEEeeeccEEEE
Confidence 345788888888864 456666543 5678999999999999985322 22222 23578888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++++.
T Consensus 169 ~~~~~ 173 (296)
T PRK11242 169 VGRHH 173 (296)
T ss_pred EcCCC
Confidence 87764
No 279
>PRK10200 putative racemase; Provisional
Probab=82.84 E-value=9.7 Score=38.22 Aligned_cols=89 Identities=15% Similarity=0.134 Sum_probs=56.5
Q ss_pred CCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHH
Q 044527 90 GDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISD 169 (860)
Q Consensus 90 ~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~ 169 (860)
-+|...+....+.+.+.|+.+++=|.. +..+. ...+-+..++|+|+.. +++.+
T Consensus 58 ~~~~~~l~~~~~~L~~~g~~~iviaCN-Tah~~-~~~l~~~~~iPii~ii-------------------------~~~~~ 110 (230)
T PRK10200 58 DKTGDILAEAALGLQRAGAEGIVLCTN-TMHKV-ADAIESRCSLPFLHIA-------------------------DATGR 110 (230)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCc-hHHHH-HHHHHHhCCCCEeehH-------------------------HHHHH
Confidence 457777777777777779999988877 44444 4556666788887732 12223
Q ss_pred HHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhC-CceEe
Q 044527 170 FISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDN-DIDIA 209 (860)
Q Consensus 170 ~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~-g~~i~ 209 (860)
.++..+-++|+++.+... -....+++.+++. |+++.
T Consensus 111 ~~~~~~~~~VglLaT~~T----i~s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 111 AITGAGMTRVALLGTRYT----MEQDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHHHcCCCeEEEeccHHH----HHHhHHHHHHHHhcCCeEe
Confidence 344457789999987653 2234556666654 77764
No 280
>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=82.80 E-value=47 Score=32.05 Aligned_cols=72 Identities=14% Similarity=0.122 Sum_probs=49.5
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.. ++++++... ++.+.+.+.|.+|++|+++.... ...+.+. ..++.....++
T Consensus 12 ~~~~~~~l~~~~~~~P-~~~v~~~~~---------~~~~~l~~~L~~g~lDl~i~~~~---~~~~~l~-~~~l~~~~~~l 77 (203)
T cd08463 12 ALFLPELVARFRREAP-GARLEIHPL---------GPDFDYERALASGELDLVIGNWP---EPPEHLH-LSPLFSDEIVC 77 (203)
T ss_pred HHHhHHHHHHHHHHCC-CCEEEEEeC---------CcchhHHHHHhcCCeeEEEeccc---cCCCCcE-EeEeecCceEE
Confidence 3456789999998875 356666642 24578999999999999985321 1112232 36778888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
+++++.
T Consensus 78 v~~~~h 83 (203)
T cd08463 78 LMRADH 83 (203)
T ss_pred EEeCCC
Confidence 887665
No 281
>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=82.78 E-value=45 Score=31.73 Aligned_cols=70 Identities=13% Similarity=0.088 Sum_probs=46.9
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +...+...+.+|++|+++...... ...+. +.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~~~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v 77 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDVA----------STADVLEAVLSGEADIGLAFSPPP---EPGIR-VHSRQPAPIGAV 77 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEeC----------CcHHHHHHHHCCCccEEEecCCCC---CCCeE-EEeeccCcEEEE
Confidence 345678888888764 356666543 557899999999999998532211 12222 567788888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~h 82 (199)
T cd08426 78 VPPGH 82 (199)
T ss_pred ecCCC
Confidence 86654
No 282
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=82.33 E-value=33 Score=35.42 Aligned_cols=80 Identities=10% Similarity=0.064 Sum_probs=47.1
Q ss_pred CHHHHHHHHhcCCcEEEEcchHHHHHHHhcc-CccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHH
Q 044527 710 SAEEYANALSMGSISAIVDEIPYVRAFLSKY-SAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKI 788 (860)
Q Consensus 710 ~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~ 788 (860)
...+....+.+|++|+.+....+....-... .+.+ .-+.. ..+.-..+++++..--.+.+.+.+.-+++...-+.+
T Consensus 183 ~~~~~~~al~~g~vDaa~i~~~~a~~a~~~~~~~~l--~~e~~-~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i 259 (271)
T PRK11063 183 EAPQLPRSLDDAQIALAVINTTYASQIGLTPAKDGI--FVEDK-DSPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAA 259 (271)
T ss_pred cHHHHHHhcccccccEEEEChHHHHHcCCCCCCCee--EECCC-CCCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHH
Confidence 4566778899999999999887665321111 1122 21211 012223566676655566777777777766666666
Q ss_pred HHHH
Q 044527 789 ENVW 792 (860)
Q Consensus 789 ~~~~ 792 (860)
.++|
T Consensus 260 ~~~~ 263 (271)
T PRK11063 260 NKVF 263 (271)
T ss_pred HHHc
Confidence 6664
No 283
>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=82.12 E-value=46 Score=31.40 Aligned_cols=71 Identities=14% Similarity=0.111 Sum_probs=48.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+..+++..+.++.. ++++++... +...+.+.+.+|++|+++.... .....+ -+.++.....++
T Consensus 12 ~~~l~~~l~~~~~~~p-~v~i~i~~~----------~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~ 76 (197)
T cd08440 12 ATLLPPVLAAFRRRHP-GIRVRLRDV----------SAEQVIEAVRSGEVDFGIGSEP---EADPDL-EFEPLLRDPFVL 76 (197)
T ss_pred hhHHHHHHHHHHHhCC-CcEEEEEeC----------ChHHHHHHHHcCCccEEEEeCC---CCCCCe-eEEEeecccEEE
Confidence 3455788888888875 356666543 5678999999999999985322 222222 246777788888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 ~~~~~~ 82 (197)
T cd08440 77 VCPKDH 82 (197)
T ss_pred EecCCC
Confidence 887654
No 284
>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=81.87 E-value=25 Score=33.80 Aligned_cols=70 Identities=14% Similarity=0.100 Sum_probs=47.8
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.. .+++++... +. .+++.+.+|++|+++..... ....+. ..|+....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~~----------~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~ 75 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVPE----------SD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVG 75 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEecC----------ch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEE
Confidence 4556788888888874 356666542 44 67899999999999853221 112232 57788888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 76 v~~~~h 81 (200)
T cd08460 76 VVRAGH 81 (200)
T ss_pred EEeCCC
Confidence 887664
No 285
>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=81.79 E-value=6.7 Score=42.86 Aligned_cols=80 Identities=9% Similarity=0.164 Sum_probs=60.4
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++.+++.++++...... ...+.+.+.+++.|+.+.....+. +++...+....++.+++.++|.||..+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~~v~~~L~~~~~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKA-GWVDRVIESLEEAGLEYVVFSDVS-PNPRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhC-ccHHHHHHHHHHcCCeEEEeCCCC-CCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677788888899999987554443 567889999999998776543344 455667788888889999999999887
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 94 GG 95 (377)
T cd08188 94 GG 95 (377)
T ss_pred Cc
Confidence 54
No 286
>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=81.53 E-value=3.7 Score=44.77 Aligned_cols=77 Identities=8% Similarity=0.194 Sum_probs=62.1
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.+| |+.+|++...... ...+.+.+.+++.|+++.....+. ..+...+....++.+++.++|.||..+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~-~~~~~v~~~L~~~~i~~~~~~~~~-~~p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKS-GLVDRVLDALEEAGIEVQVFDGVG-PNPTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHH-THHHHHHHHHHHTTCEEEEEEEES-SS-BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhC-ccHHHHHHHHhhCceEEEEEecCC-CCCcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 45667777787 9999998743333 578999999999999987766666 6677889999999999999999999887
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 88 G 88 (366)
T PF00465_consen 88 G 88 (366)
T ss_dssp H
T ss_pred C
Confidence 5
No 287
>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=81.21 E-value=51 Score=31.37 Aligned_cols=70 Identities=11% Similarity=0.057 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++++... +...+...+.+|++|+++... +.....+ -+.++....++++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~~----------~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~lv 77 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESPS----------SEEDLFEDLRLQEVDLVIDYV---PFRDPSF-KSELLFEDELVCV 77 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEecC----------chHhHHHHHHcCCccEEEecc---cCCCCCc-eeeeecccceEEE
Confidence 445678888888874 356666543 567899999999999998532 2212222 2567888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (200)
T cd08466 78 ARKDH 82 (200)
T ss_pred EeCCC
Confidence 87664
No 288
>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=81.16 E-value=51 Score=31.29 Aligned_cols=70 Identities=16% Similarity=0.201 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +...+++.+.+|++|+++... +.....+. ..++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~----------~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v 77 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEER----------LSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVV 77 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEec----------CcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEE
Confidence 344688888888874 356666543 557899999999999988532 22222332 467788888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++++.
T Consensus 78 ~~~~~ 82 (198)
T cd08421 78 VPRDH 82 (198)
T ss_pred eCCCC
Confidence 87654
No 289
>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=80.97 E-value=51 Score=31.17 Aligned_cols=69 Identities=14% Similarity=0.118 Sum_probs=46.4
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+...++..+.++.. ++++++... ....+...+.+|++|+++...... ... -.+.++....+++++
T Consensus 13 ~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~-~~~~~l~~~~~~~~~ 77 (197)
T cd08419 13 FAPRLLGAFCRRHP-GVEVSLRVG----------NREQVLERLADNEDDLAIMGRPPE---DLD-LVAEPFLDNPLVVIA 77 (197)
T ss_pred HhhHHHHHHHHHCC-CceEEEEEC----------CHHHHHHHHhcCCccEEEecCCCC---CCC-eEEEEeccCCEEEEe
Confidence 45778888888864 355666543 567889999999999998532211 111 235678888888888
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
+...
T Consensus 78 ~~~~ 81 (197)
T cd08419 78 PPDH 81 (197)
T ss_pred cCCC
Confidence 7554
No 290
>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=80.80 E-value=18 Score=37.03 Aligned_cols=87 Identities=10% Similarity=0.001 Sum_probs=66.8
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
+||.+.+...+.-.....|+...++..|.+ .++......+..|+..+.+.+..++++ ++++|++... .. .
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~p~-----~~v~~~~~g~~~D~~~a~~~a~~l~~~-G~DvI~~~~~-~~---g 191 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVNPD-----ATVKVIWTGSWFDPAKEKEAALALIDQ-GADVIYQHTD-SP---G 191 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHCCC-----cEEEEEEecCCCCcHHHHHHHHHHHHC-CCcEEEecCC-Ch---H
Confidence 699998887766566778999999888844 566666667788999999999999987 8998887654 32 3
Q ss_pred HHHhhcCCCCcEEeccc
Q 044527 124 LADLGSRAKIPIISLFT 140 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a 140 (860)
+...+.+.++..|.+..
T Consensus 192 ~~~aa~~~g~~~IG~d~ 208 (258)
T cd06353 192 VIQAAEEKGVYAIGYVS 208 (258)
T ss_pred HHHHHHHhCCEEEeecc
Confidence 44556677899998863
No 291
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=80.66 E-value=80 Score=33.25 Aligned_cols=71 Identities=20% Similarity=0.160 Sum_probs=48.1
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +-+.+++.+.+|++|+++..-.. .....++ +.|+.....+++
T Consensus 106 ~~l~~~l~~~~~~~P-~i~i~i~~~----------~~~~~~~~l~~g~~D~~i~~~~~--~~~~~l~-~~~l~~~~~~~~ 171 (309)
T PRK12682 106 YVLPRVVAAFRKRYP-KVNLSLHQG----------SPDEIARMVISGEADIGIATESL--ADDPDLA-TLPCYDWQHAVI 171 (309)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEecC----------CHHHHHHHHHcCCccEEEecCcc--cCCCcce-EEEeeeeeEEEE
Confidence 445788888888875 356666543 45789999999999999853221 1112232 467888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 172 ~~~~~ 176 (309)
T PRK12682 172 VPPDH 176 (309)
T ss_pred ecCCC
Confidence 87664
No 292
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=80.62 E-value=39 Score=32.90 Aligned_cols=103 Identities=21% Similarity=0.208 Sum_probs=64.6
Q ss_pred hhhHhhhcCCcEEEe---cCCcHHHhhh----cCCCCCcCccccC----CHHHHHHHHhcCCcEEEEcchHHHHHHHhcc
Q 044527 672 IQQIKLASMDNIGSQ---LGSVVPGALS----NLNFKDSRLKKYN----SAEEYANALSMGSISAIVDEIPYVRAFLSKY 740 (860)
Q Consensus 672 ~~~~~~~~~~~i~~~---~~~~~~~~~~----~~~~~~~~~~~~~----~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~ 740 (860)
++.++++.++++..+ +||..+..+. ..+.....+.-|. +-...-.++..|+.|+-+.-+ +...+.
T Consensus 89 i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~AD~GvGlr----~~A~~~ 164 (223)
T COG1910 89 ISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLR----HAAEKY 164 (223)
T ss_pred cccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCCCCccccHH----HHHHHc
Confidence 444555566666664 5677666653 2333344566554 345567889999999988744 333444
Q ss_pred CccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcch
Q 044527 741 SAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGT 784 (860)
Q Consensus 741 ~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~ 784 (860)
. |..+ ++ ..+.|-++++|+.-=++.+..++..|++.++
T Consensus 165 g--L~Fi--pl--~~E~YD~virke~~~~~~vr~fi~~L~s~~~ 202 (223)
T COG1910 165 G--LDFI--PL--GDEEYDFVIRKERLDKPVVRAFIKALKSEGF 202 (223)
T ss_pred C--CceE--Ec--ccceEEEEEehhHccCHHHHHHHHHhccccc
Confidence 2 3322 24 6677899999998766777777777776554
No 293
>cd08464 PBP2_DntR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=80.38 E-value=54 Score=31.14 Aligned_cols=71 Identities=13% Similarity=0.032 Sum_probs=46.7
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
.++-..++..+.++.. ++++.+... +...+...+.+|++|+++.... .....+ -+.++....+.+
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~~----------~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~ 76 (200)
T cd08464 12 SWLAPPLLAALRAEAP-GVRLVFRQV----------DPFNVGDMLDRGEIDLAIGVFG---ELPAWL-KREVLYTEGYAC 76 (200)
T ss_pred HHHHHHHHHHHHHHCC-CcEEEEecC----------CcccHHHHHhcCcccEEEecCC---CCcccc-eeeeecccceEE
Confidence 3455788888888874 356666543 4567889999999999985321 111222 346777788877
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
+++...
T Consensus 77 v~~~~~ 82 (200)
T cd08464 77 LFDPQQ 82 (200)
T ss_pred EEeCCC
Confidence 776553
No 294
>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=80.13 E-value=13 Score=35.56 Aligned_cols=135 Identities=17% Similarity=0.201 Sum_probs=81.3
Q ss_pred EEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchh
Q 044527 81 LILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEAS 160 (860)
Q Consensus 81 l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~ 160 (860)
+++.+.+ ++-..++..+.++..++++.+||+-.. ++.. +-+..++|+|....+..
T Consensus 10 ~~i~v~~--~~~e~~v~~a~~~~~~~g~dViIsRG~---ta~~---lr~~~~iPVV~I~~s~~----------------- 64 (176)
T PF06506_consen 10 AEIDVIE--ASLEEAVEEARQLLESEGADVIISRGG---TAEL---LRKHVSIPVVEIPISGF----------------- 64 (176)
T ss_dssp SEEEEEE----HHHHHHHHHHHHTTTT-SEEEEEHH---HHHH---HHCC-SS-EEEE---HH-----------------
T ss_pred ceEEEEE--ecHHHHHHHHHHhhHhcCCeEEEECCH---HHHH---HHHhCCCCEEEECCCHh-----------------
Confidence 3444444 567889999999944459999997433 4444 34455899988643322
Q ss_pred HHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEE
Q 044527 161 QSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFV 240 (860)
Q Consensus 161 ~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vii 240 (860)
...+++.+.- .++ +++|++...+.. ...+.+.+.+ |.++..... .+..++...+.++++.+.++|+
T Consensus 65 -Dil~al~~a~-~~~-~~Iavv~~~~~~---~~~~~~~~ll---~~~i~~~~~-----~~~~e~~~~i~~~~~~G~~viV 130 (176)
T PF06506_consen 65 -DILRALAKAK-KYG-PKIAVVGYPNII---PGLESIEELL---GVDIKIYPY-----DSEEEIEAAIKQAKAEGVDVIV 130 (176)
T ss_dssp -HHHHHHHHCC-CCT-SEEEEEEESS-S---CCHHHHHHHH---T-EEEEEEE-----SSHHHHHHHHHHHHHTT--EEE
T ss_pred -HHHHHHHHHH-hcC-CcEEEEeccccc---HHHHHHHHHh---CCceEEEEE-----CCHHHHHHHHHHHHHcCCcEEE
Confidence 5556666533 333 899999876653 2345555555 667665432 3577999999999999999987
Q ss_pred EEeCHHHHHHHHHHHHHcCC
Q 044527 241 VHMTHALASHLFLNAKKLGM 260 (860)
Q Consensus 241 l~~~~~~~~~il~~a~~~gl 260 (860)
-... ..+.|.+.|+
T Consensus 131 Gg~~------~~~~A~~~gl 144 (176)
T PF06506_consen 131 GGGV------VCRLARKLGL 144 (176)
T ss_dssp ESHH------HHHHHHHTTS
T ss_pred CCHH------HHHHHHHcCC
Confidence 5532 2566788886
No 295
>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=79.79 E-value=8.4 Score=41.75 Aligned_cols=79 Identities=8% Similarity=0.176 Sum_probs=59.2
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.++++.++ +++-++++...+-..+..+.+.+.+++.|+++.....+. +++...+.....+.+++.++|+||..+.
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IIavGG 92 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVE-ENPSLETIMEAVEIAKKFNADFVIGIGG 92 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44566777788 899888866543321466889999999998876544444 5567778888999999999999999886
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 93 G 93 (357)
T cd08181 93 G 93 (357)
T ss_pred c
Confidence 4
No 296
>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=79.30 E-value=7.9 Score=42.41 Aligned_cols=77 Identities=6% Similarity=0.116 Sum_probs=58.9
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCC-CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 165 RGISDFISVFKWKEVILIHEDNTW-GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~-g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
..+.++++.++ +|+.+|++.... .. ...+.+.+.+++.|+++.....+. +++...+.......+++.++|.||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~-g~~~~v~~~L~~~~~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKT-GYLDRVIELLKQAGVEVVVFDKVE-PNPTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhc-cHHHHHHHHHHHcCCeEEEeCCcc-CCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45667777777 899999876542 34 677889999999998876444444 566777888888899999999999877
Q ss_pred C
Q 044527 244 T 244 (860)
Q Consensus 244 ~ 244 (860)
.
T Consensus 92 G 92 (380)
T cd08185 92 G 92 (380)
T ss_pred C
Confidence 5
No 297
>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=79.02 E-value=7.8 Score=42.36 Aligned_cols=80 Identities=13% Similarity=0.203 Sum_probs=60.4
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++-+++.++++...+.. ...+.+.+.+++.|+++.....+. +++.........+.+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~-~~~~~v~~~L~~~~~~~~~f~~v~-~~p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKI-GVVEKVTDVLDEAGIDYVIYDGVK-PNPTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhc-CcHHHHHHHHHHcCCeEEEeCCCC-CCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345667788888889988876554444 578889999999998775443344 456677788888999999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 94 GG 95 (377)
T cd08176 94 GG 95 (377)
T ss_pred Cc
Confidence 64
No 298
>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=78.84 E-value=63 Score=30.95 Aligned_cols=71 Identities=11% Similarity=0.011 Sum_probs=48.1
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.. ++++++... ....+...+.+|++|+++.... .. ...+. ..++....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~~~~~----------~~~~~~~~l~~g~~D~~i~~~~--~~-~~~~~-~~~l~~~~~~~ 76 (200)
T cd08467 12 VALLPRLAPRLRERAP-GLDLRLCPI----------GDDLAERGLEQGTIDLAVGRFA--VP-PDGLV-VRRLYDDGFAC 76 (200)
T ss_pred HHHHHHHHHHHHhhCC-CCEEEEecC----------CcccHHHHhhCCCcCEEEecCC--CC-Cccce-eEEeeeccEEE
Confidence 3455788888888875 356666653 5567899999999999885321 11 12232 46788888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 v~~~~h 82 (200)
T cd08467 77 LVRHGH 82 (200)
T ss_pred EEcCCC
Confidence 887553
No 299
>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=78.54 E-value=61 Score=30.64 Aligned_cols=71 Identities=13% Similarity=0.176 Sum_probs=47.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.. .+++.+... +...++.+|.+|++|+++...... ...+ .+.++....+.+
T Consensus 12 ~~~l~~~l~~~~~~~P-~~~l~~~~~----------~~~~~~~~l~~g~~D~~i~~~~~~---~~~~-~~~~l~~~~~~~ 76 (201)
T cd08420 12 EYLLPRLLARFRKRYP-EVRVSLTIG----------NTEEIAERVLDGEIDLGLVEGPVD---HPDL-IVEPFAEDELVL 76 (201)
T ss_pred hhhhHHHHHHHHHHCC-CceEEEEeC----------CcHHHHHHHHCCCccEEEecCCCC---Ccce-EEEeecCccEEE
Confidence 3445788888888874 345555543 456789999999999988543221 2222 246777888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 v~~~~~ 82 (201)
T cd08420 77 VVPPDH 82 (201)
T ss_pred EecCCC
Confidence 876554
No 300
>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=78.32 E-value=10 Score=41.53 Aligned_cols=78 Identities=8% Similarity=0.160 Sum_probs=56.4
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.++ +++.+|++...+.. ...+.+.+.+++.|+++....... ++....+....+...++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~-~~~~~v~~~L~~~~~~~~~f~~v~-~~~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGT-PVFAELVQALAAAGVEVEVFDGVL-PDLPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhc-chHHHHHHHHHHcCCeEEEECCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45667788888 89999886554444 678889999999998875433332 2344556677777788899999998775
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 89 G 89 (386)
T cd08191 89 G 89 (386)
T ss_pred c
Confidence 4
No 301
>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=78.27 E-value=55 Score=31.30 Aligned_cols=72 Identities=18% Similarity=0.126 Sum_probs=49.3
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+...++..+.++.. .+++.+... ....+.+.+.+|++|+++..... .....+. +.+......++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~v~~~~~----------~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~ 77 (198)
T cd08413 12 RYVLPPVIAAFRKRYP-KVKLSLHQG----------TPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCV 77 (198)
T ss_pred hhhccHHHHHHHHhCC-ceEEEEEeC----------CHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEE
Confidence 3455788899988875 356666653 66789999999999999853211 1112222 47778888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 78 v~~~~h 83 (198)
T cd08413 78 IVPPGH 83 (198)
T ss_pred EecCCC
Confidence 887654
No 302
>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=77.81 E-value=70 Score=30.95 Aligned_cols=72 Identities=10% Similarity=0.229 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. .+++++... +...++..|.+|++|+++........-... -.+.|+....+.++
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~~----------~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~-~~~~~l~~~~~~~~ 80 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCREG----------KLEQLLADLALHRLDMVLADRPMPSSLDVK-GYSHRLGECGVSFF 80 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEeC----------CHHHHHHHHHcCCccEEEecCCCccccchh-eeeccccccceEEE
Confidence 455788888888874 356666653 778999999999999988432211110011 12457777777776
Q ss_pred EecC
Q 044527 567 VPID 570 (860)
Q Consensus 567 v~~~ 570 (860)
++.+
T Consensus 81 ~~~~ 84 (204)
T cd08429 81 AAPP 84 (204)
T ss_pred ecCC
Confidence 6543
No 303
>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=77.79 E-value=63 Score=30.39 Aligned_cols=70 Identities=19% Similarity=0.283 Sum_probs=46.9
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-..++..+.++.. ++++.+... ....+...+.+|++|+++.... .....+. +.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v 77 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQG----------STDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLV 77 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEecC----------cHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEE
Confidence 345678888888874 355665543 5678899999999999975322 2222232 467778888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (195)
T cd08434 78 VPKDH 82 (195)
T ss_pred ecCCC
Confidence 76654
No 304
>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=77.70 E-value=48 Score=31.79 Aligned_cols=71 Identities=8% Similarity=-0.039 Sum_probs=47.9
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
.++-.+++..+.++.. ++++.+... +...+++.|.+|++|+++...... ...+. +.+.....+++
T Consensus 12 ~~~l~~~l~~f~~~~P-~i~l~i~~~----------~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~l 76 (200)
T cd08465 12 RLVLPALMRQLRAEAP-GIDLAVSQA----------SREAMLAQVADGEIDLALGVFPEL---PEELH-AETLFEERFVC 76 (200)
T ss_pred HHhhhHHHHHHHHHCC-CcEEEEecC----------ChHhHHHHHHCCCccEEEeccccC---CcCee-EEEeeeccEEE
Confidence 3555788888888764 356666543 678999999999999998532211 12222 35677778888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 77 v~~~~h 82 (200)
T cd08465 77 LADRAT 82 (200)
T ss_pred EEeCCC
Confidence 887654
No 305
>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=77.49 E-value=24 Score=33.56 Aligned_cols=100 Identities=9% Similarity=0.043 Sum_probs=66.4
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhC--CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDN--DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF 239 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi 239 (860)
.....+.+.+...+ .++.++....+ ..+.+.+.+++. |++|+.... ...+..+-...+++|++++||+|
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~-----~~~~~~~~l~~~yp~l~i~g~~~---g~~~~~~~~~i~~~I~~~~pdiv 103 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPE-----VLEKAAERLRARYPGLKIVGYHH---GYFGPEEEEEIIERINASGADIL 103 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH-----HHHHHHHHHHHHCCCcEEEEecC---CCCChhhHHHHHHHHHHcCCCEE
Confidence 44556666665444 78888876553 445555566654 777776432 22344444558999999999999
Q ss_pred EEEeCHHHHHHHHHHHHHcCCccCCeEEEecChh
Q 044527 240 VVHMTHALASHLFLNAKKLGMMSKGYVWIATAAT 273 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 273 (860)
++.+..+.-..++....+.. +..+++..++.
T Consensus 104 ~vglG~PkQE~~~~~~~~~l---~~~v~~~vG~~ 134 (171)
T cd06533 104 FVGLGAPKQELWIARHKDRL---PVPVAIGVGGS 134 (171)
T ss_pred EEECCCCHHHHHHHHHHHHC---CCCEEEEecee
Confidence 99999888888887776654 34456654443
No 306
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=77.14 E-value=73 Score=33.63 Aligned_cols=69 Identities=13% Similarity=0.164 Sum_probs=46.1
Q ss_pred eHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 489 CIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 489 ~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
-..++..+.++.. ++++.+... ++++++..|.+|++|+++...... ....+.+ .|+....++++++
T Consensus 108 l~~~i~~f~~~~P-~i~l~~~~~----------~~~~~~~~L~~~~~D~~i~~~~~~--~~~~l~~-~~l~~~~~~~v~~ 173 (309)
T PRK12683 108 LPKVVRQFKEVFP-KVHLALRQG----------SPQEIAEMLLNGEADIGIATEALD--REPDLVS-FPYYSWHHVVVVP 173 (309)
T ss_pred HHHHHHHHHHHCC-CceEEEEeC----------CHHHHHHHHHcCCccEEEecCCCC--CCCCceE-EEcccCeEEEEec
Confidence 3678888888874 356666553 778999999999999987532111 1122333 4677778888877
Q ss_pred cCC
Q 044527 569 IDQ 571 (860)
Q Consensus 569 ~~~ 571 (860)
+..
T Consensus 174 ~~h 176 (309)
T PRK12683 174 KGH 176 (309)
T ss_pred CCC
Confidence 654
No 307
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=76.42 E-value=1e+02 Score=32.01 Aligned_cols=69 Identities=13% Similarity=0.134 Sum_probs=45.2
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-..++..+.++.. .+++.+... ....++..+.+|++|+++...... ...+ -..|+....+++++
T Consensus 103 ~~~~~l~~~~~~~P-~i~i~v~~~----------~~~~~~~~l~~g~~Di~i~~~~~~---~~~~-~~~~l~~~~~~lv~ 167 (290)
T PRK10837 103 ILPAMIARYRRDYP-QLPLELSVG----------NSQDVINAVLDFRVDIGLIEGPCH---SPEL-ISEPWLEDELVVFA 167 (290)
T ss_pred hhHHHHHHHHHHCC-CceEEEEEC----------CHHHHHHHHHhCCceEEEecCCCC---CCce-eEEEeecceEEEEE
Confidence 34678888888874 345555543 557899999999999998532211 1222 24667777788887
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 168 ~~~h 171 (290)
T PRK10837 168 APDS 171 (290)
T ss_pred cCCC
Confidence 7554
No 308
>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=75.85 E-value=28 Score=33.24 Aligned_cols=87 Identities=10% Similarity=0.066 Sum_probs=59.5
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhC--CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDN--DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF 239 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi 239 (860)
.+...+.+.....+ .++.++.... +.++.+.+.+++. |++|+.. . ...+..+-..++++|+++++|++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~-----~v~~~~~~~l~~~yP~l~i~g~---~-g~f~~~~~~~i~~~I~~s~~dil 104 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKP-----DVLQQLKVKLIKEYPKLKIVGA---F-GPLEPEERKAALAKIARSGAGIV 104 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCH-----HHHHHHHHHHHHHCCCCEEEEE---C-CCCChHHHHHHHHHHHHcCCCEE
Confidence 44566666665555 5888887655 4555666666654 7777764 2 22344455678999999999999
Q ss_pred EEEeCHHHHHHHHHHHHHc
Q 044527 240 VVHMTHALASHLFLNAKKL 258 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~~ 258 (860)
++.+..+.-..++.+..+.
T Consensus 105 ~VglG~PkQE~~~~~~~~~ 123 (177)
T TIGR00696 105 FVGLGCPKQEIWMRNHRHL 123 (177)
T ss_pred EEEcCCcHhHHHHHHhHHh
Confidence 9999988877777665443
No 309
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=75.32 E-value=11 Score=40.43 Aligned_cols=66 Identities=15% Similarity=0.137 Sum_probs=44.6
Q ss_pred HhhhcCCcEEEecCCc-HHHhh----hcCCCCCcCcc-ccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhcc
Q 044527 675 IKLASMDNIGSQLGSV-VPGAL----SNLNFKDSRLK-KYNSAEEYANALSMGSISAIVDEIPYVRAFLSKY 740 (860)
Q Consensus 675 ~~~~~~~~i~~~~~~~-~~~~~----~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~ 740 (860)
+++++|+++|+..++. ...++ ...++...++. ..-...+...++..|++|+++...++......+.
T Consensus 131 ~adlkGk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~~~~~ 202 (335)
T COG0715 131 VADLKGKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAAEGEG 202 (335)
T ss_pred ccCCCCceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCCcceEEecCCchhhhhccC
Confidence 3455999999988775 43333 33455444443 2334458889999999999988888776655554
No 310
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=75.22 E-value=9.7 Score=40.56 Aligned_cols=99 Identities=12% Similarity=0.068 Sum_probs=61.2
Q ss_pred hHhhhcCCcEEEecCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHH----HHHhccCccceeecc
Q 044527 674 QIKLASMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVR----AFLSKYSAHYTTAAA 749 (860)
Q Consensus 674 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~----~~~~~~~~~l~~~~~ 749 (860)
..+|++|.++.+..+.....+++..+.....+ ...|...+|.+|.+|+.-....... |..+++ +.. ..
T Consensus 161 ~peDlkGlkiRv~~s~~~~~~~~a~GA~P~pm----~f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky---~t~-tn 232 (332)
T COG1638 161 TPEDLKGLKIRVPQSPLLLAMFKALGANPTPM----PFAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKY---LTL-TN 232 (332)
T ss_pred ChHHhCCCeeecCCCHHHHHHHHHcCCCCCCC----CHHHHHHHHHcCCcccccCCHHHHhhccHHHHhHH---hhh-cc
Confidence 34477999999999888888888765433222 4567889999999999777654431 111222 111 12
Q ss_pred ccccccCceEEEeccCCc--chHHHHHHHHHHhhcc
Q 044527 750 KYTTSTNGFGFVFQKGSP--LVHDISRAIARLREEG 783 (860)
Q Consensus 750 ~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G 783 (860)
. ...++.+.+.+..- |-+...++|.+.-+..
T Consensus 233 H---~~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 233 H---IYLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred c---cccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 2 23455666666632 6667777666655543
No 311
>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=74.69 E-value=13 Score=40.83 Aligned_cols=78 Identities=12% Similarity=0.200 Sum_probs=57.7
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCC-CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 165 RGISDFISVFKWKEVILIHEDNTW-GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~-g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
+.+.+.++.++ +|+.+|++...+ .. ...+.+.+.+++.|+++.....+. +++...+....++.+++.++|+||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~-~~~~~v~~~L~~~g~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKN-GLYDRVIASLKEAGIEVVELGGVE-PNPRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhc-CcHHHHHHHHHHcCCeEEEECCcc-CCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45667777775 899998765433 23 567889999999998876544444 456667888888999999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 95 GG 96 (382)
T cd08187 95 GG 96 (382)
T ss_pred Ch
Confidence 54
No 312
>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=74.37 E-value=80 Score=29.90 Aligned_cols=73 Identities=16% Similarity=0.061 Sum_probs=48.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
.++-.+++..+.++.. ++++.+... ....+...+.+|++|+++..... +.....+ -+.++....+.+
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~ 78 (199)
T cd08416 12 VNTVPRIIMGLKLRRP-ELDIELTLG----------SNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFL 78 (199)
T ss_pred HhhhHHHHHHHHHhCC-CeEEEEEEc----------CcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEE
Confidence 3456788888988884 356666543 45678999999999999854221 0011222 256777788888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 79 v~~~~h 84 (199)
T cd08416 79 AVPATS 84 (199)
T ss_pred EECCCC
Confidence 887654
No 313
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=74.12 E-value=87 Score=30.40 Aligned_cols=85 Identities=14% Similarity=0.119 Sum_probs=54.4
Q ss_pred ecCCcHHHhhhc----CCCCCcCccc----cCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCc
Q 044527 686 QLGSVVPGALSN----LNFKDSRLKK----YNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNG 757 (860)
Q Consensus 686 ~~~~~~~~~~~~----~~~~~~~~~~----~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 757 (860)
..||.....|.. .+.....+.. ..+..+...+|..|+.|+-+..+....-+ + .|..+ ++ ....
T Consensus 100 ~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~AD~G~g~~~~A~~~---~--gL~Fv--pl--~~E~ 170 (193)
T PF12727_consen 100 QPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGKADAGIGIRAAAEEF---Y--GLDFV--PL--AEER 170 (193)
T ss_pred CCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCCCCEEeehHHHHHhh---c--CCCcE--Ec--cccc
Confidence 356777666643 2333334443 45677888999999999999876654311 1 22222 23 5567
Q ss_pred eEEEeccCCcchHHHHHHHHHH
Q 044527 758 FGFVFQKGSPLVHDISRAIARL 779 (860)
Q Consensus 758 ~~~~~~k~spl~~~in~~i~~l 779 (860)
|-+++++..-..+.+.+.|.-|
T Consensus 171 ~dlv~~~~~~~~~~vq~ll~~l 192 (193)
T PF12727_consen 171 YDLVIRREDLEDPAVQALLDFL 192 (193)
T ss_pred eEEEEEhhHcCCHHHHHHHHHh
Confidence 8899999987777777776544
No 314
>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=74.06 E-value=13 Score=40.72 Aligned_cols=79 Identities=11% Similarity=0.212 Sum_probs=57.8
Q ss_pred HHHHHHHhhC---CCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEE
Q 044527 165 RGISDFISVF---KWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVV 241 (860)
Q Consensus 165 ~ai~~~l~~~---~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil 241 (860)
+.+.++++.+ |.+++.+|++......-+..+.+.+.+++.|+++.....+. +++...+.....+.+++.++|+||.
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~-~~p~~~~v~~~~~~~~~~~~D~IIa 90 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVT-PNPTVDQVDEAAKLGREFGAQAVIA 90 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCC-CCCCHHHHHHHHHHHHHcCCCEEEE
Confidence 4456667666 77899999865533321456889999999998776544444 5566778888899999999999998
Q ss_pred EeC
Q 044527 242 HMT 244 (860)
Q Consensus 242 ~~~ 244 (860)
.+.
T Consensus 91 iGG 93 (383)
T cd08186 91 IGG 93 (383)
T ss_pred eCC
Confidence 765
No 315
>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=72.80 E-value=89 Score=29.77 Aligned_cols=72 Identities=15% Similarity=0.158 Sum_probs=49.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
.++..+++..+.++.. ++++.+... +...+++.+.+|++|+++..-.. .....+ .+.++....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~ 77 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQG----------SPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHI 77 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEeC----------CHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeE
Confidence 4556888999999875 356666543 56789999999999999853211 111222 256778888888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 78 ~~~~~h 83 (198)
T cd08444 78 IVPVGH 83 (198)
T ss_pred EecCCC
Confidence 887664
No 316
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=72.55 E-value=1.2e+02 Score=31.31 Aligned_cols=159 Identities=18% Similarity=0.228 Sum_probs=94.6
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
=.|+.+|.-++. ..+.+++.|+.+.-.. .+-+-..|.+-.-.+.+..+-+.+++ =+++|.-=.. .-.
T Consensus 45 k~laliFeK~ST---RTR~SFeva~~qlGg~------~~~l~~~~~Qlgr~Esi~DTArVLsr-~~D~I~~R~~---~~~ 111 (310)
T COG0078 45 KNLALIFEKTST---RTRVSFEVAATQLGGH------AIYLGPGDSQLGRGESIKDTARVLSR-MVDAIMIRGF---SHE 111 (310)
T ss_pred ceEEEEecCCCc---hhhhhHHHHHHHcCCC------eEEeCCCccccCCCCcHHHHHHHHHh-hhheEEEecc---cHH
Confidence 458999998875 6788999998885443 34444444442333334444455544 3555553333 224
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhC---CCcEEEEEEecCCCCCcCCHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVF---KWKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~---~w~~v~ii~~~~~~g~~~~~~~ 196 (860)
.+..+++..+||+|.--+... +-.+++++++ .|+ +..+++.+.+. . +....
T Consensus 112 ~ve~lA~~s~VPViNgLtD~~------------------HP~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----N-Nv~nS 168 (310)
T COG0078 112 TLEELAKYSGVPVINGLTDEF------------------HPCQALADLMTIKEHFGSLKGLKLAYVGDG----N-NVANS 168 (310)
T ss_pred HHHHHHHhCCCceEccccccc------------------CcHHHHHHHHHHHHhcCcccCcEEEEEcCc----c-hHHHH
Confidence 677789999999987543221 2245666664 455 45788877654 4 78889
Q ss_pred HHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhh-hcCCCeEE
Q 044527 197 LFDSLHDNDIDIARRTSISLASSTHDQIIEKLSML-KSLDTKVF 239 (860)
Q Consensus 197 l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i-~~~~~~vi 239 (860)
+.......|.++.....-. +.+ ..++....+++ ++++..+.
T Consensus 169 l~~~~a~~G~dv~ia~Pk~-~~p-~~~~~~~a~~~a~~~g~~i~ 210 (310)
T COG0078 169 LLLAAAKLGMDVRIATPKG-YEP-DPEVVEKAKENAKESGGKIT 210 (310)
T ss_pred HHHHHHHhCCeEEEECCCc-CCc-CHHHHHHHHHHHHhcCCeEE
Confidence 9999999999987643211 112 34444444443 44443333
No 317
>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=72.41 E-value=89 Score=29.55 Aligned_cols=71 Identities=7% Similarity=0.100 Sum_probs=47.2
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-.+++..+.+... ++++.+... +...+...+.+|++|+++.... ...+...+ ...|+....+++++
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~-~~~~l~~~~~~~~~ 80 (201)
T cd08435 14 LLPPAIARLLARHP-RLTVRVVEG----------TSDELLEGLRAGELDLAIGRLA-DDEQPPDL-ASEELADEPLVVVA 80 (201)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEeC----------CHHHHHHHHHcCCccEEEEecC-cccCCCCc-EEEEcccCcEEEEE
Confidence 34678888888775 456666542 5678999999999999985321 11112223 24677888888888
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 81 ~~~~ 84 (201)
T cd08435 81 RPGH 84 (201)
T ss_pred eCCC
Confidence 7654
No 318
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=71.44 E-value=20 Score=37.57 Aligned_cols=48 Identities=10% Similarity=-0.023 Sum_probs=31.3
Q ss_pred CccEeeeeHHHHHHHHH-hCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEe
Q 044527 482 TLTVEGFCIDVFKAAID-TLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVG 540 (860)
Q Consensus 482 ~~~~~G~~~~l~~~la~-~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~ 540 (860)
.+.|.=+-..|.+.+.+ ..| +++..++. +|+- .=++.+.+|++|+++.
T Consensus 36 ~G~YY~ig~~ia~~~~~~~~~--i~~~v~~t--------ggSv-~Nl~~i~~Ge~d~alv 84 (321)
T COG2358 36 GGVYYPIGGGLAQLLNKDEKG--IECSVVPT--------GGSV-ENLKLLASGEADLALV 84 (321)
T ss_pred CceeeehHHHHHHHHhccCCC--eEEEEeec--------cchH-HHHHhHhcCccchhhh
Confidence 45566666777777777 455 35555554 2343 4566899999999864
No 319
>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=71.26 E-value=94 Score=29.37 Aligned_cols=69 Identities=9% Similarity=0.079 Sum_probs=47.2
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+...++..+.++.. ++++.+... ....+...+.+|++|+++.... .....+ .+.++....+++++
T Consensus 15 ~l~~~l~~~~~~~P-~v~i~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~ 79 (197)
T cd08425 15 LIGPLIDRFHARYP-GIALSLREM----------PQERIEAALADDRLDLGIAFAP---VRSPDI-DAQPLFDERLALVV 79 (197)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEEC----------cHHHHHHHHHcCCccEEEEecC---CCCCCc-EEEEeccccEEEEe
Confidence 34688888888875 466666653 4578899999999999985322 222222 24677788888887
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
+++.
T Consensus 80 ~~~~ 83 (197)
T cd08425 80 GATH 83 (197)
T ss_pred cCCC
Confidence 7654
No 320
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=71.04 E-value=22 Score=35.85 Aligned_cols=88 Identities=10% Similarity=0.069 Sum_probs=58.8
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhh-CCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHD-NDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFV 240 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vii 240 (860)
.+...+.+.....+ .+|.++..+.+ .++.+.+.+++ .|+.|+.... ...+..+-..++++|.+++||+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~-----v~~~a~~~l~~~y~l~i~g~~~---Gyf~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE-----VLAQTEAKLRTQWNVNIVGSQD---GYFTPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH-----HHHHHHHHHHHHhCCEEEEEeC---CCCCHHHHHHHHHHHHhcCCCEEE
Confidence 44566666665556 78888876553 44445555433 3777775432 223445566789999999999999
Q ss_pred EEeCHHHHHHHHHHHHHc
Q 044527 241 VHMTHALASHLFLNAKKL 258 (860)
Q Consensus 241 l~~~~~~~~~il~~a~~~ 258 (860)
+.+..+.-..++....+.
T Consensus 163 VglG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRLV 180 (243)
T ss_pred EECCCcHHHHHHHHHHHh
Confidence 999988877777665544
No 321
>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=69.72 E-value=13 Score=39.94 Aligned_cols=77 Identities=12% Similarity=0.112 Sum_probs=56.1
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
.-+.+.++.++ +|+.+|++...+ . ...+.+.+.+++.|+++.....+. .++...+.....+..++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~-~~~~~v~~~l~~~~~~~~~~~~~~-~~p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-A-AAKDKIKAALEQSGIEITDFIWYG-GESTYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-H-HHHHHHHHHHHHCCCeEEEEEecC-CCCCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 44566677777 898888865544 3 456778888988898876444455 4556677778888888899999998776
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 88 G 88 (345)
T cd08171 88 G 88 (345)
T ss_pred c
Confidence 4
No 322
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=68.76 E-value=67 Score=31.69 Aligned_cols=94 Identities=15% Similarity=0.144 Sum_probs=54.6
Q ss_pred cCCcEEEecCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCce
Q 044527 679 SMDNIGSQLGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGF 758 (860)
Q Consensus 679 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 758 (860)
.+++|+..--.....||.+.+.. .+++.....-|. +-..|-.|+++.-..+..-+..+ +|+++...+ .+..
T Consensus 114 ~~~rIATkYp~it~~yf~~~gv~-~~iv~l~GsvE~--aP~~GlAD~IvDivsTG~TLr~N---gL~~ie~Il---~s~A 184 (215)
T PRK01686 114 PRLRVATKYPNIARRYFAEKGEQ-VEIIKLYGSVEL--APLVGLADAIVDIVETGNTLRAN---GLVEVEEIM---DISA 184 (215)
T ss_pred CCCEEEeCCHHHHHHHHHHcCCe-EEEEECcCceee--ccccCCccEEEEeecChHHHHHC---cCEEeeEEE---eeEE
Confidence 56777777666677888766653 333333322222 23345556666544443333333 677776554 5666
Q ss_pred EEEeccCCc--chHHHHHHHHHHhh
Q 044527 759 GFVFQKGSP--LVHDISRAIARLRE 781 (860)
Q Consensus 759 ~~~~~k~sp--l~~~in~~i~~l~e 781 (860)
.+..++.+. -.+.++..+.+|++
T Consensus 185 ~LI~n~~s~~~k~~~i~~l~~~l~~ 209 (215)
T PRK01686 185 RLIVNRASLKLKREEIRPLIEKLRE 209 (215)
T ss_pred EEEEecccchhhHHHHHHHHHHHHH
Confidence 777788775 34677777777654
No 323
>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=68.61 E-value=1.1e+02 Score=28.92 Aligned_cols=71 Identities=11% Similarity=0.027 Sum_probs=47.5
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+..+++..+.++.. ++++.+... ....+.+.+.+|++|+++..... ....+ -+.++....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~~~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~ 76 (196)
T cd08456 12 QSFLPRAIKAFLQRHP-DVTISIHTR----------DSPTVEQWLSAQQCDLGLVSTLH---EPPGI-ERERLLRIDGVC 76 (196)
T ss_pred HhhHHHHHHHHHHHCC-CcEEEEEeC----------CHHHHHHHHHcCCccEEEEecCC---CCCCe-eEEEeeccCeEE
Confidence 3455788889988874 356666653 56788999999999999853211 11222 256677778877
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
+++...
T Consensus 77 ~~~~~~ 82 (196)
T cd08456 77 VLPPGH 82 (196)
T ss_pred EecCCC
Confidence 776543
No 324
>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=68.18 E-value=15 Score=39.82 Aligned_cols=76 Identities=12% Similarity=0.130 Sum_probs=56.8
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
..+.+.++.++ +|+.+|++... .. ...+.+.+.+++.|+.+.+. .+. .++...+.....+.+++.++|.||..+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~-~~-~~~~~v~~~L~~~~i~~~~~-~~~-~~p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFV-LD-LVGAKIEESLAAAGIDARFE-VFG-GECTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHH-HH-HHHHHHHHHHHhCCCeEEEE-EeC-CcCCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 44666777776 89888885433 33 56778889999999987643 355 5566778888889999999999988876
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 87 G 87 (351)
T cd08170 87 G 87 (351)
T ss_pred c
Confidence 4
No 325
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=68.01 E-value=1.7e+02 Score=31.11 Aligned_cols=84 Identities=12% Similarity=0.020 Sum_probs=56.5
Q ss_pred CeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCc
Q 044527 455 NKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQK 534 (860)
Q Consensus 455 ~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~ 534 (860)
+.||||+... . ...+-.+++..+.++.. ++++.+... +.+.++.+|.+|+
T Consensus 93 g~lrIg~~~~--~-----------------~~~~l~~~l~~f~~~~P-~v~i~l~~~----------~~~~~~~~l~~g~ 142 (327)
T PRK12680 93 GQLTLTTTHT--Q-----------------ARFVLPPAVAQIKQAYP-QVSVHLQQA----------AESAALDLLGQGD 142 (327)
T ss_pred eEEEEEecch--h-----------------HHHhhHHHHHHHHHHCC-CcEEEEEeC----------ChHHHHHHHHCCC
Confidence 6799998842 1 12344788999988886 356666553 5689999999999
Q ss_pred ccEEEeceeecccccceeeccccccccceEEEEecCC
Q 044527 535 FDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 535 ~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
+|+++...... ...... ..|++.....++++...
T Consensus 143 ~Dl~i~~~~~~--~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 143 ADIAIVSTAGG--EPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred CcEEEEecCCC--CCCcce-EEEeeccceEEEEeCCC
Confidence 99998532111 111122 47788888888887654
No 326
>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=67.84 E-value=1.1e+02 Score=28.77 Aligned_cols=70 Identities=10% Similarity=0.160 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+...++..+.++.. ++++.+... +...+...+.+|++|+++..... ....+ -..++....++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v 77 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELREM----------TTAEQLEALRAGRLDVGFVRPPP---DPPGL-ASRPLLREPLVVA 77 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEecC----------ChHHHHHHHHcCCccEEEEcCCC---CCCCe-eEEEEeeccEEEE
Confidence 345678888888764 356666543 55789999999999999854221 12222 2467888888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (197)
T cd08414 78 LPADH 82 (197)
T ss_pred ecCCC
Confidence 87654
No 327
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=67.64 E-value=1.7e+02 Score=30.94 Aligned_cols=82 Identities=9% Similarity=0.028 Sum_probs=54.5
Q ss_pred CCeEEEEecCCCcccceEeeeCCCCCCCCccEeeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcC
Q 044527 454 INKLRIGVPVNGLKEFVNVVWDPQSINSTLTVEGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQ 533 (860)
Q Consensus 454 g~~l~v~~~~~~~~pf~~~~~~~~~~~~~~~~~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g 533 (860)
.++|+||+... .. ..+-..++..+.+... ++++... .++.++..|.+|
T Consensus 116 ~~~l~Ig~~~~--~~-----------------~~~l~~~l~~f~~~~P-~i~i~~~------------~~~~~~~~l~~g 163 (317)
T PRK11482 116 QRTITIATTPS--VG-----------------ALVMPVIYQAIKTHYP-QLLLRNI------------PISDAENQLSQF 163 (317)
T ss_pred CceEEEEecHH--HH-----------------HHHHHHHHHHHHHHCC-CCEEEEe------------cchhHHHHHHCC
Confidence 36899998842 11 2345788888888875 3444432 346789999999
Q ss_pred cccEEEeceeecccccceeeccccccccceEEEEecCC
Q 044527 534 KFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 534 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
++|+++.... .....+. +.|+....++++++...
T Consensus 164 ~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 164 QTDLIIDTHS---CSNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred CcCEEEeccC---CCCCceE-EEEEecCcEEEEEeCCC
Confidence 9999985432 2223333 46888888888887664
No 328
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=66.75 E-value=1.7e+02 Score=30.54 Aligned_cols=73 Identities=12% Similarity=0.204 Sum_probs=45.0
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
.++-.+++..+.++.. ++++.+... +.+.+...|.+|++|+++............+ ...|+.....++
T Consensus 105 ~~~l~~~l~~f~~~~P-~i~l~~~~~----------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~~~ 172 (296)
T PRK11062 105 KRLVSRVLLTAVPEDE-SIHLRCFES----------THEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGVSF 172 (296)
T ss_pred HhhHHHHHHHHHhcCC-ceEEEEEeC----------CHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCcce
Confidence 3556788888877663 355555432 6688999999999999874321111111222 345667777666
Q ss_pred EEecC
Q 044527 566 IVPID 570 (860)
Q Consensus 566 lv~~~ 570 (860)
+++++
T Consensus 173 ~~~~~ 177 (296)
T PRK11062 173 FCTNP 177 (296)
T ss_pred EecCC
Confidence 66554
No 329
>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=66.53 E-value=1.2e+02 Score=28.65 Aligned_cols=70 Identities=11% Similarity=0.140 Sum_probs=47.7
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+..+++..+.++.. .+++++... +.+.+...+.+|++|+++...... ....+ .+.++....+++++
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~ 80 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEEA----------NTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVAL 80 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEecC----------ChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEe
Confidence 55788999998875 356666543 567899999999999998532211 11112 35677888888887
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
+...
T Consensus 81 ~~~~ 84 (199)
T cd08451 81 PAGH 84 (199)
T ss_pred cCCC
Confidence 6553
No 330
>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=66.43 E-value=24 Score=38.38 Aligned_cols=76 Identities=9% Similarity=0.112 Sum_probs=55.6
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.++.+++.+|++...+ ..+.+.+.+++.|+++.....+. +++..+.....++.+++.++|.||..+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~----~~~~~~~~l~~~~~~~~~~~~~~-~~p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA----IASGLTDILKPLGTLVVVFDDVQ-PNPDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH----HHHHHHHHHHHcCCeEEEEcCcC-CCcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 456677888888999999865442 34567788888887765443444 4556677888888899999999998775
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 87 G 87 (367)
T cd08182 87 G 87 (367)
T ss_pred c
Confidence 3
No 331
>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=66.07 E-value=1.2e+02 Score=28.52 Aligned_cols=70 Identities=7% Similarity=-0.001 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++++... +...+...+.+|++|+++... ......+ -+.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~~----------~~~~~~~~l~~~~~Di~i~~~---~~~~~~~-~~~~l~~~~~~~~ 77 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHEM----------SSAEQIEALLRGELDLGFVHS---RRLPAGL-SARLLHREPFVCC 77 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEeC----------CHHHHHHHHHcCCcceEEEeC---CCCCcCc-eEEEEecCcEEEE
Confidence 455788888888874 356666543 678899999999999987532 1222222 2467788888887
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 78 ~~~~h 82 (197)
T cd08448 78 LPAGH 82 (197)
T ss_pred eeCCC
Confidence 76553
No 332
>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=65.51 E-value=1.4e+02 Score=29.28 Aligned_cols=121 Identities=13% Similarity=0.190 Sum_probs=69.4
Q ss_pred cCCeEEEEecCCChhHHHHHHHhh-cCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEE
Q 044527 105 NVDLQAIICIGMTPTGAQILADLG-SRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIH 183 (860)
Q Consensus 105 ~~~v~aviGp~~~s~~~~~~~~~~-~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~ 183 (860)
+.++.+|+-+.+ + ....+..+- ...++|+++.. ++..+-+.. +.++|+++.
T Consensus 63 ~~g~d~i~i~C~-s-~~~~~~~~~~~~~~iPv~~~~-------------------------~a~~~~~~~-~~~ri~vl~ 114 (216)
T PF01177_consen 63 KAGVDAIVIACN-S-AHPFVDELRKERVGIPVVGIV-------------------------EAALEAAKA-GGKRIGVLT 114 (216)
T ss_dssp HTTESEEEESSH-H-HHHHHHHHHHHHHSSEEEESH-------------------------HHHHHHHHH-TSSEEEEEE
T ss_pred hCCCCEEEEcCC-c-hhhhHHHHhhhcCceEEEecc-------------------------HHHHHHHHh-cCCEEEEEe
Confidence 358998886544 3 223333344 55688877642 122333444 889999999
Q ss_pred ecCCCCCcCCHHHHHHHHhhC-Cc--eEeEEE------eccCCCCChH---HHHHHHHhh-hcCCCeEEEEEeCHHHHH-
Q 044527 184 EDNTWGNDNTIPYLFDSLHDN-DI--DIARRT------SISLASSTHD---QIIEKLSML-KSLDTKVFVVHMTHALAS- 249 (860)
Q Consensus 184 ~~~~~g~~~~~~~l~~~~~~~-g~--~i~~~~------~~~~~~~~~~---~~~~~l~~i-~~~~~~viil~~~~~~~~- 249 (860)
+.. . .....+.+.+++. |+ +++... .......... .+...++++ +..++|+|++.|..=...
T Consensus 115 t~~---~-~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~~ 190 (216)
T PF01177_consen 115 TYT---T-EKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTHLPLLL 190 (216)
T ss_dssp SHH---H-HHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGGH
T ss_pred cCc---c-cchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHHH
Confidence 633 3 4556778888888 87 554421 1100111222 344445554 488999999998754433
Q ss_pred HHHHHHHH
Q 044527 250 HLFLNAKK 257 (860)
Q Consensus 250 ~il~~a~~ 257 (860)
...+...+
T Consensus 191 ~~~~~l~~ 198 (216)
T PF01177_consen 191 GAIEALEE 198 (216)
T ss_dssp HHHHHHHH
T ss_pred HHHHhhcc
Confidence 55555543
No 333
>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=65.31 E-value=8.7 Score=33.76 Aligned_cols=87 Identities=15% Similarity=0.150 Sum_probs=50.8
Q ss_pred cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhh--cCCCeEEEEEeCHHHHHHHHHH
Q 044527 177 KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLK--SLDTKVFVVHMTHALASHLFLN 254 (860)
Q Consensus 177 ~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~--~~~~~viil~~~~~~~~~il~~ 254 (860)
|+++++...+.-+. ....+.+.+.+.|.+|.... +..+.-+=......+. -..+|.++++..++....++++
T Consensus 1 ksiAVvGaS~~~~~--~g~~v~~~l~~~G~~v~~Vn----p~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGK--FGYRVLRNLKAAGYEVYPVN----PKGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTS--HHHHHHHHHHHTT-EEEEES----TTCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCC--hHHHHHHHHHhCCCEEEEEC----CCceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHH
Confidence 57888876655443 55667777777887765432 1121100011222233 4688999999999999999999
Q ss_pred HHHcCCccCCeEEEecCh
Q 044527 255 AKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 255 a~~~gl~~~~~~~i~~~~ 272 (860)
+.+.| ...+|+..+.
T Consensus 75 ~~~~g---~~~v~~~~g~ 89 (116)
T PF13380_consen 75 AAALG---VKAVWLQPGA 89 (116)
T ss_dssp HHHHT----SEEEE-TTS
T ss_pred HHHcC---CCEEEEEcch
Confidence 99998 5789998873
No 334
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=64.59 E-value=21 Score=38.86 Aligned_cols=77 Identities=8% Similarity=0.123 Sum_probs=56.8
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
...+.+.++.++ +++.+|++...+ . ...+.+.+.+++.|+++.+. .+. .++..+.....++.+++.++|+||..+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~-~-~~~~~v~~~l~~~~~~~~~~-~~~-~ep~~~~v~~~~~~~~~~~~d~IIavG 92 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL-G-IVGDRVEASLKEAGLTVVFE-VFN-GECSDNEIDRLVAIAEENGCDVVIGIG 92 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH-H-HHHHHHHHHHHhCCCeEEEE-EeC-CCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 345667778888 899888854433 3 46678888898889887543 344 456667788888888999999999887
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 93 GG 94 (366)
T PRK09423 93 GG 94 (366)
T ss_pred Ch
Confidence 64
No 335
>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=64.19 E-value=1.3e+02 Score=28.33 Aligned_cols=72 Identities=17% Similarity=0.122 Sum_probs=47.6
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-..++..+.++.. ++++++... ++..+...+.+|++|+++...... ....+. +.++....+.+
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~ 77 (199)
T cd08430 12 YSFLPPILERFRAQHP-QVEIKLHTG----------DPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVF 77 (199)
T ss_pred eeeccHHHHHHHHHCC-CceEEEEeC----------CHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEE
Confidence 3455788999999985 356666553 677899999999999998532111 111222 45667777777
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 78 ~~~~~~ 83 (199)
T cd08430 78 IAPNIA 83 (199)
T ss_pred EEeCCc
Confidence 776553
No 336
>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=63.92 E-value=1.3e+02 Score=28.36 Aligned_cols=69 Identities=12% Similarity=0.127 Sum_probs=45.5
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-..++..+.++.. ++++.+... ....+...|.+|++|+++..-.. ....+ -..++....+.+++
T Consensus 14 ~~~~~l~~~~~~~P-~i~i~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~~~ 78 (198)
T cd08441 14 WLMPVLDQFRERWP-DVELDLSSG----------FHFDPLPALLRGELDLVITSDPL---PLPGI-AYEPLFDYEVVLVV 78 (198)
T ss_pred hhHHHHHHHHHhCC-CeEEEEEeC----------CchhHHHHHHcCCceEEEecCCc---CCCCc-EEEEccCCcEEEEE
Confidence 44678888888875 356666543 55789999999999999853211 11222 24567777777777
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
+...
T Consensus 79 ~~~~ 82 (198)
T cd08441 79 APDH 82 (198)
T ss_pred cCCC
Confidence 6553
No 337
>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=63.69 E-value=1.3e+02 Score=28.32 Aligned_cols=70 Identities=14% Similarity=0.165 Sum_probs=45.9
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-..++..+.++.. .+++.+... ....+...+.+|++|+++.... .....+. ..++....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~~~~~----------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~ 76 (196)
T cd08457 12 NGFLPRFLAAFLRLRP-NLHLSLMGL----------SSSQVLEAVASGRADLGIADGP---LEERQGF-LIETRSLPAVV 76 (196)
T ss_pred ccccHHHHHHHHHHCC-CeEEEEEec----------CcHHHHHHHHcCCccEEEeccC---CCCCCcE-EEEeccCCeEE
Confidence 3455788999998875 356666543 3467889999999999985422 1122222 35667777777
Q ss_pred EEecC
Q 044527 566 IVPID 570 (860)
Q Consensus 566 lv~~~ 570 (860)
+++..
T Consensus 77 ~~~~~ 81 (196)
T cd08457 77 AVPMG 81 (196)
T ss_pred EeeCC
Confidence 77654
No 338
>PRK00865 glutamate racemase; Provisional
Probab=63.68 E-value=60 Score=33.35 Aligned_cols=111 Identities=16% Similarity=0.192 Sum_probs=62.0
Q ss_pred ccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEE
Q 044527 104 QNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIH 183 (860)
Q Consensus 104 ~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~ 183 (860)
.+.++.+|+=+.. +.++.++..+-+..++|+|+ . .| ....+ .+.-+-++|+++.
T Consensus 64 ~~~g~d~iVIaCN-Ta~~~~l~~lr~~~~iPvig-i--~~------------------a~~~a----~~~~~~~~igVLa 117 (261)
T PRK00865 64 LEYGVKMLVIACN-TASAVALPDLRERYDIPVVG-I--VP------------------AIKPA----AALTRNGRIGVLA 117 (261)
T ss_pred HhCCCCEEEEeCc-hHHHHHHHHHHHhCCCCEEe-e--HH------------------HHHHH----HHhcCCCeEEEEE
Confidence 3458998887766 55555666666777899988 3 22 11111 1223457888887
Q ss_pred ecCCCCCcCCHHHHHHHHhhCC--ceEeEEE----------eccCCC-CChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 184 EDNTWGNDNTIPYLFDSLHDND--IDIARRT----------SISLAS-STHDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 184 ~~~~~g~~~~~~~l~~~~~~~g--~~i~~~~----------~~~~~~-~~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
....- ....+++.+++.| .++.... ... .. .....+...++.+.+.++|+||+.|..
T Consensus 118 T~~Ti----~s~~y~~~i~~~~~~~~v~~~~~~~lv~~ie~g~~-~~~~~~~~l~~~l~~l~~~g~d~iILGCTh 187 (261)
T PRK00865 118 TPGTV----KSAAYRDLIARFAPDCQVESLACPELVPLVEAGIL-GGPVTLEVLREYLAPLLAAGIDTLVLGCTH 187 (261)
T ss_pred CHHHh----hchHHHHHHHHhCCCCEEEEecCHHHHHHHhCCCc-CCHHHHHHHHHHHHHHhcCCCCEEEECCcC
Confidence 65421 1223455555554 3321100 000 00 112345667777777899999998874
No 339
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=63.01 E-value=80 Score=33.93 Aligned_cols=93 Identities=13% Similarity=0.031 Sum_probs=68.8
Q ss_pred eEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 42 EVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 42 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
+-+||.+..+..+.-.....|+...++.+|.+ .++......+-.||..+.+.+..++++ ++++|..... +...
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~-----i~v~v~~~gsf~D~~k~k~~a~~li~~-GaDVI~~~ag-~~~~ 233 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD-----IKVKVVYVGSFSDPAKGKEAANALIDQ-GADVIYPAAG-GTGV 233 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC-----ccEEEEEecCccChHHHHHHHHHHHhc-CCCEEEecCC-CCcc
Confidence 46799999888877778889999999999977 677787778889999999999999987 9999997776 4444
Q ss_pred HHHHHhhcCCCCcEEecccCC
Q 044527 122 QILADLGSRAKIPIISLFTTL 142 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~ 142 (860)
..+. .+.+.+.-.|++...-
T Consensus 234 gv~~-~A~~~~~~~iGvdsDQ 253 (345)
T COG1744 234 GVFQ-AAKELGAYAIGVDSDQ 253 (345)
T ss_pred hHHH-HHHHhCCCeEEEeccc
Confidence 4320 2222222236665433
No 340
>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=62.30 E-value=1.4e+02 Score=28.15 Aligned_cols=72 Identities=15% Similarity=0.112 Sum_probs=48.6
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-..++..+.++.. ++++++... +...+.+.+.+|++|+++... ........+. ..++.....+++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~-~~~l~~~~~~~~ 79 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYEG----------GSAELLEQLLQGDLDIALLGS-LTPLENSALH-SKIIKTQHFMII 79 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEEc----------CHHHHHHHHHcCCCCEEEecC-CCCCCcccce-EEEeecceEEEE
Confidence 345788888888875 466666653 568899999999999998532 1111222233 467788888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 80 ~~~~h 84 (198)
T cd08437 80 VSKDH 84 (198)
T ss_pred ecCCC
Confidence 77654
No 341
>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=61.76 E-value=27 Score=36.85 Aligned_cols=90 Identities=16% Similarity=0.078 Sum_probs=62.8
Q ss_pred EEEEEE---ecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 44 HVGIIL---DMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 44 ~IG~l~---~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
++|.+. ....+.-.....|+...++.+|.+ .++......+-.||..+.+.+..++.+ ++++|+.... .+
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~np~-----i~v~~~~~gs~~D~~~~~~~a~~li~~-GaDvI~~~ag--~~ 199 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVNPD-----IKVNVSYTGSFNDPAKAKEAAEALIDQ-GADVIFPVAG--GS 199 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTTTT------EEEEEE-SSSS-HHHHHHHHHHHHHT-T-SEEEEE-C--CC
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhCcC-----ceEEEEEcCCcCchHHHHHHHHHHhhc-CCeEEEECCC--CC
Confidence 467777 666555567888999999999933 677777778889999999999999995 9999887333 44
Q ss_pred HHHHHHhhcCCCCc--EEecccC
Q 044527 121 AQILADLGSRAKIP--IISLFTT 141 (860)
Q Consensus 121 ~~~~~~~~~~~~ip--~Is~~a~ 141 (860)
...+...+.+.+.. .|.....
T Consensus 200 ~~gv~~aa~e~g~~~~~IG~d~d 222 (306)
T PF02608_consen 200 GQGVIQAAKEAGVYGYVIGVDSD 222 (306)
T ss_dssp HHHHHHHHHHHTHETEEEEEES-
T ss_pred chHHHHHHHHcCCceEEEEeccc
Confidence 55666677777777 7776543
No 342
>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=61.62 E-value=32 Score=36.82 Aligned_cols=101 Identities=11% Similarity=0.109 Sum_probs=64.2
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.++.+++.+|++.. ... ...+.+.+.+++. +++....... ++....+....+..+++.++|.||..+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~-~~~-~~~~~v~~~l~~~-~~~~~~~~~~-~~p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEG-VVK-GVGEKVADSLKKL-IAVHIFDGVG-PNPTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCc-hhh-hHHHHHHHHHHhc-CcEEEeCCcC-CCcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 4466677778889999998543 333 5677888888877 6654433333 3456677888888888899999988775
Q ss_pred H--HHHHHHHHHHHHcCCccCCeEEEecCh
Q 044527 245 H--ALASHLFLNAKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 245 ~--~~~~~il~~a~~~gl~~~~~~~i~~~~ 272 (860)
+ -|...++......+ ..+.-|.|..
T Consensus 88 Gs~~D~aK~ia~~~~~~---~p~i~iPTt~ 114 (332)
T cd07766 88 GSTLDTAKAVAALLNRG---LPIIIVPTTA 114 (332)
T ss_pred chHHHHHHHHHHHhcCC---CCEEEEeCCC
Confidence 3 33333333333223 3345555544
No 343
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=61.15 E-value=1.3e+02 Score=31.65 Aligned_cols=70 Identities=6% Similarity=0.120 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
++-.+++..+.++.. ++++.+... +...++..|.+|++|+++..... ....+. ..++....++++
T Consensus 125 ~~l~~~l~~f~~~~P-~i~l~i~~~----------~~~~~~~~l~~g~~Di~i~~~~~---~~~~l~-~~~l~~~~~~lv 189 (314)
T PRK09508 125 RLTSQIYNRIEQIAP-NIHVVFKSS----------LNQNIEHQLRYQETEFVISYEEF---DRPEFT-SVPLFKDELVLV 189 (314)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEeC----------cchhHHHHHhcCCccEEEecCCC---Cccccc-eeeeecCceEEE
Confidence 355888999998875 356666543 45789999999999999864321 122222 457778888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 190 ~~~~h 194 (314)
T PRK09508 190 ASKNH 194 (314)
T ss_pred EcCCC
Confidence 87654
No 344
>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=61.04 E-value=57 Score=32.19 Aligned_cols=86 Identities=7% Similarity=0.008 Sum_probs=57.6
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVV 241 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil 241 (860)
-....++.++.+ .++++|.+..+ -.+...+.++..+..+.....-| +..+..++...-+++++.++|+|++
T Consensus 114 il~~lV~al~~~---~~vGVivP~~e-----Q~~~~~~kW~~l~~~~~~a~asP-y~~~~~~l~~Aa~~L~~~gadlIvL 184 (221)
T PF07302_consen 114 ILPPLVAALVGG---HQVGVIVPLPE-----QIAQQAEKWQPLGNPVVVAAASP-YEGDEEELAAAARELAEQGADLIVL 184 (221)
T ss_pred hHHHHHHHhcCC---CeEEEEecCHH-----HHHHHHHHHHhcCCCeEEEEeCC-CCCCHHHHHHHHHHHHhcCCCEEEE
Confidence 333444444443 79999998764 23345566666666655544333 3356788999999999999999999
Q ss_pred Ee--CHHHHHHHHHHHH
Q 044527 242 HM--THALASHLFLNAK 256 (860)
Q Consensus 242 ~~--~~~~~~~il~~a~ 256 (860)
.| +....+.+++++.
T Consensus 185 DCmGYt~~~r~~~~~~~ 201 (221)
T PF07302_consen 185 DCMGYTQEMRDIVQRAL 201 (221)
T ss_pred ECCCCCHHHHHHHHHHh
Confidence 88 4566666666553
No 345
>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=60.88 E-value=60 Score=32.39 Aligned_cols=80 Identities=11% Similarity=-0.014 Sum_probs=52.0
Q ss_pred ccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceee--ccccccc--cCceEEEeccCCcchHHHHHHHHHHhhc
Q 044527 707 KYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTA--AAKYTTS--TNGFGFVFQKGSPLVHDISRAIARLREE 782 (860)
Q Consensus 707 ~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~--~~~~~~~--~~~~~~~~~k~spl~~~in~~i~~l~e~ 782 (860)
..++..+....+.+|+.|+.+.......+. .....+..+ ++.. . ...+.+++.++++..+.-..++..|...
T Consensus 143 ~~~~~~~~~~~v~~g~~d~~~~~~s~~~~~--~~~~~~~~v~~~~~~--~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s~ 218 (230)
T PF13531_consen 143 YVPSTSQVLSAVASGEADAGIVYESQAIFA--RQGDPLSYVYPPDGV--NSPPIDYPIAILKNAPHPEAARAFIDFLLSP 218 (230)
T ss_dssp EESSHHHHHHHHHTTSSSEEEEEHHHHHHC--TSHTTEEEEE-STTT--SSSEEEEEEEEBTTCTTHHHHHHHHHHHTSH
T ss_pred cccchHHHHHHHHcCCCcceeeHHHHHHHh--hcCCCeEEEECCchh--cCCCEEEEEEEecCCCCHHHHHHHHHHHCCH
Confidence 456678888999999999998776655322 221133333 3333 3 2457889999988888888888887765
Q ss_pred chHHHHHHH
Q 044527 783 GTLAKIENV 791 (860)
Q Consensus 783 G~~~~~~~~ 791 (860)
- -+++..+
T Consensus 219 ~-~q~~l~~ 226 (230)
T PF13531_consen 219 E-GQQILAK 226 (230)
T ss_dssp H-HHHHHHH
T ss_pred H-HHHHHHH
Confidence 3 4444333
No 346
>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=60.82 E-value=24 Score=38.95 Aligned_cols=69 Identities=7% Similarity=0.135 Sum_probs=52.4
Q ss_pred CCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 174 FKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 174 ~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
.+.+++.+|++..-... ...+.+.+.+++.|+++.....+. +++........+..+++.++|+||-.+.
T Consensus 19 ~~~~k~liVtd~~~~~~-g~~~~v~~~L~~~gi~~~~f~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (398)
T cd08178 19 KGKKRAFIVTDRFMVKL-GYVDKVIDVLKRRGVETEVFSDVE-PDPSLETVRKGLELMNSFKPDTIIALGG 87 (398)
T ss_pred cCCCeEEEEcChhHHhC-ccHHHHHHHHHHCCCeEEEecCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 35689988886543444 578889999999998876544444 5566778888889999999999998775
No 347
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=60.78 E-value=2e+02 Score=30.02 Aligned_cols=93 Identities=8% Similarity=0.151 Sum_probs=62.0
Q ss_pred eEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-ceEee--c---CCCchhHHHHHHHHHHHhhC-------
Q 044527 108 LQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-YSIQI--D---QDDEASQSQARGISDFISVF------- 174 (860)
Q Consensus 108 v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~--~---p~~~~~~~~~~ai~~~l~~~------- 174 (860)
+.-++||.. .+....++.++...++=.+..+.... ...+ +|.|+ . |.....+.+-+++.++.+.+
T Consensus 11 iitv~G~Dr-~GIVA~Vs~~Lae~g~NI~disq~~d-~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i~ 88 (289)
T PRK13010 11 VLTLACPSA-PGIVAAVSGFLAEKGCYIVELTQFDD-DESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAIH 88 (289)
T ss_pred EEEEECCCC-CCcHHHHHHHHHHCCCCEEecccccc-cccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEEe
Confidence 677899999 99999999999999887777665433 3444 77773 2 22211125556666666654
Q ss_pred ---CCcEEEEEEecCCCCCcCCHHHHHHHHhhCCc
Q 044527 175 ---KWKEVILIHEDNTWGNDNTIPYLFDSLHDNDI 206 (860)
Q Consensus 175 ---~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~ 206 (860)
..+|++++.+... +..+++-+..++..+
T Consensus 89 ~~~~~~kiavl~Sg~g----~nl~al~~~~~~~~l 119 (289)
T PRK13010 89 PDGQRPKVVIMVSKFD----HCLNDLLYRWRMGEL 119 (289)
T ss_pred cCCCCeEEEEEEeCCC----ccHHHHHHHHHCCCC
Confidence 3468999987653 466777777766543
No 348
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=60.68 E-value=2.2e+02 Score=29.85 Aligned_cols=69 Identities=12% Similarity=0.116 Sum_probs=43.8
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-.+++..+.+... ++++.+... +-..+...+.+|++|+++...... ...+ ...+++.....+++
T Consensus 108 ~l~~~l~~~~~~~P-~v~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~ 172 (309)
T PRK11013 108 LLPGLCQPFLARYP-DVSLNIVPQ----------ESPLLEEWLSAQRHDLGLTETLHT---PAGT-ERTELLTLDEVCVL 172 (309)
T ss_pred hHHHHHHHHHHHCC-CCeEEEEeC----------CHHHHHHHHHcCCCCEEEEcCCCC---CCCc-eeeeecceeEEEEE
Confidence 45788888888774 356666543 446788999999999998532211 1112 23466666666776
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 173 ~~~~ 176 (309)
T PRK11013 173 PAGH 176 (309)
T ss_pred cCCC
Confidence 6554
No 349
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=60.64 E-value=15 Score=44.99 Aligned_cols=53 Identities=9% Similarity=0.264 Sum_probs=46.1
Q ss_pred cchhHHHHHHHHhhccc--cccccccchhhhHHHHHHHHHHHHHHhhhccccccc
Q 044527 619 QFGMIFWYSFSTLVFSQ--REKLFSNLSKFVVIVWVFVVLILSSSYTATLASMLT 671 (860)
Q Consensus 619 ~~~~~~~~~~~~~~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~lt 671 (860)
.+..++|+++.+++..| ...|.+...|++.++|.++++.+.++..+++++++.
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~ 304 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVV 304 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34468999999999877 446899999999999999999999999999998773
No 350
>cd08458 PBP2_NocR The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator NocR, which is involved in the catabolism of nopaline. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, NocR regulates expression of the divergently transcribed nocB and nocR genes of the nopaline catabolism (noc) region. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=60.17 E-value=1.6e+02 Score=27.92 Aligned_cols=69 Identities=14% Similarity=0.153 Sum_probs=45.8
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+-.+++..+.++.. .+++++... +...+...+.+|++|+++...... ...+ -+.++.....++++
T Consensus 14 ~l~~~l~~f~~~~P-~v~i~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~ 78 (196)
T cd08458 14 FMSGVIQTFIADRP-DVSVYLDTV----------PSQTVLELVSLQHYDLGISILAGD---YPGL-TTEPVPSFRAVCLL 78 (196)
T ss_pred hhHHHHHHHHHHCC-CcEEEEecc----------ChHHHHHHHHcCCCCEEEEeccCC---CCCc-eEEEeccCceEEEe
Confidence 44788888988875 356666543 556789999999999998532211 1112 24677777777777
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
+...
T Consensus 79 ~~~h 82 (196)
T cd08458 79 PPGH 82 (196)
T ss_pred cCCC
Confidence 6543
No 351
>PRK10537 voltage-gated potassium channel; Provisional
Probab=60.07 E-value=28 Score=38.11 Aligned_cols=55 Identities=9% Similarity=0.152 Sum_probs=43.9
Q ss_pred ccccchhHHHHHHHHhhccc--cccccccchhhhHHHHHHHHHHHHHHhhhcccccc
Q 044527 616 RAHQFGMIFWYSFSTLVFSQ--REKLFSNLSKFVVIVWVFVVLILSSSYTATLASML 670 (860)
Q Consensus 616 ~~~~~~~~~~~~~~~~~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~l 670 (860)
...++.+++|+++.++...| ...|.+..+|++.+.+.++++.+..+..+.+...+
T Consensus 165 ~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 165 PIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred CCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999999888766 44688899999999999999888777666665544
No 352
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=58.92 E-value=84 Score=32.00 Aligned_cols=122 Identities=15% Similarity=0.158 Sum_probs=64.8
Q ss_pred HHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCC
Q 044527 97 TTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKW 176 (860)
Q Consensus 97 ~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w 176 (860)
+.+..|.++.++.+++=|.+ +..+.....+-+..++|+|+.- .| . .+.+. +.-.-
T Consensus 51 ~~~~~L~~~~g~d~ivIaCN-TA~a~~~~~l~~~~~iPii~ii--e~------------------~-v~~a~---~~~~~ 105 (251)
T TIGR00067 51 ELLTFLKERHNIKLLVVACN-TASALALEDLQRNFDFPVVGVI--EP------------------A-IKAAI---RLTAN 105 (251)
T ss_pred HHHHHHHHhCCCCEEEEeCc-hHHHHHHHHHHHHCCCCEEeec--HH------------------H-HHHHH---HhCCC
Confidence 33444442558999888777 6666677778788899998852 11 0 01111 11122
Q ss_pred cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEE-ecc----C-----C--CCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 177 KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRT-SIS----L-----A--SSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 177 ~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~-~~~----~-----~--~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
++|+++.+... --...+++.+++.|.++.... ..+ . . ......+...++.+++.++|.+|+.|.
T Consensus 106 ~~IgvLAT~~T----i~s~~y~~~i~~~~~~~~v~~~~~~~lv~~Ie~g~~~~~~~~~~l~~~l~~l~~~~~d~lILGCT 181 (251)
T TIGR00067 106 GRVLVIATNAT----IKSNAYHEALKEIANDLLVEMLACPELVPLAEAGLLGEDYALECLKRYLRPLLDTLPDTVVLGCT 181 (251)
T ss_pred CeEEEEeCHHH----HhhhHHHHHHHHhCCCCEEEecCCHHHHHHHHcCCcCCHHHHHHHHHHHHHHhcCCCCEEEECcC
Confidence 36666655432 112334444444444322210 000 0 0 011234677778887789999999887
Q ss_pred HHH
Q 044527 245 HAL 247 (860)
Q Consensus 245 ~~~ 247 (860)
.-.
T Consensus 182 h~P 184 (251)
T TIGR00067 182 HFP 184 (251)
T ss_pred ChH
Confidence 533
No 353
>PRK07475 hypothetical protein; Provisional
Probab=58.69 E-value=68 Score=32.53 Aligned_cols=98 Identities=12% Similarity=0.051 Sum_probs=57.0
Q ss_pred ccEEEEEEecC----------CCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccc
Q 044527 78 KTRLILHSRDS----------QGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLT 147 (860)
Q Consensus 78 ~~~l~~~~~D~----------~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls 147 (860)
++++.+.+.+. ..++...+..+.+.+.+.++.+|+.+.+ ........+.+..++|+++. +.
T Consensus 39 ~~pv~~~~v~g~~~~~~~~~~~~~~~~~l~~aa~~L~~~G~d~I~~~Cg--t~~~~~~~l~~~~~VPv~~s---s~---- 109 (245)
T PRK07475 39 PFPVRYKVVRGATPERVVEGDDPSLLDAFVAAARELEAEGVRAITTSCG--FLALFQRELAAALGVPVATS---SL---- 109 (245)
T ss_pred CcCEEEEeeCCCCHHHHhcCCCccHHHHHHHHHHHHHHcCCCEEEechH--HHHHHHHHHHHHcCCCEecc---HH----
Confidence 35566655552 2345555555555555569999998655 33444455666678998752 11
Q ss_pred cceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCce
Q 044527 148 SYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDID 207 (860)
Q Consensus 148 ~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~ 207 (860)
.+..++.++. -+-++|+++..+.. .. ..+.+++.|++
T Consensus 110 --------------~~v~~l~~~~--~~~~kIGILtt~~t----~l---~~~~l~~~Gi~ 146 (245)
T PRK07475 110 --------------LQVPLIQALL--PAGQKVGILTADAS----SL---TPAHLLAVGVP 146 (245)
T ss_pred --------------HHHHHHHHhc--cCCCeEEEEeCCch----hh---hHHHHHhCCCC
Confidence 2223332222 14689999988554 32 25668888875
No 354
>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=58.65 E-value=30 Score=35.55 Aligned_cols=78 Identities=4% Similarity=0.058 Sum_probs=53.4
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~il~~ 254 (860)
+|+++..+ +.|.. ...+.+.+.+++.|+++..... ..+.......++.+.+.++|.||+... .......++.
T Consensus 1 ~Ig~i~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~ 75 (273)
T cd06305 1 RIAVVRYGGSGDFDQ-AYLAGTKAEAEALGGDLRVYDA----GGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKR 75 (273)
T ss_pred CeEEEeecCCCcHHH-HHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHH
Confidence 36777653 45555 6788999999999999876422 133444456777777779999998753 3344566778
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.|+
T Consensus 76 ~~~~~i 81 (273)
T cd06305 76 ALDAGI 81 (273)
T ss_pred HHHcCC
Confidence 887774
No 355
>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=58.46 E-value=18 Score=36.79 Aligned_cols=78 Identities=13% Similarity=0.106 Sum_probs=57.2
Q ss_pred EEEEEecC--CCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe-CHHHHHHHHHHH
Q 044527 179 VILIHEDN--TWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM-THALASHLFLNA 255 (860)
Q Consensus 179 v~ii~~~~--~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~-~~~~~~~il~~a 255 (860)
|+++..+. .|.. ...+.+++.+++.|+++... .+ ...+.......++++.+.++|.|++.. +.+....+++.+
T Consensus 1 I~vi~~~~~~~~~~-~~~~g~~~~a~~~g~~~~~~--~~-~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQ-QVIKGAKAAAKELGYEVEIV--FD-AQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHH-HHHHHHHHHHHHHTCEEEEE--EE-STTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHH-HHHHHHHHHHHHcCCEEEEe--CC-CCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 45555443 3555 57788899999999988775 22 234556677888888889999999875 455677899999
Q ss_pred HHcCC
Q 044527 256 KKLGM 260 (860)
Q Consensus 256 ~~~gl 260 (860)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99985
No 356
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=58.46 E-value=20 Score=39.20 Aligned_cols=72 Identities=6% Similarity=0.138 Sum_probs=52.2
Q ss_pred hCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 173 VFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 173 ~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
.++.+|+.+|++...+-.....+.+.+.+++.|+++.....+. +++........++.+++.++|.||-.+.+
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~D~IIavGGG 91 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVE-PDPSVETVLKGAEAMREFEPDWIIALGGG 91 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 3345889888765433321566889999999998876433344 45667788888999999999999988754
No 357
>PLN02245 ATP phosphoribosyl transferase
Probab=58.41 E-value=79 Score=34.29 Aligned_cols=94 Identities=15% Similarity=0.144 Sum_probs=51.1
Q ss_pred CcEEEecCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeec-cccccccCceE
Q 044527 681 DNIGSQLGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAA-AKYTTSTNGFG 759 (860)
Q Consensus 681 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~ 759 (860)
++|+..--.....||.+.+....++......-|. +-..|-.|+++.--.+..-+..+ +|++++ +.+ ..+...
T Consensus 197 ~RIATkYp~ltr~ff~~~Gv~~v~Iv~l~GAvE~--AP~lGlADaIvDIVsTGtTLraN---gLk~i~~~~I--l~S~A~ 269 (403)
T PLN02245 197 LRVVTGFTYLGPKFMKDNGFKHVTFSTADGALEA--APAMGIADAILDLVSSGTTLREN---NLKEIEGGVV--LESQAV 269 (403)
T ss_pred eEEEeCCHHHHHHHHHHcCCCeEEEEECcCceec--ccccCchhhhcchhccHHHHHHC---CCEEccCceE--EEEEEE
Confidence 5777766666778887766643344433333222 33344445544332222222222 688886 455 566667
Q ss_pred EEeccCCc-----chHHHHHHHHHHhh
Q 044527 760 FVFQKGSP-----LVHDISRAIARLRE 781 (860)
Q Consensus 760 ~~~~k~sp-----l~~~in~~i~~l~e 781 (860)
+..++++. -++.++..+.+|+.
T Consensus 270 LIan~~sl~~~~~~~~~i~~ll~rl~~ 296 (403)
T PLN02245 270 LVASRRALLERKGALEVVHEILERLEA 296 (403)
T ss_pred EEEecchhhcchhHHHHHHHHHHHHHH
Confidence 77777754 33466666666653
No 358
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=58.34 E-value=1.8e+02 Score=33.49 Aligned_cols=129 Identities=19% Similarity=0.174 Sum_probs=82.7
Q ss_pred CCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHH
Q 044527 90 GDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISD 169 (860)
Q Consensus 90 ~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~ 169 (860)
..-..+++.+.+.+..+++++||.-.+ ++..+. +...+|+|....+.- ...+++..
T Consensus 47 ~~~~~~v~~~~~~~~~~~~dviIsrG~---ta~~i~---~~~~iPVv~i~~s~~------------------Dil~al~~ 102 (538)
T PRK15424 47 LGFEKAVTYIRKRLATERCDAIIAAGS---NGAYLK---SRLSVPVILIKPSGF------------------DVMQALAR 102 (538)
T ss_pred hhHHHHHHHHHHHHhhCCCcEEEECch---HHHHHH---hhCCCCEEEecCCHh------------------HHHHHHHH
Confidence 455678888866554558999998655 444433 346799998754333 44555543
Q ss_pred HHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHH
Q 044527 170 FISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALAS 249 (860)
Q Consensus 170 ~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~ 249 (860)
.+.++ .++++|..... ...++..-.-.++++..... .+..+....++++++.+.++||-.+.
T Consensus 103 -a~~~~-~~iavv~~~~~------~~~~~~~~~~l~~~i~~~~~-----~~~~e~~~~v~~lk~~G~~~vvG~~~----- 164 (538)
T PRK15424 103 -ARKLT-SSIGVVTYQET------IPALVAFQKTFNLRIEQRSY-----VTEEDARGQINELKANGIEAVVGAGL----- 164 (538)
T ss_pred -HHhcC-CcEEEEecCcc------cHHHHHHHHHhCCceEEEEe-----cCHHHHHHHHHHHHHCCCCEEEcCch-----
Confidence 34444 57888875432 23344444445666665432 45789999999999999999985433
Q ss_pred HHHHHHHHcCCc
Q 044527 250 HLFLNAKKLGMM 261 (860)
Q Consensus 250 ~il~~a~~~gl~ 261 (860)
....|.++|+.
T Consensus 165 -~~~~A~~~g~~ 175 (538)
T PRK15424 165 -ITDLAEEAGMT 175 (538)
T ss_pred -HHHHHHHhCCc
Confidence 24667888863
No 359
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=58.23 E-value=13 Score=40.62 Aligned_cols=62 Identities=15% Similarity=0.285 Sum_probs=46.7
Q ss_pred HHHHHhhhhccccCCCcCCcccccchhHHHHHHHHhhccc-cc-cccccchhhhHHHHHHHHHHHHHH
Q 044527 596 LTGFVVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQ-RE-KLFSNLSKFVVIVWVFVVLILSSS 661 (860)
Q Consensus 596 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~s~~~R~l~~~w~~~~lil~~~ 661 (860)
+.+.++++.++-.+. ....++.-++|++..+|...| ++ .|++.++|++...-.++++++++.
T Consensus 358 iFStlvY~~Ek~~~~----~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 358 IFSTLVYFAEKDEPD----TKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHhhhcCCC----CCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 334445556654332 236678899999999999988 44 699999999999999999887764
No 360
>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=58.01 E-value=36 Score=32.72 Aligned_cols=70 Identities=4% Similarity=-0.007 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-..++..+.++.- ++++.+... +.+.++..+.+|++|+++..-. .. ...+ -+.++....+.++
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~~----------~~~~l~~~l~~g~~D~~~~~~~--~~-~~~~-~~~~l~~~~~~lv 78 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTHM----------TKDEQVEGLLAGTIHVGFSRFF--PR-HPGI-EIVNIAQEDLYLA 78 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEEC----------CHHHHHHHHHcCCceEEEecCC--CC-CCce-EEEEEeeccEEEE
Confidence 445788888888874 356665543 6789999999999999985321 11 1222 2566777888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++++.
T Consensus 79 ~~~~h 83 (198)
T cd08486 79 VHRSQ 83 (198)
T ss_pred ecCCC
Confidence 87654
No 361
>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=56.74 E-value=71 Score=30.01 Aligned_cols=67 Identities=18% Similarity=0.217 Sum_probs=47.9
Q ss_pred CCcEEEEEEecCCCCC--cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc-CCCeEEEEEeC
Q 044527 175 KWKEVILIHEDNTWGN--DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS-LDTKVFVVHMT 244 (860)
Q Consensus 175 ~w~~v~ii~~~~~~g~--~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~viil~~~ 244 (860)
...++++|...|+-+. +.....+...+++.|.++.....++ .+...+...+++..+ .++|+|+..+.
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~---Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVK---DDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcC---CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 3468888877664222 1345678888999999988877766 566778888877643 57899988763
No 362
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=56.14 E-value=2.5e+02 Score=29.08 Aligned_cols=69 Identities=13% Similarity=0.153 Sum_probs=49.0
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+..+++..+.++.. .+++.+... +.++++..+.+|++|+++..... ....+. +.|+....+++++
T Consensus 104 ~l~~~~~~~~~~~p-~v~i~~~~~----------~~~~~~~~l~~~~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~ 168 (296)
T PRK09906 104 LLPKVLPMFRLRHP-DTLIELVSL----------ITTQQEEKLRRGELDVGFMRHPV---YSDEID-YLELLDEPLVVVL 168 (296)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEeC----------CcHHHHHHHHcCCeeEEEecCCC---CCCCce-EEEEecccEEEEe
Confidence 34678888888875 356666553 55789999999999999854322 223333 4788999999998
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 169 ~~~~ 172 (296)
T PRK09906 169 PVDH 172 (296)
T ss_pred cCCC
Confidence 7664
No 363
>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=56.13 E-value=1.9e+02 Score=33.14 Aligned_cols=128 Identities=15% Similarity=0.121 Sum_probs=83.0
Q ss_pred CCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHH
Q 044527 90 GDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISD 169 (860)
Q Consensus 90 ~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~ 169 (860)
++-..+++.+.+.+.++++++||.-.+ ++..+. +...+|+|....+.- ...+++..
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~---ta~~i~---~~~~iPVv~i~~s~~------------------Dil~al~~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGS---NGAYLK---SRLSLPVIVIKPTGF------------------DVMQALAR 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECch---HHHHHH---HhCCCCEEEecCChh------------------hHHHHHHH
Confidence 666788888866554558999998655 444433 345799988753333 44555543
Q ss_pred HHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHH
Q 044527 170 FISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALAS 249 (860)
Q Consensus 170 ~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~ 249 (860)
.+.++ .++|+|..... ...++....-.++++..... .+..+....+.++++.+.++||-.+
T Consensus 93 -a~~~~-~~ia~vg~~~~------~~~~~~~~~ll~~~i~~~~~-----~~~~e~~~~~~~l~~~G~~~viG~~------ 153 (526)
T TIGR02329 93 -ARRIA-SSIGVVTHQDT------PPALRRFQAAFNLDIVQRSY-----VTEEDARSCVNDLRARGIGAVVGAG------ 153 (526)
T ss_pred -HHhcC-CcEEEEecCcc------cHHHHHHHHHhCCceEEEEe-----cCHHHHHHHHHHHHHCCCCEEECCh------
Confidence 34454 57888875332 23344444445666655332 4578899999999999999998443
Q ss_pred HHHHHHHHcCC
Q 044527 250 HLFLNAKKLGM 260 (860)
Q Consensus 250 ~il~~a~~~gl 260 (860)
.....|.++||
T Consensus 154 ~~~~~A~~~gl 164 (526)
T TIGR02329 154 LITDLAEQAGL 164 (526)
T ss_pred HHHHHHHHcCC
Confidence 23567889997
No 364
>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=56.12 E-value=28 Score=35.29 Aligned_cols=76 Identities=12% Similarity=0.117 Sum_probs=53.9
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++... +.|.. ...+.+++.+++.|+++.... ...+.......++++.+.+++.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~-~~~~g~~~~~~~~g~~~~~~~----~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFA-ELLRGIEEAAREAGYSVLLCN----SDEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHH-HHHHHHHHHHHHcCCEEEEEc----CCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 5677655 55666 778888999999998877532 2233445566777788889999998877655555 77777
Q ss_pred HcCC
Q 044527 257 KLGM 260 (860)
Q Consensus 257 ~~gl 260 (860)
+.+.
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7774
No 365
>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=55.88 E-value=44 Score=36.44 Aligned_cols=74 Identities=8% Similarity=0.233 Sum_probs=54.2
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
+.+.+.++.++ +|+.+|++... ...+.+.+.+++.|+++.... +. .++...+....++.+++.++|.||..+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~----~~~~~v~~~L~~~g~~~~~~~-~~-~~p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASS----LRAAWLIEALRAAGIEVTHVV-VA-GEPSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCch----HHHHHHHHHHHHcCCeEEEec-CC-CCcCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44666777774 89988876443 246678888999998875433 34 4556677888888899999999999876
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 85 G 85 (374)
T cd08183 85 G 85 (374)
T ss_pred c
Confidence 4
No 366
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=55.60 E-value=2.4e+02 Score=28.61 Aligned_cols=69 Identities=14% Similarity=0.105 Sum_probs=45.8
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+..+++..+.++.. ++++.+... +-.++...+.+|++|+++...... ....+. ..++....+.+++
T Consensus 81 ~~~~~l~~~~~~~p-~i~l~i~~~----------~~~~~~~~l~~~~~D~~i~~~~~~--~~~~~~-~~~l~~~~~~~v~ 146 (269)
T PRK11716 81 HLPPILDRFRAEHP-LVEIKLTTG----------DAADAVEKVQSGEADLAIAAKPET--LPASVA-FSPIDEIPLVLIA 146 (269)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEEC----------CHHHHHHHHHCCCccEEEEecCCC--CCcceE-EEEcccceEEEEE
Confidence 44788899998875 356666553 557899999999999998532211 111122 3667777777777
Q ss_pred ecC
Q 044527 568 PID 570 (860)
Q Consensus 568 ~~~ 570 (860)
+..
T Consensus 147 ~~~ 149 (269)
T PRK11716 147 PAL 149 (269)
T ss_pred cCC
Confidence 554
No 367
>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=55.47 E-value=1.9e+02 Score=27.46 Aligned_cols=70 Identities=13% Similarity=0.224 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+..+++..+.++.. ++++.+... +...++..+.+|++|+++...... ...+ .+.++....+.++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v 78 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIEM----------TTVQQIEALKEGRIDVGFGRLRIE---DPAI-RRIVLREEPLVVA 78 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEeC----------ChHHHHHHHHcCCCcEEEecCCCC---CCCc-eeEEEEeccEEEE
Confidence 455788888888875 356666543 567899999999999998532211 1222 2456777888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 79 ~~~~h 83 (203)
T cd08445 79 LPAGH 83 (203)
T ss_pred eeCCC
Confidence 87654
No 368
>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=55.21 E-value=38 Score=36.53 Aligned_cols=77 Identities=12% Similarity=0.210 Sum_probs=52.5
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCC--CChHHHHHHHHhhhcCCCeEEEEE
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLAS--STHDQIIEKLSMLKSLDTKVFVVH 242 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~--~~~~~~~~~l~~i~~~~~~viil~ 242 (860)
+-+.++++.++.+++.+|++...+.. ..+.+.+.+++.|+++....... .+ ++.......++.+++ ++|+||..
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~--~~~~v~~~l~~~~i~~~~~~~~~-~~~~pt~~~v~~~~~~~~~-~~d~IIaI 87 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA--AGKKVEALLKRAGVVVLLIVLPA-GDLIADEKAVGRVLKELER-DTDLIIAV 87 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH--HHHHHHHHHHHCCCeeEEeecCC-CcccCCHHHHHHHHHHhhc-cCCEEEEE
Confidence 45667787788899988885443332 35778889999998765433233 22 455667777777777 89999887
Q ss_pred eCH
Q 044527 243 MTH 245 (860)
Q Consensus 243 ~~~ 245 (860)
+.+
T Consensus 88 GGG 90 (348)
T cd08175 88 GSG 90 (348)
T ss_pred CCc
Confidence 754
No 369
>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=55.06 E-value=1.9e+02 Score=27.39 Aligned_cols=72 Identities=18% Similarity=0.124 Sum_probs=48.2
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.. ++++.+... +.+.+...+.+|++|+++..-. ......+ .+.++.....++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~-~~~~l~~~~~~~ 77 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQG----------SPTQIAEMVSKGLVDFAIATEA--LHDYDDL-ITLPCYHWNRCV 77 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEeC----------CHHHHHHHHHCCCccEEEEecc--ccccCCc-eEeeeeeceEEE
Confidence 4556889999988874 356666543 5678999999999999985321 1111222 256777788888
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 78 v~~~~h 83 (198)
T cd08443 78 VVKRDH 83 (198)
T ss_pred EEcCCC
Confidence 876654
No 370
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=54.82 E-value=29 Score=37.17 Aligned_cols=72 Identities=8% Similarity=0.176 Sum_probs=50.2
Q ss_pred HhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 171 ISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 171 l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
+..++.+++.+|++..-+.. ...+.+.+.+++. +++.....+. +++........++.+++.++|.||..+.+
T Consensus 17 l~~~~~~~~lvv~~~~~~~~-g~~~~v~~~l~~~-~~~~~~~~v~-~~p~~~~v~~~~~~~~~~~~d~IiaiGGG 88 (332)
T cd08180 17 LKELKNKRVLIVTDPFMVKS-GMLDKVTDHLDSS-IEVEIFSDVV-PDPPIEVVAKGIKKFLDFKPDIVIALGGG 88 (332)
T ss_pred HHHhCCCeEEEEeCchhhhC-ccHHHHHHHHHhc-CcEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEECCc
Confidence 34455689999986544433 5778888889876 5554333333 45566777888888999999999987653
No 371
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=54.42 E-value=45 Score=33.77 Aligned_cols=48 Identities=17% Similarity=0.153 Sum_probs=31.0
Q ss_pred ceEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHH
Q 044527 41 DEVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTT 98 (860)
Q Consensus 41 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~ 98 (860)
.+|+||+.-. +.+.-.+..++.+.++ . |++|+++..+|.-.|..|+..
T Consensus 29 ~~I~vg~~~~---p~a~ile~~~k~~~~k----~---Gi~l~i~~FtDY~~PN~AL~~ 76 (268)
T COG1464 29 KTIKVGATPG---PHAEILEVVVKPALKK----K---GLDLKIVEFTDYVQPNEALAD 76 (268)
T ss_pred CcEEEeecCC---chHHHHHHHHHHHHHh----c---CceEEEEEecCCcchhHHHhc
Confidence 5799987533 2233333355555444 2 379999999998888888753
No 372
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=54.03 E-value=2.9e+02 Score=29.16 Aligned_cols=68 Identities=10% Similarity=0.062 Sum_probs=45.5
Q ss_pred eHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 489 CIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 489 ~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
-.+++..+.++.. ++++++... .-..+...|.+|++|+++..- +.....+. +.++....++++++
T Consensus 104 l~~~l~~~~~~~P-~i~l~~~~~----------~~~~~~~~L~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~ 168 (317)
T PRK15421 104 LTPALENFHKNWP-QVEMDFKSG----------VTFDPQPALQQGELDLVMTSD---ILPRSGLH-YSPMFDYEVRLVLA 168 (317)
T ss_pred HHHHHHHHHHHCC-CceEEEEeC----------ccHHHHHHHHCCCcCEEEecC---cccCCCce-EEEeccceEEEEEc
Confidence 3678888887764 355665543 346788999999999998532 22222333 47788888888887
Q ss_pred cCC
Q 044527 569 IDQ 571 (860)
Q Consensus 569 ~~~ 571 (860)
...
T Consensus 169 ~~h 171 (317)
T PRK15421 169 PDH 171 (317)
T ss_pred CCC
Confidence 664
No 373
>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=53.97 E-value=29 Score=35.10 Aligned_cols=78 Identities=12% Similarity=0.152 Sum_probs=52.4
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNA 255 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a 255 (860)
+++++.+. ..+.. ...+.+++.+++.|+++..... ..+.......++++.+.+++.+|+..........+..+
T Consensus 1 ~ig~v~~~~~~~~~~-~~~~g~~~~~~~~g~~l~~~~~----~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFA-QVLKGIEEAAKAAGYQVLLANS----QNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHH-HHHHHHHHHHHHcCCeEEEEeC----CCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 46777765 45666 7788899999999988765432 12334566777777777899888876544443356666
Q ss_pred HHcCC
Q 044527 256 KKLGM 260 (860)
Q Consensus 256 ~~~gl 260 (860)
.+.+.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66653
No 374
>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=53.02 E-value=37 Score=34.83 Aligned_cols=78 Identities=4% Similarity=0.066 Sum_probs=53.9
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhh-CCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHD-NDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASHLFL 253 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~-~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~il~ 253 (860)
+|+++.++ ++|.. ...+.+.+.+++ .|.++..... ..+.......++++.+.++|.+++..... ....++.
T Consensus 1 ~igvi~~~~~~~~~~-~~~~gi~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLT-LLRNAMKEHAKVLGGVELQFEDA----KNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHH-HHHHHHHHHHHHcCCcEEEEeCC----CCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 46777765 44555 677888899999 8988876432 23445566778888888999998876443 3456677
Q ss_pred HHHHcCC
Q 044527 254 NAKKLGM 260 (860)
Q Consensus 254 ~a~~~gl 260 (860)
++.+.+.
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777663
No 375
>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=52.96 E-value=2e+02 Score=27.07 Aligned_cols=73 Identities=10% Similarity=0.066 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-..++..+.++.. ++++.+... ..+.+...+.+|++|+++............+ -+.+.....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v 80 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLREA----------TSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLA 80 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEeC----------CHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEE
Confidence 345788888888774 356666653 5678999999999999875321111011222 2577778888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 81 ~~~~h 85 (200)
T cd08453 81 VPAAW 85 (200)
T ss_pred EECCC
Confidence 87654
No 376
>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=52.25 E-value=2e+02 Score=26.77 Aligned_cols=72 Identities=13% Similarity=-0.001 Sum_probs=47.7
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-..++..+.++.. ++++.+... +...+...+.+|++|+++..... .....+ ...++....+++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~ 77 (194)
T cd08436 12 AVDLPELLARFHRRHP-GVDIRLRQA----------GSDDLLAAVREGRLDLAFVGLPE--RRPPGL-ASRELAREPLVA 77 (194)
T ss_pred HHHHHHHHHHHHHHCC-CcEEEEecC----------CHHHHHHHHHcCCccEEEEecCC--CCCCCc-EEEEeecceEEE
Confidence 3455778888888874 456666543 56789999999999999854322 122222 246677778887
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
+++...
T Consensus 78 ~~~~~~ 83 (194)
T cd08436 78 VVAPDH 83 (194)
T ss_pred EecCCC
Confidence 776554
No 377
>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=52.24 E-value=1.4e+02 Score=30.24 Aligned_cols=126 Identities=10% Similarity=-0.002 Sum_probs=67.4
Q ss_pred eEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 42 EVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 42 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
.-+||.+.+........-..|++-|+++-+.. .+.......+..+...+.+.+.++++. +..+|++... ..+
T Consensus 120 ~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~ai~~~~d--~~A 191 (260)
T cd06304 120 TGKVGFVGGMPIPEVNRFINGFAAGAKSVNPD-----ITVLVIYTGSFFDPAKGKEAALALIDQ-GADVIFAAAG--GTG 191 (260)
T ss_pred CCceEEEeccccHHHHHHHHHHHHHHHHhCCC-----cEEEEEEecCccCcHHHHHHHHHHHhC-CCCEEEEcCC--CCc
Confidence 34677775432233444566888888775421 233222233333455677777787765 4578887655 344
Q ss_pred HHHHHhhcCCCCcEEecccCCCccccc-ceEeecCCCchhHHHHHHHHHHHhhCCCcE
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQDDEASQSQARGISDFISVFKWKE 178 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~ 178 (860)
..+...+.+.++-++++..+....... .+.-+..+.. ..+.-.++.+..-.|+.
T Consensus 192 ~gv~~al~~~gv~vigfD~~~~~~~~~p~lttv~~~~~---~~~~~~~~~~~~~~~~~ 246 (260)
T cd06304 192 PGVIQAAKEAGVYAIGVDSDQSALAPDAVLTSAVKNVD---VAVYDAIKAVLDGTWKG 246 (260)
T ss_pred hHHHHHHHHcCCEEEeecCchhhhcCccEEEEEEeccH---HHHHHHHHHHHcCCCCC
Confidence 445555556667777776432101111 2333344444 56666666665555543
No 378
>PF01634 HisG: ATP phosphoribosyltransferase; InterPro: IPR013820 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. ATP phosphoribosyltransferase is found in two distinct forms: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity []. This entry represents the catalytic region of this enzyme. The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined [, ]. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplasmic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; GO: 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1VE4_A 2VD3_B 1NH7_A 1NH8_A 1Z7N_G 1Z7M_E 1O64_A 1O63_A 1USY_F 1Q1K_A ....
Probab=51.84 E-value=25 Score=32.95 Aligned_cols=93 Identities=16% Similarity=0.125 Sum_probs=53.4
Q ss_pred CCcEEEecCCcHHHhhhcCCCCCcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceE
Q 044527 680 MDNIGSQLGSVVPGALSNLNFKDSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFG 759 (860)
Q Consensus 680 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 759 (860)
+.+|+..--.....||++.+.+..-+....+.|-+ ...|-.|+++.-..+..-+.++ +|++++..+ .+...
T Consensus 67 ~~rIATkyp~l~~~yf~~~g~~~~ii~l~GsvE~a---p~~glAD~IvDiv~TG~TLr~N---gL~~i~~i~---~s~a~ 137 (163)
T PF01634_consen 67 GLRIATKYPNLTRRYFAEKGINVEIIKLSGSVELA---PPLGLADAIVDIVETGTTLRAN---GLKEIETIL---ESSAR 137 (163)
T ss_dssp TEEEEES-HHHHHHHHHHCT-EEEEEE-SS-TTHH---HHTTSSSEEEEEESSSHHHHHT---TEEEEEEEE---EEEEE
T ss_pred CCEEEECCHHHHHHHHHHcCCcEEEEEccCCcccc---CCCCCCCEEEEeccCcHHHHHC---CCEEeEEEE---EEEEE
Confidence 67788776666788887766543334444454422 4456567766554443333333 677775544 56667
Q ss_pred EEeccCCc--chHHHHHHHHHHhh
Q 044527 760 FVFQKGSP--LVHDISRAIARLRE 781 (860)
Q Consensus 760 ~~~~k~sp--l~~~in~~i~~l~e 781 (860)
+..+|.+. -.+.+++.+.+|++
T Consensus 138 LI~n~~~~~~k~~~i~~l~~~l~~ 161 (163)
T PF01634_consen 138 LIANKASLKEKEEKIDELVTRLRG 161 (163)
T ss_dssp EEEEHHHHHHCHHHHHHHHHHHHH
T ss_pred EEEcCccchhhHHHHHHHHHHHHh
Confidence 77777764 44567777777654
No 379
>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=51.62 E-value=39 Score=34.69 Aligned_cols=79 Identities=10% Similarity=0.095 Sum_probs=53.0
Q ss_pred EEEEEEecC---CCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHHHHH
Q 044527 178 EVILIHEDN---TWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASHLFL 253 (860)
Q Consensus 178 ~v~ii~~~~---~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~il~ 253 (860)
+|+++..+. .|.. ...+.+.+.+++.|..+..... . ..+.......++++...++|.+++..... .....++
T Consensus 1 ~i~~i~~~~~~~~~~~-~~~~g~~~~~~~~g~~v~~~~~-~--~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWT-VVKNGAEDAAKDLGVDVEYRGP-E--TFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHH-HHHHHHHHHHHHhCCEEEEECC-C--CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 467777543 4555 6788889999999988765421 1 11445556777888888999998876433 3345667
Q ss_pred HHHHcCC
Q 044527 254 NAKKLGM 260 (860)
Q Consensus 254 ~a~~~gl 260 (860)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777663
No 380
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=51.59 E-value=47 Score=35.87 Aligned_cols=76 Identities=12% Similarity=0.200 Sum_probs=52.6
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
..+.++++.+| +++.+|++...+ . ...+.+.+.+++.|+.+.... +. .++.........+.+++.++|.||..+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~-~~~~~v~~~l~~~~i~~~~~~-~~-~~p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-K-KSRPRFEAALAKSIIVVDVIV-FG-GECSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-H-HHHHHHHHHHHhcCCeeEEEE-cC-CCCCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 45667788888 888887754432 2 356778888888887653332 34 3445567777888888889999988775
Q ss_pred H
Q 044527 245 H 245 (860)
Q Consensus 245 ~ 245 (860)
+
T Consensus 87 G 87 (349)
T cd08550 87 G 87 (349)
T ss_pred c
Confidence 4
No 381
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=51.52 E-value=82 Score=29.43 Aligned_cols=80 Identities=14% Similarity=0.141 Sum_probs=55.4
Q ss_pred HHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHh-hCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEE
Q 044527 163 QARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLH-DNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVV 241 (860)
Q Consensus 163 ~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~-~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil 241 (860)
-++.+..+.++.+.+++.++- |....+.+.+.+.+.+. -.|+++... +..+....+++ ...+-+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVvd--D~vA~D~~~k~~lkma~~P~gvk~~i~--------sv~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVD--DVVANDDIQQKLMGITAETYGFGIRFF--------TIEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEc--chhcCCHHHHHHHHhcCCCCCCEEEEE--------EHHHHHHHHHh-ccCCceEEEE
Confidence 467788999999999998874 33333245555555554 467776642 23456666666 5666789999
Q ss_pred EeCHHHHHHHHH
Q 044527 242 HMTHALASHLFL 253 (860)
Q Consensus 242 ~~~~~~~~~il~ 253 (860)
+-++.++..+++
T Consensus 86 ~~~~~da~~l~~ 97 (158)
T PRK09756 86 CRTPQTVRKLVE 97 (158)
T ss_pred ECCHHHHHHHHH
Confidence 999999888765
No 382
>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=51.25 E-value=37 Score=34.90 Aligned_cols=80 Identities=4% Similarity=-0.002 Sum_probs=52.5
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNA 255 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a 255 (860)
+|+++..+ +.|.. .....+.+.+++.|.++.....-. ..+...-...++.+.+.++|.||+.....+....+..+
T Consensus 1 ~Igvi~~~~~~~f~~-~~~~gi~~~a~~~g~~~~~~~~~~--~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWL-SVNYGMVEEAKRLGVSLKLLEAGG--YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHH-HHHHHHHHHHHHcCCEEEEecCCC--CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 46777765 34555 677888899999999887643211 12334455677888888999999876544432256777
Q ss_pred HHcCC
Q 044527 256 KKLGM 260 (860)
Q Consensus 256 ~~~gl 260 (860)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77764
No 383
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=51.17 E-value=3.5e+02 Score=30.67 Aligned_cols=128 Identities=7% Similarity=0.005 Sum_probs=70.6
Q ss_pred EEecCCChhHHHHHHHhhc-CCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCC
Q 044527 111 IICIGMTPTGAQILADLGS-RAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWG 189 (860)
Q Consensus 111 viGp~~~s~~~~~~~~~~~-~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g 189 (860)
|++|++ .....++..+.. ...+=+|.++. .| ++|- ... ...+...++.+...-+++.|+|... ||
T Consensus 198 i~~p~~-~~v~~~l~~~~~l~l~~~~i~p~H-G~------i~r~--~~~---~~l~~Y~~~~~~~~~~kv~IvY~S~-~G 263 (479)
T PRK05452 198 ILTPFS-RLVTPKITEILGFNLPVDMIATSH-GV------VWRD--NPT---QIVELYLKWAADYQEDRITIFYDTM-SN 263 (479)
T ss_pred hhhhhH-HHHHHHHHHHhhcCCCCCEEECCC-Cc------eEeC--CHH---HHHHHHHHHhhccCcCcEEEEEECC-cc
Confidence 788888 766666666664 33555666664 45 4552 222 2233334444443457899988643 55
Q ss_pred C-cCCHHHHHHHHhhC--CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC------HHHHHHHHHHHHHcCC
Q 044527 190 N-DNTIPYLFDSLHDN--DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT------HALASHLFLNAKKLGM 260 (860)
Q Consensus 190 ~-~~~~~~l~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~------~~~~~~il~~a~~~gl 260 (860)
. ...++.+.+.+++. |+++.... +. ..+...++..+. .++.|++.+. .+....++.......+
T Consensus 264 nTe~mA~~ia~gl~~~g~gv~v~~~~-v~-----~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l 335 (479)
T PRK05452 264 NTRMMADAIAQGIAEVDPRVAVKIFN-VA-----RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRF 335 (479)
T ss_pred HHHHHHHHHHHHHHhhCCCceEEEEE-CC-----CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCc
Confidence 3 14578888888876 45554432 22 223333444443 4567777653 2345556666555554
No 384
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=50.74 E-value=3.4e+02 Score=29.00 Aligned_cols=132 Identities=16% Similarity=0.140 Sum_probs=74.8
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccC-CeEEEEecCCChhHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNV-DLQAIICIGMTPTGAQ 122 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~-~v~aviGp~~~s~~~~ 122 (860)
+++.+|...+. ..+..|+.|+.+.-. ..+.+...++.-.-.+.+..+.+.++.- .+.++=.+.. .
T Consensus 47 ~l~~lF~epST---RTR~SFe~A~~~LGg------~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R~~~~-----~ 112 (336)
T PRK03515 47 NIALIFEKDST---RTRCSFEVAAYDQGA------RVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGYGQ-----E 112 (336)
T ss_pred EEEEEecCCCh---hHHHHHHHHHHHcCC------cEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEEeCCh-----H
Confidence 47778877664 688899999977532 3444433333222223344444444431 1333333433 3
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhCC-----CcEEEEEEecCCCCCcCCH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVFK-----WKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~~-----w~~v~ii~~~~~~g~~~~~ 194 (860)
.+..++...++|+|....... .| .+++++++ +++| ..+|+++.+ . .. ...
T Consensus 113 ~~~~~a~~~~vPVINa~~~~~----------HP--------tQaLaDl~Ti~e~~g~~~l~g~~ia~vGD-~--~~-~v~ 170 (336)
T PRK03515 113 IVETLAEYAGVPVWNGLTNEF----------HP--------TQLLADLLTMQEHLPGKAFNEMTLAYAGD-A--RN-NMG 170 (336)
T ss_pred HHHHHHHhCCCCEEECCCCCC----------Ch--------HHHHHHHHHHHHHhCCCCcCCCEEEEeCC-C--cC-cHH
Confidence 455567777899998753322 22 34555553 4564 247887753 2 23 567
Q ss_pred HHHHHHHhhCCceEeEE
Q 044527 195 PYLFDSLHDNDIDIARR 211 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~ 211 (860)
..+...+...|.++...
T Consensus 171 ~Sl~~~~~~~g~~v~~~ 187 (336)
T PRK03515 171 NSLLEAAALTGLDLRLV 187 (336)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 78888888889887764
No 385
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=50.62 E-value=1.6e+02 Score=31.02 Aligned_cols=92 Identities=12% Similarity=0.124 Sum_probs=61.1
Q ss_pred ceEeecCCCchhHHHHHHHHHHHh--------hCCCcEEEEEEecCCC--CC--cCCHHHHHHHHhhCCceEeEEEeccC
Q 044527 149 YSIQIDQDDEASQSQARGISDFIS--------VFKWKEVILIHEDNTW--GN--DNTIPYLFDSLHDNDIDIARRTSISL 216 (860)
Q Consensus 149 ~~~r~~p~~~~~~~~~~ai~~~l~--------~~~w~~v~ii~~~~~~--g~--~~~~~~l~~~~~~~g~~i~~~~~~~~ 216 (860)
--+|..|-..+ +.+.+....++. -|.-.++++|...++- |. +.....+++.+++.|.++......+
T Consensus 125 A~~riiPl~v~-~~~~~~a~~~~~~~gi~~V~v~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~- 202 (312)
T cd03522 125 ATVKIIPLAVP-EALVERAEALARDGPLLRVAPFRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVP- 202 (312)
T ss_pred EEEEEeeeecC-HHHHHHHHHHHHhCCCcEEEecCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcC-
Confidence 45777775431 122333333332 2566799999876642 22 1346678888999999988877766
Q ss_pred CCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 217 ASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 217 ~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
.+...+...+.+..+.++|+|++.+.
T Consensus 203 --Dd~~~I~~ai~~~~~~g~DlIItTGG 228 (312)
T cd03522 203 --HDEAAIAAAIAEALEAGAELLILTGG 228 (312)
T ss_pred --CCHHHHHHHHHHHhcCCCCEEEEeCC
Confidence 56677888888877667899998774
No 386
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=50.00 E-value=3.1e+02 Score=28.31 Aligned_cols=192 Identities=9% Similarity=0.042 Sum_probs=0.0
Q ss_pred HHHHHHHHHhC-CCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 490 IDVFKAAIDTL-TFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 490 ~~l~~~la~~l-~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
.++...+.++. |.++++.... .+.....+|.+|++|+.+......-+.... .--.-+.....++++|
T Consensus 47 ~e~a~~~~k~~~G~~Velv~fs-----------d~~~~n~AL~~G~ID~n~~qh~~yl~~~~~-~~g~~lv~~~~~~~~P 114 (272)
T PRK09861 47 AEVAKKVAKEKYGLDVELVGFS-----------GSLLPNDATNHGELDANVFQHRPFLEQDNQ-AHGYKLVAVGNTFVFP 114 (272)
T ss_pred HHHHHHHHHHcCCCeEEEEecC-----------chhhHHHHHHcCCcceehhhhHHHHHHHHH-hcCCCeEEEeEEEEEe
Q ss_pred cCC-CCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCcccccchhHHHHHHHHhhccccccccccchhhh
Q 044527 569 IDQ-NNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFV 647 (860)
Q Consensus 569 ~~~-~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l 647 (860)
.+- ...
T Consensus 115 ~~~Ys~~------------------------------------------------------------------------- 121 (272)
T PRK09861 115 MAGYSKK------------------------------------------------------------------------- 121 (272)
T ss_pred eeccccC-------------------------------------------------------------------------
Q ss_pred HHHHHHHHHHHHHHhhhccccccchhhHhhhc-CCcEEEecCCc----HHHhhhc---------CCCCC---------cC
Q 044527 648 VIVWVFVVLILSSSYTATLASMLTIQQIKLAS-MDNIGSQLGSV----VPGALSN---------LNFKD---------SR 704 (860)
Q Consensus 648 ~~~w~~~~lil~~~Yta~L~s~lt~~~~~~~~-~~~i~~~~~~~----~~~~~~~---------~~~~~---------~~ 704 (860)
++++++++ |.+|++.++.. ....++. .+... .+
T Consensus 122 ------------------------iksl~DL~~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~ 177 (272)
T PRK09861 122 ------------------------IKTVAQIKEGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRH 177 (272)
T ss_pred ------------------------CCCHHHcCCCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCC
Q ss_pred ccccC-CHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcc
Q 044527 705 LKKYN-SAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEG 783 (860)
Q Consensus 705 ~~~~~-~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G 783 (860)
+.... ...+....+.+|++|+.+....+..-.--.....-....... .+.--.++++.+..=.+.+.+.+..+++.-
T Consensus 178 l~~ve~~~~q~~~al~dg~vD~a~i~~~~~~~ag~~~~~~~l~~e~~~--~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~ 255 (272)
T PRK09861 178 LQIMELEGAQLPRVLDDPKVDVAIISTTYIQQTGLSPVHDSVFIEDKN--SPYVNILVAREDNKNAENVKEFLQSYQSPE 255 (272)
T ss_pred CEEEEcCHHHhHhhccCcccCEEEEchhHHHHcCCCcccceeEEcCCC--CCeEEEEEEcCCccCCHHHHHHHHHHcCHH
Q ss_pred hHHHHHHHH
Q 044527 784 TLAKIENVW 792 (860)
Q Consensus 784 ~~~~~~~~~ 792 (860)
.-+.+.++|
T Consensus 256 v~~~i~~~~ 264 (272)
T PRK09861 256 VAKAAETIF 264 (272)
T ss_pred HHHHHHHHc
No 387
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=49.94 E-value=57 Score=34.97 Aligned_cols=83 Identities=6% Similarity=-0.011 Sum_probs=57.5
Q ss_pred CCCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHH
Q 044527 174 FKWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASH 250 (860)
Q Consensus 174 ~~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~ 250 (860)
-.-++++++... .+|-. ...+.+++.+++.|.++.... + ...+...-...++.+.+.+++.|++... .+....
T Consensus 21 ~~~~~i~~v~k~~~~pf~~-~~~~Gi~~aa~~~G~~v~~~~--~-~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~ 96 (336)
T PRK15408 21 QAAERIAFIPKLVGVGFFT-SGGNGAKEAGKELGVDVTYDG--P-TEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCP 96 (336)
T ss_pred cCCcEEEEEECCCCCHHHH-HHHHHHHHHHHHhCCEEEEEC--C-CCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHH
Confidence 355689998753 34555 677888899999998887532 2 1123333346778888899999999764 444467
Q ss_pred HHHHHHHcCC
Q 044527 251 LFLNAKKLGM 260 (860)
Q Consensus 251 il~~a~~~gl 260 (860)
.++++.+.|.
T Consensus 97 ~l~~a~~~gI 106 (336)
T PRK15408 97 ALKRAMQRGV 106 (336)
T ss_pred HHHHHHHCCC
Confidence 8888988874
No 388
>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=49.59 E-value=87 Score=31.26 Aligned_cols=128 Identities=16% Similarity=0.237 Sum_probs=72.6
Q ss_pred CCcEEecccCCCcccccceEee--cCCCchhHHHHHHHHHHHh-hCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceE
Q 044527 132 KIPIISLFTTLPNSLTSYSIQI--DQDDEASQSQARGISDFIS-VFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDI 208 (860)
Q Consensus 132 ~ip~Is~~a~~~~~ls~~~~r~--~p~~~~~~~~~~ai~~~l~-~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i 208 (860)
+++++..+..+...+..+-++. .|+.. ..++.+++.+. ...-++|.++..+ .....+.+.+++.|.+|
T Consensus 73 ~~~i~avG~~Ta~~l~~~G~~~~~~~~~~---~~s~~L~~~l~~~~~~~~vl~~~g~------~~~~~l~~~L~~~g~~v 143 (231)
T PF02602_consen 73 NIKIFAVGPKTAEALREYGFQPDFVPSSE---GSSEGLAELLKEQLRGKRVLILRGE------GGRPDLPEKLREAGIEV 143 (231)
T ss_dssp HSEEEESSHHHHHHHHHTT-EECEE-TTS---SSHHHHHGGHHHCCTTEEEEEEESS------SSCHHHHHHHHHTTEEE
T ss_pred CCeEEEEcHHHHHHHHHcCCCccccCCCC---CCHHHHHHHHHhhCCCCeEEEEcCC------CccHHHHHHHHHCCCeE
Confidence 4555555433321232222332 55534 44678888776 4444888776543 34567899999999998
Q ss_pred eEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 209 ARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 209 ~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
.....|. . ............+...+.++| ++.++..+..+++...+.+-......++..+
T Consensus 144 ~~~~vY~-~-~~~~~~~~~~~~l~~~~~~~v-~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig 203 (231)
T PF02602_consen 144 TEVIVYE-T-PPEELSPELKEALDRGEIDAV-VFTSPSAVRAFLELLKKNGALLKRVPIVAIG 203 (231)
T ss_dssp EEEECEE-E-EEHHHHHHHHHHHHHTTTSEE-EESSHHHHHHHHHHSSGHHHHHTTSEEEESS
T ss_pred EEEEEee-c-ccccchHHHHHHHHcCCCCEE-EECCHHHHHHHHHHhHhhhhhhhCCEEEEEC
Confidence 8776666 2 222333444555666666665 6677778888887765432112344444443
No 389
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=49.44 E-value=54 Score=33.08 Aligned_cols=100 Identities=9% Similarity=0.030 Sum_probs=63.2
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhC--CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDN--DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF 239 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~--g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi 239 (860)
+...++.+.+..- -++|.++.... +..+.....+++. +..|+.... - +-....+ ..++++|++++||++
T Consensus 95 Dl~~~Ll~~a~~~-~~~vfllGgkp-----~V~~~a~~~l~~~~p~l~ivg~h~-G-Yf~~~e~-~~i~~~I~~s~pdil 165 (253)
T COG1922 95 DLVEALLKRAAEE-GKRVFLLGGKP-----GVAEQAAAKLRAKYPGLKIVGSHD-G-YFDPEEE-EAIVERIAASGPDIL 165 (253)
T ss_pred HHHHHHHHHhCcc-CceEEEecCCH-----HHHHHHHHHHHHHCCCceEEEecC-C-CCChhhH-HHHHHHHHhcCCCEE
Confidence 4567777766554 46788877544 3445555555554 456665431 0 1122333 689999999999999
Q ss_pred EEEeCHHHHHHHHHHHHHcCCccCCeEEEecChh
Q 044527 240 VVHMTHALASHLFLNAKKLGMMSKGYVWIATAAT 273 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~~gl~~~~~~~i~~~~~ 273 (860)
++.+..+.-...+.+-.+.- +.-+++..++.
T Consensus 166 ~VgmG~P~QE~wi~~~~~~~---~~~v~igVGg~ 196 (253)
T COG1922 166 LVGMGVPRQEIWIARNRQQL---PVAVAIGVGGS 196 (253)
T ss_pred EEeCCCchhHHHHHHhHHhc---CCceEEeccce
Confidence 99998877777776665543 34566655544
No 390
>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=49.24 E-value=95 Score=28.75 Aligned_cols=81 Identities=11% Similarity=0.133 Sum_probs=56.7
Q ss_pred HHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEE
Q 044527 163 QARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVH 242 (860)
Q Consensus 163 ~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~ 242 (860)
.++.+..+.++++.+++.++-+ ....+.+.+.+.+.+.-.|+++... +..+....+++-...+-++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD--~~A~D~~~k~~lkma~P~gvk~~i~--------sve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVND--DVANDEVRQTLMGIVAPTGFKVRFV--------SLEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcc--cccCCHHHHHHHHhhCCCCCEEEEE--------EHHHHHHHHhCcCCCCceEEEEE
Confidence 4677788999999999988743 3223155666666666678777652 23455666666556667899999
Q ss_pred eCHHHHHHHHH
Q 044527 243 MTHALASHLFL 253 (860)
Q Consensus 243 ~~~~~~~~il~ 253 (860)
-++.++..+++
T Consensus 83 k~~~da~~l~~ 93 (151)
T TIGR00854 83 RNPQDVLTLVE 93 (151)
T ss_pred CCHHHHHHHHH
Confidence 99999888765
No 391
>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=48.94 E-value=40 Score=34.85 Aligned_cols=81 Identities=11% Similarity=0.078 Sum_probs=51.1
Q ss_pred EEEEEEec---CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHH
Q 044527 178 EVILIHED---NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~---~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~ 254 (860)
+|++|..+ ++|.. ...+.+.+.+++.|..+......+..+.+...-...++++.+.++|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWV-RNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHH-HHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 37788775 24555 678888999999998776542211011133444566778888899999887543333345566
Q ss_pred HHHcC
Q 044527 255 AKKLG 259 (860)
Q Consensus 255 a~~~g 259 (860)
+.+.+
T Consensus 80 l~~~~ 84 (280)
T cd06303 80 VLASG 84 (280)
T ss_pred HHhCC
Confidence 65555
No 392
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=48.84 E-value=3.4e+02 Score=28.49 Aligned_cols=131 Identities=15% Similarity=0.207 Sum_probs=78.7
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE--ecCCChhH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII--CIGMTPTG 120 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi--Gp~~~s~~ 120 (860)
-.++.+|...+. ..+..|+.|+.+.-.. .+.+...++.-.-.+.+..+.+.++.- +++|+ .+.. +
T Consensus 39 k~~~~lF~epST---RTR~SFE~A~~~LGg~------~i~l~~~~ss~~kgEsl~Dt~~vls~y-~D~iviR~~~~--~- 105 (302)
T PRK14805 39 KSVVMLFEKPSL---RTRVSFDIGINKLGGH------CLYLDQQNGALGKRESVADFAANLSCW-ADAIVARVFSH--S- 105 (302)
T ss_pred CEEEEEecCCCc---hHHHHHHHHHHHcCCc------EEECCCCcCcCCCCcCHHHHHHHHHHh-CCEEEEeCCCh--h-
Confidence 347778877664 6888999999885433 444433333322334444555555542 55554 3322 2
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhCC---CcEEEEEEecCCCCCcCCH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVFK---WKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~~---w~~v~ii~~~~~~g~~~~~ 194 (860)
.+..+++..++|+|..+.... +-.+++++++ +++| ..+|+++.+ +. ..+
T Consensus 106 --~~~~~a~~~~vPVINa~~~~~------------------HPtQaL~Dl~Ti~e~~g~l~g~kva~vGD----~~-~v~ 160 (302)
T PRK14805 106 --TIEQLAEHGSVPVINALCDLY------------------HPCQALADFLTLAEQFGDVSKVKLAYVGD----GN-NVT 160 (302)
T ss_pred --HHHHHHHhCCCCEEECCCCCC------------------ChHHHHHHHHHHHHHhCCcCCcEEEEEcC----CC-ccH
Confidence 344556667899999864322 2234555553 3443 368988864 24 677
Q ss_pred HHHHHHHhhCCceEeEE
Q 044527 195 PYLFDSLHDNDIDIARR 211 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~ 211 (860)
..+...+...|.++...
T Consensus 161 ~S~~~~~~~~g~~v~~~ 177 (302)
T PRK14805 161 HSLMYGAAILGATMTVI 177 (302)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 88888888999888764
No 393
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=48.55 E-value=3.5e+02 Score=28.48 Aligned_cols=137 Identities=12% Similarity=0.052 Sum_probs=81.3
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
-.|+.+|...+. ..+.+|+.|+.+.-. ..+.+...++.-.-.+.++.+.+.+++-++++|+-=.. ...
T Consensus 46 k~~~~lF~~pST---RTR~SFe~A~~~LGg------~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~~---~~~ 113 (305)
T PRK00856 46 KTVANLFFEPST---RTRLSFELAAKRLGA------DVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRHP---QSG 113 (305)
T ss_pred cEEEEEeccCCc---chHHHHHHHHHHcCC------cEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeCC---ChH
Confidence 447778876654 688899999988633 23444333433333455556666666544555553212 123
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHH---HhhCC---CcEEEEEEecCCCCCcCCHHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDF---ISVFK---WKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~---l~~~~---w~~v~ii~~~~~~g~~~~~~~ 196 (860)
.+..+++..++|+|..+..+. ..| .++++++ .+++| -.+|+++. |..+++ ....
T Consensus 114 ~~~~~a~~~~vPVINa~~g~~---------~HP--------tQ~LaDl~Ti~e~~G~l~g~kv~~vG-D~~~~~--v~~S 173 (305)
T PRK00856 114 AARLLAESSDVPVINAGDGSH---------QHP--------TQALLDLLTIREEFGRLEGLKVAIVG-DIKHSR--VARS 173 (305)
T ss_pred HHHHHHHHCCCCEEECCCCCC---------CCc--------HHHHHHHHHHHHHhCCCCCCEEEEEC-CCCCCc--HHHH
Confidence 445566678899999864321 012 2444444 34443 35888876 333454 7788
Q ss_pred HHHHHhhCCceEeEE
Q 044527 197 LFDSLHDNDIDIARR 211 (860)
Q Consensus 197 l~~~~~~~g~~i~~~ 211 (860)
+...+...|.++...
T Consensus 174 l~~~~~~~g~~~~~~ 188 (305)
T PRK00856 174 NIQALTRLGAEVRLI 188 (305)
T ss_pred HHHHHHHcCCEEEEE
Confidence 888899999887764
No 394
>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=48.33 E-value=98 Score=28.67 Aligned_cols=82 Identities=13% Similarity=0.162 Sum_probs=57.2
Q ss_pred HHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEE
Q 044527 163 QARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVH 242 (860)
Q Consensus 163 ~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~ 242 (860)
-++.+..+.++++.+++.++- |....+.+.+.+.+.+.-.|+++... +..+....+++-+..+-++++++
T Consensus 12 HGQV~~~W~~~~~~~~IvVvd--D~~A~D~~~k~~l~ma~P~gvk~~i~--------sve~a~~~l~~~~~~~~~v~il~ 81 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVN--DEVANDELRKTLLKLAAPPGVKLRIF--------TVEKAIEAINSPKYDKQRVFLLF 81 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc--ccccCCHHHHHHHHhhCCCCCeEEEE--------EHHHHHHHHhCcCCCCceEEEEE
Confidence 467788899999999998874 33333155666666666678777652 23455666666556677899999
Q ss_pred eCHHHHHHHHHH
Q 044527 243 MTHALASHLFLN 254 (860)
Q Consensus 243 ~~~~~~~~il~~ 254 (860)
-++.++..+++.
T Consensus 82 k~~~~~~~l~~~ 93 (151)
T cd00001 82 KNPQDVLRLVEG 93 (151)
T ss_pred CCHHHHHHHHHc
Confidence 999998887653
No 395
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=48.30 E-value=41 Score=34.77 Aligned_cols=71 Identities=7% Similarity=0.010 Sum_probs=49.3
Q ss_pred eeeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEE
Q 044527 486 EGFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGM 565 (860)
Q Consensus 486 ~G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 565 (860)
..+-.+++..+.++.- .+++.+... ....+++.|.+|++|+++..... .. ..+ ...|+....+++
T Consensus 101 ~~~l~~~l~~f~~~~P-~v~v~~~~~----------~~~~~~~~l~~g~~Dl~i~~~~~--~~-~~l-~~~~l~~~~~~~ 165 (275)
T PRK03601 101 ECMLTPWLGRLYQNQE-ALQFEARIA----------QRQSLVKQLHERQLDLLITTEAP--KM-DEF-SSQLLGHFTLAL 165 (275)
T ss_pred HHHHHHHHHHHHHhCC-CcEEEEEEC----------ChHHHHHHHHcCCCCEEEEcCCC--cc-CCc-cEEEecceeEEE
Confidence 3445788888887764 355665553 56789999999999999864322 21 222 457888889988
Q ss_pred EEecCC
Q 044527 566 IVPIDQ 571 (860)
Q Consensus 566 lv~~~~ 571 (860)
++++..
T Consensus 166 v~~~~~ 171 (275)
T PRK03601 166 YTSAPS 171 (275)
T ss_pred EecCch
Confidence 887654
No 396
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=48.22 E-value=3.2e+02 Score=27.89 Aligned_cols=68 Identities=7% Similarity=0.050 Sum_probs=45.8
Q ss_pred eHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 489 CIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 489 ~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
-.+++..+.++.. .+++.+... +...++..+.+|++|+++..-..+ ...+ -..|+....++++++
T Consensus 99 ~~~~l~~~~~~~p-~v~l~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~lv~s 163 (279)
T TIGR03339 99 VLDLVARFRQRYP-GIEVSVRIG----------NSQEVLQALQSYRVDVAVSSEVVD---DPRL-DRVVLGNDPLVAVVH 163 (279)
T ss_pred HHHHHHHHHHHCC-CcEEEEEEC----------CHHHHHHHHHcCCCcEEEEecccC---CCce-EEEEcCCceEEEEEC
Confidence 3577788887765 356666543 567899999999999998532222 1122 246777888888887
Q ss_pred cCC
Q 044527 569 IDQ 571 (860)
Q Consensus 569 ~~~ 571 (860)
++.
T Consensus 164 ~~~ 166 (279)
T TIGR03339 164 RQH 166 (279)
T ss_pred CCC
Confidence 654
No 397
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=48.19 E-value=3.4e+02 Score=28.19 Aligned_cols=94 Identities=11% Similarity=0.129 Sum_probs=60.8
Q ss_pred CeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCccccc-ceEeecCC--C--chhHHHHHHHHH-HHhhCC-----
Q 044527 107 DLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTS-YSIQIDQD--D--EASQSQARGISD-FISVFK----- 175 (860)
Q Consensus 107 ~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~-~~~r~~p~--~--~~~~~~~~ai~~-~l~~~~----- 175 (860)
++.-++||.. .+....++.++...++=.+..+.+.. ..++ +++|+.-+ . ...+.+-+++.+ +.+.++
T Consensus 1 ~~itv~g~D~-~GIVA~Vt~~La~~g~NI~d~sq~~~-~~~~~F~mr~~v~~~~~~~~~~~l~~~l~~~~~~~~~l~i~l 78 (280)
T TIGR00655 1 GILLVSCPDQ-KGLVAAISTFIAKHGANIISNDQHTD-PETGRFFMRVEFQLEGFRLEESSLLAAFKSALAEKFEMTWEL 78 (280)
T ss_pred CEEEEECCCC-CChHHHHHHHHHHCCCCEEeeeEEEc-CCCCeEEEEEEEEeCCCCCCHHHHHHHHHHHHHHHhCCEEEE
Confidence 3667899999 99999999999999887777665554 4455 55554222 1 101244555666 555543
Q ss_pred -----CcEEEEEEecCCCCCcCCHHHHHHHHhhCCc
Q 044527 176 -----WKEVILIHEDNTWGNDNTIPYLFDSLHDNDI 206 (860)
Q Consensus 176 -----w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~ 206 (860)
-+|++++.+... +..+++.+..++..+
T Consensus 79 ~~~~~~~ki~vl~Sg~g----~nl~~l~~~~~~g~l 110 (280)
T TIGR00655 79 ILADKLKRVAILVSKED----HCLGDLLWRWYSGEL 110 (280)
T ss_pred ecCCCCcEEEEEEcCCC----hhHHHHHHHHHcCCC
Confidence 368999887653 566777777665543
No 398
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=48.00 E-value=62 Score=33.03 Aligned_cols=74 Identities=12% Similarity=0.106 Sum_probs=48.1
Q ss_pred EEEEEec-----CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHH
Q 044527 179 VILIHED-----NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFL 253 (860)
Q Consensus 179 v~ii~~~-----~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~ 253 (860)
|+++.++ +.|.. ...+.+.+.+++.|.++..... . .........++.+.+.++|.|++.....+. .++
T Consensus 2 vgv~~~~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~-~---~~~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYS-EIYRAIEEEAKKYGYNLILKFV-S---DEDEEEFELPSFLEDGKVDGIILLGGISTE--YIK 74 (268)
T ss_pred eEEEEeccccccCCcHH-HHHHHHHHHHHHcCCEEEEEeC-C---CChHHHHHHHHHHHHCCCCEEEEeCCCChH--HHH
Confidence 5666655 45555 6778888889899988766432 2 223334455566777889999987654332 366
Q ss_pred HHHHcC
Q 044527 254 NAKKLG 259 (860)
Q Consensus 254 ~a~~~g 259 (860)
.+.+.+
T Consensus 75 ~l~~~~ 80 (268)
T cd06277 75 EIKELG 80 (268)
T ss_pred HHhhcC
Confidence 666666
No 399
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=47.96 E-value=3.6e+02 Score=28.41 Aligned_cols=131 Identities=18% Similarity=0.231 Sum_probs=78.2
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE--ecCCChhH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII--CIGMTPTG 120 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi--Gp~~~s~~ 120 (860)
-+++.+|...+. ..+.+|+.|+.+.=. ..+.+....+.-.-.+.+..+.+.++.- +++|+ .+..
T Consensus 44 k~v~~lF~e~ST---RTR~SFe~A~~~LGg------~~i~l~~~~ss~~kgEsl~Dt~~~l~~~-~D~iv~R~~~~---- 109 (304)
T PRK00779 44 KTLAMIFEKPST---RTRVSFEVGMAQLGG------HAIFLSPRDTQLGRGEPIEDTARVLSRY-VDAIMIRTFEH---- 109 (304)
T ss_pred CEEEEEecCCCc---hHHHHHHHHHHHcCC------cEEEECcccccCCCCcCHHHHHHHHHHh-CCEEEEcCCCh----
Confidence 447778877664 688899999888532 3444433333322234444455555542 44444 3322
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhC---CCcEEEEEEecCCCCCcCCH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVF---KWKEVILIHEDNTWGNDNTI 194 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~---~w~~v~ii~~~~~~g~~~~~ 194 (860)
..+..+++..++|+|..+.... .| .+++++++ +++ ...+|+++++ . . ..+
T Consensus 110 -~~~~~~a~~~~vPVINag~~~~----------HP--------tQaL~Dl~Ti~e~~g~l~gl~i~~vGd---~-~-~v~ 165 (304)
T PRK00779 110 -ETLEELAEYSTVPVINGLTDLS----------HP--------CQILADLLTIYEHRGSLKGLKVAWVGD---G-N-NVA 165 (304)
T ss_pred -hHHHHHHHhCCCCEEeCCCCCC----------Ch--------HHHHHHHHHHHHHhCCcCCcEEEEEeC---C-C-ccH
Confidence 3455567778899999874322 22 34555553 334 3358888864 2 2 577
Q ss_pred HHHHHHHhhCCceEeEE
Q 044527 195 PYLFDSLHDNDIDIARR 211 (860)
Q Consensus 195 ~~l~~~~~~~g~~i~~~ 211 (860)
..+...+...|.++...
T Consensus 166 ~Sl~~~l~~~g~~v~~~ 182 (304)
T PRK00779 166 NSLLLAAALLGFDLRVA 182 (304)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 88888888999887764
No 400
>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=46.59 E-value=2.4e+02 Score=31.70 Aligned_cols=93 Identities=13% Similarity=0.112 Sum_probs=54.5
Q ss_pred EEEEEEecCCcc----hhhHHHHHHHHHHHHHhccCCcccEEEEEEecCC-CCHHHHHHHHHHhhccCCeEEEEecCCCh
Q 044527 44 HVGIILDMRSWT----GKITNSCISMAIADFYAVNTHCKTRLILHSRDSQ-GDPFHALTTASNLMQNVDLQAIICIGMTP 118 (860)
Q Consensus 44 ~IG~l~~~~~~~----g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~aviGp~~~s 118 (860)
+||++....+.. ........+..++.+|+.+ ++++..+.. .++..+.+.+.++ ..++++++|-...|-
T Consensus 2 ~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~------~~vv~~~~~~~~~~~~~~~~~~~-~~~~~d~ii~~~~tf 74 (452)
T cd00578 2 KIGFVTGSQHLYGEELLEQVEEYAREVADLLNELP------VEVVDKPEVTGTPDEARKAAEEF-NEANCDGLIVWMHTF 74 (452)
T ss_pred EEEEEEecccccChhHHHHHHHHHHHHHHHHhcCC------ceEEecCcccCCHHHHHHHHHHH-hhcCCcEEEEccccc
Confidence 577666555522 2234444555566666542 244444433 3666555555444 444788887655434
Q ss_pred hHHHHHHHhhcCCCCcEEecccCCC
Q 044527 119 TGAQILADLGSRAKIPIISLFTTLP 143 (860)
Q Consensus 119 ~~~~~~~~~~~~~~ip~Is~~a~~~ 143 (860)
+....+...+...++|++-++...+
T Consensus 75 ~~~~~~~~~~~~~~~Pvll~a~~~~ 99 (452)
T cd00578 75 GPAKMWIAGLSELRKPVLLLATQFN 99 (452)
T ss_pred ccHHHHHHHHHhcCCCEEEEeCCCC
Confidence 5556677778888999998876553
No 401
>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=46.55 E-value=53 Score=32.99 Aligned_cols=78 Identities=12% Similarity=0.109 Sum_probs=53.3
Q ss_pred EEEEEEecC---CCCCcCCHHHHHHHHhh--CCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHH
Q 044527 178 EVILIHEDN---TWGNDNTIPYLFDSLHD--NDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLF 252 (860)
Q Consensus 178 ~v~ii~~~~---~~g~~~~~~~l~~~~~~--~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il 252 (860)
+|+++.+.. .++. ...+.+.+.+++ .++++..... ..+..+....++++...+++.++..........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGA-QLLAGIELAAEEIGRGLEVILADS----QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHH-HHHHHHHHHHHHhCCceEEEEecC----CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 467777644 4666 677888888888 6777665332 23334667777778788899998887765555567
Q ss_pred HHHHHcCC
Q 044527 253 LNAKKLGM 260 (860)
Q Consensus 253 ~~a~~~gl 260 (860)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77776663
No 402
>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=46.41 E-value=54 Score=33.41 Aligned_cols=77 Identities=12% Similarity=0.117 Sum_probs=50.6
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ +.|-. ...+.+.+.+++.|.++.... ...+...-...++++.+.++|.+++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~-~~~~g~~~~a~~~g~~~~~~~----~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFA-ELAAGLEEVLEEAGYTVFLAN----SGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHH-HHHHHHHHHHHHcCCeEEEec----CCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 5666653 34555 677888888999998875432 1223344566778888889999888765443334677777
Q ss_pred HcCC
Q 044527 257 KLGM 260 (860)
Q Consensus 257 ~~gl 260 (860)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7663
No 403
>PRK10991 fucI L-fucose isomerase; Provisional
Probab=46.40 E-value=5.1e+02 Score=29.73 Aligned_cols=126 Identities=10% Similarity=-0.049 Sum_probs=71.5
Q ss_pred cEEEEEEecCC-CCHHHHHHHHHHhhccCCeEEEE-ecCC-ChhHHHHHHHhhcCCCCcEEecccCCCccccc-------
Q 044527 79 TRLILHSRDSQ-GDPFHALTTASNLMQNVDLQAII-CIGM-TPTGAQILADLGSRAKIPIISLFTTLPNSLTS------- 148 (860)
Q Consensus 79 ~~l~~~~~D~~-~~~~~a~~~~~~li~~~~v~avi-Gp~~-~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~------- 148 (860)
..++.++.|+. +++..|...+.++-.+ +|.++| .+.| .-++ ..+ ....++|.+-++..+| ....
T Consensus 49 ~~ve~viad~~I~~~~eA~~~aekFk~e-~Vd~~I~vt~cw~fG~-Et~---d~~~~~PvllWg~~dp-erPGav~L~A~ 122 (588)
T PRK10991 49 EPVECVIADTCIGGVAEAAACEEKFSSE-NVGLTITVTPCWCYGS-ETI---DMDPTRPKAIWGFNGT-ERPGAVYLAAA 122 (588)
T ss_pred CeEEEEeCccccCCHHHHHHHHHHHhhc-CCCEEEEecCcccchh-HHH---hcCCCCCEEEeCCCCC-CCCcHHHHHHH
Confidence 67899999976 8888888888777665 888877 3332 0221 222 2337899998887664 2221
Q ss_pred ---------ceEeecCCC------ch-hHHHHHH------HHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCc
Q 044527 149 ---------YSIQIDQDD------EA-SQSQARG------ISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDI 206 (860)
Q Consensus 149 ---------~~~r~~p~~------~~-~~~~~~a------i~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~ 206 (860)
-++++...+ .. |+...+- .+..++.++-++++.|..... |-+...-.-....+..|+
T Consensus 123 laa~~Q~Gip~~~IyGh~vqd~dd~~i~~dv~ekLl~FaRAa~aV~~LRg~syl~IG~rpm-Gf~ts~vne~~l~~~fGI 201 (588)
T PRK10991 123 LAAHSQKGIPAFSIYGHDVQDADDTSIPADVEEKLLRFARAGLAVASMKGKSYLSIGGVSM-GIAGSIVDHNFFESYLGM 201 (588)
T ss_pred HHHHHhcCCCeEEEeCCCccccccccchHHHHHHHHHHHHHHHHHHHhcCCeEEEECCccC-CccccccCHHHHHHHhCC
Confidence 345554322 10 1112222 233345678889999887642 221121122233566788
Q ss_pred eEeEE
Q 044527 207 DIARR 211 (860)
Q Consensus 207 ~i~~~ 211 (860)
++...
T Consensus 202 ~ve~V 206 (588)
T PRK10991 202 RVEAV 206 (588)
T ss_pred EEEEe
Confidence 87653
No 404
>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=46.11 E-value=57 Score=33.09 Aligned_cols=77 Identities=9% Similarity=0.083 Sum_probs=51.1
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH-HHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH-ALASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~-~~~~~il~~ 254 (860)
+|++|.++ +.|.. ...+.+.+.+++.|+++..... ..+.......++++...+++.||+.... ......+..
T Consensus 1 ~ig~i~p~~~~~~~~-~~~~~~~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQ-AMNKGAEAAAKELGVELIVLDA----QNDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHH-HHHHHHHHHHHhcCceEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 47788865 34656 6888888999999988776432 1234445567777777789998886543 333345666
Q ss_pred HHHcC
Q 044527 255 AKKLG 259 (860)
Q Consensus 255 a~~~g 259 (860)
+.+.+
T Consensus 76 l~~~~ 80 (267)
T cd01536 76 ANAAG 80 (267)
T ss_pred HHHCC
Confidence 66655
No 405
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=46.06 E-value=3.5e+02 Score=27.71 Aligned_cols=94 Identities=12% Similarity=-0.003 Sum_probs=53.0
Q ss_pred CCcEEEec------CCcHHHhhhcCCCC---CcCccccCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccc
Q 044527 680 MDNIGSQL------GSVVPGALSNLNFK---DSRLKKYNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAK 750 (860)
Q Consensus 680 ~~~i~~~~------~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~ 750 (860)
..++++.+ |.+....+++.+.- ..+++.-.+..+.+..+.+|+.|+.+.-...... ...-.....+++.
T Consensus 135 ~~~lai~~p~~~P~G~ya~~~l~~~g~~~~~~~k~v~~~~v~~~l~~V~~G~ad~g~vy~sd~~~--~~~~~~~~~~~~~ 212 (258)
T COG0725 135 DVRLAIGDPKTVPAGKYAKEALELLGLWYTLKDKLVLATNVRQALAYVETGEADAGFVYVSDALL--SKKVKIVGVFPED 212 (258)
T ss_pred CcEEEecCCCCCCchHHHHHHHHHhchhhhccccEEecCcHHHHHHHHHcCCCCeEEEEEEhhhc--cCCceEEEEcccc
Confidence 45566543 34445555543332 2366677788899999999998776655442222 1122133444443
Q ss_pred cccccCceEEEeccCCcc---hHHHHHHH
Q 044527 751 YTTSTNGFGFVFQKGSPL---VHDISRAI 776 (860)
Q Consensus 751 ~~~~~~~~~~~~~k~spl---~~~in~~i 776 (860)
.. .+..|.+++.+++.- ...|-+.+
T Consensus 213 ~~-~Pi~y~iav~~~~~~~~~A~~f~~fl 240 (258)
T COG0725 213 LH-SPIVYPIAVLKNAKNPELAKEFVDFL 240 (258)
T ss_pred cC-CCeEEEEEEEcCCCCHHHHHHHHHHH
Confidence 30 346678888888765 44444444
No 406
>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=45.89 E-value=58 Score=33.11 Aligned_cols=77 Identities=8% Similarity=0.017 Sum_probs=51.2
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ ++|.. ...+.+.+.+++.|..+..... ..+.......++++.+.++|.||+..........++.+.
T Consensus 2 igvv~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFA-ECVQGIQEEARAAGYSLLLATT----DYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHH-HHHHHHHHHHHHCCCEEEEeeC----CCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 5666653 34555 6778889999999998876432 133445556777777888999988653333334677777
Q ss_pred HcCC
Q 044527 257 KLGM 260 (860)
Q Consensus 257 ~~gl 260 (860)
+.|.
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7774
No 407
>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=45.58 E-value=1.1e+02 Score=28.26 Aligned_cols=64 Identities=16% Similarity=0.217 Sum_probs=43.7
Q ss_pred EEEEEEecCC--CCC--cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhc-CCCeEEEEEeC
Q 044527 178 EVILIHEDNT--WGN--DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKS-LDTKVFVVHMT 244 (860)
Q Consensus 178 ~v~ii~~~~~--~g~--~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~-~~~~viil~~~ 244 (860)
++++|...++ .|+ +.....+.+.+++.|.++.....++ .+...+.+.+++..+ +++|+||..+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~---Dd~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVP---DDKDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcC---CCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 5778766664 222 1234567888999999988776666 556677777776544 37899988763
No 408
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=45.38 E-value=1.2e+02 Score=28.37 Aligned_cols=80 Identities=14% Similarity=0.131 Sum_probs=55.5
Q ss_pred HHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEE
Q 044527 163 QARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVH 242 (860)
Q Consensus 163 ~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~ 242 (860)
-++.+..+.++++.+++.++- |....+.+.+.+...+.-.|+++... +..+....+++ ...+-++++++
T Consensus 15 HGQV~~~W~~~~~~~~IvVvd--D~~A~D~~~k~~l~ma~P~gvk~~i~--------sv~~a~~~l~~-~~~~~~v~il~ 83 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVAN--DEVAEDPVQQNLMEMVLAEGIAVRFW--------TLQKVIDNIHR-AADRQKILLVC 83 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEc--chhcCCHHHHHHHHhhCCCCCeEEEE--------EHHHHHHHHhc-cCCCceEEEEE
Confidence 467788899999999987763 33333155566666655578777652 23456666766 55666899999
Q ss_pred eCHHHHHHHHH
Q 044527 243 MTHALASHLFL 253 (860)
Q Consensus 243 ~~~~~~~~il~ 253 (860)
-++.++..+.+
T Consensus 84 k~~~d~~~l~~ 94 (157)
T PRK11425 84 KTPADFLTLVK 94 (157)
T ss_pred CCHHHHHHHHH
Confidence 99999887765
No 409
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=45.38 E-value=3.7e+02 Score=27.92 Aligned_cols=70 Identities=11% Similarity=0.058 Sum_probs=45.4
Q ss_pred eHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 489 CIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 489 ~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
..+++..+.++.- .+++.+... +...++..+.+|++|++++... .......+ -+.++....++++++
T Consensus 107 l~~~l~~~~~~~p-~i~i~i~~~----------~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l-~~~~l~~~~~~~v~~ 173 (300)
T PRK11074 107 TRQLIVDFYRHFD-DVELIIRQE----------VFNGVWDALADGRVDIAIGATR-AIPVGGRF-AFRDMGMLSWACVVS 173 (300)
T ss_pred HHHHHHHHHHhCC-CceEEEEeh----------hhhHHHHHHHCCCCCEEEecCc-cCCccccc-ceeecccceEEEEEc
Confidence 3688888888875 355665543 5578999999999999986321 11111111 245677778888876
Q ss_pred cCC
Q 044527 569 IDQ 571 (860)
Q Consensus 569 ~~~ 571 (860)
+..
T Consensus 174 ~~h 176 (300)
T PRK11074 174 SDH 176 (300)
T ss_pred CCC
Confidence 654
No 410
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=45.09 E-value=44 Score=29.49 Aligned_cols=25 Identities=20% Similarity=0.284 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 044527 823 FLITGISSTLALVIFLVTSIYKRTF 847 (860)
Q Consensus 823 f~~l~~g~~ls~~vf~~E~~~~~~~ 847 (860)
.+++|+..++..+++++-++.+|++
T Consensus 68 ~Ii~gv~aGvIg~Illi~y~irR~~ 92 (122)
T PF01102_consen 68 GIIFGVMAGVIGIILLISYCIRRLR 92 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred ehhHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444433333333333333333333
No 411
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=44.20 E-value=3.3e+02 Score=29.44 Aligned_cols=90 Identities=10% Similarity=0.031 Sum_probs=50.6
Q ss_pred EEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCch
Q 044527 80 RLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEA 159 (860)
Q Consensus 80 ~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~ 159 (860)
.+.+++.|.-.....++....++-.. -.+. -|.- -.....+.+.+.+.+||+|+-++... | .
T Consensus 23 ~~d~l~~d~LaE~tma~~~~~~~~~p--~~gY-~~~~-~~~L~~~L~~~~~~gIkvI~NaGg~n-----------p--~- 84 (362)
T PF07287_consen 23 DVDYLVGDYLAERTMAILARAKRKDP--TKGY-APDF-VRDLRPLLPAAAEKGIKVITNAGGLN-----------P--A- 84 (362)
T ss_pred CCCEEEEecHHHHHHHHHHHHHhhCC--CCCc-hHHH-HHHHHHHHHHHHhCCCCEEEeCCCCC-----------H--H-
Confidence 56677777544444444443332221 1110 0111 12335556667778899886643221 2 2
Q ss_pred hHHHHHHHHHHHhhCCCc-EEEEEEecCCCC
Q 044527 160 SQSQARGISDFISVFKWK-EVILIHEDNTWG 189 (860)
Q Consensus 160 ~~~~~~ai~~~l~~~~w~-~v~ii~~~~~~g 189 (860)
..++.+.+++++.|.+ ||++|+.|+...
T Consensus 85 --~~a~~v~eia~e~Gl~lkvA~V~gDd~~~ 113 (362)
T PF07287_consen 85 --GCADIVREIARELGLSLKVAVVYGDDLKD 113 (362)
T ss_pred --HHHHHHHHHHHhcCCCeeEEEEECccchH
Confidence 5678888999886665 999998777543
No 412
>PRK11914 diacylglycerol kinase; Reviewed
Probab=44.08 E-value=1.4e+02 Score=31.47 Aligned_cols=80 Identities=11% Similarity=0.120 Sum_probs=54.1
Q ss_pred hhCCCcEEEEEEecCCCCC---cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHH
Q 044527 172 SVFKWKEVILIHEDNTWGN---DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALA 248 (860)
Q Consensus 172 ~~~~w~~v~ii~~~~~~g~---~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~ 248 (860)
++...+++.+|+.... |. ....+.+.+.+++.|.++..... ....+.....++....+.|+||+.+...+.
T Consensus 4 ~~~~~~~~~iI~NP~s-G~g~~~~~~~~~~~~l~~~g~~~~~~~t-----~~~~~~~~~a~~~~~~~~d~vvv~GGDGTi 77 (306)
T PRK11914 4 RRHEIGKVTVLTNPLS-GHGAAPHAAERAIARLHHRGVDVVEIVG-----TDAHDARHLVAAALAKGTDALVVVGGDGVI 77 (306)
T ss_pred CcCCCceEEEEECCCC-CCCcHHHHHHHHHHHHHHcCCeEEEEEe-----CCHHHHHHHHHHHHhcCCCEEEEECCchHH
Confidence 4456688999886543 32 01244677788888987654322 234566777777777778999999888888
Q ss_pred HHHHHHHHH
Q 044527 249 SHLFLNAKK 257 (860)
Q Consensus 249 ~~il~~a~~ 257 (860)
..++..+..
T Consensus 78 ~evv~~l~~ 86 (306)
T PRK11914 78 SNALQVLAG 86 (306)
T ss_pred HHHhHHhcc
Confidence 888877643
No 413
>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=43.65 E-value=1.5e+02 Score=26.08 Aligned_cols=61 Identities=13% Similarity=0.097 Sum_probs=40.6
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC----HHHHHHHHHHHHHcCC
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT----HALASHLFLNAKKLGM 260 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~----~~~~~~il~~a~~~gl 260 (860)
...-+...++..|+++..-.. .......+..+.+.++++|.+++. .+.+..++++.++.+.
T Consensus 15 G~~~~~~~l~~~G~~vi~lG~-------~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 15 GAKVIARALRDAGFEVIYTGL-------RQTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred HHHHHHHHHHHCCCEEEECCC-------CCCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 456677788889999876322 123345666677889999999874 3445556666677764
No 414
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=43.30 E-value=4.2e+02 Score=27.86 Aligned_cols=136 Identities=12% Similarity=0.059 Sum_probs=78.2
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEE-ecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHS-RDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~-~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
-.++.+|...+. ..+..|+.|+.+.-. ..+.+.. .++.-.-.+.++.+.+.+++- +++|+-=.. ..
T Consensus 40 k~v~~lF~~pST---RTR~SFe~A~~~LGg------~~i~l~~~~~s~~~kgEsi~Dta~vls~y-~D~iviR~~---~~ 106 (301)
T TIGR00670 40 KILANLFFEPST---RTRLSFETAMKRLGG------DVVNFSDSETSSVAKGETLADTIKTLSGY-SDAIVIRHP---LE 106 (301)
T ss_pred CEEEEEeccCCc---hhHhHHHHHHHHcCC------cEEEcCCCCcccCCCCcCHHHHHHHHHHh-CCEEEEECC---ch
Confidence 347778876654 688899999887532 3555544 343323334444444544442 444432111 12
Q ss_pred HHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhCC---CcEEEEEEecCCCCCcCCHH
Q 044527 122 QILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVFK---WKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~ 195 (860)
..+..+++...+|+|..+..+. -.| .+++++++ +++| ..+|+++.+. ..+ ....
T Consensus 107 ~~~~~~a~~s~vPVINa~~g~~---------~HP--------tQ~LaDl~Ti~e~~g~l~g~~va~vGD~-~~~--~v~~ 166 (301)
T TIGR00670 107 GAARLAAEVSEVPVINAGDGSN---------QHP--------TQTLLDLYTIYEEFGRLDGLKIALVGDL-KYG--RTVH 166 (301)
T ss_pred hHHHHHHhhCCCCEEeCCCCCC---------CCc--------HHHHHHHHHHHHHhCCCCCCEEEEEccC-CCC--cHHH
Confidence 3445566777899999874321 012 34455543 3443 3688888742 223 4777
Q ss_pred HHHHHHhhCCceEeEE
Q 044527 196 YLFDSLHDNDIDIARR 211 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~ 211 (860)
.+...+...|.++...
T Consensus 167 Sl~~~~a~~g~~v~~~ 182 (301)
T TIGR00670 167 SLAEALTRFGVEVYLI 182 (301)
T ss_pred HHHHHHHHcCCEEEEE
Confidence 8888888999887764
No 415
>PRK04284 ornithine carbamoyltransferase; Provisional
Probab=43.18 E-value=4.4e+02 Score=28.12 Aligned_cols=133 Identities=16% Similarity=0.161 Sum_probs=76.2
Q ss_pred EEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHH
Q 044527 44 HVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQI 123 (860)
Q Consensus 44 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~ 123 (860)
.++.+|...+. ..+..|+.|+.+.-. ..+.+...++.-.-.+.+..+.+.+++- +++|+--.. ....
T Consensus 47 ~l~~lF~epST---RTR~SFe~A~~~LGg------~~i~l~~~~ss~~kgEsl~DTarvls~y-~D~iviR~~---~~~~ 113 (332)
T PRK04284 47 NIALIFEKDST---RTRCAFEVAAYDQGA------HVTYLGPTGSQMGKKESTKDTARVLGGM-YDGIEYRGF---SQRT 113 (332)
T ss_pred EEEEEecCCCh---hHHHHHHHHHHHcCC------eEEEcCCccccCCCCcCHHHHHHHHHHh-CCEEEEecC---chHH
Confidence 36777877664 688999999988533 2343333333222234444444555442 444443222 2234
Q ss_pred HHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hh-CC---CcEEEEEEecCCCCCcCCHHH
Q 044527 124 LADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SV-FK---WKEVILIHEDNTWGNDNTIPY 196 (860)
Q Consensus 124 ~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~-~~---w~~v~ii~~~~~~g~~~~~~~ 196 (860)
+..+++...+|+|....... .| .+++++++ ++ +| ..+|+++.+- . . ..+..
T Consensus 114 ~~~~a~~s~vPVINa~~~~~----------HP--------tQaL~Dl~Ti~e~~~g~l~g~kia~vGD~-~--~-~v~~S 171 (332)
T PRK04284 114 VETLAEYSGVPVWNGLTDED----------HP--------TQVLADFLTAKEHLKKPYKDIKFTYVGDG-R--N-NVANA 171 (332)
T ss_pred HHHHHHhCCCCEEECCCCCC----------Ch--------HHHHHHHHHHHHHhcCCcCCcEEEEecCC-C--c-chHHH
Confidence 55566677899998643222 22 34555553 44 33 4688888642 1 2 46777
Q ss_pred HHHHHhhCCceEeEE
Q 044527 197 LFDSLHDNDIDIARR 211 (860)
Q Consensus 197 l~~~~~~~g~~i~~~ 211 (860)
+...+...|.++...
T Consensus 172 l~~~~~~~g~~v~~~ 186 (332)
T PRK04284 172 LMQGAAIMGMDFHLV 186 (332)
T ss_pred HHHHHHHcCCEEEEE
Confidence 888888889888764
No 416
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=42.87 E-value=1.2e+02 Score=27.81 Aligned_cols=49 Identities=16% Similarity=0.221 Sum_probs=36.8
Q ss_pred CCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 192 NTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 192 ~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
.....+.+.+++.|.++......+ .+..++.+.+++..+ ++|+||..+.
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~---Dd~~~i~~~l~~~~~-~~DliIttGG 75 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVP---DDPEEIREILRKAVD-EADVVLTTGG 75 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecC---CCHHHHHHHHHHHHh-CCCEEEECCC
Confidence 345678889999999988776666 556677777777654 6899988763
No 417
>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=42.86 E-value=67 Score=33.60 Aligned_cols=79 Identities=8% Similarity=0.067 Sum_probs=52.3
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH-HHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH-ALASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~-~~~~~il~~ 254 (860)
+|+++..+ +.|-. ...+.+.+.+++.|.++..... ...+.......++.+...++|.||+.... +....++++
T Consensus 1 ~I~vi~~~~~~~f~~-~i~~gi~~~a~~~g~~v~~~~~---~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~ 76 (298)
T cd06302 1 TIAFVPKVTGIPYFN-RMEEGAKEAAKELGVDAIYVGP---TTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKK 76 (298)
T ss_pred CEEEEEcCCCChHHH-HHHHHHHHHHHHhCCeEEEECC---CCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHH
Confidence 35666643 34555 6788889999999988764311 12344555677777778889999887543 334567777
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.+.
T Consensus 77 ~~~~~i 82 (298)
T cd06302 77 AREAGI 82 (298)
T ss_pred HHHCCC
Confidence 777764
No 418
>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=42.82 E-value=1.1e+02 Score=30.96 Aligned_cols=76 Identities=16% Similarity=0.069 Sum_probs=51.7
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ ++|-. ...+.+.+.+++.|..+..... ..+.......++.+.+.++|.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFA-SLATAIQDAASAAGYSTIIGNS----DENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHH-HHHHHHHHHHHHcCCEEEEEeC----CCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 6677653 44555 6778888999999988776432 1334455677888888899999887644333 3467777
Q ss_pred HcCC
Q 044527 257 KLGM 260 (860)
Q Consensus 257 ~~gl 260 (860)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7763
No 419
>PRK15138 aldehyde reductase; Provisional
Probab=42.43 E-value=90 Score=34.23 Aligned_cols=75 Identities=11% Similarity=0.251 Sum_probs=50.8
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCC-CCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 165 RGISDFISVFKWKEVILIHEDNTW-GNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~-g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
+.+.++++. + +++.+++.+... .. ...+.+.+.++ |+++.....+. +++..++.....+..++.++|+||-.+
T Consensus 20 ~~l~~~l~~-~-~~~livt~~~~~~~~-g~~~~v~~~L~--~~~~~~f~~v~-~~p~~~~v~~~~~~~~~~~~D~IIaiG 93 (387)
T PRK15138 20 AGLREQIPA-D-ARVLITYGGGSVKKT-GVLDQVLDALK--GMDVLEFGGIE-PNPTYETLMKAVKLVREEKITFLLAVG 93 (387)
T ss_pred HHHHHHHhc-C-CeEEEECCCchHHhc-CcHHHHHHHhc--CCeEEEECCcc-CCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 445566665 3 888888754332 23 55677888885 55554433344 556677888888999999999999877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 94 GG 95 (387)
T PRK15138 94 GG 95 (387)
T ss_pred Ch
Confidence 53
No 420
>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=42.11 E-value=61 Score=33.16 Aligned_cols=79 Identities=10% Similarity=0.066 Sum_probs=50.7
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~il~~ 254 (860)
||+++..+ ++|-. .....+.+.+++.|.++.....-. ..+.......++++...++|.+|+.....+ ....++.
T Consensus 1 ~Igvi~~~~~~~~~~-~~~~g~~~~~~~~g~~~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQ-AVKAGAEAAAKELGVKVTFQGPAS--ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHH-HHHHHHHHHHHHcCCEEEEecCcc--CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 57777765 33445 678888899999999877643210 123344556677777788998888654333 2456666
Q ss_pred HHHcC
Q 044527 255 AKKLG 259 (860)
Q Consensus 255 a~~~g 259 (860)
+.+.+
T Consensus 78 ~~~~~ 82 (273)
T cd06310 78 AKDAG 82 (273)
T ss_pred HHHCC
Confidence 66655
No 421
>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=42.11 E-value=66 Score=32.80 Aligned_cols=77 Identities=10% Similarity=0.084 Sum_probs=48.6
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++.++ +.|.. ...+.+.+.+++.|.++..... . ..........++.+...+++.|++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVS-EIQLGALDACRDTGYQLVIEPC-D--SGSPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHH-HHHHHHHHHHHhCCCeEEEEeC-C--CCchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 5666655 44666 7788889999999988776432 1 122224455566677788998888654322345566666
Q ss_pred HcC
Q 044527 257 KLG 259 (860)
Q Consensus 257 ~~g 259 (860)
+.+
T Consensus 78 ~~~ 80 (270)
T cd01545 78 EAG 80 (270)
T ss_pred hcC
Confidence 665
No 422
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=42.04 E-value=2.3e+02 Score=28.29 Aligned_cols=47 Identities=13% Similarity=0.119 Sum_probs=32.2
Q ss_pred HHHHHHHHcCcccEEEeceeecccccc-----ee-eccccccccceEEEEecC
Q 044527 524 SDLIDQVYFQKFDAAVGDTTITANRSV-----YV-DFTLPYTDMGIGMIVPID 570 (860)
Q Consensus 524 ~g~~~~l~~g~~Di~~~~~~~t~~r~~-----~~-~fs~p~~~~~~~~lv~~~ 570 (860)
..+-..+..|.+|+++.+.-+-.|... .. -.--.+....+++.+|..
T Consensus 55 ~DIp~yV~~G~~DlGI~G~D~l~E~~~~~~~~v~elldLgfG~crl~vA~p~~ 107 (228)
T PRK13583 55 SEIPRELGAGRVDLGVTGEDLVREKLADWDKRVEIVARLGFGHADLVVAVPEI 107 (228)
T ss_pred HHHHHHHhCCCCcEEEeeeeeeecccccCCCCeEEEecCCCCceEEEEEEECc
Confidence 678899999999999999866655321 11 123455666667777765
No 423
>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=41.30 E-value=78 Score=32.25 Aligned_cols=77 Identities=6% Similarity=0.051 Sum_probs=51.1
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH-HHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH-ALASHLFLNA 255 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~-~~~~~il~~a 255 (860)
|+++..+ +.|-. ...+.+.+.+++.|.++..... ..+.......++++.+.++|.+++.... ......++++
T Consensus 2 i~~~~~~~~~~~~~-~~~~~i~~~~~~~g~~~~i~~~----~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYI-ELANAMKEEAKKQKVNLIVSIA----NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHH-HHHHHHHHHHHhcCCEEEEecC----CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 5666655 34555 6788899999999988765321 1334445667777778899999886543 3334556777
Q ss_pred HHcCC
Q 044527 256 KKLGM 260 (860)
Q Consensus 256 ~~~gl 260 (860)
.+.|.
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77663
No 424
>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=40.83 E-value=85 Score=29.62 Aligned_cols=70 Identities=14% Similarity=0.121 Sum_probs=48.3
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++++... +...+...+.+|++|+++...... ...+ .+.++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~~----------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~ 77 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSSL----------FSPQLAEALMRGKLDVAFMRPEIQ---SDGI-DYQLLLKEPLIVV 77 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEec----------ChHHHHHHHhcCCccEEEEeCCCC---CCCc-EEEEEEccceEEE
Confidence 455788888888875 356666653 567899999999999998532111 1222 2567788888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 78 ~~~~~ 82 (196)
T cd08450 78 LPADH 82 (196)
T ss_pred ecCCC
Confidence 87664
No 425
>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=40.78 E-value=87 Score=32.52 Aligned_cols=77 Identities=10% Similarity=0.101 Sum_probs=53.3
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASHLFLNA 255 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~il~~a 255 (860)
|+++..+ +.|-. ...+.+.+.+++.|.++..... ..+.......++++.+.++|.|++... .......++++
T Consensus 2 I~vi~~~~~~~~~~-~~~~gi~~~a~~~g~~~~~~~~----~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWI-RDRPNFEAALKELGAEVIVQNA----NGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHH-HHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 6777764 33455 6778899999999998776432 123444567778888889999988764 34446677888
Q ss_pred HHcCC
Q 044527 256 KKLGM 260 (860)
Q Consensus 256 ~~~gl 260 (860)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 77763
No 426
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=40.68 E-value=76 Score=30.34 Aligned_cols=30 Identities=10% Similarity=0.057 Sum_probs=26.5
Q ss_pred EEEEecCCChhHHHHHHHhhcCCCCcEEecc
Q 044527 109 QAIICIGMTPTGAQILADLGSRAKIPIISLF 139 (860)
Q Consensus 109 ~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~ 139 (860)
..|+||.+ ++-+.....+++..++|+|+.+
T Consensus 3 iiilG~pG-aGK~T~A~~La~~~~i~hlstg 32 (178)
T COG0563 3 ILILGPPG-AGKSTLAKKLAKKLGLPHLDTG 32 (178)
T ss_pred EEEECCCC-CCHHHHHHHHHHHhCCcEEcHh
Confidence 57899999 8888888999999999999964
No 427
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=40.53 E-value=76 Score=33.94 Aligned_cols=99 Identities=16% Similarity=0.169 Sum_probs=60.5
Q ss_pred HHHHHHHhhCCC-cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEE-eccCCCCChHHHHHHHHhhhcCCCeEEEEE
Q 044527 165 RGISDFISVFKW-KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRT-SISLASSTHDQIIEKLSMLKSLDTKVFVVH 242 (860)
Q Consensus 165 ~ai~~~l~~~~w-~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~-~~~~~~~~~~~~~~~l~~i~~~~~~viil~ 242 (860)
..+.++++.++. +++.+|++...+.. ..+.+.+.+++.|+++.... ... .+++........+.+++ ++|+||..
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~--~~~~i~~~L~~~~~~~~i~~~~~~-~~p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV--AGKEIIERLESNNFTKEVLERDSL-LIPDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH--HHHHHHHHHHHcCCeEEEEecCCC-CCCCHHHHHHHHHHhhc-CCCEEEEE
Confidence 445666777765 78888886554433 34778888988887654321 112 23456677778888877 88999887
Q ss_pred eCH--HHHHHHHHHHHHcCCccCCeEEEecCh
Q 044527 243 MTH--ALASHLFLNAKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 243 ~~~--~~~~~il~~a~~~gl~~~~~~~i~~~~ 272 (860)
+.+ -|+..++. ...+ ..++-|.|..
T Consensus 88 GGGsv~D~aK~iA--~~~g---ip~I~VPTT~ 114 (332)
T cd08549 88 GSGTIIDLVKFVS--FKVG---KPFISVPTAP 114 (332)
T ss_pred CCcHHHHHHHHHH--HHcC---CCEEEeCCCc
Confidence 754 34443433 2233 3455555543
No 428
>PF15050 SCIMP: SCIMP protein
Probab=40.12 E-value=53 Score=28.29 Aligned_cols=37 Identities=19% Similarity=0.244 Sum_probs=17.1
Q ss_pred HHHHHHHHH-HHHHHHHHHHHHHhhhhccccCccccCC
Q 044527 823 FLITGISST-LALVIFLVTSIYKRTFWRTGELNKTVLP 859 (860)
Q Consensus 823 f~~l~~g~~-ls~~vf~~E~~~~~~~~~~~~~~~~~~~ 859 (860)
|++|++.++ +|+.+-++-+|..|+..|.++.-+...|
T Consensus 9 WiiLAVaII~vS~~lglIlyCvcR~~lRqGkkweiakp 46 (133)
T PF15050_consen 9 WIILAVAIILVSVVLGLILYCVCRWQLRQGKKWEIAKP 46 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHccccceeccc
Confidence 455555433 2333333334445565555554444443
No 429
>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=40.08 E-value=1.3e+02 Score=26.96 Aligned_cols=63 Identities=16% Similarity=0.167 Sum_probs=41.9
Q ss_pred EEEEEEecCCC--CC--cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 178 EVILIHEDNTW--GN--DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 178 ~v~ii~~~~~~--g~--~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
++++|...++- |+ +.....+.+.+++.|.++......+ .+...+.+.+++..+. +|+|+..+.
T Consensus 1 ~v~ii~~G~El~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~---Dd~~~i~~~i~~~~~~-~DlvittGG 67 (133)
T cd00758 1 RVAIVTVSDELSQGQIEDTNGPALEALLEDLGCEVIYAGVVP---DDADSIRAALIEASRE-ADLVLTTGG 67 (133)
T ss_pred CEEEEEeCccccCCceEEchHHHHHHHHHHCCCEEEEeeecC---CCHHHHHHHHHHHHhc-CCEEEECCC
Confidence 35566555531 21 1345678888999999987765555 5566778888777554 899888763
No 430
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=39.97 E-value=2.5e+02 Score=24.35 Aligned_cols=84 Identities=17% Similarity=0.117 Sum_probs=44.8
Q ss_pred HhhCCCcEEEEEEecCC-CCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHH
Q 044527 171 ISVFKWKEVILIHEDNT-WGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALAS 249 (860)
Q Consensus 171 l~~~~w~~v~ii~~~~~-~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~ 249 (860)
++..|.+.|.-+-.|.+ -++ ...+.+++.+++.|+..+..-.-. ......++....+.+.+..--|.+.|.++..+.
T Consensus 23 la~~GfktVInlRpd~E~~~q-p~~~~~~~~a~~~Gl~y~~iPv~~-~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~ 100 (110)
T PF04273_consen 23 LAAQGFKTVINLRPDGEEPGQ-PSSAEEAAAAEALGLQYVHIPVDG-GAITEEDVEAFADALESLPKPVLAHCRSGTRAS 100 (110)
T ss_dssp HHHCT--EEEE-S-TTSTTT--T-HHCHHHHHHHCT-EEEE----T-TT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHH
T ss_pred HHHCCCcEEEECCCCCCCCCC-CCHHHHHHHHHHcCCeEEEeecCC-CCCCHHHHHHHHHHHHhCCCCEEEECCCChhHH
Confidence 45579999988877754 344 556678899999999987532211 223445555555555554445666666777776
Q ss_pred HHHHHHH
Q 044527 250 HLFLNAK 256 (860)
Q Consensus 250 ~il~~a~ 256 (860)
.+...++
T Consensus 101 ~l~~l~~ 107 (110)
T PF04273_consen 101 ALWALAQ 107 (110)
T ss_dssp HHHHHHH
T ss_pred HHHHHHh
Confidence 6654443
No 431
>PF15179 Myc_target_1: Myc target protein 1
Probab=39.94 E-value=39 Score=31.59 Aligned_cols=36 Identities=11% Similarity=0.161 Sum_probs=27.8
Q ss_pred CCCcccccchhhHHHH-HHHHHHHHHHHHHHHHHHHh
Q 044527 810 NPSSLSLANFGGLFLI-TGISSTLALVIFLVTSIYKR 845 (860)
Q Consensus 810 ~~~~l~l~~l~g~f~~-l~~g~~ls~~vf~~E~~~~~ 845 (860)
-.+.++++++..+|.+ +++|++|+.+++++-.+.-|
T Consensus 12 ~~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSR 48 (197)
T PF15179_consen 12 WLENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSR 48 (197)
T ss_pred chhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456778899999988 77899999888877665543
No 432
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=39.73 E-value=2.9e+02 Score=29.38 Aligned_cols=122 Identities=11% Similarity=0.044 Sum_probs=67.0
Q ss_pred CceEEEEEEEecCC-cchhhHHHHHHHHHHHHHhccCCcccEEEEEEe-cCCCCHHHHHHHHHHhhcc---CCeEEEEec
Q 044527 40 SDEVHVGIILDMRS-WTGKITNSCISMAIADFYAVNTHCKTRLILHSR-DSQGDPFHALTTASNLMQN---VDLQAIICI 114 (860)
Q Consensus 40 ~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~-D~~~~~~~a~~~~~~li~~---~~v~aviGp 114 (860)
.+.+.|+.+.+..+ .....-..|++-|+++.+ + ++..... ....+...+.+.+.+++++ .++.+|+..
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g----~---~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~ 232 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKG----I---KTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIAN 232 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcC----C---CeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEEC
Confidence 35677776654332 224455678888887643 1 2222222 2334566777888888764 358999987
Q ss_pred CCChhHHHHHHHhhcCC---CCcEEecccCCCc-cc-cc--ceEeecCCCchhHHHHHHHHHHHhh
Q 044527 115 GMTPTGAQILADLGSRA---KIPIISLFTTLPN-SL-TS--YSIQIDQDDEASQSQARGISDFISV 173 (860)
Q Consensus 115 ~~~s~~~~~~~~~~~~~---~ip~Is~~a~~~~-~l-s~--~~~r~~p~~~~~~~~~~ai~~~l~~ 173 (860)
.+ ..+..+...+++. .+|++++...... .. .+ .+.-+..+.. .+++..++++..
T Consensus 233 ~d--~~A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~---~~G~~a~~~l~~ 293 (330)
T PRK15395 233 ND--AMAMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDAN---NQAKATFDLAKN 293 (330)
T ss_pred Cc--hHHHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHH---HHHHHHHHHHHH
Confidence 65 3444444444444 5588887643210 00 00 1344444445 777777776654
No 433
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=39.64 E-value=3.2e+02 Score=32.43 Aligned_cols=88 Identities=13% Similarity=0.164 Sum_probs=53.1
Q ss_pred HHHHHHHHHHhh----CCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccC--CCCChHHHHHHHHhhhcCC
Q 044527 162 SQARGISDFISV----FKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISL--ASSTHDQIIEKLSMLKSLD 235 (860)
Q Consensus 162 ~~~~ai~~~l~~----~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~--~~~~~~~~~~~l~~i~~~~ 235 (860)
..++.+++.+.. ...++|.++. |. ...+.+.+.+.+.|.+|.....|.- +....... ..+.++...+
T Consensus 121 ~~se~Ll~~l~~~~~~~~g~rVLi~r-----G~-~gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~-~~~~~~l~~~ 193 (656)
T PRK06975 121 YDSEALFAEIDAAFGALAGKRVLIVR-----GD-GGREWLAERLREAGAEVELVEAYRRVVPEPSIGAW-ERVHALLSGA 193 (656)
T ss_pred cchHHHHHhHHHhccCCCCCEEEEEc-----CC-CCcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHH-HHHHHHHhCC
Confidence 456777777653 3557888865 33 4456788999999998876554430 11111111 2233333345
Q ss_pred CeEEEEEeCHHHHHHHHHHHHH
Q 044527 236 TKVFVVHMTHALASHLFLNAKK 257 (860)
Q Consensus 236 ~~viil~~~~~~~~~il~~a~~ 257 (860)
.++| ++.++..+..+++.+.+
T Consensus 194 idav-~fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 194 PHAW-LLTSSEAVRNLDELARA 214 (656)
T ss_pred CcEE-EECCHHHHHHHHHHHHh
Confidence 6665 57778888888877643
No 434
>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=39.02 E-value=69 Score=33.17 Aligned_cols=77 Identities=13% Similarity=0.297 Sum_probs=52.1
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH-HHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH-ALASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~-~~~~~il~~ 254 (860)
+|++|..+ ++|.. ...+.+.+.+++.|..+... . .. +.......++++.+.++|.||+.... +....++++
T Consensus 1 ~Ig~v~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~---~-~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~ 74 (289)
T cd01540 1 KIGFIVKQPEEPWFQ-TEWKFAKKAAKEKGFTVVKI---D-VP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAK 74 (289)
T ss_pred CeeeecCCCCCcHHH-HHHHHHHHHHHHcCCEEEEc---c-CC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHH
Confidence 36777754 33555 67788889999999887643 2 12 34444567777888899999887643 344566788
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.|.
T Consensus 75 ~~~~~i 80 (289)
T cd01540 75 AKAYNM 80 (289)
T ss_pred HHhCCC
Confidence 887773
No 435
>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=38.71 E-value=71 Score=32.88 Aligned_cols=78 Identities=8% Similarity=0.033 Sum_probs=51.3
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~il~~ 254 (860)
+|+++..+ ++|.. .....+.+.+++.|.++..... ..+...-...++.+...++|.||+.....+ ....++.
T Consensus 1 ~igv~~~~~~~~~~~-~~~~~i~~~~~~~g~~v~~~~~----~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~ 75 (282)
T cd06318 1 KIGFSQYTLNSPFFA-ALTEAAKAHAKALGYELISTDA----QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAA 75 (282)
T ss_pred CeeEEeccccCHHHH-HHHHHHHHHHHHcCCEEEEEcC----CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHH
Confidence 35666654 34555 6778888999999998765321 133444556788888899999988654332 2355677
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.|.
T Consensus 76 ~~~~~i 81 (282)
T cd06318 76 AKAAGV 81 (282)
T ss_pred HHHCCC
Confidence 777663
No 436
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold. In soil bacterium Pseudomonas putida, the ortho-pathways of catechol and 3-chlorocatechol are central catabolic pathways that convert aromatic and chloroaromaric compounds to tricarboxylic acid (TCA) cycle intermediates. The 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR and an intermediate of the pathway, 2-chloromuconate, as an inducer for activation. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding th
Probab=38.62 E-value=1.2e+02 Score=28.84 Aligned_cols=70 Identities=9% Similarity=-0.026 Sum_probs=45.1
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++.+... +-+.++..+.+|++|+++..... . ...+ .+.++....+.++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~~----------~~~~~~~~l~~~~~D~~i~~~~~--~-~~~l-~~~~l~~~~~~~~ 78 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQM----------SKNRQIEALDAGTIDIGFGRFYP--Y-QEGV-VVRNVTNERLFLG 78 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEEC----------CHHHHHHHHHcCCccEEEecCCC--C-CCCe-EEEEeeccceEEE
Confidence 345778888888764 356666542 45789999999999998853211 1 1222 2456777777776
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 79 ~~~~~ 83 (198)
T cd08485 79 AQKSR 83 (198)
T ss_pred eCCCC
Confidence 65443
No 437
>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=38.57 E-value=90 Score=31.89 Aligned_cols=80 Identities=13% Similarity=0.130 Sum_probs=50.5
Q ss_pred EEEEEEecC--CCCCcCCHHHHHHHHhhC---CceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHH
Q 044527 178 EVILIHEDN--TWGNDNTIPYLFDSLHDN---DIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHL 251 (860)
Q Consensus 178 ~v~ii~~~~--~~g~~~~~~~l~~~~~~~---g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~i 251 (860)
||+++..+. .|-. ...+.+.+.+++. |.++..... . ...+.......++++...++|.||+...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~-~~~~~i~~~~~~~~~~g~~~~l~i~-~-~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRA-QMLDEFKAQAKELKKAGLISEFIVT-S-ADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHH-HHHHHHHHHHHhhhccCCeeEEEEe-c-CCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 467776542 3444 5677888888888 874432211 1 1234455678888888889999999765433 3446
Q ss_pred HHHHHHcCC
Q 044527 252 FLNAKKLGM 260 (860)
Q Consensus 252 l~~a~~~gl 260 (860)
+..+.+.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 677777663
No 438
>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=38.56 E-value=3.6e+02 Score=27.04 Aligned_cols=120 Identities=15% Similarity=0.115 Sum_probs=66.9
Q ss_pred chhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCc
Q 044527 55 TGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIP 134 (860)
Q Consensus 55 ~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip 134 (860)
.|+.=..++.-.+.++|-+ .+++.. +..-++. ...+++.. +.+.||....+...-..+...+...++|
T Consensus 62 iG~~Kae~~~~~l~~inP~-----~~V~~~--~~~i~~~----~~~~l~~~-~~D~VvdaiD~~~~k~~L~~~c~~~~ip 129 (231)
T cd00755 62 VGKPKVEVMAERIRDINPE-----CEVDAV--EEFLTPD----NSEDLLGG-DPDFVVDAIDSIRAKVALIAYCRKRKIP 129 (231)
T ss_pred CCCcHHHHHHHHHHHHCCC-----cEEEEe--eeecCHh----HHHHHhcC-CCCEEEEcCCCHHHHHHHHHHHHHhCCC
Confidence 3655566677777888743 344433 3322322 23445544 5777777655356667788899999999
Q ss_pred EEecccCCCcccccceEeecCCCc-hhHHHHHHHHHHHhhCCCc-EEEEEEecCC
Q 044527 135 IISLFTTLPNSLTSYSIQIDQDDE-ASQSQARGISDFISVFKWK-EVILIHEDNT 187 (860)
Q Consensus 135 ~Is~~a~~~~~ls~~~~r~~p~~~-~~~~~~~ai~~~l~~~~w~-~v~ii~~~~~ 187 (860)
+|+...... .+...-+|+.--.. ..--+++.+-+-+++.+.. .+-++|+...
T Consensus 130 ~I~s~g~g~-~~dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E~ 183 (231)
T cd00755 130 VISSMGAGG-KLDPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTEP 183 (231)
T ss_pred EEEEeCCcC-CCCCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCCC
Confidence 998875544 33332222222111 0002355566666655553 5777776553
No 439
>PRK05331 putative phosphate acyltransferase; Provisional
Probab=38.32 E-value=5.3e+02 Score=27.59 Aligned_cols=140 Identities=17% Similarity=0.123 Sum_probs=71.2
Q ss_pred CHHHHHH--------HHHHhhccCCeEEEEecCCChhHHHHHH-HhhcC-CCCcEEecccCCCcc-------cccceEee
Q 044527 91 DPFHALT--------TASNLMQNVDLQAIICIGMTPTGAQILA-DLGSR-AKIPIISLFTTLPNS-------LTSYSIQI 153 (860)
Q Consensus 91 ~~~~a~~--------~~~~li~~~~v~aviGp~~~s~~~~~~~-~~~~~-~~ip~Is~~a~~~~~-------ls~~~~r~ 153 (860)
.|..+++ .+.+++.+.++++++.... ++.....+ .+... .++--.+..+.-| . ++|.-...
T Consensus 71 ~p~~alR~kk~ssm~~A~~lV~~G~AD~~vSgg~-Tga~l~~a~~ilg~~~Gi~r~a~~~~~p-~~~~~~~~l~D~gan~ 148 (334)
T PRK05331 71 KPSQALRRKKDSSMRVALELVKEGEADACVSAGN-TGALMAAALFVLGRLPGIDRPALAAILP-TVKGGGTVLLDLGANV 148 (334)
T ss_pred cHHHHHHhcCCChHHHHHHHHhCCCCCEEEeCCc-HHHHHHHHHHHcccCCCCCceEEEEEee-ecCCCeEEEEeCeEcC
Confidence 3678887 5888998878999996555 44443332 33332 2221112221223 2 12233445
Q ss_pred cCCCchhHHHHHHH---HHHHhh-CCC--cEEEEEEecCCCCC-cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHH
Q 044527 154 DQDDEASQSQARGI---SDFISV-FKW--KEVILIHEDNTWGN-DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIE 226 (860)
Q Consensus 154 ~p~~~~~~~~~~ai---~~~l~~-~~w--~~v~ii~~~~~~g~-~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~ 226 (860)
.|+.. ++.+.. +.+.++ +|. .|||++....+-+. ......-.+.+++.+.++.+.-.+. .
T Consensus 149 ~p~~e---~L~~~A~~~a~~a~~~~Gi~~PrVAlLn~Gse~~kg~~~~~eA~~Ll~~~~~~l~f~G~ie---~------- 215 (334)
T PRK05331 149 DCKPE---HLVQFAVMGSVYAEAVLGIENPRVGLLNIGEEEIKGNELVKEAYELLKAADSSINFIGNVE---G------- 215 (334)
T ss_pred CCCHH---HHHHHHHHHHHHHHHHcCCCCCeEEEEeCCCCCCCCCHHHHHHHHHHHccCCCceEEeecc---C-------
Confidence 55554 554442 255655 676 69999975443332 0223333344444322333333332 1
Q ss_pred HHHhhhcCCCeEEEEEeCHHH
Q 044527 227 KLSMLKSLDTKVFVVHMTHAL 247 (860)
Q Consensus 227 ~l~~i~~~~~~viil~~~~~~ 247 (860)
+.+-.-.+||||..+....
T Consensus 216 --~dl~~g~~DVvV~DGftGN 234 (334)
T PRK05331 216 --RDILKGTADVVVCDGFVGN 234 (334)
T ss_pred --CCcCCCCCCEEEECCchhH
Confidence 1234566899988776543
No 440
>PRK13054 lipid kinase; Reviewed
Probab=38.32 E-value=1.2e+02 Score=31.80 Aligned_cols=76 Identities=11% Similarity=0.105 Sum_probs=49.6
Q ss_pred cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 177 KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 177 ~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
+++.+|+....-+. .....+.+.+.+.|+++....+ ....+...+.++....+.|+|++.+...+...++....
T Consensus 4 ~~~~~i~N~~~~~~-~~~~~~~~~l~~~g~~~~v~~t-----~~~~~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~ 77 (300)
T PRK13054 4 PKSLLILNGKSAGN-EELREAVGLLREEGHTLHVRVT-----WEKGDAARYVEEALALGVATVIAGGGDGTINEVATALA 77 (300)
T ss_pred ceEEEEECCCccch-HHHHHHHHHHHHcCCEEEEEEe-----cCCCcHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHH
Confidence 57788876443233 4455566778888988654322 12233445555555667899999998888888888876
Q ss_pred Hc
Q 044527 257 KL 258 (860)
Q Consensus 257 ~~ 258 (860)
+.
T Consensus 78 ~~ 79 (300)
T PRK13054 78 QL 79 (300)
T ss_pred hh
Confidence 54
No 441
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=38.14 E-value=4e+02 Score=27.37 Aligned_cols=113 Identities=12% Similarity=0.124 Sum_probs=62.7
Q ss_pred CCCcEEecccCCCcccccceE--eecCCCchhHHHHHHHHHH-HhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCce
Q 044527 131 AKIPIISLFTTLPNSLTSYSI--QIDQDDEASQSQARGISDF-ISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDID 207 (860)
Q Consensus 131 ~~ip~Is~~a~~~~~ls~~~~--r~~p~~~~~~~~~~ai~~~-l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~ 207 (860)
.++++...|..+...+.++-+ -..|. . ..+++++++ +....-++|.++-.+ ...+.+.+.+.+.|..
T Consensus 94 ~~~~~~AVG~~TA~aL~~~G~~~~~~P~-~---~~se~Ll~l~~~~~~g~~vLi~rg~------~gr~~L~~~L~~~G~~ 163 (266)
T PRK08811 94 ARAHWLSVGEGTARALQACGIDEVVRPT-R---MDSEGLLALPLAQAPLQAVGLITAP------GGRGLLAPTLQQRGAR 163 (266)
T ss_pred cCCeEEEECHHHHHHHHHcCCCceeCCC-C---CCcHHHHhChhhhCCCCEEEEEeCC------CcHHHHHHHHHHCCCE
Confidence 356666666444423444222 22343 3 447777777 444455777776533 3447899999999998
Q ss_pred EeEEEeccCCCC-ChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 208 IARRTSISLASS-THDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 208 i~~~~~~~~~~~-~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|.....|. ... .... ..+..+.......++++.+...+..+++...
T Consensus 164 V~~~~vY~-~~~~~~~~--~~~~~l~~~~~~d~i~ftS~sav~~f~~~l~ 210 (266)
T PRK08811 164 ILRADVYQ-RVPLRLRA--STLAALSRAAPRSVLALSSAEALTLILQQLP 210 (266)
T ss_pred EeEEEEEe-eeCCCCCH--HHHHHHHHhCCCCEEEEChHHHHHHHHHHhh
Confidence 87655443 111 1111 2333443334445556777777777776653
No 442
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=38.09 E-value=1.5e+02 Score=30.07 Aligned_cols=63 Identities=24% Similarity=0.370 Sum_probs=47.4
Q ss_pred EEEEEEecCC--CCC--cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC
Q 044527 178 EVILIHEDNT--WGN--DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 178 ~v~ii~~~~~--~g~--~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~ 244 (860)
++++|...++ .|+ +.-...+.+.|.+.|+++.....+. .+..++...++...+. +|+||+.+.
T Consensus 3 ~a~iI~vG~ElL~G~ivdtNa~~la~~L~~~G~~v~~~~~Vg---D~~~~I~~~l~~a~~r-~D~vI~tGG 69 (255)
T COG1058 3 KAEIIAVGDELLSGRIVDTNAAFLADELTELGVDLARITTVG---DNPDRIVEALREASER-ADVVITTGG 69 (255)
T ss_pred eEEEEEEccceecCceecchHHHHHHHHHhcCceEEEEEecC---CCHHHHHHHHHHHHhC-CCEEEECCC
Confidence 4566665554 333 1346788899999999999888777 6678888888888777 899988764
No 443
>PRK02929 L-arabinose isomerase; Provisional
Probab=37.99 E-value=3.7e+02 Score=30.52 Aligned_cols=75 Identities=12% Similarity=0.037 Sum_probs=52.3
Q ss_pred HHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHHHHHHhhcCCCCcEEeccc
Q 044527 63 ISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQILADLGSRAKIPIISLFT 140 (860)
Q Consensus 63 ~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~~~~~~~~~~~ip~Is~~a 140 (860)
.+.-++.+|+.+.+ +++++....-.++..+.....+.-.++++++||-..+|=+.+..+...++..++|++-+..
T Consensus 31 ~~~i~~~l~~~~~~---~~~vv~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~~~i~~~~~l~~PvL~~~~ 105 (499)
T PRK02929 31 AEEIVDGLNASGKL---PVKIVLKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPAKMWIRGLSALQKPLLHLHT 105 (499)
T ss_pred HHHHHHHhcccCCC---CeEEEEcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchHHHHHHHHHHcCCCEEEEec
Confidence 44455667776653 4555555555677777655555543678999998777556778888889999999997765
No 444
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=37.98 E-value=1.1e+02 Score=33.15 Aligned_cols=101 Identities=9% Similarity=0.099 Sum_probs=61.2
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEE--eccCCCCChHHHHHHHHhhhcCCC---eEE
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRT--SISLASSTHDQIIEKLSMLKSLDT---KVF 239 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~--~~~~~~~~~~~~~~~l~~i~~~~~---~vi 239 (860)
+.+.+.++.++.+++.++++... .. ...+.+.+.+++.|+++.... ... ++.+.......++.+++.++ |.|
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~-~~~~~v~~~L~~~gi~~~~~~~~~~e-~~~~~~~v~~~~~~~~~~~~~r~d~I 96 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-AP-LYLEKLRASLEAAGFEVDVVVLPDGE-QYKSLETLEKIYDALLEAGLDRSDTL 96 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HH-HHHHHHHHHHHhcCCceEEEEeCCCC-CCCCHHHHHHHHHHHHHcCCCCCCEE
Confidence 44666677778899999986543 34 567788888988888765321 112 23455677777777777655 888
Q ss_pred EEEeCH--HHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 240 VVHMTH--ALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 240 il~~~~--~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
|..+.+ -|+..++......| ..+.-|.|+
T Consensus 97 IavGGGsv~D~aK~iA~~~~~g---ip~i~IPTT 127 (358)
T PRK00002 97 IALGGGVIGDLAGFAAATYMRG---IRFIQVPTT 127 (358)
T ss_pred EEEcCcHHHHHHHHHHHHhcCC---CCEEEcCch
Confidence 877654 33343333323333 234444444
No 445
>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=37.89 E-value=1.1e+02 Score=28.95 Aligned_cols=70 Identities=10% Similarity=0.116 Sum_probs=46.9
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+-.+++..+.++.. ++++++... ....+...+.+|++|+++.. .+.....+. +.++....+.++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~~----------~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv 77 (197)
T cd08452 13 EFLPPIVREYRKKFP-SVKVELREL----------SSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLA 77 (197)
T ss_pred hHHHHHHHHHHHHCC-CcEEEEEec----------ChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEE
Confidence 344688888888875 356666543 56789999999999998853 222222222 467777788888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
++...
T Consensus 78 ~~~~h 82 (197)
T cd08452 78 LPKQH 82 (197)
T ss_pred EeCCC
Confidence 77654
No 446
>PRK13584 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=37.60 E-value=3.6e+02 Score=26.37 Aligned_cols=91 Identities=14% Similarity=0.080 Sum_probs=46.9
Q ss_pred CcEEEecCCcHHHhhhcCCCCCcCccc-cCCHHHHHHHHhcCCcEEEEcchHHHHHHHhccCccceeeccccccccCceE
Q 044527 681 DNIGSQLGSVVPGALSNLNFKDSRLKK-YNSAEEYANALSMGSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFG 759 (860)
Q Consensus 681 ~~i~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 759 (860)
++|+..--.....||...+.. .++.. ..+.| . +-..|=.|+++.=-.+..-+..+ +|.++...+ .+...
T Consensus 106 ~rVATkyp~it~~yf~~~Gi~-~~ii~l~GsvE-l--aP~~GlAD~IvDiv~TG~TLr~N---gL~~~e~I~---~ssa~ 175 (204)
T PRK13584 106 RKIATSYVHTAETYFKSKGID-VELIKLNGSVE-L--ACVVDMVDGIVDIVQTGTTLKAN---GLVEKQHIS---DINAR 175 (204)
T ss_pred eEEEeCcHHHHHHHHHHcCCe-EEEEECCCcee-e--ccccCCccEEEEEECccHHHHHC---CCEEEEEEE---eeEEE
Confidence 355554444556777665553 23332 33332 2 33344455555433232222222 677776554 55566
Q ss_pred EEeccCCc--chHHHHHHHHHHhh
Q 044527 760 FVFQKGSP--LVHDISRAIARLRE 781 (860)
Q Consensus 760 ~~~~k~sp--l~~~in~~i~~l~e 781 (860)
+..++.+. -.+.++..+.+|+-
T Consensus 176 LI~n~~s~~~k~~~i~~l~~~l~~ 199 (204)
T PRK13584 176 LITNKAAYFKKSQLIEQFIRSLEV 199 (204)
T ss_pred EEEccccchhhHHHHHHHHHHHHH
Confidence 66677764 45567777777654
No 447
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=37.56 E-value=1.6e+02 Score=31.68 Aligned_cols=75 Identities=15% Similarity=0.090 Sum_probs=50.2
Q ss_pred HHHHHHHhhCCC--cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcC---CCeEE
Q 044527 165 RGISDFISVFKW--KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSL---DTKVF 239 (860)
Q Consensus 165 ~ai~~~l~~~~w--~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~---~~~vi 239 (860)
..+.++++.++. +++.++++..- . . +.+.+.+++.|+++.....+. +++...+.....+..++. ++|.|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvtd~~~--~-~--~~v~~~L~~~g~~~~~f~~v~-~nPt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFVDDVF--Q-G--KDLISRLPVESEDMIIWVDAT-EEPKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEECcch--h-h--hHHHHHHHhcCCcEEEEcCCC-CCcCHHHHHHHHHHHHhhCCCCCCEE
Confidence 456666776653 55666663221 1 2 567788888888765544455 566777788888888877 89999
Q ss_pred EEEeCH
Q 044527 240 VVHMTH 245 (860)
Q Consensus 240 il~~~~ 245 (860)
|-.+.+
T Consensus 86 IaiGGG 91 (347)
T cd08184 86 VGIGGG 91 (347)
T ss_pred EEeCCc
Confidence 987754
No 448
>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=37.39 E-value=97 Score=31.61 Aligned_cols=76 Identities=12% Similarity=0.047 Sum_probs=49.8
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ +.|-. .+.+.+.+.+++.|..+..... ..+...-...++.+.+.+++.|++.........+++.+.
T Consensus 2 Igvv~~~~~~~~~~-~~~~~i~~~a~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLA-QLFSGAEDRLRAAGYSLLIANS----LNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHH-HHHHHHHHHHHHcCCEEEEEeC----CCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 5677654 34444 6778888999999988765432 123444566777788888998888654333345566666
Q ss_pred HcC
Q 044527 257 KLG 259 (860)
Q Consensus 257 ~~g 259 (860)
+.+
T Consensus 77 ~~~ 79 (269)
T cd06281 77 SLD 79 (269)
T ss_pred hCC
Confidence 655
No 449
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=37.20 E-value=1.3e+02 Score=31.07 Aligned_cols=79 Identities=14% Similarity=0.048 Sum_probs=52.5
Q ss_pred cEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHHHH
Q 044527 177 KEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHLFL 253 (860)
Q Consensus 177 ~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~il~ 253 (860)
++|+++..+ ++|-. ...+.+.+.+++.|..+..... ..+...-...++.+.+.++|.||+.....+ ....++
T Consensus 1 ~~ig~i~~~~~~~~~~-~~~~gi~~~a~~~gy~~~~~~~----~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGIL-GVGEGVREAAKAIGWNLRILDG----RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHH-HHHHHHHHHHHHcCcEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 467888765 33444 5778888999999988766321 234455567888888999999999764322 234456
Q ss_pred HHHHcCC
Q 044527 254 NAKKLGM 260 (860)
Q Consensus 254 ~a~~~gl 260 (860)
.+.+.+.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666553
No 450
>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=37.19 E-value=73 Score=33.17 Aligned_cols=79 Identities=10% Similarity=0.208 Sum_probs=50.1
Q ss_pred EEEEEEecC--CCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHHHHHH
Q 044527 178 EVILIHEDN--TWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~~--~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~il~~ 254 (860)
||++|..+. .|-. .....+.+.+++.|.++.... . ...+.......++.+.+.++|.|++..... .....+++
T Consensus 1 ~i~~i~~~~~~~~~~-~~~~gi~~~a~~~g~~~~~~~--~-~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSN-AQVRGAKDEFAKLGIEVVATT--D-AQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHH-HHHHHHHHHHHHcCCEEEEec--C-CCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 467776542 3444 567788888999998876421 1 112344455677777778899888865432 23566778
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 877763
No 451
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=37.12 E-value=1.3e+02 Score=32.05 Aligned_cols=80 Identities=15% Similarity=0.093 Sum_probs=53.1
Q ss_pred CCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHH
Q 044527 175 KWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLF 252 (860)
Q Consensus 175 ~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il 252 (860)
.-+.++++..+ ++|.. ...+.+.+.+++.|..+..... ..+.......++.+.+.++|.||+..........+
T Consensus 63 ~~~~Igvv~~~~~~~~~~-~i~~gi~~~a~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 137 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYA-ELTAGLTEALEAQGRMVFLLQG----GKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLR 137 (342)
T ss_pred CCCEEEEEeCCCccchHH-HHHHHHHHHHHHcCCEEEEEeC----CCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHH
Confidence 34588999865 34555 6778888999999987654321 13344556777788888899999876433334556
Q ss_pred HHHHHcC
Q 044527 253 LNAKKLG 259 (860)
Q Consensus 253 ~~a~~~g 259 (860)
..+.+.+
T Consensus 138 ~~l~~~~ 144 (342)
T PRK10014 138 EMAEEKG 144 (342)
T ss_pred HHHhhcC
Confidence 6666665
No 452
>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=36.89 E-value=4e+02 Score=25.86 Aligned_cols=88 Identities=11% Similarity=-0.006 Sum_probs=54.3
Q ss_pred cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe----CHHHHHHHH
Q 044527 177 KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM----THALASHLF 252 (860)
Q Consensus 177 ~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~----~~~~~~~il 252 (860)
.+|.+....++.-. -...-+...++.+|+++.+-- .+......++.+++.++|+|.+.+ ..+.+..++
T Consensus 85 ~~vv~~t~~gd~H~-lG~~~v~~~l~~~G~~vi~LG-------~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i 156 (197)
T TIGR02370 85 GKVVCGVAEGDVHD-IGKNIVVTMLRANGFDVIDLG-------RDVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIN 156 (197)
T ss_pred CeEEEEeCCCchhH-HHHHHHHHHHHhCCcEEEECC-------CCCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHH
Confidence 46655555554443 455667778888898887521 122344566667778888888866 346667777
Q ss_pred HHHHHcCCccCCeEEEecCh
Q 044527 253 LNAKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 253 ~~a~~~gl~~~~~~~i~~~~ 272 (860)
++.++.+....-.+|+.+..
T Consensus 157 ~~l~~~~~~~~v~i~vGG~~ 176 (197)
T TIGR02370 157 DKLKEEGYRDSVKFMVGGAP 176 (197)
T ss_pred HHHHHcCCCCCCEEEEEChh
Confidence 88888875333345555443
No 453
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=36.71 E-value=75 Score=34.07 Aligned_cols=77 Identities=4% Similarity=-0.043 Sum_probs=52.2
Q ss_pred HHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 164 ARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 164 ~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
.+.+.+.++.++.+++.++++...+ + ...+.+.+.+++.+..+ + ..+. +++.........+.+++.++|.||..+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~-~-~~~~~v~~~l~~~~~~~-~-~~~~-~~p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLA-T-KLAERVASALGDRVAGT-F-DGAV-MHTPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHH-H-HHHHHHHHHhccCCcEE-e-CCCC-CCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3557778888999999988754322 2 24556777777765432 2 2233 345566778888888889999998877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 86 GG 87 (337)
T cd08177 86 GG 87 (337)
T ss_pred Cc
Confidence 54
No 454
>PRK10481 hypothetical protein; Provisional
Probab=36.63 E-value=2.3e+02 Score=28.17 Aligned_cols=68 Identities=9% Similarity=-0.076 Sum_probs=45.0
Q ss_pred CCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHH
Q 044527 175 KWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALA 248 (860)
Q Consensus 175 ~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~ 248 (860)
+-++++++....+. .. .-.+.+.+.|.++.....-+ +......+....+++++.++|+|++.|.+-..
T Consensus 128 ~g~riGVitP~~~q----i~-~~~~kw~~~G~~v~~~~asp-y~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 128 GGHQVGVIVPVEEQ----LA-QQAQKWQVLQKPPVFALASP-YHGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CCCeEEEEEeCHHH----HH-HHHHHHHhcCCceeEeecCC-CCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 44899999986542 22 33444445588877644323 22344567777888889999999999975444
No 455
>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=36.36 E-value=96 Score=31.67 Aligned_cols=77 Identities=6% Similarity=0.086 Sum_probs=51.4
Q ss_pred EEEEEec---CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHHHHHH
Q 044527 179 VILIHED---NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASHLFLN 254 (860)
Q Consensus 179 v~ii~~~---~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~il~~ 254 (860)
|++|.++ ++|.. ...+.+.+.+++.|+.+..... ..+.......++.+.+.++|.|++..... .....++.
T Consensus 2 i~vi~p~~~~~~~~~-~~~~g~~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQT-TYNKAFQAAAEEDGVEVIVLDA----NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHH-HHHHHHHHHHHhcCCEEEEEcC----CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 5666654 35666 7788899999999988776421 23444555667777788899998876433 23456677
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.+.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777663
No 456
>PRK02255 putrescine carbamoyltransferase; Provisional
Probab=36.21 E-value=5.7e+02 Score=27.38 Aligned_cols=131 Identities=13% Similarity=0.190 Sum_probs=77.7
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEE--ecCCChhH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAII--CIGMTPTG 120 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~avi--Gp~~~s~~ 120 (860)
-.|+.+|...+. ..+..|+.|+.+.-. ..+.+...++.-.-.+.+..+.+.++.- +++|+ .+.. .
T Consensus 43 k~v~~lF~epST---RTR~SFe~A~~~LGg------~~i~l~~~~ss~~kgEsl~Dtarvls~y-~D~iviR~~~~--~- 109 (338)
T PRK02255 43 KTLGMIFEQSST---RTRVSFETAMTQLGG------HAQYLAPGQIQLGGHESLEDTARVLSRL-VDIIMARVDRH--Q- 109 (338)
T ss_pred CEEEEEeCCCCc---chHHHHHHHHHHcCC------eEEEeCcccccCCCCcCHHHHHHHHHHh-CcEEEEecCCh--H-
Confidence 447778877664 688899999887532 3444444443333334555555555552 44443 3333 2
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhCC------CcEEEEEEecCCCCCc
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVFK------WKEVILIHEDNTWGND 191 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~~------w~~v~ii~~~~~~g~~ 191 (860)
.+..+++..++|+|.-..... .| .+++++++ +++| ..+|+++.+. .
T Consensus 110 --~~~~~a~~~~vPVINa~~~~~----------HP--------tQaLaDl~Ti~e~~g~g~~l~glkv~~vGD~----~- 164 (338)
T PRK02255 110 --TVVELAKYATVPVINGMSDYN----------HP--------TQELGDLFTMIEHLPEGKKLEDCKVVFVGDA----T- 164 (338)
T ss_pred --HHHHHHHhCCCCEEECCCCCC----------Ch--------HHHHHHHHHHHHHhCCCCCCCCCEEEEECCC----c-
Confidence 244466778899999542211 22 34555553 4553 2488888642 3
Q ss_pred CCHHHHHHHHhhCCceEeEE
Q 044527 192 NTIPYLFDSLHDNDIDIARR 211 (860)
Q Consensus 192 ~~~~~l~~~~~~~g~~i~~~ 211 (860)
.....+...+...|.++...
T Consensus 165 ~v~~Sl~~~~~~~g~~v~~~ 184 (338)
T PRK02255 165 QVCVSLMFIATKMGMDFVHF 184 (338)
T ss_pred hHHHHHHHHHHhCCCEEEEE
Confidence 57778888888899888764
No 457
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=36.01 E-value=1.4e+02 Score=31.65 Aligned_cols=80 Identities=15% Similarity=0.135 Sum_probs=50.5
Q ss_pred CCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHH
Q 044527 175 KWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLF 252 (860)
Q Consensus 175 ~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il 252 (860)
.-+.|+++..+ +.|-. ...+.+.+.+++.|..+..... ..+...-...++.+.+.++|.||+..........+
T Consensus 60 ~~~~Igvv~~~~~~~~~~-~l~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 134 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYA-RIAKYLERQARQRGYQLLIACS----DDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFY 134 (328)
T ss_pred CCceEEEEeCCCCCchHH-HHHHHHHHHHHHcCCEEEEEeC----CCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHH
Confidence 34579998864 33444 5677888889999998876432 12233344566777778899988865422223345
Q ss_pred HHHHHcC
Q 044527 253 LNAKKLG 259 (860)
Q Consensus 253 ~~a~~~g 259 (860)
+.+.+.+
T Consensus 135 ~~l~~~~ 141 (328)
T PRK11303 135 QRLQNDG 141 (328)
T ss_pred HHHHhcC
Confidence 6665555
No 458
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=35.83 E-value=1.2e+02 Score=32.79 Aligned_cols=97 Identities=18% Similarity=0.165 Sum_probs=61.2
Q ss_pred HHHHHHHhhCCC-cEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 165 RGISDFISVFKW-KEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 165 ~ai~~~l~~~~w-~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
..+.++++.++. +++.+|++...+. ...+.+.+.+++.| .+... +. ++.....+...++.+++.++|+||..+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~--~~~~~l~~~l~~~~-~~~~~--~~-~~~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK--IAGDRVEENLEDAG-DVEVV--IV-DEATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH--HHHHHHHHHHHhcC-CeeEE--eC-CCCCHHHHHHHHHHhhccCCCEEEEeC
Confidence 456667777775 7888887665443 24567788888877 54332 33 455667788888889888899988777
Q ss_pred CH--HHHHHHHHHHHHcCCccCCeEEEecCh
Q 044527 244 TH--ALASHLFLNAKKLGMMSKGYVWIATAA 272 (860)
Q Consensus 244 ~~--~~~~~il~~a~~~gl~~~~~~~i~~~~ 272 (860)
.+ -|...++. ...| ..++-|.|..
T Consensus 96 GGsv~D~ak~vA--~~rg---ip~I~IPTT~ 121 (350)
T PRK00843 96 GGKVIDVAKLAA--YRLG---IPFISVPTAA 121 (350)
T ss_pred CchHHHHHHHHH--HhcC---CCEEEeCCCc
Confidence 54 33333332 2233 3455555554
No 459
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=35.78 E-value=2.8e+02 Score=24.00 Aligned_cols=44 Identities=14% Similarity=0.115 Sum_probs=23.7
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
....+...+++.|.++...... . +.....+.+++.++|+|.+.+
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~----~---~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDAN----V---PPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESS----B----HHHHHHHHHHTTCSEEEEEE
T ss_pred HHHHHHHHHHHCCCeEEEECCC----C---CHHHHHHHHhcCCCcEEEEEc
Confidence 3455666666677766543211 1 113444555566777776666
No 460
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=35.62 E-value=5.8e+02 Score=27.28 Aligned_cols=134 Identities=16% Similarity=0.152 Sum_probs=77.4
Q ss_pred EEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHHH
Q 044527 43 VHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGAQ 122 (860)
Q Consensus 43 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~~ 122 (860)
-+|+.+|...+. ..+..|+.|+.+.-. ..+.+...++.-.-.+.+..+.+.++.- +++|+-=.. ...
T Consensus 47 k~v~~lF~epST---RTR~SFe~A~~~LGg------~~i~l~~~~ss~~kgEsl~DTarvls~y-~D~iv~R~~---~~~ 113 (334)
T PRK01713 47 KNIALIFEKTST---RTRCAFEVAAYDQGA------QVTYIDPNSSQIGHKESMKDTARVLGRM-YDAIEYRGF---KQS 113 (334)
T ss_pred CEEEEEeCCCCc---hHHHHHHHHHHHcCC------eEEEcCCccccCCCCcCHHHHHHHHHHh-CCEEEEEcC---chH
Confidence 347778877664 688999999977533 3444433333322234444455555542 444442111 223
Q ss_pred HHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHH---hhCC----CcEEEEEEecCCCCCcCCHH
Q 044527 123 ILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFI---SVFK----WKEVILIHEDNTWGNDNTIP 195 (860)
Q Consensus 123 ~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l---~~~~----w~~v~ii~~~~~~g~~~~~~ 195 (860)
.+..+++...+|+|.-..... .| .+++++++ +++| ..+|+++.+- . . +.+.
T Consensus 114 ~~~~~a~~~~vPVINa~~~~~----------HP--------tQaL~Dl~Ti~e~~g~~l~gl~ia~vGD~-~--~-~v~~ 171 (334)
T PRK01713 114 IVNELAEYAGVPVFNGLTDEF----------HP--------TQMLADVLTMIENCDKPLSEISYVYIGDA-R--N-NMGN 171 (334)
T ss_pred HHHHHHHhCCCCEEECCCCCC----------Ch--------HHHHHHHHHHHHHcCCCcCCcEEEEECCC-c--c-CHHH
Confidence 455567777899999854222 22 34555543 4454 3578887632 1 3 5677
Q ss_pred HHHHHHhhCCceEeEE
Q 044527 196 YLFDSLHDNDIDIARR 211 (860)
Q Consensus 196 ~l~~~~~~~g~~i~~~ 211 (860)
.+...+.+.|.++...
T Consensus 172 Sl~~~~~~~g~~v~~~ 187 (334)
T PRK01713 172 SLLLIGAKLGMDVRIC 187 (334)
T ss_pred HHHHHHHHcCCEEEEE
Confidence 7888888889887753
No 461
>PRK01215 competence damage-inducible protein A; Provisional
Probab=35.59 E-value=2.2e+02 Score=29.31 Aligned_cols=75 Identities=12% Similarity=0.067 Sum_probs=49.9
Q ss_pred cEEEEEEecCC--CCC--cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHHH
Q 044527 177 KEVILIHEDNT--WGN--DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASHL 251 (860)
Q Consensus 177 ~~v~ii~~~~~--~g~--~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~i 251 (860)
.++++|...|+ .|+ +.....+.+.+.+.|+++.....++ .+..++...+++..+ .+|+||+.+. +.....+
T Consensus 4 ~~v~Ii~~GdEll~G~i~dtn~~~l~~~L~~~G~~v~~~~~v~---Dd~~~I~~~l~~a~~-~~DlVIttGG~g~t~dD~ 79 (264)
T PRK01215 4 WFAWIITIGNELLIGRTVNTNASWIARRLTYLGYTVRRITVVM---DDIEEIVSAFREAID-RADVVVSTGGLGPTYDDK 79 (264)
T ss_pred CEEEEEEEChhccCCeEEEhhHHHHHHHHHHCCCeEEEEEEeC---CCHHHHHHHHHHHhc-CCCEEEEeCCCcCChhhh
Confidence 57888877765 333 1345678888999999988776666 566778888877765 4588888764 3333334
Q ss_pred HHHH
Q 044527 252 FLNA 255 (860)
Q Consensus 252 l~~a 255 (860)
..++
T Consensus 80 t~ea 83 (264)
T PRK01215 80 TNEG 83 (264)
T ss_pred HHHH
Confidence 4443
No 462
>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=35.54 E-value=1.3e+02 Score=28.15 Aligned_cols=72 Identities=10% Similarity=-0.022 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEE
Q 044527 487 GFCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMI 566 (860)
Q Consensus 487 G~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~l 566 (860)
.+...++..+.++.. ++++.+... ....++..+.+|++|+++....... +...+ -..++....++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~~----------~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~-~~~~l~~~~~~~v 79 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHEL----------SPEAQKAALLSKRIDLGFVRFADTL-NDPPL-ASELLWREPMVVA 79 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEEC----------CHHHHHHHHhCCCccEEEecccccC-CCCCc-eEEEEEEeeEEEE
Confidence 345788888888875 456666543 5678999999999999985332110 11222 2467788888888
Q ss_pred EecCC
Q 044527 567 VPIDQ 571 (860)
Q Consensus 567 v~~~~ 571 (860)
+++..
T Consensus 80 ~~~~~ 84 (197)
T cd08449 80 LPEEH 84 (197)
T ss_pred ecCCC
Confidence 87654
No 463
>cd08197 DOIS 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes neomycin, kanamycin, gentamicin, and ribostamycin. They are important antibacterial agents. DOIS is a homologue of the dehydroquinate synthase which catalyzes the cyclization of 3-deoxy-D-arabino-heputulosonate-7-phosphate to dehydroquinate (DHQ) in the shikimate pathway.
Probab=35.54 E-value=2.8e+02 Score=29.94 Aligned_cols=101 Identities=14% Similarity=0.119 Sum_probs=62.2
Q ss_pred HHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccC--CCCChHHHHHHHHhhhcCCCe---EE
Q 044527 165 RGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISL--ASSTHDQIIEKLSMLKSLDTK---VF 239 (860)
Q Consensus 165 ~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~--~~~~~~~~~~~l~~i~~~~~~---vi 239 (860)
.-+.+.++.++-+++.++++...+ . ...+.+.+.+++.|+++... .++. ++...+.....+..+++.++| +|
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~-~-~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~I 88 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE-D-LYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVI 88 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-H-HHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEE
Confidence 345566777777899988865543 3 45678889999888865332 2220 234456777888888888887 77
Q ss_pred EEEeCH--HHHHHHHHHHHHcCCccCCeEEEecC
Q 044527 240 VVHMTH--ALASHLFLNAKKLGMMSKGYVWIATA 271 (860)
Q Consensus 240 il~~~~--~~~~~il~~a~~~gl~~~~~~~i~~~ 271 (860)
|..+.+ -++..++......| ..++.|.|+
T Consensus 89 IAvGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 89 VALGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred EEECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 766653 34444443333233 355666664
No 464
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=35.36 E-value=1.1e+02 Score=32.93 Aligned_cols=80 Identities=3% Similarity=-0.061 Sum_probs=53.0
Q ss_pred CcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHH-HHHH
Q 044527 176 WKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALA-SHLF 252 (860)
Q Consensus 176 w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~-~~il 252 (860)
-+.|+++..+ ++|-. ...+.+.+.+++.|.++.....-. ..+.......++.+.+.++|.||+.....+. ...+
T Consensus 46 t~~Igvv~p~~~~~f~~-~~~~gi~~aa~~~G~~l~i~~~~~--~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWL-SVNYGMVEEAKRLGVDLKVLEAGG--YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHH-HHHHHHHHHHHHhCCEEEEEcCCC--CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 4789999866 34544 577888899999998877643211 1233444567777888899999887644333 3445
Q ss_pred HHHHHcC
Q 044527 253 LNAKKLG 259 (860)
Q Consensus 253 ~~a~~~g 259 (860)
++.+.|
T Consensus 123 -~~~~~g 128 (343)
T PRK10936 123 -ELQAAN 128 (343)
T ss_pred -HHHHCC
Confidence 666666
No 465
>PRK14749 hypothetical protein; Provisional
Probab=35.17 E-value=1.1e+02 Score=19.20 Aligned_cols=25 Identities=8% Similarity=-0.015 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 044527 824 LITGISSTLALVIFLVTSIYKRTFW 848 (860)
Q Consensus 824 ~~l~~g~~ls~~vf~~E~~~~~~~~ 848 (860)
+.++.|.++++..-++-.+|...+.
T Consensus 4 faWiLG~~lAc~f~ilna~w~E~~~ 28 (30)
T PRK14749 4 LLWFVGILLMCSLSTLVLVWLDPRL 28 (30)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4477788888888888777765443
No 466
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=35.11 E-value=27 Score=23.61 Aligned_cols=25 Identities=20% Similarity=0.149 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHhhhhccccCc
Q 044527 830 STLALVIFLVTSIYKRTFWRTGELN 854 (860)
Q Consensus 830 ~~ls~~vf~~E~~~~~~~~~~~~~~ 854 (860)
.+++.+..++-++|++|..|++.++
T Consensus 17 Vglv~i~iva~~iYRKw~aRkr~l~ 41 (43)
T PF08114_consen 17 VGLVGIGIVALFIYRKWQARKRALQ 41 (43)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444455556678888876655443
No 467
>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=34.87 E-value=5e+02 Score=26.34 Aligned_cols=94 Identities=12% Similarity=0.034 Sum_probs=53.5
Q ss_pred eEEEEEEEecCCcchhhHHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhHH
Q 044527 42 EVHVGIILDMRSWTGKITNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTGA 121 (860)
Q Consensus 42 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~~ 121 (860)
.=+||.+.+...........|++-++++.|... ...+.......+..+...+.+.+.++++. +..||+...+ ..+
T Consensus 121 ~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~--~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~pdaI~~~nd--~~A 195 (265)
T cd06354 121 TGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGV--PDIEVLVQYAGSFNDPAKGKEIAQAMYDQ-GADVIFAAAG--GTG 195 (265)
T ss_pred CCeEEEEecccChHHHHHHHHHHHHHHHHhccC--CCceEEEEEcCcccCHHHHHHHHHHHHHC-CCcEEEECCC--CCc
Confidence 356777754332222223368888888876221 11222222222223345666777788765 4688887644 455
Q ss_pred HHHHHhhcCCCCcEEeccc
Q 044527 122 QILADLGSRAKIPIISLFT 140 (860)
Q Consensus 122 ~~~~~~~~~~~ip~Is~~a 140 (860)
..+...+.+.++.++++..
T Consensus 196 ~gv~~al~~~gisIvGfD~ 214 (265)
T cd06354 196 NGVFQAAKEAGVYAIGVDS 214 (265)
T ss_pred hHHHHHHHhcCCeEEEecC
Confidence 5556667777788888864
No 468
>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=34.67 E-value=96 Score=31.42 Aligned_cols=75 Identities=12% Similarity=0.125 Sum_probs=49.5
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ +.|-. ...+.+.+.+++.|..+..... +.+. +....++++.+.++|.|++.....+. ..++.+.
T Consensus 2 I~~i~~~~~~~~~~-~~~~~i~~~~~~~g~~~~~~~~----~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYS-ELLEALSRALQARGYQPLLINT----DDDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHH-HHHHHHHHHHHHCCCeEEEEcC----CCCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 4566654 34555 6778888999999998765421 1223 56677888888899988887543332 3477777
Q ss_pred HcCC
Q 044527 257 KLGM 260 (860)
Q Consensus 257 ~~gl 260 (860)
+.|.
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 7663
No 469
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=34.66 E-value=1.3e+02 Score=32.24 Aligned_cols=75 Identities=11% Similarity=0.094 Sum_probs=51.9
Q ss_pred HHHHHHHh-hCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 165 RGISDFIS-VFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 165 ~ai~~~l~-~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
+-+.++++ ..+.+++.+|++... .. ...+.+.+.+++.| .+... +. ++.........++.+++.++|+||..+
T Consensus 13 ~~l~~~l~~~~~~~~~liv~d~~~-~~-~~~~~v~~~l~~~~-~~~~~--~~-~~~~~~~v~~~~~~~~~~~~d~iIaiG 86 (339)
T cd08173 13 EKIPNVLRDLLLGGRVLVVTGPTT-KS-IAGKKVEALLEDEG-EVDVV--IV-EDATYEEVEKVESSARDIGADFVIGVG 86 (339)
T ss_pred HHHHHHHHHhCCCCeEEEEECCch-HH-HHHHHHHHHHHhcC-CeEEE--Ee-CCCCHHHHHHHHHHhhhcCCCEEEEeC
Confidence 34556666 356789988885443 33 46677888888888 54332 22 345677788888889888999998877
Q ss_pred CH
Q 044527 244 TH 245 (860)
Q Consensus 244 ~~ 245 (860)
.+
T Consensus 87 GG 88 (339)
T cd08173 87 GG 88 (339)
T ss_pred Cc
Confidence 54
No 470
>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=34.47 E-value=1.1e+02 Score=31.23 Aligned_cols=75 Identities=11% Similarity=0.140 Sum_probs=49.5
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
++++..+ ++|.. ...+.+.+.+++.|+++..... ..+.......++.+.+.++|.|++....... ..++.+.
T Consensus 2 i~vi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (270)
T cd06296 2 IGLVFPDLDSPWAS-EVLRGVEEAAAAAGYDVVLSES----GRRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALR 75 (270)
T ss_pred eEEEECCCCCccHH-HHHHHHHHHHHHcCCeEEEecC----CCchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHh
Confidence 5666654 45666 7888899999999998876432 1233445567777888889988876543222 3466666
Q ss_pred HcC
Q 044527 257 KLG 259 (860)
Q Consensus 257 ~~g 259 (860)
+.+
T Consensus 76 ~~~ 78 (270)
T cd06296 76 RTG 78 (270)
T ss_pred cCC
Confidence 655
No 471
>PRK09701 D-allose transporter subunit; Provisional
Probab=34.25 E-value=2.4e+02 Score=29.66 Aligned_cols=84 Identities=12% Similarity=0.048 Sum_probs=56.3
Q ss_pred CCCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH-HHHH
Q 044527 174 FKWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA-LASH 250 (860)
Q Consensus 174 ~~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~-~~~~ 250 (860)
+.-..|+++..+ ++|-. ...+.+.+.+++.|..+..... + ...+...-...++.+...++|.||+..... ....
T Consensus 22 ~~~~~Igvi~~~~~~~f~~-~~~~gi~~~a~~~g~~v~~~~~-~-~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 98 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWV-DMKKGIEDEAKTLGVSVDIFAS-P-SEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVM 98 (311)
T ss_pred ccCCeEEEEeCCCCCHHHH-HHHHHHHHHHHHcCCeEEEecC-C-CCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 566799999965 44555 6788888999999988765321 1 112334456677778888899998876543 3334
Q ss_pred HHHHHHHcCC
Q 044527 251 LFLNAKKLGM 260 (860)
Q Consensus 251 il~~a~~~gl 260 (860)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4566666663
No 472
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=34.17 E-value=1.6e+02 Score=31.97 Aligned_cols=73 Identities=15% Similarity=0.197 Sum_probs=55.0
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVV 241 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil 241 (860)
.+++-.+.+....+-++|++|+.|. |=. +.++.++...+-.|+.+... ....++...+..+++. |+|++
T Consensus 219 TlAKLAar~~~~~~~~kVaiITtDt-YRI-GA~EQLk~Ya~im~vp~~vv-------~~~~el~~ai~~l~~~--d~ILV 287 (407)
T COG1419 219 TLAKLAARYVMLKKKKKVAIITTDT-YRI-GAVEQLKTYADIMGVPLEVV-------YSPKELAEAIEALRDC--DVILV 287 (407)
T ss_pred HHHHHHHHHHhhccCcceEEEEecc-chh-hHHHHHHHHHHHhCCceEEe-------cCHHHHHHHHHHhhcC--CEEEE
Confidence 4555555555556789999998766 766 88999999999999887654 2457888888888765 88888
Q ss_pred EeCH
Q 044527 242 HMTH 245 (860)
Q Consensus 242 ~~~~ 245 (860)
..-+
T Consensus 288 DTaG 291 (407)
T COG1419 288 DTAG 291 (407)
T ss_pred eCCC
Confidence 7643
No 473
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=34.04 E-value=2.4e+02 Score=26.83 Aligned_cols=89 Identities=12% Similarity=0.066 Sum_probs=46.9
Q ss_pred CeEEEEecCCChhHHHHHHHhhcCCC--CcE-EecccCCCccccc-----ceEeecCCCchhHHHHHHHHHHHhhCCCcE
Q 044527 107 DLQAIICIGMTPTGAQILADLGSRAK--IPI-ISLFTTLPNSLTS-----YSIQIDQDDEASQSQARGISDFISVFKWKE 178 (860)
Q Consensus 107 ~v~aviGp~~~s~~~~~~~~~~~~~~--ip~-Is~~a~~~~~ls~-----~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~ 178 (860)
++..++||.+ ++-......+++... +.. ++++...| ...+ |.|- ..+ .+-+.++.-..=.
T Consensus 3 r~ivl~Gpsg-~GK~~l~~~L~~~~~~~~~~~v~~TTR~~-r~~E~~g~~y~fv--s~~--------~f~~~~~~~~fie 70 (183)
T PF00625_consen 3 RPIVLVGPSG-SGKSTLAKRLIQEFPDKFGRVVSHTTRPP-RPGEVDGVDYHFV--SKE--------EFERMIKAGEFIE 70 (183)
T ss_dssp SEEEEESSTT-SSHHHHHHHHHHHSTTTEEEEEEEESS-G-GTTS-TTTSEEE----HH--------HHHHHHHTTHEEE
T ss_pred CEEEEECCCC-CCHHHHHHHHHHhcccccccceeecccCC-cccccCCcceEEE--eec--------hhhhhhccccEEE
Confidence 6889999999 877777676766542 333 34443344 3322 4442 221 1222222211111
Q ss_pred EEEEEecCCCCCcCCHHHHHHHHhhCCceEeE
Q 044527 179 VILIHEDNTWGNDNTIPYLFDSLHDNDIDIAR 210 (860)
Q Consensus 179 v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~ 210 (860)
.+- +.+..||. ..+++.+.+++...++..
T Consensus 71 ~~~-~~g~~YGt--~~~~i~~~~~~gk~~il~ 99 (183)
T PF00625_consen 71 YGE-YDGNYYGT--SKSAIDKVLEEGKHCILD 99 (183)
T ss_dssp EEE-ETTEEEEE--EHHHHHHHHHTTTEEEEE
T ss_pred Eee-ecchhhhh--ccchhhHhhhcCCcEEEE
Confidence 222 44456876 567788888777776543
No 474
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=33.90 E-value=1.7e+02 Score=30.48 Aligned_cols=81 Identities=10% Similarity=0.055 Sum_probs=54.3
Q ss_pred CCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHH
Q 044527 175 KWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHL 251 (860)
Q Consensus 175 ~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~i 251 (860)
.-+.++++.++ ++|-. ...+.+.+.+++.|+++..... ..+.......++++.+.+++.+++.....+ ....
T Consensus 25 ~~~~I~vi~~~~~~~f~~-~~~~~i~~~~~~~G~~~~~~~~----~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~ 99 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFV-SLKDGAQKEADKLGYNLVVLDS----QNNPAKELANVQDLTVRGTKILLINPTDSDAVGNA 99 (295)
T ss_pred cCCeEEEEecCCCChHHH-HHHHHHHHHHHHcCCeEEEecC----CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHH
Confidence 36789998864 33555 6788889999999998875322 123444566777777788998877654433 3356
Q ss_pred HHHHHHcCC
Q 044527 252 FLNAKKLGM 260 (860)
Q Consensus 252 l~~a~~~gl 260 (860)
++.+.+.|.
T Consensus 100 l~~~~~~~i 108 (295)
T PRK10653 100 VKMANQANI 108 (295)
T ss_pred HHHHHHCCC
Confidence 677776663
No 475
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=33.77 E-value=46 Score=29.34 Aligned_cols=43 Identities=19% Similarity=0.021 Sum_probs=29.2
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCccccC
Q 044527 816 LANFGGLFLITGISSTLALVIFLVTSIYKRTFWRTGELNKTVL 858 (860)
Q Consensus 816 l~~l~g~f~~l~~g~~ls~~vf~~E~~~~~~~~~~~~~~~~~~ 858 (860)
..+|.+.-+.+++..+++-++.++-++++..+|++|+-..-.+
T Consensus 58 ~h~fs~~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~~~~~~ 100 (122)
T PF01102_consen 58 VHRFSEPAIIGIIFGVMAGVIGIILLISYCIRRLRKKSSSDVQ 100 (122)
T ss_dssp SSSSS-TCHHHHHHHHHHHHHHHHHHHHHHHHHHS--------
T ss_pred ccCccccceeehhHHHHHHHHHHHHHHHHHHHHHhccCCCCCC
Confidence 4477777788889999999999998889988888877544333
No 476
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=33.69 E-value=1.3e+02 Score=30.65 Aligned_cols=75 Identities=7% Similarity=0.053 Sum_probs=48.9
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ ++|.. ...+.+.+.+++.|..+..... ..+...-...++.+.+.++|.||+.+...... .++++.
T Consensus 2 igvi~p~~~~~~~~-~~~~g~~~~a~~~g~~~~~~~~----~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~-~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFG-PLLSGVESVARKAGKHLIITAG----HHSAEKEREAIEFLLERRCDALILHSKALSDD-ELIELA 75 (268)
T ss_pred EEEEEccccCcchH-HHHHHHHHHHHHCCCEEEEEeC----CCchHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHHHHh
Confidence 4566544 44555 6778888999999998775332 12333445677777888999999876532222 267777
Q ss_pred HcC
Q 044527 257 KLG 259 (860)
Q Consensus 257 ~~g 259 (860)
+.|
T Consensus 76 ~~~ 78 (268)
T cd06270 76 AQV 78 (268)
T ss_pred hCC
Confidence 666
No 477
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=33.51 E-value=6.6e+02 Score=27.34 Aligned_cols=151 Identities=5% Similarity=-0.008 Sum_probs=88.8
Q ss_pred eEEEEEEEecCCcchhh-HHHHHHHHHHHHHhccCCcccEEEEEEecCCCCHHHHHHHHHHhhccCCeEEEEecCCChhH
Q 044527 42 EVHVGIILDMRSWTGKI-TNSCISMAIADFYAVNTHCKTRLILHSRDSQGDPFHALTTASNLMQNVDLQAIICIGMTPTG 120 (860)
Q Consensus 42 ~i~IG~l~~~~~~~g~~-~~~a~~~Av~~iN~~~~~l~~~l~~~~~D~~~~~~~a~~~~~~li~~~~v~aviGp~~~s~~ 120 (860)
.++|..+.|.+|+.=+. ...-++.-.+..+.... -++.+......+++...+++..+-+...+|.+.+=-.++...
T Consensus 212 ~l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~~---~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~ 288 (388)
T COG0426 212 LLKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQPK---GKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADP 288 (388)
T ss_pred ccCccEEEcCCCceeeCCHHHHHHHHHHHHccCCc---ceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCH
Confidence 37799999999975222 11222222223322221 245555444668888888887777666688766544442445
Q ss_pred HHHHHHhhcCCCCcEEecccCCCcccccceEeecCCCchhHHHHHHHHHHHhhCCCcEEEEEEecCCCCCcCCHHHHHHH
Q 044527 121 AQILADLGSRAKIPIISLFTTLPNSLTSYSIQIDQDDEASQSQARGISDFISVFKWKEVILIHEDNTWGNDNTIPYLFDS 200 (860)
Q Consensus 121 ~~~~~~~~~~~~ip~Is~~a~~~~~ls~~~~r~~p~~~~~~~~~~ai~~~l~~~~w~~v~ii~~~~~~g~~~~~~~l~~~ 200 (860)
..-+..+....++.+=+++-... ..| ....++..++..-.-++.+.+.....|+- ...+.+++.
T Consensus 289 ~eI~~~i~~a~~~vvGsPT~~~~---------~~p------~i~~~l~~v~~~~~~~k~~~vfgS~GW~g-~av~~i~~~ 352 (388)
T COG0426 289 SEIVEEILDAKGLVVGSPTINGG---------AHP------PIQTALGYVLALAPKNKLAGVFGSYGWSG-EAVDLIEEK 352 (388)
T ss_pred HHHHHHHhhcceEEEecCcccCC---------CCc------hHHHHHHHHHhccCcCceEEEEeccCCCC-cchHHHHHH
Confidence 55556666666653322211011 122 23455555554444455566666777887 899999999
Q ss_pred HhhCCceEeEE
Q 044527 201 LHDNDIDIARR 211 (860)
Q Consensus 201 ~~~~g~~i~~~ 211 (860)
++..|.++...
T Consensus 353 l~~~g~~~~~~ 363 (388)
T COG0426 353 LKDLGFEFGFD 363 (388)
T ss_pred HHhcCcEEecc
Confidence 99999988765
No 478
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=33.20 E-value=3.3e+02 Score=24.70 Aligned_cols=75 Identities=12% Similarity=0.014 Sum_probs=47.4
Q ss_pred EEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe----CHHHHHHHHH
Q 044527 178 EVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM----THALASHLFL 253 (860)
Q Consensus 178 ~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~----~~~~~~~il~ 253 (860)
+|.+.....+.-. -...-+...++.+|.++++--. .......++.+.+.++++|.+.+ ....+..++.
T Consensus 5 ~vl~~~~~gD~H~-lG~~iv~~~lr~~G~eVi~LG~-------~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~ 76 (137)
T PRK02261 5 TVVLGVIGADCHA-VGNKILDRALTEAGFEVINLGV-------MTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLRE 76 (137)
T ss_pred EEEEEeCCCChhH-HHHHHHHHHHHHCCCEEEECCC-------CCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHH
Confidence 4444433333222 3456677788899999876321 22334566666778999998876 3556677777
Q ss_pred HHHHcCC
Q 044527 254 NAKKLGM 260 (860)
Q Consensus 254 ~a~~~gl 260 (860)
+.++.+.
T Consensus 77 ~L~~~~~ 83 (137)
T PRK02261 77 KCIEAGL 83 (137)
T ss_pred HHHhcCC
Confidence 7787775
No 479
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=33.19 E-value=2.6e+02 Score=27.68 Aligned_cols=89 Identities=13% Similarity=0.160 Sum_probs=52.6
Q ss_pred HHHHHHHHHHhhC--CCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE
Q 044527 162 SQARGISDFISVF--KWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF 239 (860)
Q Consensus 162 ~~~~ai~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi 239 (860)
.-++.+++++... .-+++.+...+ .....+.+.+++.|..+.....+. ..... +.....+.+.+...+ +
T Consensus 106 ~~~~~L~~~i~~~~~~~~~il~~~g~------~~~~~l~~~L~~~g~~v~~~~~Y~-~~~~~-~~~~~~~~l~~~~~~-~ 176 (239)
T cd06578 106 GDSEGLLELLELQDGKGKRILRPRGG------RAREDLAEALRERGAEVDEVEVYR-TVPPD-LDAELLELLEEGAID-A 176 (239)
T ss_pred cCHHHHHHHHHhcCCCCCEEEEEcCc------chhHHHHHHHHHCCCEEEEEEEEE-EECCC-CcHHHHHHHHcCCCc-E
Confidence 3467788888664 44555555422 344678899999998877654443 11111 112233334444434 5
Q ss_pred EEEeCHHHHHHHHHHHHHcC
Q 044527 240 VVHMTHALASHLFLNAKKLG 259 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~~g 259 (860)
+++.+...+..+++...+.+
T Consensus 177 iiftS~~~v~~f~~~~~~~~ 196 (239)
T cd06578 177 VLFTSPSTVRNLLELLGKEG 196 (239)
T ss_pred EEEeCHHHHHHHHHHHhhhh
Confidence 67778888888888887643
No 480
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=33.09 E-value=3e+02 Score=23.97 Aligned_cols=60 Identities=13% Similarity=0.076 Sum_probs=33.4
Q ss_pred CHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC----HHHHHHHHHHHHHcC
Q 044527 193 TIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT----HALASHLFLNAKKLG 259 (860)
Q Consensus 193 ~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~----~~~~~~il~~a~~~g 259 (860)
...-+...+++.|+++..-.. .......++.+.+.++++|.+.+. ...+..++++.++.+
T Consensus 15 G~~~~~~~l~~~G~~V~~lg~-------~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 15 GKNIVARALRDAGFEVIDLGV-------DVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred HHHHHHHHHHHCCCEEEECCC-------CCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 345566677777777744211 112234455556667777777664 344455555555554
No 481
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=33.08 E-value=1.6e+02 Score=31.49 Aligned_cols=80 Identities=10% Similarity=0.100 Sum_probs=56.5
Q ss_pred CCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHH
Q 044527 175 KWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHL 251 (860)
Q Consensus 175 ~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~i 251 (860)
.-.+|+++..+ ++|.. ...+.+.+.+++.|..+..... ..+.......++.+.+.++|.||+...... ....
T Consensus 24 ~~~~Ig~i~~~~~~~f~~-~~~~gi~~~a~~~g~~l~i~~~----~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~ 98 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQ-KDRDIFVKKAESLGAKVFVQSA----NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNV 98 (330)
T ss_pred CCceEEEEecCCCchHHH-HHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHH
Confidence 34688888854 44666 7888999999999998876422 234455667788888889999999765322 3445
Q ss_pred HHHHHHcC
Q 044527 252 FLNAKKLG 259 (860)
Q Consensus 252 l~~a~~~g 259 (860)
++.+.+.+
T Consensus 99 l~~~~~~~ 106 (330)
T PRK10355 99 IKEAKQEG 106 (330)
T ss_pred HHHHHHCC
Confidence 66666666
No 482
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=33.01 E-value=1.8e+02 Score=29.21 Aligned_cols=88 Identities=8% Similarity=0.066 Sum_probs=52.4
Q ss_pred HHHHHHHHHHhhC--CCcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEE
Q 044527 162 SQARGISDFISVF--KWKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVF 239 (860)
Q Consensus 162 ~~~~ai~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vi 239 (860)
..++.+++++... .-++|.++..+ ...+.+.+.+++.|..+.....|. ......+-......+++.+.++|
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~------~~r~~l~~~L~~~G~~v~~~~vY~-~~~~~~~~~~~~~~l~~~~~d~i 174 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGR------PRAPVFEDRLAAAGIPFRVAECYD-MLPVMYSPATLSAILGGAPFDAV 174 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccC------cccchhHHHHHhCCCeeEEEEEEE-eecCCCChHHHHHHHhcCCCCEE
Confidence 3467777776442 45677776532 344678899999998876655443 11111112233444556667777
Q ss_pred EEEeCHHHHHHHHHHHHH
Q 044527 240 VVHMTHALASHLFLNAKK 257 (860)
Q Consensus 240 il~~~~~~~~~il~~a~~ 257 (860)
++. ++..+..+++....
T Consensus 175 ~f~-S~~~~~~f~~~~~~ 191 (240)
T PRK09189 175 LLY-SRVAARRFFALMRL 191 (240)
T ss_pred EEe-CHHHHHHHHHHHhh
Confidence 555 56678888877643
No 483
>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=32.94 E-value=1.3e+02 Score=31.52 Aligned_cols=78 Identities=12% Similarity=0.127 Sum_probs=50.7
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhh--CCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeC-HHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHD--NDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMT-HALASHLF 252 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~--~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~-~~~~~~il 252 (860)
+|+++..+ +.|-. ...+.+.+.+++ .|+++.... ...+...-...++++.+.+++.|++... .+.....+
T Consensus 1 ~Igviv~~~~~~~~~-~~~~gi~~~a~~~~~g~~~~~~~----~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFIS-LVRKNLEDIQKENGGKVEFTFYD----AKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHH-HHHHHHHHHHHhhCCCeeEEEec----CCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 46777764 23444 567788888888 777766532 1233444556788888889998888653 33345677
Q ss_pred HHHHHcCC
Q 044527 253 LNAKKLGM 260 (860)
Q Consensus 253 ~~a~~~gl 260 (860)
+.+.+.|.
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 77777764
No 484
>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=32.92 E-value=1.3e+02 Score=30.84 Aligned_cols=78 Identities=14% Similarity=0.065 Sum_probs=47.2
Q ss_pred CCcEEEEEEec---------CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 175 KWKEVILIHED---------NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 175 ~w~~v~ii~~~---------~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
..+.|++|.++ +.|.. ...+.+.+.+++.|+.+..... . .. +.....+.+.+.++|.|++....
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~~-~~~~gi~~~~~~~g~~~~v~~~-~---~~--~~~~~~~~l~~~~~dgiii~~~~ 74 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFFL-SLLGGIADALAERGYDLLLSFV-S---SP--DRDWLARYLASGRADGVILIGQH 74 (275)
T ss_pred CceEEEEEecCccccccccCCchHH-HHHHHHHHHHHHcCCEEEEEeC-C---ch--hHHHHHHHHHhCCCCEEEEeCCC
Confidence 35678888864 22334 4567788888889988765421 1 11 22334445566789988876533
Q ss_pred HHHHHHHHHHHHcCC
Q 044527 246 ALASHLFLNAKKLGM 260 (860)
Q Consensus 246 ~~~~~il~~a~~~gl 260 (860)
.. ...++.+.+.|.
T Consensus 75 ~~-~~~~~~~~~~~i 88 (275)
T cd06295 75 DQ-DPLPERLAETGL 88 (275)
T ss_pred CC-hHHHHHHHhCCC
Confidence 22 234677777663
No 485
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=32.86 E-value=59 Score=25.05 Aligned_cols=33 Identities=12% Similarity=-0.078 Sum_probs=24.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q 044527 820 GGLFLITGISSTLALVIFLVTSIYKRTFWRTGE 852 (860)
Q Consensus 820 ~g~f~~l~~g~~ls~~vf~~E~~~~~~~~~~~~ 852 (860)
.+.++-...|++++++.++.-+.+++++.||+.
T Consensus 32 qW~aIGvi~gi~~~~lt~ltN~YFK~k~drr~~ 64 (68)
T PF04971_consen 32 QWAAIGVIGGIFFGLLTYLTNLYFKIKEDRRKA 64 (68)
T ss_pred cchhHHHHHHHHHHHHHHHhHhhhhhhHhhhHh
Confidence 456666777888888888888887776666543
No 486
>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=32.47 E-value=1.2e+02 Score=30.52 Aligned_cols=75 Identities=16% Similarity=0.137 Sum_probs=49.1
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLFLNAK 256 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il~~a~ 256 (860)
|+++..+ +.|.. ...+.+.+.+++.|.++..... ..+.......++++.+.++|.+|+...... ..++..+.
T Consensus 2 igvv~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~----~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTS-RTVKGILAALYENGYQMLLMNT----NFSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHH-HHHHHHHHHHHHCCCEEEEEeC----CCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 5666654 23444 6788888999999998865322 233445567778888889999998765322 23555555
Q ss_pred HcC
Q 044527 257 KLG 259 (860)
Q Consensus 257 ~~g 259 (860)
+.+
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 555
No 487
>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=32.11 E-value=1.2e+02 Score=30.83 Aligned_cols=77 Identities=9% Similarity=0.044 Sum_probs=50.3
Q ss_pred EEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHH-HHHHHHHH
Q 044527 179 VILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHAL-ASHLFLNA 255 (860)
Q Consensus 179 v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~-~~~il~~a 255 (860)
|++|..+ +.|.. ...+.+.+.+++.|..+.... ...+..+....++++.+.+++.+++...... ....++.+
T Consensus 2 I~vv~~~~~~~~~~-~~~~~i~~~~~~~g~~v~~~~----~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l 76 (268)
T cd06323 2 IGLSVSTLNNPFFV-TLKDGAQKEAKELGYELTVLD----AQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA 76 (268)
T ss_pred eeEecccccCHHHH-HHHHHHHHHHHHcCceEEecC----CCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH
Confidence 4556543 44555 678889999999998886532 2234455667788888888999887653332 24566777
Q ss_pred HHcCC
Q 044527 256 KKLGM 260 (860)
Q Consensus 256 ~~~gl 260 (860)
.+.+.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 66653
No 488
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=32.03 E-value=4.7e+02 Score=30.94 Aligned_cols=170 Identities=11% Similarity=-0.019 Sum_probs=0.0
Q ss_pred ceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccc-----------cceeeccccccccceEEEEecCC
Q 044527 503 EVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANR-----------SVYVDFTLPYTDMGIGMIVPIDQ 571 (860)
Q Consensus 503 ~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r-----------~~~~~fs~p~~~~~~~~lv~~~~ 571 (860)
.+++.+... +...++++|.+|++|+++......... ...---+.|++...+.++++...
T Consensus 440 ~v~i~v~~~----------~s~~vl~~L~~GeiDlai~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~d~lvlvvp~~h 509 (633)
T PRK14498 440 GLRLRSLHV----------GSMGGLMALKRGEADIAGIHLLDPETGEYNIPYIKKYLLGEDAVLVKGYRREQGLVVRKGN 509 (633)
T ss_pred CCceeEEec----------CCHHHHHHHHcCCceEEEEcccCcccccccHHHHHhhcCCCCEEEEEEEEEeEEEEECCCC
Q ss_pred CCCcceecccCChhHHHHHHHHHHHHHHHhhhhccccCCCcCCcccccchhHHHHHHHHhhccccccccccchhhhHHHH
Q 044527 572 NNNMWIFLKPLKPNLWLTIAALFVLTGFVVWIIERPVNDEFQGSRAHQFGMIFWYSFSTLVFSQREKLFSNLSKFVVIVW 651 (860)
Q Consensus 572 ~~~~~~~~~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~R~l~~~w 651 (860)
.
T Consensus 510 P------------------------------------------------------------------------------- 510 (633)
T PRK14498 510 P------------------------------------------------------------------------------- 510 (633)
T ss_pred C-------------------------------------------------------------------------------
Q ss_pred HHHHHHHHHHhhhccccccchhhHhhhcCC--cEEEecCC-----cHHHhhhcCCCCCcC----ccccCCHHHHHHHHhc
Q 044527 652 VFVVLILSSSYTATLASMLTIQQIKLASMD--NIGSQLGS-----VVPGALSNLNFKDSR----LKKYNSAEEYANALSM 720 (860)
Q Consensus 652 ~~~~lil~~~Yta~L~s~lt~~~~~~~~~~--~i~~~~~~-----~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~ 720 (860)
+..-.++++.+. ++-..... .....+++.++.... ....++.+.....+..
T Consensus 511 ------------------l~~isl~dL~~~~~plI~~~~gs~~r~~le~~l~~~Gi~~~~i~~~~~e~~s~~~i~~~V~~ 572 (633)
T PRK14498 511 ------------------KGIEGIEDLVRKDVRFVNRQRGSGTRILLDYHLKELAIDPERINGYDREEKTHMAVAAAVAQ 572 (633)
T ss_pred ------------------CCCCCHHHhccCCcEEEecCCCchHHHHHHHHHHHcCCCHHHCCCcccccCCHHHHHHHHHc
Q ss_pred CCcEEEEcchHHHHHHHhccCccceeeccccccccCceEEEeccCCcchHHHHHHHHHHhhcchHHHHH
Q 044527 721 GSISAIVDEIPYVRAFLSKYSAHYTTAAAKYTTSTNGFGFVFQKGSPLVHDISRAIARLREEGTLAKIE 789 (860)
Q Consensus 721 g~~~~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~ 789 (860)
|..|+-+.-... ...... .+..+.+.- ++++.+++.........++..+.+.-.-..+.
T Consensus 573 G~~d~Gi~i~~~---~~~~~l-~~i~l~~~~------~~l~~~~~~~~s~a~~aFl~~l~~~~~~~~~~ 631 (633)
T PRK14498 573 GRADAGLGIRAA---AKALGL-DFIPLAEEE------YDLLIPKERLEKPAVRAFLEALKSPEFKAALE 631 (633)
T ss_pred CCCcchHhHHHH---HHHcCC-CCeeeeeEE------EEEEEEhhHccCHHHHHHHHHHcCHHHHHHhh
No 489
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=31.99 E-value=1.6e+02 Score=36.28 Aligned_cols=69 Identities=9% Similarity=0.138 Sum_probs=51.8
Q ss_pred CCcEEEEEEecCCCCCcCCHHHHHHHHh--hCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH
Q 044527 175 KWKEVILIHEDNTWGNDNTIPYLFDSLH--DNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH 245 (860)
Q Consensus 175 ~w~~v~ii~~~~~~g~~~~~~~l~~~~~--~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~ 245 (860)
+.+++.+|++...+.. +..+.+.+.++ +.|+++.....+. +++..+.....++.+++.++|.||..+.+
T Consensus 479 ~~~~~lvVtd~~~~~~-g~~~~v~~~L~~~~~~i~~~~~~~v~-~np~~~~v~~~~~~~~~~~~D~IIaiGGG 549 (862)
T PRK13805 479 GKKRAFIVTDRFMVEL-GYVDKVTDVLKKRENGVEYEVFSEVE-PDPTLSTVRKGAELMRSFKPDTIIALGGG 549 (862)
T ss_pred CCCEEEEEECcchhhc-chHHHHHHHHhcccCCCeEEEeCCCC-CCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 5689988886554444 57888999998 7787765443444 45667788888999999999999987753
No 490
>PF14981 FAM165: FAM165 family
Probab=31.90 E-value=1.1e+02 Score=21.25 Aligned_cols=32 Identities=22% Similarity=0.287 Sum_probs=26.6
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 044527 816 LANFGGLFLITGISSTLALVIFLVTSIYKRTF 847 (860)
Q Consensus 816 l~~l~g~f~~l~~g~~ls~~vf~~E~~~~~~~ 847 (860)
++++.-.+|+|+.--++-|+.|.+--+|.+++
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~kr 34 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKR 34 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 56788899999999999999999888886543
No 491
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=31.81 E-value=6.2e+02 Score=26.46 Aligned_cols=70 Identities=14% Similarity=0.221 Sum_probs=46.5
Q ss_pred eHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEEe
Q 044527 489 CIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIVP 568 (860)
Q Consensus 489 ~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv~ 568 (860)
-.+++..+.++..- +++.+... +-..+.+.|.+|++|++++... .......+ -..++....++++++
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~~----------~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l-~~~~l~~~~~~~v~~ 174 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISRQ----------IYMGVWDSLLYEGFSLAIGVTG-TEALANTF-SLDPLGSVQWRFVMA 174 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEee----------hhhhHHHHHhCCCccEEEeccc-CccccCCe-eEEEecceeEEEEEC
Confidence 36888999888863 56666543 4568889999999999875321 11112222 346788888888886
Q ss_pred cCC
Q 044527 569 IDQ 571 (860)
Q Consensus 569 ~~~ 571 (860)
+..
T Consensus 175 ~~h 177 (308)
T PRK10094 175 ADH 177 (308)
T ss_pred CCC
Confidence 554
No 492
>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=31.52 E-value=1.2e+02 Score=31.12 Aligned_cols=80 Identities=8% Similarity=0.012 Sum_probs=50.0
Q ss_pred EEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCH-HHHHHHHHH
Q 044527 178 EVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTH-ALASHLFLN 254 (860)
Q Consensus 178 ~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~-~~~~~il~~ 254 (860)
+++++..+ ++|-. ...+.+.+.+++.|..+..... + ...+...-...++++.+.+++.||+.... +.....++.
T Consensus 1 ~igvi~~~~~~~~~~-~~~~gi~~~~~~~g~~~~~~~~-~-~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWR-SLKEGYENEAKKLGVSVDIQAA-P-SEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHH-HHHHHHHHHHHHhCCeEEEEcc-C-CCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 46777654 33445 6778888999999988765422 1 11233334566777778889988776543 333445677
Q ss_pred HHHcCC
Q 044527 255 AKKLGM 260 (860)
Q Consensus 255 a~~~gl 260 (860)
+.+.+.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 766663
No 493
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=31.36 E-value=1.7e+02 Score=30.42 Aligned_cols=71 Identities=10% Similarity=0.068 Sum_probs=46.8
Q ss_pred eeHHHHHHHHHhCCCceeEEEEeecCCCCCccCCCHHHHHHHHHcCcccEEEeceeecccccceeeccccccccceEEEE
Q 044527 488 FCIDVFKAAIDTLTFEVPYEFIPFVDAGGRVAAGSYSDLIDQVYFQKFDAAVGDTTITANRSVYVDFTLPYTDMGIGMIV 567 (860)
Q Consensus 488 ~~~~l~~~la~~l~f~~~~~~~~~~~~~~~~~~g~~~g~~~~l~~g~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~lv 567 (860)
+...++..+.++.. ++++.+... +-+.++..+.+|++|+++.... .+.....+. +.|+....+.+++
T Consensus 111 ~l~~~l~~f~~~~p-~i~l~i~~~----------~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~-~~~l~~~~~~~v~ 177 (294)
T PRK09986 111 RLRPAMRHFLKENP-NVEWLLREL----------SPSMQMAALERRELDAGIWRMA-DLEPNPGFT-SRRLHESAFAVAV 177 (294)
T ss_pred HHHHHHHHHHHhCC-CeEEEEEeC----------CHHHHHHHHHcCCCCEEEecCC-ccCCCCCeE-EEEeecccEEEEE
Confidence 34677888888775 355555543 4478899999999999874211 011222333 4778888888888
Q ss_pred ecCC
Q 044527 568 PIDQ 571 (860)
Q Consensus 568 ~~~~ 571 (860)
++..
T Consensus 178 ~~~~ 181 (294)
T PRK09986 178 PEEH 181 (294)
T ss_pred cCCC
Confidence 7765
No 494
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=31.29 E-value=2.1e+02 Score=25.79 Aligned_cols=62 Identities=18% Similarity=0.083 Sum_probs=42.7
Q ss_pred CCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHH----HHHHHHHHHHHcCC
Q 044527 192 NTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHA----LASHLFLNAKKLGM 260 (860)
Q Consensus 192 ~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~----~~~~il~~a~~~gl 260 (860)
...+-+...++..|.+|...... ......++..++.++++|.+++... ....+++..++.+.
T Consensus 17 ~g~~iv~~~l~~~GfeVi~lg~~-------~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~ 82 (132)
T TIGR00640 17 RGAKVIATAYADLGFDVDVGPLF-------QTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGR 82 (132)
T ss_pred HHHHHHHHHHHhCCcEEEECCCC-------CCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCC
Confidence 35567778889999998764322 2334567777889999999988543 44555666666674
No 495
>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=31.28 E-value=1.1e+02 Score=29.68 Aligned_cols=63 Identities=14% Similarity=0.107 Sum_probs=41.7
Q ss_pred CcEEEEEEecCCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChH-HHHHHHHhhhcCCCeEEEEEeC
Q 044527 176 WKEVILIHEDNTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHD-QIIEKLSMLKSLDTKVFVVHMT 244 (860)
Q Consensus 176 w~~v~ii~~~~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~-~~~~~l~~i~~~~~~viil~~~ 244 (860)
-++|+++..|. |-. +..+.++...+..|+.+..... ..+.. -....+++.+..+.|+|++...
T Consensus 29 ~~~v~lis~D~-~R~-ga~eQL~~~a~~l~vp~~~~~~----~~~~~~~~~~~l~~~~~~~~D~vlIDT~ 92 (196)
T PF00448_consen 29 GKKVALISADT-YRI-GAVEQLKTYAEILGVPFYVART----ESDPAEIAREALEKFRKKGYDLVLIDTA 92 (196)
T ss_dssp T--EEEEEEST-SST-HHHHHHHHHHHHHTEEEEESST----TSCHHHHHHHHHHHHHHTTSSEEEEEE-
T ss_pred cccceeecCCC-CCc-cHHHHHHHHHHHhccccchhhc----chhhHHHHHHHHHHHhhcCCCEEEEecC
Confidence 67899998755 444 6778888889998988654221 12233 3456677777888899999875
No 496
>COG4846 CcdC Membrane protein involved in cytochrome C biogenesis [Posttranslational modification, protein turnover, chaperones]
Probab=31.26 E-value=42 Score=29.30 Aligned_cols=24 Identities=21% Similarity=0.457 Sum_probs=18.8
Q ss_pred cccccchhhHHHHHHHHHHHHHHH
Q 044527 813 SLSLANFGGLFLITGISSTLALVI 836 (860)
Q Consensus 813 ~l~l~~l~g~f~~l~~g~~ls~~v 836 (860)
.++..+|.|+|.+|+.|+++---+
T Consensus 117 sid~geLsGMF~ilAf~MIvPWRi 140 (163)
T COG4846 117 SIDVGELSGMFWILAFGMIVPWRI 140 (163)
T ss_pred CccHHHhhhHHHHHHHHhhhHHHH
Confidence 455778999999999999875433
No 497
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=31.18 E-value=1.4e+02 Score=20.82 Aligned_cols=24 Identities=13% Similarity=0.258 Sum_probs=16.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Q 044527 819 FGGLFLITGISSTLALVIFLVTSI 842 (860)
Q Consensus 819 l~g~f~~l~~g~~ls~~vf~~E~~ 842 (860)
+.-.|+.++.|.++.+++|+.-..
T Consensus 4 vLRs~L~~~F~~lIC~Fl~~~~~F 27 (54)
T PF06716_consen 4 VLRSYLLLAFGFLICLFLFCLVVF 27 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678888888877777655433
No 498
>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=31.13 E-value=2.1e+02 Score=30.24 Aligned_cols=80 Identities=13% Similarity=0.072 Sum_probs=51.4
Q ss_pred CCcEEEEEEec--CCCCCcCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEeCHHHHHHHH
Q 044527 175 KWKEVILIHED--NTWGNDNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHMTHALASHLF 252 (860)
Q Consensus 175 ~w~~v~ii~~~--~~~g~~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~~~~~~~~il 252 (860)
.-+.|+++..+ +.|.. ...+.+.+.+++.|..+..... . .+...-...++.+.+.++|.+|+..........+
T Consensus 59 ~~~~Igvi~~~~~~~~~~-~~~~~i~~~~~~~gy~~~i~~~-~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 133 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYA-RIAKELEQQCREAGYQLLIACS-D---DNPDQEKVVIENLLARQVDALIVASCMPPEDAYY 133 (327)
T ss_pred CCceEEEEeCCCCCccHH-HHHHHHHHHHHHCCCEEEEEeC-C---CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHH
Confidence 44689999864 34555 6788888999999998865432 1 2333445667777788899988865432122345
Q ss_pred HHHHHcC
Q 044527 253 LNAKKLG 259 (860)
Q Consensus 253 ~~a~~~g 259 (860)
..+.+.+
T Consensus 134 ~~l~~~~ 140 (327)
T TIGR02417 134 QKLQNEG 140 (327)
T ss_pred HHHHhcC
Confidence 5555555
No 499
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=31.13 E-value=2.1e+02 Score=27.10 Aligned_cols=46 Identities=20% Similarity=0.306 Sum_probs=30.4
Q ss_pred HHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEEEEe
Q 044527 194 IPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFVVHM 243 (860)
Q Consensus 194 ~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~viil~~ 243 (860)
...+.+.+.+.|+++.....++ .+...+...+.+..+ .+|+||..+
T Consensus 21 ~~~l~~~L~~~G~~v~~~~~v~---Dd~~~I~~~l~~~~~-~~dlVIttG 66 (170)
T cd00885 21 AAFLAKELAELGIEVYRVTVVG---DDEDRIAEALRRASE-RADLVITTG 66 (170)
T ss_pred HHHHHHHHHHCCCEEEEEEEeC---CCHHHHHHHHHHHHh-CCCEEEECC
Confidence 4567777888888877766555 455566667766554 467776654
No 500
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=30.91 E-value=4e+02 Score=26.17 Aligned_cols=89 Identities=15% Similarity=0.122 Sum_probs=55.0
Q ss_pred HHHHHHHHHHhhCCCcEEEEEEecCCCCC-cCCHHHHHHHHhhCCceEeEEEeccCCCCChHHHHHHHHhhhcCCCeEEE
Q 044527 162 SQARGISDFISVFKWKEVILIHEDNTWGN-DNTIPYLFDSLHDNDIDIARRTSISLASSTHDQIIEKLSMLKSLDTKVFV 240 (860)
Q Consensus 162 ~~~~ai~~~l~~~~w~~v~ii~~~~~~g~-~~~~~~l~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~vii 240 (860)
..-+-+...++.+ -++|++|=.-..-.. +.+.+.+++.+++.|..+..-.... ....++...|.+ +|+|+
T Consensus 19 ~~~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~---~~~~~Ie~~l~~-----~d~Iy 89 (224)
T COG3340 19 HFLPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSK---PPLAAIENKLMK-----ADIIY 89 (224)
T ss_pred hhhHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccC---CCHHHHHHhhhh-----ccEEE
Confidence 4445666666655 578888843332222 1368899999999999988754433 444555554433 36665
Q ss_pred EEeCHHHHHHHHHHHHHcCCc
Q 044527 241 VHMTHALASHLFLNAKKLGMM 261 (860)
Q Consensus 241 l~~~~~~~~~il~~a~~~gl~ 261 (860)
+. +.....++++.++.|+.
T Consensus 90 Vg--GGNTF~LL~~lke~gld 108 (224)
T COG3340 90 VG--GGNTFNLLQELKETGLD 108 (224)
T ss_pred EC--CchHHHHHHHHHHhCcH
Confidence 54 44556677777777763
Done!