Query 002454
Match_columns 920
No_of_seqs 460 out of 3860
Neff 10.0
Searched_HMMs 46136
Date Fri Mar 29 00:16:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002454.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002454hhsearch_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 7.8E-91 1.7E-95 714.3 45.1 756 31-849 23-845 (897)
2 KOG4440 NMDA selective glutama 100.0 3E-80 6.4E-85 639.1 39.6 737 31-850 32-858 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 7.6E-74 1.7E-78 613.8 57.3 691 77-844 80-851 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 1.2E-60 2.5E-65 564.5 53.2 578 224-849 6-624 (656)
5 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 9.5E-42 2.1E-46 370.2 36.2 342 36-407 1-363 (364)
6 cd06392 PBP1_iGluR_delta_1 N-t 100.0 9.3E-41 2E-45 361.4 37.0 352 37-408 2-399 (400)
7 cd06366 PBP1_GABAb_receptor Li 100.0 8.6E-41 1.9E-45 367.7 37.1 339 36-409 1-348 (350)
8 cd06361 PBP1_GPC6A_like Ligand 100.0 2.1E-40 4.5E-45 366.4 38.4 332 47-406 33-396 (403)
9 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 2.5E-40 5.5E-45 357.5 38.1 343 36-407 1-371 (372)
10 cd06393 PBP1_iGluR_Kainate_Glu 100.0 2.3E-40 5.1E-45 366.8 37.5 354 34-408 2-382 (384)
11 cd06362 PBP1_mGluR Ligand bind 100.0 6E-40 1.3E-44 373.0 37.0 362 33-407 1-450 (452)
12 cd06386 PBP1_NPR_C_like Ligand 100.0 9.8E-40 2.1E-44 361.5 36.4 349 37-404 2-379 (387)
13 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.8E-39 4E-44 361.0 38.2 350 36-407 1-381 (382)
14 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2.4E-39 5.1E-44 358.9 37.2 319 32-404 17-364 (377)
15 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3.4E-39 7.5E-44 352.1 37.8 342 36-408 1-370 (371)
16 cd06374 PBP1_mGluR_groupI Liga 100.0 1.6E-39 3.6E-44 369.3 36.5 360 31-403 6-464 (472)
17 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 3.6E-39 7.9E-44 353.1 37.2 348 36-408 1-369 (370)
18 cd06394 PBP1_iGluR_Kainate_KA1 100.0 5.1E-40 1.1E-44 349.5 27.8 327 36-408 1-332 (333)
19 cd06364 PBP1_CaSR Ligand-bindi 100.0 1E-38 2.2E-43 362.8 39.8 361 31-404 9-494 (510)
20 cd06391 PBP1_iGluR_delta_2 N-t 100.0 7.6E-39 1.7E-43 351.1 37.4 355 36-408 1-399 (400)
21 cd06376 PBP1_mGluR_groupIII Li 100.0 6.9E-39 1.5E-43 363.7 38.1 360 33-404 1-453 (463)
22 cd06367 PBP1_iGluR_NMDA N-term 100.0 3.2E-39 7E-44 356.2 34.4 322 34-403 2-351 (362)
23 cd06365 PBP1_Pheromone_recepto 100.0 6.2E-39 1.3E-43 362.5 36.3 359 34-404 2-453 (469)
24 cd06363 PBP1_Taste_receptor Li 100.0 9.9E-39 2.1E-43 357.2 37.4 342 31-404 3-396 (410)
25 cd06375 PBP1_mGluR_groupII Lig 100.0 1.1E-38 2.4E-43 358.8 37.7 356 33-403 1-454 (458)
26 cd06370 PBP1_Speract_GC_like L 100.0 1.9E-38 4.2E-43 354.0 36.8 350 35-396 1-387 (404)
27 cd06372 PBP1_GC_G_like Ligand- 100.0 3E-38 6.6E-43 352.1 38.0 359 36-405 1-387 (391)
28 cd06352 PBP1_NPR_GC_like Ligan 100.0 3.6E-38 7.7E-43 352.3 36.3 359 36-406 1-384 (389)
29 cd06373 PBP1_NPR_like Ligand b 100.0 3.7E-38 8.1E-43 352.0 34.5 359 36-405 1-390 (396)
30 cd06385 PBP1_NPR_A Ligand-bind 100.0 8.7E-38 1.9E-42 349.9 37.4 357 36-405 1-392 (405)
31 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.1E-37 2.4E-42 339.3 30.8 319 36-407 1-326 (327)
32 cd06371 PBP1_sensory_GC_DEF_li 100.0 2.8E-37 6E-42 341.0 34.0 342 36-399 1-367 (382)
33 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.9E-36 6.2E-41 336.3 36.7 356 36-405 1-393 (399)
34 PRK15404 leucine ABC transport 100.0 6.6E-36 1.4E-40 328.4 36.4 335 32-394 23-363 (369)
35 cd06381 PBP1_iGluR_delta_like 100.0 7.1E-35 1.5E-39 316.4 36.1 337 36-407 1-362 (363)
36 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 3.1E-35 6.6E-40 322.1 33.3 327 36-390 1-334 (334)
37 cd06338 PBP1_ABC_ligand_bindin 100.0 8.9E-35 1.9E-39 319.6 33.0 327 36-389 1-344 (345)
38 cd06345 PBP1_ABC_ligand_bindin 100.0 1.3E-34 2.7E-39 317.7 32.7 323 36-383 1-339 (344)
39 cd06355 PBP1_FmdD_like Peripla 100.0 2.8E-34 6.1E-39 314.3 33.3 337 36-398 1-345 (348)
40 cd06368 PBP1_iGluR_non_NMDA_li 100.0 2.2E-34 4.8E-39 313.5 32.2 319 36-407 1-323 (324)
41 cd06346 PBP1_ABC_ligand_bindin 100.0 1.9E-34 4.2E-39 311.2 29.1 298 36-380 1-304 (312)
42 TIGR03669 urea_ABC_arch urea A 100.0 1.7E-33 3.6E-38 308.2 33.5 341 35-402 1-349 (374)
43 COG0683 LivK ABC-type branched 100.0 1.6E-33 3.5E-38 308.8 33.2 338 33-393 9-355 (366)
44 cd06348 PBP1_ABC_ligand_bindin 100.0 1.7E-33 3.6E-38 309.0 33.0 325 36-386 1-342 (344)
45 cd06340 PBP1_ABC_ligand_bindin 100.0 1.1E-33 2.4E-38 310.0 30.0 323 36-383 1-342 (347)
46 cd06343 PBP1_ABC_ligand_bindin 100.0 3.8E-33 8.2E-38 308.5 34.3 344 31-395 3-362 (362)
47 TIGR03407 urea_ABC_UrtA urea A 100.0 5.2E-33 1.1E-37 305.4 34.7 335 35-395 1-343 (359)
48 cd06331 PBP1_AmiC_like Type I 100.0 5.2E-33 1.1E-37 303.4 31.6 320 36-381 1-326 (333)
49 PF01094 ANF_receptor: Recepto 100.0 2.4E-33 5.3E-38 309.4 28.6 329 51-391 2-348 (348)
50 cd06344 PBP1_ABC_ligand_bindin 100.0 4.7E-33 1E-37 303.4 30.2 318 36-382 1-326 (332)
51 cd06329 PBP1_SBP_like_3 Peripl 100.0 1.5E-32 3.2E-37 300.6 31.0 317 36-379 1-333 (342)
52 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.2E-32 2.6E-37 298.4 29.2 326 34-403 2-350 (362)
53 PF13458 Peripla_BP_6: Peripla 100.0 1E-32 2.2E-37 303.4 28.7 334 34-393 1-342 (343)
54 cd06349 PBP1_ABC_ligand_bindin 100.0 3.7E-32 8E-37 297.8 32.8 331 36-395 1-340 (340)
55 cd06327 PBP1_SBP_like_1 Peripl 100.0 1.4E-32 3.1E-37 300.0 28.8 318 36-379 1-326 (334)
56 KOG1056 Glutamate-gated metabo 100.0 8.2E-32 1.8E-36 302.5 35.0 363 31-406 28-474 (878)
57 cd06359 PBP1_Nba_like Type I p 100.0 4.9E-32 1.1E-36 295.6 32.1 328 36-389 1-332 (333)
58 cd06357 PBP1_AmiC Periplasmic 100.0 1.3E-31 2.7E-36 294.6 35.0 340 36-399 1-347 (360)
59 cd06347 PBP1_ABC_ligand_bindin 100.0 9.3E-32 2E-36 294.7 33.3 317 36-380 1-326 (334)
60 cd06350 PBP1_GPCR_family_C_lik 100.0 6.5E-32 1.4E-36 297.4 31.0 307 36-404 1-340 (348)
61 cd06330 PBP1_Arsenic_SBP_like 100.0 6.1E-32 1.3E-36 297.1 30.0 329 36-386 1-342 (346)
62 cd06328 PBP1_SBP_like_2 Peripl 100.0 1.5E-31 3.2E-36 291.1 32.1 317 36-380 1-325 (333)
63 cd06356 PBP1_Amide_Urea_BP_lik 100.0 1.9E-31 4.2E-36 290.3 31.1 319 36-380 1-326 (334)
64 cd06360 PBP1_alkylbenzenes_lik 100.0 3.5E-31 7.6E-36 290.2 32.9 326 36-383 1-330 (336)
65 cd06358 PBP1_NHase Type I peri 100.0 3.7E-31 8E-36 288.7 31.6 317 36-379 1-324 (333)
66 cd06336 PBP1_ABC_ligand_bindin 100.0 1.7E-31 3.6E-36 292.8 28.9 321 36-383 1-342 (347)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 5.4E-31 1.2E-35 288.7 31.0 325 36-380 1-338 (347)
68 cd06334 PBP1_ABC_ligand_bindin 100.0 5.9E-31 1.3E-35 287.1 26.8 325 36-380 1-348 (351)
69 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 2.6E-29 5.7E-34 266.5 36.2 321 33-405 17-372 (382)
70 cd06332 PBP1_aromatic_compound 100.0 9E-30 2E-34 278.8 32.4 326 36-387 1-330 (333)
71 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1.2E-30 2.7E-35 283.8 24.6 315 45-385 8-355 (368)
72 PF13433 Peripla_BP_5: Peripla 100.0 6.1E-30 1.3E-34 264.2 26.6 338 35-398 1-346 (363)
73 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 1.7E-29 3.7E-34 276.1 31.9 313 36-403 1-322 (328)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 1.1E-29 2.5E-34 279.0 28.8 331 36-395 1-357 (357)
75 cd06326 PBP1_STKc_like Type I 100.0 5.6E-28 1.2E-32 264.8 31.8 321 35-380 1-330 (336)
76 cd06339 PBP1_YraM_LppC_lipopro 100.0 4.9E-28 1.1E-32 263.2 24.9 302 36-380 1-329 (336)
77 cd06341 PBP1_ABC_ligand_bindin 100.0 9.3E-27 2E-31 255.4 28.6 328 36-389 1-340 (341)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 1.4E-26 3E-31 249.6 26.0 301 48-390 10-315 (347)
79 cd06269 PBP1_glutamate_recepto 99.9 1.6E-25 3.5E-30 241.2 28.9 281 36-403 1-291 (298)
80 KOG1055 GABA-B ion channel rec 99.9 2.1E-26 4.5E-31 249.7 18.9 357 30-406 37-432 (865)
81 cd04509 PBP1_ABC_transporter_G 99.9 5.6E-25 1.2E-29 237.0 25.6 285 36-338 1-290 (299)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.9 1.9E-24 4.2E-29 233.8 28.2 278 36-340 1-293 (312)
83 cd06268 PBP1_ABC_transporter_L 99.9 1.7E-22 3.7E-27 217.5 27.0 279 36-340 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 9.6E-21 2.1E-25 195.1 28.3 325 47-406 16-367 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 8.6E-21 1.9E-25 197.3 21.7 222 450-798 22-245 (247)
86 PRK10797 glutamate and asparta 99.9 7.6E-21 1.6E-25 201.8 20.4 227 449-798 36-273 (302)
87 PRK11260 cystine transporter s 99.9 1.9E-20 4.1E-25 196.9 21.0 230 444-798 32-263 (266)
88 PF00497 SBP_bac_3: Bacterial 99.9 2.1E-20 4.5E-25 192.1 19.6 222 455-797 1-225 (225)
89 PRK15010 ABC transporter lysin 99.8 1.3E-19 2.7E-24 189.9 21.6 224 450-797 23-255 (260)
90 PRK15007 putative ABC transpor 99.8 3.1E-19 6.7E-24 185.5 21.7 218 451-796 19-242 (243)
91 PRK11917 bifunctional adhesin/ 99.8 3E-19 6.6E-24 185.8 20.0 225 445-795 30-258 (259)
92 TIGR01096 3A0103s03R lysine-ar 99.8 4.7E-19 1E-23 185.1 20.4 226 444-795 16-250 (250)
93 PRK15437 histidine ABC transpo 99.8 6.2E-19 1.3E-23 184.5 20.4 225 450-798 23-256 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 4.2E-19 9E-24 187.4 18.8 230 445-797 25-262 (275)
95 PRK09959 hybrid sensory histid 99.8 7.6E-18 1.7E-22 215.5 22.7 221 449-798 298-522 (1197)
96 PRK10859 membrane-bound lytic 99.8 5.7E-18 1.2E-22 191.7 18.7 230 444-798 34-268 (482)
97 PF00060 Lig_chan: Ligand-gate 99.7 6.3E-19 1.4E-23 167.3 1.9 107 577-683 1-115 (148)
98 TIGR03870 ABC_MoxJ methanol ox 99.7 8.8E-17 1.9E-21 166.4 17.4 210 454-794 1-241 (246)
99 TIGR02285 conserved hypothetic 99.7 3.8E-16 8.1E-21 164.3 17.0 231 452-798 17-263 (268)
100 COG0834 HisJ ABC-type amino ac 99.7 2.1E-15 4.5E-20 160.2 19.2 227 451-798 32-266 (275)
101 PRK09959 hybrid sensory histid 99.7 7.8E-16 1.7E-20 197.1 15.9 227 444-797 47-278 (1197)
102 cd00134 PBPb Bacterial peripla 99.6 1.1E-14 2.3E-19 148.3 20.8 214 455-795 1-218 (218)
103 smart00062 PBPb Bacterial peri 99.6 9.7E-15 2.1E-19 148.6 19.4 215 454-795 1-219 (219)
104 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 1.4E-14 2.9E-19 149.4 19.3 211 455-796 2-229 (232)
105 cd01391 Periplasmic_Binding_Pr 99.6 3E-13 6.6E-18 142.6 23.9 217 36-272 1-221 (269)
106 COG4623 Predicted soluble lyti 99.5 6.1E-13 1.3E-17 133.7 14.7 241 433-798 2-249 (473)
107 PF04348 LppC: LppC putative l 99.3 4.4E-11 9.5E-16 135.5 19.8 300 33-380 218-524 (536)
108 smart00079 PBPe Eukaryotic hom 99.3 1.4E-11 3E-16 114.6 11.5 123 672-796 1-133 (134)
109 TIGR01098 3A0109s03R phosphate 98.8 7.7E-08 1.7E-12 100.5 15.2 199 452-781 31-254 (254)
110 cd01537 PBP1_Repressors_Sugar_ 98.7 4.5E-07 9.7E-12 95.3 18.8 200 36-258 1-203 (264)
111 PF10613 Lig_chan-Glu_bd: Liga 98.7 5.7E-09 1.2E-13 79.7 3.0 57 467-526 1-65 (65)
112 PRK00489 hisG ATP phosphoribos 98.7 1.6E-07 3.4E-12 98.9 14.6 164 516-797 52-220 (287)
113 cd01536 PBP1_ABC_sugar_binding 98.7 2.1E-06 4.7E-11 90.3 22.4 206 36-268 1-215 (267)
114 cd06267 PBP1_LacI_sugar_bindin 98.7 1.2E-06 2.5E-11 92.2 18.9 197 36-258 1-202 (264)
115 cd06300 PBP1_ABC_sugar_binding 98.6 5.8E-06 1.2E-10 87.4 20.5 204 36-259 1-210 (272)
116 cd06325 PBP1_ABC_uncharacteriz 98.5 5.2E-06 1.1E-10 88.3 20.0 201 36-257 1-208 (281)
117 cd06320 PBP1_allose_binding Pe 98.5 1.9E-05 4.2E-10 83.6 23.1 208 36-267 1-215 (275)
118 COG3107 LppC Putative lipoprot 98.4 1.2E-05 2.7E-10 85.8 18.8 303 33-380 256-586 (604)
119 COG2984 ABC-type uncharacteriz 98.4 8.5E-05 1.8E-09 75.6 23.9 201 33-257 29-240 (322)
120 cd06282 PBP1_GntR_like_2 Ligan 98.4 1.8E-05 3.9E-10 83.2 19.7 194 36-258 1-201 (266)
121 PRK10653 D-ribose transporter 98.4 7.1E-05 1.5E-09 80.1 24.2 209 34-268 26-240 (295)
122 PF13407 Peripla_BP_4: Peripla 98.3 7.5E-05 1.6E-09 78.1 20.0 204 37-260 1-209 (257)
123 cd06323 PBP1_ribose_binding Pe 98.3 0.00014 3E-09 76.6 22.1 207 37-269 2-215 (268)
124 cd06319 PBP1_ABC_sugar_binding 98.2 0.00017 3.7E-09 76.4 21.8 206 36-267 1-218 (277)
125 cd06310 PBP1_ABC_sugar_binding 98.1 0.00046 9.9E-09 72.9 22.9 211 36-269 1-218 (273)
126 cd01545 PBP1_SalR Ligand-bindi 98.1 0.00014 3E-09 76.7 18.8 212 36-269 1-216 (270)
127 cd06309 PBP1_YtfQ_like Peripla 98.1 0.00031 6.7E-09 74.2 21.3 214 36-269 1-222 (273)
128 PRK10936 TMAO reductase system 98.1 0.0016 3.4E-08 71.3 27.0 203 32-258 44-255 (343)
129 cd06273 PBP1_GntR_like_1 This 98.1 0.00015 3.3E-09 76.3 18.4 204 36-267 1-213 (268)
130 cd06317 PBP1_ABC_sugar_binding 98.1 0.00037 7.9E-09 73.7 21.3 211 37-268 2-221 (275)
131 COG1879 RbsB ABC-type sugar tr 98.1 0.0014 3E-08 71.1 25.8 219 34-269 33-254 (322)
132 cd06312 PBP1_ABC_sugar_binding 98.1 0.00056 1.2E-08 72.2 22.1 209 36-267 1-216 (271)
133 cd06289 PBP1_MalI_like Ligand- 98.0 0.00025 5.5E-09 74.6 18.8 210 36-268 1-214 (268)
134 cd06301 PBP1_rhizopine_binding 98.0 0.00074 1.6E-08 71.2 21.9 213 36-269 1-219 (272)
135 cd06305 PBP1_methylthioribose_ 98.0 0.00052 1.1E-08 72.5 20.5 210 36-269 1-218 (273)
136 TIGR03431 PhnD phosphonate ABC 98.0 0.00014 3E-09 77.5 15.1 116 673-791 127-259 (288)
137 cd06311 PBP1_ABC_sugar_binding 98.0 0.0017 3.7E-08 68.5 23.2 204 37-259 2-211 (274)
138 PRK09701 D-allose transporter 97.9 0.0048 1E-07 66.4 26.6 215 36-267 26-249 (311)
139 PF00532 Peripla_BP_1: Peripla 97.9 0.00038 8.2E-09 73.4 17.2 202 36-261 3-209 (279)
140 cd06298 PBP1_CcpA_like Ligand- 97.9 0.00064 1.4E-08 71.5 19.1 208 36-269 1-214 (268)
141 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.00092 2E-08 70.2 19.9 195 37-258 2-201 (267)
142 PRK15395 methyl-galactoside AB 97.8 0.005 1.1E-07 66.9 24.5 209 33-257 23-249 (330)
143 cd06271 PBP1_AglR_RafR_like Li 97.8 0.0013 2.9E-08 69.0 19.5 208 37-268 2-217 (268)
144 cd01539 PBP1_GGBP Periplasmic 97.8 0.0039 8.5E-08 66.9 23.3 218 36-268 1-240 (303)
145 cd06275 PBP1_PurR Ligand-bindi 97.8 0.0013 2.9E-08 69.2 19.3 200 36-258 1-203 (269)
146 cd06308 PBP1_sensor_kinase_lik 97.8 0.0028 6.1E-08 66.7 21.8 210 36-269 1-217 (270)
147 cd06283 PBP1_RegR_EndR_KdgR_li 97.8 0.0023 5E-08 67.2 20.6 199 36-258 1-203 (267)
148 cd06270 PBP1_GalS_like Ligand 97.8 0.0024 5.1E-08 67.2 20.6 208 36-267 1-212 (268)
149 cd06321 PBP1_ABC_sugar_binding 97.8 0.0045 9.8E-08 65.2 22.1 208 36-269 1-215 (271)
150 cd06288 PBP1_sucrose_transcrip 97.7 0.0013 2.9E-08 69.1 17.8 198 36-258 1-202 (269)
151 PRK10355 xylF D-xylose transpo 97.7 0.0089 1.9E-07 64.8 24.5 204 33-258 24-236 (330)
152 cd01542 PBP1_TreR_like Ligand- 97.7 0.0023 5E-08 66.9 19.3 195 37-259 2-199 (259)
153 cd06303 PBP1_LuxPQ_Quorum_Sens 97.7 0.0045 9.7E-08 65.6 21.6 215 36-269 1-225 (280)
154 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0022 4.9E-08 67.3 19.2 207 37-267 2-212 (268)
155 cd06295 PBP1_CelR Ligand bindi 97.7 0.0025 5.5E-08 67.3 19.6 207 35-268 4-222 (275)
156 cd06322 PBP1_ABC_sugar_binding 97.7 0.0071 1.5E-07 63.5 22.7 195 37-257 2-203 (267)
157 cd01574 PBP1_LacI Ligand-bindi 97.7 0.0037 8.1E-08 65.5 20.6 205 36-267 1-209 (264)
158 TIGR01481 ccpA catabolite cont 97.7 0.0035 7.5E-08 68.3 21.0 209 33-267 58-271 (329)
159 cd06296 PBP1_CatR_like Ligand- 97.7 0.0025 5.4E-08 67.1 19.1 209 37-269 2-215 (270)
160 cd06274 PBP1_FruR Ligand bindi 97.7 0.0049 1.1E-07 64.6 21.0 198 37-258 2-203 (264)
161 cd06294 PBP1_ycjW_transcriptio 97.7 0.0024 5.1E-08 67.3 18.7 209 36-267 1-218 (270)
162 cd06299 PBP1_LacI_like_13 Liga 97.7 0.0033 7.1E-08 66.0 19.5 199 36-258 1-200 (265)
163 cd06306 PBP1_TorT-like TorT-li 97.6 0.0078 1.7E-07 63.3 21.5 204 36-266 1-215 (268)
164 cd06278 PBP1_LacI_like_2 Ligan 97.6 0.0042 9.2E-08 65.1 19.5 193 37-256 2-197 (266)
165 cd01538 PBP1_ABC_xylose_bindin 97.6 0.0094 2E-07 63.4 22.3 202 36-259 1-216 (288)
166 cd01540 PBP1_arabinose_binding 97.6 0.0097 2.1E-07 63.3 22.2 216 36-269 1-230 (289)
167 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0026 5.7E-08 66.9 17.5 207 36-267 1-211 (269)
168 PRK15408 autoinducer 2-binding 97.6 0.035 7.5E-07 60.2 26.1 201 35-258 24-234 (336)
169 cd06293 PBP1_LacI_like_11 Liga 97.6 0.0061 1.3E-07 64.1 20.0 199 36-258 1-202 (269)
170 PRK10014 DNA-binding transcrip 97.6 0.0054 1.2E-07 67.1 20.3 203 33-259 63-269 (342)
171 PRK11303 DNA-binding transcrip 97.6 0.0095 2E-07 64.8 21.9 206 34-265 61-271 (328)
172 cd06316 PBP1_ABC_sugar_binding 97.6 0.012 2.7E-07 62.7 22.4 213 36-268 1-219 (294)
173 cd06324 PBP1_ABC_sugar_binding 97.6 0.0097 2.1E-07 63.9 21.3 213 37-268 2-238 (305)
174 PRK10703 DNA-binding transcrip 97.5 0.006 1.3E-07 66.8 20.0 202 34-258 59-264 (341)
175 cd06285 PBP1_LacI_like_7 Ligan 97.5 0.0053 1.2E-07 64.4 18.9 205 36-267 1-210 (265)
176 cd06292 PBP1_LacI_like_10 Liga 97.5 0.0087 1.9E-07 63.1 20.5 200 37-258 2-206 (273)
177 cd06277 PBP1_LacI_like_1 Ligan 97.5 0.0084 1.8E-07 63.0 19.7 207 36-267 1-212 (268)
178 COG1609 PurR Transcriptional r 97.5 0.014 3E-07 63.2 21.3 201 33-260 57-264 (333)
179 cd06313 PBP1_ABC_sugar_binding 97.5 0.019 4.2E-07 60.4 22.1 196 49-267 15-215 (272)
180 TIGR02417 fruct_sucro_rep D-fr 97.5 0.01 2.3E-07 64.4 20.3 210 33-268 59-273 (327)
181 cd06291 PBP1_Qymf_like Ligand 97.4 0.0098 2.1E-07 62.4 19.2 201 36-266 1-207 (265)
182 cd06314 PBP1_tmGBP Periplasmic 97.4 0.037 8.1E-07 58.2 22.9 209 36-269 1-214 (271)
183 cd06318 PBP1_ABC_sugar_binding 97.4 0.031 6.6E-07 59.2 22.0 207 36-265 1-221 (282)
184 cd06290 PBP1_LacI_like_9 Ligan 97.4 0.013 2.9E-07 61.3 18.9 206 36-267 1-211 (265)
185 cd06286 PBP1_CcpB_like Ligand- 97.3 0.014 3.1E-07 60.9 19.1 196 36-258 1-200 (260)
186 PRK10423 transcriptional repre 97.3 0.026 5.6E-07 61.3 21.1 209 33-266 55-269 (327)
187 cd06302 PBP1_LsrB_Quorum_Sensi 97.3 0.059 1.3E-06 57.6 23.2 210 36-266 1-217 (298)
188 TIGR02955 TMAO_TorT TMAO reduc 97.3 0.05 1.1E-06 58.1 22.6 204 36-265 1-214 (295)
189 cd06272 PBP1_hexuronate_repres 97.3 0.015 3.3E-07 60.7 18.0 203 36-267 1-207 (261)
190 cd06279 PBP1_LacI_like_3 Ligan 97.2 0.023 5E-07 60.3 18.9 203 37-267 2-230 (283)
191 PRK11553 alkanesulfonate trans 97.2 0.0034 7.4E-08 67.7 12.5 69 673-744 121-193 (314)
192 cd01541 PBP1_AraR Ligand-bindi 97.2 0.023 5E-07 59.9 18.4 199 37-260 2-210 (273)
193 PRK10727 DNA-binding transcrip 97.2 0.042 9E-07 60.2 21.0 209 33-266 58-271 (343)
194 cd06307 PBP1_uncharacterized_s 97.2 0.1 2.2E-06 55.0 23.2 212 36-268 1-219 (275)
195 PF12974 Phosphonate-bd: ABC t 97.1 0.01 2.2E-07 61.3 14.6 120 672-794 96-230 (243)
196 TIGR01729 taurine_ABC_bnd taur 97.0 0.0048 1E-07 66.1 11.7 69 673-744 92-164 (300)
197 PRK10401 DNA-binding transcrip 97.0 0.069 1.5E-06 58.5 21.1 209 33-266 58-271 (346)
198 PRK09526 lacI lac repressor; R 97.0 0.073 1.6E-06 58.2 21.2 206 34-266 63-274 (342)
199 cd01543 PBP1_XylR Ligand-bindi 97.0 0.041 9E-07 57.6 18.5 204 36-268 1-207 (265)
200 cd06304 PBP1_BmpA_like Peripla 97.0 0.042 9.2E-07 57.4 18.3 200 36-256 1-202 (260)
201 cd06280 PBP1_LacI_like_4 Ligan 97.0 0.049 1.1E-06 57.0 18.7 201 36-266 1-206 (263)
202 TIGR02634 xylF D-xylose ABC tr 97.0 0.082 1.8E-06 56.6 20.6 199 37-258 1-209 (302)
203 PRK09492 treR trehalose repres 97.0 0.082 1.8E-06 57.0 20.6 190 34-257 62-256 (315)
204 PF04392 ABC_sub_bind: ABC tra 96.9 0.042 9.1E-07 58.5 17.8 186 36-242 1-194 (294)
205 cd06297 PBP1_LacI_like_12 Liga 96.9 0.057 1.2E-06 56.7 18.4 202 37-267 2-215 (269)
206 PRK11041 DNA-binding transcrip 96.9 0.093 2E-06 56.4 20.4 201 33-258 34-238 (309)
207 PRK14987 gluconate operon tran 96.8 0.1 2.2E-06 56.7 20.2 200 34-259 63-265 (331)
208 TIGR02637 RhaS rhamnose ABC tr 96.6 0.45 9.8E-06 50.9 23.0 201 37-259 1-211 (302)
209 cd06354 PBP1_BmpA_PnrA_like Pe 96.6 0.17 3.7E-06 52.9 19.2 196 36-256 1-206 (265)
210 cd06315 PBP1_ABC_sugar_binding 96.4 0.3 6.4E-06 51.6 19.9 206 36-259 2-215 (280)
211 TIGR03427 ABC_peri_uca ABC tra 96.4 0.021 4.5E-07 61.2 10.5 70 673-744 98-170 (328)
212 cd01544 PBP1_GalR Ligand-bindi 96.4 0.17 3.6E-06 53.2 17.3 198 36-268 1-215 (270)
213 TIGR02405 trehalos_R_Ecol treh 96.3 0.38 8.3E-06 51.7 20.1 190 34-257 59-253 (311)
214 PF13379 NMT1_2: NMT1-like fam 96.2 0.018 3.9E-07 59.8 8.9 73 673-745 106-188 (252)
215 COG4213 XylF ABC-type xylose t 95.8 1.4 3.1E-05 45.1 19.3 205 33-260 24-244 (341)
216 COG1744 Med Uncharacterized AB 95.4 2.5 5.4E-05 45.7 21.2 207 33-259 34-246 (345)
217 cd06287 PBP1_LacI_like_8 Ligan 95.3 1.7 3.7E-05 45.5 19.5 180 49-259 23-204 (269)
218 PF14503 YhfZ_C: YhfZ C-termin 95.3 0.055 1.2E-06 53.5 7.3 188 486-796 25-225 (232)
219 PF09084 NMT1: NMT1/THI5 like; 95.1 0.2 4.4E-06 50.5 11.3 59 673-733 85-146 (216)
220 cd06353 PBP1_BmpA_Med_like Per 95.0 1.7 3.8E-05 45.0 18.1 197 36-257 1-201 (258)
221 COG3221 PhnD ABC-type phosphat 94.6 0.87 1.9E-05 47.8 14.5 112 670-783 133-260 (299)
222 TIGR01728 SsuA_fam ABC transpo 94.2 0.61 1.3E-05 49.3 12.8 68 673-744 93-165 (288)
223 TIGR02122 TRAP_TAXI TRAP trans 93.8 0.27 5.7E-06 53.2 9.3 41 492-535 48-89 (320)
224 PRK11480 tauA taurine transpor 93.8 0.26 5.7E-06 53.1 9.1 65 672-739 113-181 (320)
225 PF03466 LysR_substrate: LysR 93.5 1.4 3E-05 43.6 13.4 181 489-783 19-206 (209)
226 PRK10339 DNA-binding transcrip 92.6 7.3 0.00016 42.1 18.3 154 96-268 113-270 (327)
227 PF07885 Ion_trans_2: Ion chan 92.5 0.42 9.1E-06 39.1 6.3 54 612-665 23-78 (79)
228 PF12727 PBP_like: PBP superfa 92.3 1.9 4.2E-05 42.3 11.8 103 672-781 82-192 (193)
229 TIGR00363 lipoprotein, YaeC fa 91.9 2.5 5.3E-05 43.6 12.5 121 672-794 107-250 (258)
230 cd05466 PBP2_LTTR_substrate Th 91.7 7.2 0.00016 37.4 15.6 70 489-566 13-83 (197)
231 PRK11151 DNA-binding transcrip 91.5 7.3 0.00016 41.6 16.4 70 489-566 104-174 (305)
232 cd08440 PBP2_LTTR_like_4 TThe 90.8 13 0.00029 35.6 16.6 71 488-566 12-83 (197)
233 PF12683 DUF3798: Protein of u 90.8 21 0.00045 36.3 17.7 209 34-257 2-224 (275)
234 cd06276 PBP1_FucR_like Ligand- 90.8 16 0.00034 37.6 17.6 189 37-266 2-196 (247)
235 TIGR02990 ectoine_eutA ectoine 90.5 2 4.2E-05 43.7 10.0 97 154-257 107-207 (239)
236 PRK12684 transcriptional regul 90.5 12 0.00026 40.2 16.9 193 489-797 106-306 (313)
237 PRK11063 metQ DL-methionine tr 90.4 4.8 0.0001 42.0 13.1 121 672-793 120-262 (271)
238 CHL00180 rbcR LysR transcripti 90.1 14 0.00029 39.5 16.9 73 489-566 108-181 (305)
239 COG1910 Periplasmic molybdate- 90.0 1.8 3.9E-05 42.0 8.5 108 673-787 89-203 (223)
240 cd08459 PBP2_DntR_NahR_LinR_li 89.4 9.7 0.00021 37.1 14.3 70 489-566 13-83 (201)
241 PRK09791 putative DNA-binding 89.3 12 0.00026 39.8 15.8 72 489-566 108-180 (302)
242 cd08418 PBP2_TdcA The C-termin 89.1 22 0.00048 34.3 16.9 73 488-566 12-85 (201)
243 PRK10837 putative DNA-binding 89.1 19 0.00042 37.9 17.1 70 489-566 102-172 (290)
244 cd08466 PBP2_LeuO The C-termin 89.1 11 0.00024 36.6 14.4 70 489-566 13-83 (200)
245 PRK12679 cbl transcriptional r 88.9 21 0.00046 38.3 17.4 195 488-797 105-307 (316)
246 cd08421 PBP2_LTTR_like_1 The C 88.8 17 0.00037 35.1 15.5 70 489-566 13-83 (198)
247 cd08468 PBP2_Pa0477 The C-term 88.8 13 0.00028 36.4 14.7 74 488-566 12-86 (202)
248 cd06353 PBP1_BmpA_Med_like Per 88.5 5 0.00011 41.6 11.7 88 36-130 122-209 (258)
249 cd08412 PBP2_PAO1_like The C-t 88.5 20 0.00044 34.5 15.8 71 488-566 12-83 (198)
250 PF13377 Peripla_BP_3: Peripla 88.4 2.5 5.4E-05 39.9 8.7 102 159-268 1-104 (160)
251 PF02608 Bmp: Basic membrane p 88.2 34 0.00073 36.5 18.1 204 35-258 2-213 (306)
252 TIGR00035 asp_race aspartate r 88.2 4.5 9.8E-05 41.0 10.9 45 81-126 59-103 (229)
253 cd08462 PBP2_NodD The C-termin 88.2 10 0.00022 37.1 13.4 69 489-566 13-82 (200)
254 cd08426 PBP2_LTTR_like_5 The C 87.8 25 0.00055 33.9 16.1 70 489-566 13-83 (199)
255 TIGR00787 dctP tripartite ATP- 87.6 11 0.00024 39.0 13.7 102 671-781 126-230 (257)
256 PRK12681 cysB transcriptional 87.5 15 0.00034 39.5 15.2 71 489-566 106-177 (324)
257 PF13531 SBP_bac_11: Bacterial 87.4 3 6.5E-05 42.4 9.2 189 486-784 8-218 (230)
258 cd08442 PBP2_YofA_SoxR_like Th 87.3 17 0.00038 34.8 14.5 70 489-566 13-83 (193)
259 cd08463 PBP2_DntR_like_4 The C 87.3 20 0.00044 35.1 15.0 72 488-566 12-84 (203)
260 cd08433 PBP2_Nac The C-teminal 86.6 26 0.00057 33.8 15.4 70 489-566 13-83 (198)
261 PRK11233 nitrogen assimilation 86.6 14 0.00031 39.3 14.3 68 489-564 105-173 (305)
262 cd08419 PBP2_CbbR_RubisCO_like 86.4 32 0.00069 33.0 17.1 69 489-565 12-81 (197)
263 PRK10200 putative racemase; Pr 86.2 19 0.00042 36.4 14.0 88 80-201 58-146 (230)
264 cd08420 PBP2_CysL_like C-termi 86.1 26 0.00057 33.6 15.1 71 488-566 12-83 (201)
265 PF03480 SBP_bac_7: Bacterial 86.0 25 0.00054 37.1 15.5 89 670-767 125-214 (286)
266 cd08415 PBP2_LysR_opines_like 85.6 35 0.00075 32.7 16.8 70 488-565 12-82 (196)
267 cd08438 PBP2_CidR The C-termin 85.6 33 0.00071 32.9 15.5 71 488-566 12-83 (197)
268 PRK10341 DNA-binding transcrip 85.4 26 0.00057 37.4 15.6 72 489-566 110-182 (312)
269 cd08417 PBP2_Nitroaromatics_li 85.2 20 0.00043 34.7 13.7 70 489-566 13-83 (200)
270 PRK11242 DNA-binding transcrip 85.2 29 0.00062 36.7 15.8 71 488-566 103-174 (296)
271 PF03401 TctC: Tripartite tric 84.7 14 0.0003 38.7 12.6 120 672-793 89-241 (274)
272 cd08461 PBP2_DntR_like_3 The C 84.6 23 0.00049 34.2 13.8 70 488-565 12-82 (198)
273 COG2358 Imp TRAP-type uncharac 84.4 4.4 9.4E-05 42.6 8.4 46 486-534 38-84 (321)
274 COG0725 ModA ABC-type molybdat 84.4 25 0.00053 36.3 13.8 177 493-780 46-242 (258)
275 TIGR01256 modA molybdenum ABC 84.2 11 0.00024 37.7 11.4 73 708-782 131-204 (216)
276 TIGR02424 TF_pcaQ pca operon t 84.0 28 0.0006 36.9 15.0 72 489-566 106-178 (300)
277 cd08425 PBP2_CynR The C-termin 83.4 41 0.0009 32.3 15.1 70 489-566 14-84 (197)
278 cd08435 PBP2_GbpR The C-termin 83.0 46 0.00099 32.0 16.4 72 489-566 13-85 (201)
279 COG0715 TauA ABC-type nitrate/ 82.7 4.9 0.00011 43.6 8.7 72 672-745 127-202 (335)
280 cd08444 PBP2_Cbl The C-termina 82.1 49 0.0011 32.0 15.0 72 488-566 12-84 (198)
281 cd08411 PBP2_OxyR The C-termin 82.1 43 0.00092 32.3 14.6 69 489-565 14-83 (200)
282 cd08413 PBP2_CysB_like The C-t 82.0 46 0.001 32.2 14.8 72 488-566 12-84 (198)
283 cd08434 PBP2_GltC_like The sub 81.7 49 0.0011 31.5 14.9 70 489-566 13-83 (195)
284 PRK12680 transcriptional regul 81.3 80 0.0017 34.0 17.3 71 489-566 106-177 (327)
285 cd08467 PBP2_SyrM The C-termin 81.1 41 0.00089 32.6 14.1 71 488-566 12-83 (200)
286 PRK12682 transcriptional regul 80.8 48 0.001 35.3 15.4 72 488-566 105-177 (309)
287 cd08460 PBP2_DntR_like_1 The C 80.6 18 0.00039 35.1 11.3 70 488-566 12-82 (200)
288 cd08441 PBP2_MetR The C-termin 79.5 61 0.0013 31.2 15.5 69 490-566 14-83 (198)
289 cd08464 PBP2_DntR_like_2 The C 79.3 39 0.00085 32.5 13.3 69 489-565 13-82 (200)
290 cd08427 PBP2_LTTR_like_2 The C 78.7 58 0.0013 31.1 14.2 73 488-566 12-85 (195)
291 COG1464 NlpA ABC-type metal io 77.7 10 0.00022 38.5 7.9 75 1-87 1-75 (268)
292 COG1638 DctP TRAP-type C4-dica 77.3 51 0.0011 35.5 13.8 102 672-785 158-265 (332)
293 PF02608 Bmp: Basic membrane p 77.3 9.5 0.0002 40.7 8.4 90 36-130 128-222 (306)
294 PRK09861 cytoplasmic membrane 77.2 37 0.0008 35.4 12.4 122 671-794 120-264 (272)
295 PF06506 PrpR_N: Propionate ca 77.1 47 0.001 32.0 12.4 130 80-259 17-146 (176)
296 PRK09860 putative alcohol dehy 77.0 16 0.00034 40.5 10.2 89 155-250 19-108 (383)
297 PF03808 Glyco_tran_WecB: Glyc 77.0 36 0.00078 32.6 11.5 100 152-269 34-135 (172)
298 PRK11482 putative DNA-binding 77.0 66 0.0014 34.5 15.0 68 489-566 130-198 (317)
299 cd08423 PBP2_LTTR_like_6 The C 76.9 69 0.0015 30.6 14.2 73 489-566 13-88 (200)
300 cd08465 PBP2_ToxR The C-termin 76.5 39 0.00084 32.8 12.3 70 488-565 12-82 (200)
301 PRK12683 transcriptional regul 76.4 92 0.002 33.2 15.9 71 489-566 106-177 (309)
302 PRK11074 putative DNA-binding 75.4 41 0.00088 35.7 12.8 72 489-566 105-177 (300)
303 COG1454 EutG Alcohol dehydroge 75.2 15 0.00032 40.0 9.0 93 155-254 17-110 (377)
304 PRK09508 leuO leucine transcri 74.8 32 0.00069 36.8 11.8 70 489-566 125-195 (314)
305 PF01177 Asp_Glu_race: Asp/Glu 74.7 21 0.00046 35.7 9.8 123 94-255 62-199 (216)
306 cd08469 PBP2_PnbR The C-termin 73.9 62 0.0013 31.9 13.2 70 489-566 13-83 (221)
307 TIGR01098 3A0109s03R phosphate 73.7 8.7 0.00019 39.6 6.9 92 1-104 1-92 (254)
308 PRK14498 putative molybdopteri 73.5 39 0.00084 40.4 13.0 104 673-784 513-624 (633)
309 cd08189 Fe-ADH5 Iron-containin 73.2 1.5E+02 0.0033 32.6 18.5 90 155-251 14-104 (374)
310 cd06533 Glyco_transf_WecG_TagA 72.6 52 0.0011 31.5 11.3 101 151-269 31-133 (171)
311 cd08414 PBP2_LTTR_aromatics_li 72.6 90 0.0019 29.7 15.3 70 489-566 13-83 (197)
312 PRK15421 DNA-binding transcrip 72.4 1.2E+02 0.0026 32.5 15.5 69 490-566 103-172 (317)
313 cd08192 Fe-ADH7 Iron-containin 72.4 25 0.00054 38.7 10.4 91 155-252 12-103 (370)
314 cd08430 PBP2_IlvY The C-termin 72.1 94 0.002 29.7 15.5 71 488-565 12-83 (199)
315 cd08429 PBP2_NhaR The C-termin 70.3 1.1E+02 0.0024 29.8 17.0 71 488-563 12-83 (204)
316 PRK10094 DNA-binding transcrip 69.8 94 0.002 33.1 14.0 71 490-566 107-178 (308)
317 KOG1419 Voltage-gated K+ chann 69.4 9 0.0002 42.5 5.7 88 579-666 235-324 (654)
318 cd08437 PBP2_MleR The substrat 68.6 1.1E+02 0.0024 29.2 15.7 72 489-566 13-85 (198)
319 PRK15454 ethanol dehydrogenase 68.0 23 0.00049 39.4 8.8 76 155-237 37-112 (395)
320 PF13685 Fe-ADH_2: Iron-contai 67.8 26 0.00056 35.9 8.5 91 157-257 9-100 (250)
321 COG1794 RacX Aspartate racemas 67.4 1.4E+02 0.003 29.7 13.8 132 80-259 58-191 (230)
322 PRK11063 metQ DL-methionine tr 67.3 16 0.00034 38.2 7.0 46 33-86 31-76 (271)
323 PRK11062 nhaR transcriptional 67.3 1.4E+02 0.003 31.5 14.6 72 488-564 105-177 (296)
324 COG1744 Med Uncharacterized AB 67.0 75 0.0016 34.5 12.3 75 34-112 161-235 (345)
325 PRK10624 L-1,2-propanediol oxi 67.0 26 0.00055 38.8 9.0 76 155-237 18-93 (382)
326 cd08448 PBP2_LTTR_aromatics_li 66.7 1.2E+02 0.0026 28.8 14.7 70 488-565 12-82 (197)
327 cd08436 PBP2_LTTR_like_3 The C 66.6 1.2E+02 0.0026 28.7 17.1 71 489-566 13-84 (194)
328 COG0426 FpaA Uncharacterized f 66.4 2E+02 0.0044 31.4 16.0 149 35-204 213-363 (388)
329 PRK15424 propionate catabolism 66.2 85 0.0018 36.3 13.1 129 81-259 48-176 (538)
330 cd08190 HOT Hydroxyacid-oxoaci 65.9 26 0.00056 39.2 8.9 76 155-237 11-86 (414)
331 TIGR02329 propionate_PrpR prop 65.9 91 0.002 36.0 13.3 130 80-259 37-166 (526)
332 PRK05452 anaerobic nitric oxid 65.9 90 0.002 35.6 13.3 143 101-271 198-349 (479)
333 cd08449 PBP2_XapR The C-termin 65.5 1.3E+02 0.0027 28.7 14.3 71 489-565 13-84 (197)
334 PLN03192 Voltage-dependent pot 64.8 13 0.00029 45.9 6.9 54 613-666 250-305 (823)
335 PRK11013 DNA-binding transcrip 64.0 2E+02 0.0043 30.6 15.1 70 489-566 107-177 (309)
336 cd08551 Fe-ADH iron-containing 64.0 33 0.00071 37.8 9.2 89 155-250 11-100 (370)
337 TIGR00212 hemC porphobilinogen 63.9 1.1E+02 0.0023 32.1 12.0 58 674-737 109-168 (292)
338 cd08193 HVD 5-hydroxyvalerate 63.5 31 0.00068 38.0 8.9 75 156-237 15-89 (376)
339 KOG3857 Alcohol dehydrogenase, 63.4 41 0.00088 35.3 8.6 92 139-237 38-133 (465)
340 cd08194 Fe-ADH6 Iron-containin 63.3 33 0.00072 37.8 9.0 76 155-237 11-86 (375)
341 PF13407 Peripla_BP_4: Peripla 63.3 16 0.00034 37.7 6.3 79 170-257 1-81 (257)
342 TIGR02638 lactal_redase lactal 63.1 31 0.00068 38.0 8.8 76 155-237 17-92 (379)
343 PRK10537 voltage-gated potassi 63.1 19 0.00042 39.7 7.0 54 611-664 166-221 (393)
344 cd08443 PBP2_CysB The C-termin 62.5 1.5E+02 0.0033 28.5 14.9 72 488-566 12-84 (198)
345 cd08185 Fe-ADH1 Iron-containin 62.4 46 0.001 36.8 10.0 88 156-251 15-104 (380)
346 cd06354 PBP1_BmpA_PnrA_like Pe 62.1 1.4E+02 0.0031 30.7 13.3 124 34-163 121-244 (265)
347 PRK10677 modA molybdate transp 61.1 1.1E+02 0.0024 31.6 11.9 74 489-566 39-118 (257)
348 COG4143 TbpA ABC-type thiamine 60.8 1.3E+02 0.0029 31.7 11.8 135 1-178 1-140 (336)
349 PRK01066 porphobilinogen deami 60.7 1.5E+02 0.0032 29.8 11.7 57 674-736 124-182 (231)
350 PRK11716 DNA-binding transcrip 60.7 2E+02 0.0044 29.5 14.2 69 489-564 80-149 (269)
351 cd00494 HMBS Hydroxymethylbila 59.4 1.3E+02 0.0028 31.5 11.7 59 674-737 109-168 (292)
352 COG0426 FpaA Uncharacterized f 58.4 1.8E+02 0.0039 31.8 12.9 144 100-272 194-343 (388)
353 TIGR03298 argP transcriptional 56.5 2.6E+02 0.0056 29.3 14.8 65 492-564 106-170 (292)
354 cd08188 Fe-ADH4 Iron-containin 56.4 51 0.0011 36.4 9.0 76 155-237 16-91 (377)
355 PRK15408 autoinducer 2-binding 55.9 37 0.0008 36.8 7.6 83 166-257 22-106 (336)
356 PF04392 ABC_sub_bind: ABC tra 55.8 71 0.0015 33.8 9.7 114 34-164 131-247 (294)
357 PRK00865 glutamate racemase; P 55.6 1.2E+02 0.0027 31.3 11.1 38 88-126 59-96 (261)
358 cd08450 PBP2_HcaR The C-termin 55.5 1.8E+02 0.004 27.5 12.2 70 489-566 13-83 (196)
359 PRK00072 hemC porphobilinogen 55.2 1.8E+02 0.0039 30.6 11.9 59 674-737 113-172 (295)
360 cd08176 LPO Lactadehyde:propan 54.6 45 0.00097 36.8 8.1 76 155-237 16-91 (377)
361 PRK03601 transcriptional regul 54.5 2.7E+02 0.0058 28.9 14.3 70 488-565 101-171 (275)
362 cd06305 PBP1_methylthioribose_ 54.4 41 0.0009 34.8 7.7 79 170-258 2-82 (273)
363 cd08191 HHD 6-hydroxyhexanoate 54.2 62 0.0013 35.9 9.2 74 156-237 12-85 (386)
364 cd08416 PBP2_MdcR The C-termin 54.0 2E+02 0.0044 27.3 15.3 73 488-566 12-85 (199)
365 cd08456 PBP2_LysR The C-termin 53.9 2E+02 0.0043 27.2 15.5 70 488-565 12-82 (196)
366 PF00465 Fe-ADH: Iron-containi 53.2 33 0.00072 37.7 6.9 89 156-254 12-102 (366)
367 PF01634 HisG: ATP phosphoribo 53.0 55 0.0012 31.0 7.2 101 673-782 58-160 (163)
368 PF07287 DUF1446: Protein of u 52.4 2.1E+02 0.0046 31.1 12.4 88 70-178 23-111 (362)
369 cd06304 PBP1_BmpA_like Peripla 52.2 2.1E+02 0.0045 29.4 12.4 129 35-172 121-249 (260)
370 PRK15395 methyl-galactoside AB 51.8 1.7E+02 0.0037 31.4 12.1 124 33-164 161-293 (330)
371 COG3473 Maleate cis-trans isom 51.6 2.5E+02 0.0053 27.6 13.9 95 156-257 107-205 (238)
372 PRK03635 chromosome replicatio 51.0 3E+02 0.0064 28.9 13.7 66 491-564 105-170 (294)
373 TIGR00696 wecB_tagA_cpsF bacte 50.5 2.2E+02 0.0047 27.4 11.0 88 152-255 34-123 (177)
374 cd08453 PBP2_IlvR The C-termin 50.3 2.3E+02 0.005 26.9 15.7 73 489-566 13-86 (200)
375 COG3919 Predicted ATP-grasp en 50.1 3.1E+02 0.0068 28.4 16.5 93 99-196 6-98 (415)
376 cd08181 PPD-like 1,3-propanedi 50.0 72 0.0016 34.9 8.8 75 156-237 15-89 (357)
377 PRK00945 acetyl-CoA decarbonyl 49.8 91 0.002 29.7 8.1 47 81-130 23-72 (171)
378 cd06312 PBP1_ABC_sugar_binding 49.7 47 0.001 34.4 7.1 80 169-257 1-83 (271)
379 cd08451 PBP2_BudR The C-termin 49.6 2.3E+02 0.0051 26.8 15.1 69 490-565 15-84 (199)
380 cd08486 PBP2_CbnR The C-termin 49.0 2.5E+02 0.0054 26.9 13.2 70 489-566 14-84 (198)
381 PRK03692 putative UDP-N-acetyl 48.1 2.2E+02 0.0048 29.1 11.2 89 152-255 91-180 (243)
382 PRK13348 chromosome replicatio 47.8 3.5E+02 0.0076 28.3 15.3 64 493-564 107-170 (294)
383 cd08458 PBP2_NocR The C-termin 47.5 2.6E+02 0.0056 26.6 16.4 69 489-565 13-82 (196)
384 TIGR02122 TRAP_TAXI TRAP trans 47.4 3.2E+02 0.0068 29.0 13.4 39 1-44 1-41 (320)
385 cd06301 PBP1_rhizopine_binding 47.4 51 0.0011 34.1 7.0 79 169-257 1-82 (272)
386 PRK09986 DNA-binding transcrip 47.2 3.6E+02 0.0077 28.2 17.4 72 489-566 110-182 (294)
387 COG4521 TauA ABC-type taurine 47.1 1.6E+02 0.0034 29.6 9.2 105 672-780 121-238 (334)
388 PF02401 LYTB: LytB protein; 46.9 1.3E+02 0.0028 31.4 9.4 88 36-130 156-244 (281)
389 PF13377 Peripla_BP_3: Peripla 46.0 1.6E+02 0.0034 27.3 9.6 119 36-164 11-136 (160)
390 TIGR00067 glut_race glutamate 45.5 1.3E+02 0.0028 31.0 9.2 131 88-242 52-182 (251)
391 TIGR00315 cdhB CO dehydrogenas 44.9 1.7E+02 0.0037 27.6 9.1 47 81-130 16-64 (162)
392 PRK11921 metallo-beta-lactamas 44.7 2.3E+02 0.0049 31.5 11.8 142 101-270 194-344 (394)
393 TIGR03339 phn_lysR aminoethylp 43.9 3.8E+02 0.0083 27.6 17.5 69 490-566 98-167 (279)
394 cd08170 GlyDH Glycerol dehydro 43.6 74 0.0016 34.7 7.7 72 156-237 12-83 (351)
395 cd08445 PBP2_BenM_CatM_CatR Th 43.0 3.1E+02 0.0067 26.2 14.4 71 488-566 13-84 (203)
396 COG2984 ABC-type uncharacteriz 42.5 2.7E+02 0.0058 29.5 10.7 114 34-164 159-275 (322)
397 cd08187 BDH Butanol dehydrogen 42.2 93 0.002 34.4 8.2 75 156-237 18-92 (382)
398 cd08428 PBP2_IciA_ArgP The C-t 41.5 3.1E+02 0.0068 25.9 14.0 67 490-564 14-80 (195)
399 cd01536 PBP1_ABC_sugar_binding 41.4 3.7E+02 0.0081 27.2 12.5 122 33-163 120-249 (267)
400 PLN02821 1-hydroxy-2-methyl-2- 41.3 1.3E+02 0.0028 33.5 8.7 91 35-127 299-394 (460)
401 cd08485 PBP2_ClcR The C-termin 41.2 97 0.0021 29.9 7.6 69 489-565 14-83 (198)
402 cd01538 PBP1_ABC_xylose_bindin 41.0 77 0.0017 33.2 7.2 78 170-257 2-81 (288)
403 PRK14174 bifunctional 5,10-met 40.7 4.6E+02 0.01 27.6 14.5 150 36-201 33-190 (295)
404 PRK09423 gldA glycerol dehydro 40.7 97 0.0021 34.0 8.0 73 155-237 18-90 (366)
405 cd08186 Fe-ADH8 Iron-containin 39.8 1E+02 0.0023 34.0 8.2 89 156-250 12-104 (383)
406 PLN02691 porphobilinogen deami 39.8 1.5E+02 0.0032 31.8 8.7 58 674-737 156-215 (351)
407 PF15179 Myc_target_1: Myc tar 39.6 42 0.00091 31.6 4.0 37 811-847 13-50 (197)
408 PRK07475 hypothetical protein; 39.1 1.8E+02 0.004 29.7 9.2 47 79-126 60-106 (245)
409 PRK07377 hypothetical protein; 39.1 69 0.0015 30.5 5.4 45 487-534 91-135 (184)
410 cd08171 GlyDH-like2 Glycerol d 39.1 1.2E+02 0.0025 33.1 8.2 73 156-237 12-84 (345)
411 cd00578 L-fuc_L-ara-isomerases 39.0 5.2E+02 0.011 29.3 13.8 75 51-130 21-97 (452)
412 PLN02245 ATP phosphoribosyl tr 38.6 4.3E+02 0.0093 29.1 12.0 104 673-782 179-295 (403)
413 cd08457 PBP2_OccR The C-termin 38.5 3.5E+02 0.0076 25.6 15.4 69 489-565 13-82 (196)
414 cd08446 PBP2_Chlorocatechol Th 38.2 1E+02 0.0022 29.5 7.1 70 489-566 14-84 (198)
415 cd08432 PBP2_GcdR_TrpI_HvrB_Am 38.1 1.8E+02 0.0039 27.4 9.0 65 489-564 13-78 (194)
416 cd06316 PBP1_ABC_sugar_binding 38.0 74 0.0016 33.5 6.5 80 169-257 1-82 (294)
417 PF01379 Porphobil_deam: Porph 37.8 1.1E+02 0.0024 30.4 6.9 62 673-738 111-172 (215)
418 PF06305 DUF1049: Protein of u 37.7 35 0.00077 26.6 3.0 19 824-842 26-44 (68)
419 cd06287 PBP1_LacI_like_8 Ligan 37.7 3.6E+02 0.0078 27.8 11.6 122 35-164 119-246 (269)
420 cd06302 PBP1_LsrB_Quorum_Sensi 37.7 96 0.0021 32.8 7.3 79 170-257 2-82 (298)
421 cd06310 PBP1_ABC_sugar_binding 37.7 88 0.0019 32.3 7.0 81 169-257 1-83 (273)
422 cd06300 PBP1_ABC_sugar_binding 37.6 1.3E+02 0.0028 31.0 8.3 81 169-257 1-86 (272)
423 cd08182 HEPD Hydroxyethylphosp 37.5 1.5E+02 0.0032 32.6 8.9 86 156-251 12-98 (367)
424 PRK09189 uroporphyrinogen-III 37.5 1.7E+02 0.0037 29.7 8.8 88 154-255 103-192 (240)
425 cd08481 PBP2_GcdR_like The C-t 37.4 3E+02 0.0065 25.9 10.4 64 711-777 125-190 (194)
426 cd00755 YgdL_like Family of ac 37.1 2.8E+02 0.0061 28.1 10.0 118 45-178 60-183 (231)
427 cd01540 PBP1_arabinose_binding 37.0 75 0.0016 33.2 6.4 77 170-257 2-80 (289)
428 PF02602 HEM4: Uroporphyrinoge 36.8 73 0.0016 32.1 6.0 93 148-255 97-190 (231)
429 TIGR00363 lipoprotein, YaeC fa 36.8 78 0.0017 32.7 6.1 55 33-102 18-72 (258)
430 COG0181 HemC Porphobilinogen d 36.6 1.1E+02 0.0023 32.1 6.8 57 675-735 113-169 (307)
431 cd06318 PBP1_ABC_sugar_binding 36.5 88 0.0019 32.5 6.8 78 170-257 2-81 (282)
432 cd02071 MM_CoA_mut_B12_BD meth 36.5 3E+02 0.0066 24.4 9.2 64 183-258 13-80 (122)
433 cd01537 PBP1_Repressors_Sugar_ 36.4 96 0.0021 31.5 7.0 78 169-257 1-80 (264)
434 cd06322 PBP1_ABC_sugar_binding 36.4 1.1E+02 0.0023 31.5 7.4 78 170-257 2-81 (267)
435 PF13380 CoA_binding_2: CoA bi 36.3 57 0.0012 28.9 4.3 89 168-269 1-89 (116)
436 PF00205 TPP_enzyme_M: Thiamin 36.1 79 0.0017 28.8 5.5 68 92-164 8-77 (137)
437 cd06325 PBP1_ABC_uncharacteriz 36.1 3.5E+02 0.0076 27.8 11.3 115 33-164 130-247 (281)
438 COG1609 PurR Transcriptional r 35.9 3.9E+02 0.0085 28.8 11.7 123 35-164 176-305 (333)
439 cd06320 PBP1_allose_binding Pe 35.6 1.1E+02 0.0025 31.5 7.5 80 170-257 2-83 (275)
440 PRK10852 thiosulfate transport 35.5 5.1E+02 0.011 28.0 12.3 19 716-734 199-217 (338)
441 PRK10936 TMAO reductase system 35.5 1.4E+02 0.003 32.4 8.3 82 167-257 46-129 (343)
442 cd06324 PBP1_ABC_sugar_binding 35.5 2.8E+02 0.006 29.3 10.5 83 33-121 141-225 (305)
443 cd06267 PBP1_LacI_sugar_bindin 35.5 86 0.0019 31.9 6.5 77 170-258 2-80 (264)
444 cd01539 PBP1_GGBP Periplasmic 35.4 1.1E+02 0.0025 32.3 7.5 79 169-257 1-83 (303)
445 COG3340 PepE Peptidase E [Amin 34.9 2.4E+02 0.0051 27.9 8.4 87 155-257 21-107 (224)
446 PF15050 SCIMP: SCIMP protein 34.5 2.4E+02 0.0053 24.6 7.4 10 828-837 19-28 (133)
447 cd06306 PBP1_TorT-like TorT-li 34.4 1.1E+02 0.0025 31.5 7.2 80 169-257 1-82 (268)
448 KOG3713 Voltage-gated K+ chann 34.4 44 0.00095 37.0 3.9 59 592-654 360-420 (477)
449 cd01994 Alpha_ANH_like_IV This 34.2 4.6E+02 0.0099 25.7 10.8 101 109-241 46-146 (194)
450 PRK01045 ispH 4-hydroxy-3-meth 34.0 1.9E+02 0.004 30.6 8.3 55 72-126 186-241 (298)
451 cd06321 PBP1_ABC_sugar_binding 33.9 5E+02 0.011 26.5 12.0 122 34-163 121-250 (271)
452 COG0796 MurI Glutamate racemas 33.9 4.8E+02 0.01 27.0 10.9 41 87-128 58-98 (269)
453 PF14981 FAM165: FAM165 family 33.9 55 0.0012 22.9 2.8 32 816-847 3-34 (51)
454 cd06307 PBP1_uncharacterized_s 33.6 1.3E+02 0.0027 31.2 7.3 82 169-257 1-84 (275)
455 cd06303 PBP1_LuxPQ_Quorum_Sens 33.6 1.2E+02 0.0025 31.7 7.1 81 170-257 2-85 (280)
456 PRK13583 hisG ATP phosphoribos 33.6 5.1E+02 0.011 26.1 12.4 47 518-564 55-107 (228)
457 TIGR03850 bind_CPR_0540 carboh 33.4 1.4E+02 0.0029 33.7 8.1 24 53-76 48-71 (437)
458 COG3221 PhnD ABC-type phosphat 32.9 6.2E+02 0.013 26.8 15.3 197 1-237 1-203 (299)
459 cd06291 PBP1_Qymf_like Ligand 32.9 3.7E+02 0.008 27.4 10.8 120 35-164 113-241 (265)
460 PF12273 RCR: Chitin synthesis 32.8 41 0.0009 30.5 3.0 24 823-846 2-25 (130)
461 cd08178 AAD_C C-terminal alcoh 32.6 1.8E+02 0.0039 32.4 8.6 79 165-250 19-98 (398)
462 COG0040 HisG ATP phosphoribosy 32.5 3.7E+02 0.008 28.1 9.9 103 673-784 107-212 (290)
463 cd08431 PBP2_HupR The C-termin 32.4 4.3E+02 0.0094 24.8 11.4 70 489-565 13-83 (195)
464 PRK09701 D-allose transporter 31.8 1.8E+02 0.0038 31.0 8.2 85 165-257 22-108 (311)
465 KOG0780 Signal recognition par 31.6 4.7E+02 0.01 28.6 10.5 103 154-268 117-222 (483)
466 COG1179 Dinucleotide-utilizing 31.3 2.3E+02 0.0049 28.7 7.7 103 45-163 79-182 (263)
467 cd08550 GlyDH-like Glycerol_de 31.3 1.7E+02 0.0037 31.8 8.0 72 156-237 12-83 (349)
468 cd08452 PBP2_AlsR The C-termin 31.0 1.6E+02 0.0035 28.1 7.3 70 489-566 13-83 (197)
469 cd00001 PTS_IIB_man PTS_IIB, P 31.0 3.4E+02 0.0073 25.4 8.7 81 154-250 12-92 (151)
470 cd01569 PBEF_like pre-B-cell c 31.0 3.5E+02 0.0077 29.9 10.0 132 117-266 212-361 (407)
471 cd06317 PBP1_ABC_sugar_binding 31.0 1.3E+02 0.0028 31.0 6.9 78 170-257 2-82 (275)
472 cd01575 PBP1_GntR Ligand-bindi 30.8 5.2E+02 0.011 26.2 11.5 120 36-164 118-245 (268)
473 TIGR03730 tungstate_WtpA tungs 30.7 2.7E+02 0.0058 29.1 8.9 72 490-565 14-91 (273)
474 TIGR00854 pts-sorbose PTS syst 30.6 3.6E+02 0.0077 25.2 8.8 81 154-250 13-93 (151)
475 COG3181 Uncharacterized protei 30.5 4.6E+02 0.0099 28.0 10.4 124 667-792 128-283 (319)
476 KOG0498 K+-channel ERG and rel 30.5 54 0.0012 39.0 4.1 53 613-665 294-348 (727)
477 PF06667 PspB: Phage shock pro 30.5 22 0.00048 28.4 0.7 17 832-848 13-29 (75)
478 KOG0025 Zn2+-binding dehydroge 30.0 2.4E+02 0.0052 29.3 7.8 95 142-257 162-258 (354)
479 COG0329 DapA Dihydrodipicolina 29.9 6.4E+02 0.014 26.7 11.7 47 151-197 84-130 (299)
480 cd01574 PBP1_LacI Ligand-bindi 29.8 5.2E+02 0.011 26.2 11.3 118 34-162 116-240 (264)
481 cd01545 PBP1_SalR Ligand-bindi 29.7 1.6E+02 0.0035 30.2 7.3 78 170-257 2-81 (270)
482 PLN02522 ATP citrate (pro-S)-l 29.6 9.3E+02 0.02 28.4 13.6 197 34-257 38-249 (608)
483 PRK09271 flavodoxin; Provision 29.5 2.1E+02 0.0046 26.9 7.3 86 169-268 2-94 (160)
484 PF11735 CAP59_mtransfer: Cryp 29.4 2.3E+02 0.005 28.9 7.8 48 154-202 19-67 (241)
485 cd08177 MAR Maleylacetate redu 29.3 96 0.0021 33.6 5.6 73 155-237 11-83 (337)
486 COG0563 Adk Adenylate kinase a 29.3 96 0.0021 29.9 5.0 30 99-128 3-32 (178)
487 COG0107 HisF Imidazoleglycerol 29.2 78 0.0017 31.4 4.2 47 486-534 182-228 (256)
488 PRK01686 hisG ATP phosphoribos 29.2 5.9E+02 0.013 25.4 12.7 93 682-782 114-208 (215)
489 PRK09861 cytoplasmic membrane 29.2 1.8E+02 0.0039 30.3 7.3 55 33-102 32-86 (272)
490 cd06315 PBP1_ABC_sugar_binding 29.0 2.4E+02 0.0053 29.2 8.6 80 168-257 1-82 (280)
491 COG1880 CdhB CO dehydrogenase/ 29.0 4.8E+02 0.01 24.3 9.6 126 89-228 28-168 (170)
492 TIGR00216 ispH_lytB (E)-4-hydr 28.9 2.2E+02 0.0048 29.7 7.7 55 73-127 185-240 (280)
493 PF01102 Glycophorin_A: Glycop 28.5 80 0.0017 28.1 3.8 17 822-838 67-83 (122)
494 PRK09756 PTS system N-acetylga 28.5 3.9E+02 0.0085 25.2 8.7 85 149-250 11-97 (158)
495 cd06282 PBP1_GntR_like_2 Ligan 28.3 1.7E+02 0.0036 30.0 7.2 78 170-258 2-81 (266)
496 PRK05928 hemD uroporphyrinogen 28.3 2.2E+02 0.0049 28.8 8.0 78 166-257 124-201 (249)
497 cd01391 Periplasmic_Binding_Pr 28.2 1.8E+02 0.0039 29.3 7.4 78 169-257 1-83 (269)
498 PRK11119 proX glycine betaine 28.2 5.6E+02 0.012 27.6 11.1 45 489-537 42-87 (331)
499 cd06289 PBP1_MalI_like Ligand- 28.1 1.7E+02 0.0037 29.9 7.2 78 170-258 2-81 (268)
500 cd01543 PBP1_XylR Ligand-bindi 27.9 4.6E+02 0.0099 26.8 10.4 123 36-164 111-240 (265)
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=7.8e-91 Score=714.30 Aligned_cols=756 Identities=19% Similarity=0.329 Sum_probs=612.5
Q ss_pred CCccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCC--C--ceEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEcCC
Q 002454 31 IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSR--N--HKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGME 105 (920)
Q Consensus 31 ~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~--g--~~l~~~~~D-~~~d~~~a~~~a~~li~~~~v~aiiGp~ 105 (920)
.+.+|.||.++|.+. .+...|++.|+...|.... . .+|.+++.. ...+++....+.|+..+ +||.||+|-+
T Consensus 23 f~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s-~Gv~Aifg~y 98 (897)
T KOG1054|consen 23 FPNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFS-RGVYAIFGFY 98 (897)
T ss_pred CCCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHh-hhHhhheecc
Confidence 346799999999883 5677899999999988652 2 344444432 23688888999999987 5999999999
Q ss_pred chHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 002454 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (920)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (920)
.......+..+|...++|+|+++.+ .....+|.+++.|+- ..++++++.|++|.+++++|+.+. | ...
T Consensus 99 d~ks~~~ltsfc~aLh~~~vtpsfp------~~~~~~Fviq~RP~l---~~al~s~i~hy~W~~fv~lyD~~r-g--~s~ 166 (897)
T KOG1054|consen 99 DKKSVNTLTSFCGALHVSFVTPSFP------TDGDNQFVIQMRPAL---KGALLSLIDHYKWEKFVYLYDTDR-G--LSI 166 (897)
T ss_pred cccchhhhhhhccceeeeeecccCC------cCCCceEEEEeCchH---HHHHHHHHHhcccceEEEEEcccc-h--HHH
Confidence 9999999999999999999988765 245568999999985 589999999999999999999886 6 677
Q ss_pred HHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 186 ~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
++++-+.+.+++ ++|.+...-... +...++.+++.|...+.+-|++ +|..+....++.++-+.+-..++|+|+
T Consensus 167 Lqai~~~a~~~n-w~VtA~~v~~~~-----d~~~yr~~f~~l~~r~e~rv~i-Dce~~~~~~il~q~i~~~k~~~~YHYv 239 (897)
T KOG1054|consen 167 LQAIMEAAAQNN-WQVTAINVGNIN-----DVKEYRMLFEMLDRRQENRVLI-DCESERRNRILLQVIELGKHVKGYHYV 239 (897)
T ss_pred HHHHHHHHHhcC-ceEEEEEcCCcc-----cHHHHHHHHHHHhccccceEEE-EcccHHHHHHHHHHHHHhhhccceEEE
Confidence 888888888888 998776543332 3355888999998888888888 999999999999999999888999999
Q ss_pred EecccccccccCChhhhccc---ceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHH
Q 002454 266 VTNTVANALDSLNTTVISSM---EGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (920)
Q Consensus 266 ~t~~~~~~~~~~~~~~~~~~---~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~A 342 (920)
+.+...... +..... .++.++... +.++|..++|.++|++.-..+++...+..+.+.++++|||+.++++|
T Consensus 240 laNl~f~d~-----dl~~f~~g~aNitgFqiv-n~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~ea 313 (897)
T KOG1054|consen 240 LANLGFTDI-----DLERFQHGGANITGFQIV-NKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEA 313 (897)
T ss_pred EeeCCCchh-----hHHHHhcCCcceeEEEEe-cCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHH
Confidence 998743322 222222 234454432 44568899999999887766776665667788899999999999999
Q ss_pred HHhhccCC--------------------CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEec
Q 002454 343 IGRLNYNI--------------------SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWL 402 (920)
Q Consensus 343 l~~~~~~~--------------------~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~ 402 (920)
++.+.... ..|..+.++|+++.++|+||+|+||..|.|.+.+.+|++++.++.+++|+|+
T Consensus 314 f~~~~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~ 393 (897)
T KOG1054|consen 314 FRSLRRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWN 393 (897)
T ss_pred HHHHHHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeec
Confidence 99886421 3577899999999999999999999999999999999999999999999999
Q ss_pred CCCCCccccCCCccccccccccccCCCCceecCCCCCCCCCCccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCC
Q 002454 403 PNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSND 482 (920)
Q Consensus 403 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~Wpg~~~~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~ 482 (920)
...||-...+.... ++.+ . -..++..++.++.+ .||++.+.+.+ ...|
T Consensus 394 e~~~fv~~~t~a~~-------------------~~d~-~------~~~n~tvvvttiL~----spyvm~kkn~~-~~eg- 441 (897)
T KOG1054|consen 394 EGEGFVPGSTVAQS-------------------RNDQ-A------SKENRTVVVTTILE----SPYVMLKKNHE-QLEG- 441 (897)
T ss_pred ccCceeeccccccc-------------------cccc-c------ccccceEEEEEecC----CchhHHHhhHH-HhcC-
Confidence 99887654432110 0000 0 01122223333332 36777766531 1233
Q ss_pred CCcceeeeeHHHHHHHHHHCCCccceEEEe--------cCCC-hhHHHHHHHcCcccEEEeceeeecCceeeeeeccccc
Q 002454 483 KNLRYDGFSIELFRLVVDHLNYDLPYEFVP--------HDGV-YDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYA 553 (920)
Q Consensus 483 ~~~~~~G~~~dl~~~la~~ln~~~~~~~~~--------~~gs-~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~ 553 (920)
|++|+|||+||+.++|++.+++++..++. .+++ |+||++.|..|++|+++++++||.+|++.+|||.|++
T Consensus 442 -n~ryEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfM 520 (897)
T KOG1054|consen 442 -NERYEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFM 520 (897)
T ss_pred -CcccceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchh
Confidence 66999999999999999999984333332 2456 9999999999999999999999999999999999999
Q ss_pred cccEEEEEecCCCC--CceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCc------Ccc-------chhhhhHH
Q 002454 554 ESGFSMIVPAKQEE--STWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFR------GTL-------KDQISNIL 618 (920)
Q Consensus 554 ~~~~~~iv~~~~~~--~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~------~~~-------~~~~~~~~ 618 (920)
..|+.+|.++++.. ..++|+.|+..++|+|+++.++.+++++++..|+++.+++ ++. ..++.|++
T Consensus 521 slGISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsL 600 (897)
T KOG1054|consen 521 SLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSL 600 (897)
T ss_pred hcCeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHH
Confidence 99999999887543 3999999999999999999999999999999999876543 222 23488999
Q ss_pred HHHHHHHhccCcc-cccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHh-hhCCcccccccchHHHH
Q 002454 619 WFAFSTIFFSHRA-NIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSL-KSGNLKVGCVDDSFVKK 696 (920)
Q Consensus 619 ~~~~~~l~~~~~~-~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL-~~s~~~vg~~~~~~~~~ 696 (920)
||+++++|+||++ .|||.|+||+-.+||||+||++++|||||+||||+.++.+||.|.||| +|+++.+|+..+....+
T Consensus 601 WFsLgAFMQQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTke 680 (897)
T KOG1054|consen 601 WFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKE 680 (897)
T ss_pred HHHHHHHHhcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHH
Confidence 9999999999976 579999999999999999999999999999999999999999999999 57889999977766666
Q ss_pred HHHHh--------cCCCCC-c-eeecCCCHHHHHHHHhc-CCeeEEEeechhHHHHHh-hcCCceEEeeeeeecceeeEe
Q 002454 697 YLEEV--------LGFRSG-N-IVPFGNTEANYIQKFEN-NTIDSLFLERPYEKVFLD-KYCKKYTAINTYRFGGLGFAF 764 (920)
Q Consensus 697 ~l~~~--------~~~~~~-~-~~~~~~~~~~~~~~l~~-~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 764 (920)
++++. +.+..+ . -+.+.+ ..++++++++ +..+|++.|....+|..+ +.|+-+++++.+.+.+||++.
T Consensus 681 FFr~Skiavy~kMW~yM~SaepsVFv~t-~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiAT 759 (897)
T KOG1054|consen 681 FFRRSKIAVYEKMWTYMKSAEPSVFVRT-TAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIAT 759 (897)
T ss_pred HHhhhhHHHHHHHHHHHhcCCcceeeeh-hhhHHHHHHhcCCceEeehHhhhhhhhhccCCccceecccccCCcceeecC
Confidence 65532 222211 1 134555 8889999875 345899999888888654 569999999999999999999
Q ss_pred cCCCcchHHHHHHHHhhhccchHHHHHHHHcCCCCCCCCcccC-CCCCccccccchhHHHHHHHHHHHHHHHHHHHHHHH
Q 002454 765 QRGSPIALDISRAILDLSEDGRLKTLEEEWFKPSSECSADERY-STRPENLTLHSFWGLYIVYGATSIFCFLLFVIRLLN 843 (920)
Q Consensus 765 ~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~~~~c~~~~~~-~~~~~~L~l~~~~g~f~il~~g~~ls~~vf~~E~~~ 843 (920)
||||.++..+|.++++|.|.|+++++++|||.++++|.....+ .+++.+|+|.+++|+|||+..|+++|+++.++|+|+
T Consensus 760 p~Gsslr~~vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~y 839 (897)
T KOG1054|consen 760 PKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCY 839 (897)
T ss_pred CCCcccccchhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999987542 455589999999999999999999999999999999
Q ss_pred hhcccc
Q 002454 844 NSWSHQ 849 (920)
Q Consensus 844 ~~~~~~ 849 (920)
+.|...
T Consensus 840 ksr~Ea 845 (897)
T KOG1054|consen 840 KSRAEA 845 (897)
T ss_pred HhhHHH
Confidence 887543
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=3e-80 Score=639.11 Aligned_cols=737 Identities=21% Similarity=0.358 Sum_probs=595.5
Q ss_pred CCccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEec--CCCCHHHHHHHHHHHhhcCCeEEEEc--CCc
Q 002454 31 IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAG--MET 106 (920)
Q Consensus 31 ~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D--~~~d~~~a~~~a~~li~~~~v~aiiG--p~~ 106 (920)
++.+++||.++... ....-+.-++.++|++....++.+.... ...++.+.+..+|+-+-+.+|.+|+- |.+
T Consensus 32 np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~vSh~~T 106 (993)
T KOG4440|consen 32 NPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHGSWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLVSHPPT 106 (993)
T ss_pred Cccceeeeeeeech-----hHHHHHHHHHHHhhccccceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEecCCCC
Confidence 56889999998754 5667888899999988666676664333 44566666666665444568887764 222
Q ss_pred hHH---HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCc
Q 002454 107 WEE---TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDS 183 (920)
Q Consensus 107 s~~---~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~ 183 (920)
|.. -.++...+.-..||++.....++ ..+++.-++.+.|+.|+++.|+....+.+.+|.|++|+++.++|.-| +
T Consensus 107 s~d~f~p~~vSYT~gFY~iPV~G~~~Rda-~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~g--r 183 (993)
T KOG4440|consen 107 SNDHFTPTPVSYTAGFYRIPVLGLTTRDA-IFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEG--R 183 (993)
T ss_pred CCcccccccceeeccceeeeeeeeeehhh-hhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccc--h
Confidence 222 12344556668999999998864 66778889999999999999999999999999999999999999888 7
Q ss_pred chHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeE
Q 002454 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (920)
Q Consensus 184 ~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (920)
....+++..+++.. .+++..+.+.++. .++++.|-++|..++||+++ ..+.+++..+++.|.+++|+|++|+
T Consensus 184 a~~~r~qt~~e~~~-~~~e~v~~f~p~~------~~~t~~l~~~k~~~~rv~~~-~as~dDA~~ifr~Ag~lnmTG~G~V 255 (993)
T KOG4440|consen 184 AAQKRLQTLLEERE-SKAEKVLQFDPGT------KNVTALLMEAKELEARVIIL-SASEDDAATIFRAAGMLNMTGSGYV 255 (993)
T ss_pred hHHhHHHHHHHHHh-hhhhhheecCccc------chHHHHHhhhhhhhheeEEe-ecccchHHHHHHhhhhhcccCceEE
Confidence 77778888888776 7777777788766 78999999999999999999 9999999999999999999999999
Q ss_pred EEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHH
Q 002454 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (920)
Q Consensus 264 ~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (920)
||.+..-.. .....+|++|...-...+ ..+..-|++.+++.|+
T Consensus 256 WiV~E~a~~--------~nn~PdG~LGlqL~~~~~-----------------------------~~~hirDsv~vlasAv 298 (993)
T KOG4440|consen 256 WIVGERAIS--------GNNLPDGILGLQLINGKN-----------------------------ESAHIRDSVGVLASAV 298 (993)
T ss_pred EEEeccccc--------cCCCCCceeeeEeecCcc-----------------------------ccceehhhHHHHHHHH
Confidence 999976321 123367888876432211 1134679999999999
Q ss_pred HhhccCC----------------CChHHHHHHHHhCc-cccccccEEEeCCCccCCCcEEEEec-cCCeeEEEEEecCCC
Q 002454 344 GRLNYNI----------------SSPEMLLRQMLSSD-FSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELDFWLPNF 405 (920)
Q Consensus 344 ~~~~~~~----------------~~~~~l~~~l~~~~-f~g~sG~i~F~~~g~~~~~~~~i~~~-~~~~~~~vg~w~~~~ 405 (920)
+++.+.. .++..|.+.+...+ -+|.||++.||++|+|....|+|+|+ ++.+.+.++.++...
T Consensus 299 ~e~~~~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~r 378 (993)
T KOG4440|consen 299 HELLEKENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGTR 378 (993)
T ss_pred HHHHhhccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcccccee
Confidence 9886531 35677888777654 58999999999999999999999999 455666666555432
Q ss_pred CCccccCCCccccccccccccCCCCceecCCCCCCCCCCccccCCCCCCeEEEeecCCcccceEEeec---C--------
Q 002454 406 GFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKD---D-------- 474 (920)
Q Consensus 406 g~~~~~~~~~~~~~~~~~~~~~~~~~i~Wpg~~~~~~p~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~---~-------- 474 (920)
.+..+.+|+|||+.. +.|.|..+|+ +|||.+.+++ ||++++. +
T Consensus 379 -------------------~~~nd~~IiWpGg~~-~KP~gi~~pt---hLrivTi~~~---PFVYv~p~~sd~~c~eef~ 432 (993)
T KOG4440|consen 379 -------------------VIPNDRKIIWPGGET-EKPRGIQMPT---HLRIVTIHQE---PFVYVKPTLSDGTCKEEFT 432 (993)
T ss_pred -------------------eccCCceeecCCCCc-CCCccccccc---eeEEEEeccC---CeEEEecCCCCcchhhhcc
Confidence 111235699999999 9999999996 5999999874 5677652 1
Q ss_pred --CC-----------CCCCCCC----CcceeeeeHHHHHHHHHHCCCccceEEEec---------------C-CChhHHH
Q 002454 475 --PL-----------NGNSNDK----NLRYDGFSIELFRLVVDHLNYDLPYEFVPH---------------D-GVYDDLI 521 (920)
Q Consensus 475 --~~-----------~~~~g~~----~~~~~G~~~dl~~~la~~ln~~~~~~~~~~---------------~-gs~~~~~ 521 (920)
++ ....|.. ..|+.||||||+.++++.+||+++..+.+. + ..|+|++
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 00 0000101 357899999999999999999954444321 1 2599999
Q ss_pred HHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCC-ceeeeccCcHhHHHHHHHHHHHHHHHHhhhhc
Q 002454 522 NGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES-TWMFTKPFTWEMWMVTAASFIYTMFIVWLLEH 600 (920)
Q Consensus 522 ~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~-~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~ 600 (920)
++|.++++||++++++|++||.++++||.|+...|+.++.+++.+.+ ..+|++||+..+|+++.+++++++++++++.|
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 99999999999999999999999999999999999999999887777 88999999999999999999999999999999
Q ss_pred ccCccC-cC-------ccchhhhhHHHHHHHHHhccC-cc-cccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccC
Q 002454 601 QSNPEF-RG-------TLKDQISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLE 670 (920)
Q Consensus 601 ~~~~~~-~~-------~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~ 670 (920)
+++.+. .- .-.-.++.++||+||.++..| ++ .|||.|.|++-++|.-|+||++++|||||+|||...+++
T Consensus 593 fSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe 672 (993)
T KOG4440|consen 593 FSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPE 672 (993)
T ss_pred cCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCcc
Confidence 987542 11 112249999999999999998 44 689999999999999999999999999999999999999
Q ss_pred CCCCChHHhh----hCCcccccccchHHHHHHHHhcCC----CCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHH
Q 002454 671 PNVTDIQSLK----SGNLKVGCVDDSFVKKYLEEVLGF----RSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (920)
Q Consensus 671 ~~i~s~~dL~----~s~~~vg~~~~~~~~~~l~~~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~ 742 (920)
..++.+.|-. ..+..+++++++.+..|+++.-.. ..-+--.|.+ ..+.++.+++|+.+||+.|+..++|..
T Consensus 673 ~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~-A~eAiq~v~~gkL~AFIWDS~rLEfEA 751 (993)
T KOG4440|consen 673 ERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYES-AAEAIQAVRDGKLHAFIWDSARLEFEA 751 (993)
T ss_pred ccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhh-HHHHHHHHHcCceeEEEeecceeeehh
Confidence 9999999863 246788999999999998865221 1111225666 889999999999999999999999999
Q ss_pred hhcCCceEEeeeeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHHcCCC-C-CCCCcccCCCCCccccccchh
Q 002454 743 DKYCKKYTAINTYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEWFKPS-S-ECSADERYSTRPENLTLHSFW 820 (920)
Q Consensus 743 ~~~~~~~~~~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~~-~-~c~~~~~~~~~~~~L~l~~~~ 820 (920)
.+.|++.+.++.|...+||++++|+||+...+..+|+++.|+|+++++.++|+... + .|... ...+..|+++++.
T Consensus 752 s~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~---~k~PatLgl~NMa 828 (993)
T KOG4440|consen 752 SQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSR---SKAPATLGLENMA 828 (993)
T ss_pred hcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhh---ccCcccccccccc
Confidence 99999988888999999999999999999999999999999999999999999864 2 34333 4577889999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 002454 821 GLYIVYGATSIFCFLLFVIRLLNNSWSHQE 850 (920)
Q Consensus 821 g~f~il~~g~~ls~~vf~~E~~~~~~~~~~ 850 (920)
|+|++.+.|++..+++.++|+.|++++..+
T Consensus 829 gvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 829 GVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred cEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 999999999888888888899998876543
No 3
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=7.6e-74 Score=613.78 Aligned_cols=691 Identities=20% Similarity=0.361 Sum_probs=547.9
Q ss_pred cCCCCHHHHHHHHHHHhhcCCeEEEEc-CCch--HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchH
Q 002454 77 DHNRDPFQAATAAQELINKEKVKVIAG-METW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE 153 (920)
Q Consensus 77 D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s--~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~ 153 (920)
-...||..-+...|+++...+|.+|+- +.+. .++..+--+..+.+||+|+....+..-...+.....++++.|+.++
T Consensus 80 ~N~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieq 159 (1258)
T KOG1053|consen 80 MNTTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQ 159 (1258)
T ss_pred cCCCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHH
Confidence 455899999999999999999997664 4444 2223344466789999999988854123344444578999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc--cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC
Q 002454 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (920)
Q Consensus 154 ~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~--~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~ 231 (920)
|++++.++++.|+|..+.+|....+ |++.+...+++.... .| +++....+..+.. ++.......++++-+
T Consensus 160 qa~Vml~iL~~ydW~~Fs~vtt~~p--g~~~f~~~ir~~~d~s~vg-we~i~v~~l~~s~-----~d~~a~~q~qLkki~ 231 (1258)
T KOG1053|consen 160 QAQVMLKILEEYDWYNFSLVTTQFP--GNRTFVSLIRQTNDNSHVG-WEMINVLTLDPST-----DDLLAKLQAQLKKIQ 231 (1258)
T ss_pred HHHHHHHHHHHcCcceeEEEEeecC--chHHHHHHHHHhhhhcccc-ceeeeeeecCCCC-----CchHHHHHHHHHhcC
Confidence 9999999999999999999999887 448888888877765 56 6777666666654 122233333455556
Q ss_pred ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHH
Q 002454 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR 311 (920)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~ 311 (920)
+.||++ .|+.+++..|+..|.++|++|.+|+||++...... +.--.....|.+.+..- . |+
T Consensus 232 a~Vill-yC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~----~~~pa~~P~GLisv~~~---------~----w~- 292 (1258)
T KOG1053|consen 232 APVILL-YCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL----EPRPAEFPLGLISVSYD---------T----WR- 292 (1258)
T ss_pred CcEEEE-EecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC----CCCCccCccceeeeecc---------c----hh-
Confidence 888888 99999999999999999999999999997665442 11112333455544311 1 11
Q ss_pred hccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC------------------CCChHHHHHHHHhCccccccccEE
Q 002454 312 NFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN------------------ISSPEMLLRQMLSSDFSGLSGKIR 373 (920)
Q Consensus 312 ~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~------------------~~~~~~l~~~l~~~~f~g~sG~i~ 373 (920)
....+..-|++-+++.|...+... ...++.+.+.|.|+.|+| +.++
T Consensus 293 --------------~~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~ls 356 (1258)
T KOG1053|consen 293 --------------YSLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLS 356 (1258)
T ss_pred --------------hhHHHHHhhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--ccee
Confidence 112345678899999988876432 136789999999999999 7899
Q ss_pred EeCCCccCCCcEEEEecc-CCeeEEEEEecCCCCCccccCCCccccccccccccCCCCceecCCCCCCCCCCccccCCCC
Q 002454 374 FKDGELLNADTLRIVNVV-GKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQ 452 (920)
Q Consensus 374 F~~~g~~~~~~~~i~~~~-~~~~~~vg~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~Wpg~~~~~~p~~~~~~~~~ 452 (920)
|+++|....+++.++.+. +..|..||.|..+. ..++. .+||...+ ....+ .+.
T Consensus 357 f~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~--------------------L~M~y-~vWPr~~~----~~q~~-~d~ 410 (1258)
T KOG1053|consen 357 FNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT--------------------LVMKY-PVWPRYHK----FLQPV-PDK 410 (1258)
T ss_pred ecCCceeeccceEEEecCCCcchheeceecCCe--------------------EEEec-cccccccC----ccCCC-CCc
Confidence 999998888888887665 47899999998753 22333 79994432 22223 356
Q ss_pred CCeEEEeecCCcccceEEeec-CCCCC--------------------CCCC--CCcceeeeeHHHHHHHHHHCCCccceE
Q 002454 453 EPMRIGVPTRTFFEKFVVIKD-DPLNG--------------------NSND--KNLRYDGFSIELFRLVVDHLNYDLPYE 509 (920)
Q Consensus 453 ~~l~v~~~~~~~~~p~~~~~~-~~~~~--------------------~~g~--~~~~~~G~~~dl~~~la~~ln~~~~~~ 509 (920)
.+|+|++.+++ ||+.+++ |+.+. ..+| -+.|++||||||+++||+.+||+ |+
T Consensus 411 ~HL~VvTLeE~---PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--YD 485 (1258)
T KOG1053|consen 411 LHLTVVTLEER---PFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--YD 485 (1258)
T ss_pred ceeEEEEeccC---CeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--eE
Confidence 79999999885 5666643 22110 0011 14588999999999999999999 66
Q ss_pred EEe---------cCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC-CCceeeeccCcHh
Q 002454 510 FVP---------HDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE-ESTWMFTKPFTWE 579 (920)
Q Consensus 510 ~~~---------~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~-~~~~~~l~pF~~~ 579 (920)
+.. .||.|+|||++|..+++||++++++|++||.+.+|||.||.+.++.+||...+. .+.-.||.||++.
T Consensus 486 LYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~s 565 (1258)
T KOG1053|consen 486 LYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPS 565 (1258)
T ss_pred EEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchH
Confidence 653 267899999999999999999999999999999999999999999999987754 4588999999999
Q ss_pred HHHHHHHHHHHH-HHHHhhhhcccCccCcC---------ccchhhhhHHHHHHHHHhccC--cccccccchhhHHHHHHH
Q 002454 580 MWMVTAASFIYT-MFIVWLLEHQSNPEFRG---------TLKDQISNILWFAFSTIFFSH--RANIQSNLTRVVVVLWLF 647 (920)
Q Consensus 580 vW~~i~~~~~~~-~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~l~~~~--~~~~~s~s~Ri~~~~w~~ 647 (920)
||+.|+++++++ ++.++++|+.++-.+.. .....++.++|..|+.+|+.+ .+.|+++.+|+++.+|.|
T Consensus 566 vWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAf 645 (1258)
T KOG1053|consen 566 VWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAF 645 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHH
Confidence 999999887776 66677899998655432 224469999999999999988 678899999999999999
Q ss_pred HHHHHHHHhhccccceeeeeccCCCCCChHHhh--h-----CCcccccccchHHHHHHHHhcCCCCCceeecCC-CHHHH
Q 002454 648 VVFILTSSYTASLSSLLTVRRLEPNVTDIQSLK--S-----GNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGN-TEANY 719 (920)
Q Consensus 648 ~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~--~-----s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~-~~~~~ 719 (920)
|++|+.++|||||+|||....+..+++.+.|-+ . ...++|++.++..++++++.+..+...++.|+. ..+++
T Consensus 646 FavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~da 725 (1258)
T KOG1053|consen 646 FAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDA 725 (1258)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHH
Confidence 999999999999999999999999999988863 1 258899998888899988876655555555543 38999
Q ss_pred HHHHhcCCeeEEEeechhHHHHHh--hcCCceEEe--eeeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHHc
Q 002454 720 IQKFENNTIDSLFLERPYEKVFLD--KYCKKYTAI--NTYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEWF 795 (920)
Q Consensus 720 ~~~l~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~ 795 (920)
++.|++|+.||||.|...++|+.. +.|++++++ +.|...+|||++|||||++..||.+|++...+|.++++++.|+
T Consensus 726 l~sLK~gKLDAFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wl 805 (1258)
T KOG1053|consen 726 LESLKNGKLDAFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWL 805 (1258)
T ss_pred HHHHhcccchhHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHh
Confidence 999999999999999999999875 569999998 4999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCcccCCCCCccccccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 002454 796 KPSSECSADERYSTRPENLTLHSFWGLYIVYGATSIFCFLLFVIRLLNN 844 (920)
Q Consensus 796 ~~~~~c~~~~~~~~~~~~L~l~~~~g~f~il~~g~~ls~~vf~~E~~~~ 844 (920)
.. .|.++.. +..+.+|++++|.|+|++|++|+++|+++|++|-+++
T Consensus 806 tg--ic~n~k~-evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvY 851 (1258)
T KOG1053|consen 806 TG--ICHNSKN-EVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVY 851 (1258)
T ss_pred hc--ccccchh-hhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 87 6774433 5567889999999999999999999999999997744
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=1.2e-60 Score=564.52 Aligned_cols=578 Identities=29% Similarity=0.540 Sum_probs=476.4
Q ss_pred HHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCC-hhhhcccceEEEEEeeccCCCchh
Q 002454 224 LKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLN-TTVISSMEGTLGIKSYYSDDSSPY 302 (920)
Q Consensus 224 l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~ 302 (920)
+.+++....+++++ ++.+..+..++.++.+.||+..+|+|+.++......+... ....+.++|.++...+.+.. ...
T Consensus 6 ~~~~~~~~~~~~v~-~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s-~~~ 83 (656)
T KOG1052|consen 6 LLKLKAMRTRVFVL-HMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRS-ELL 83 (656)
T ss_pred HHHhhccCceEEEE-eCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCcc-HHH
Confidence 44455567888888 8889999999999999999999999999998665544433 23345566777776655543 455
Q ss_pred HHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC------------CCChHHHHHHHHhCccc---c
Q 002454 303 KEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN------------ISSPEMLLRQMLSSDFS---G 367 (920)
Q Consensus 303 ~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~------------~~~~~~l~~~l~~~~f~---g 367 (920)
++|..++... ......+++.+||++++++.|+++.... ..++..+.+.++..... |
T Consensus 84 ~~~~~~~~~~---------~~~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (656)
T KOG1052|consen 84 QNFVTRWQTS---------NVELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLSG 154 (656)
T ss_pred HHHHHHHhhc---------cccccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhcccc
Confidence 6666665443 2335677899999999999999988731 13456677777665443 4
Q ss_pred ccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCCccccCCCccccccccccccCCCCceecCCCCCCCCCCccc
Q 002454 368 LSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWA 447 (920)
Q Consensus 368 ~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~Wpg~~~~~~p~~~~ 447 (920)
.+|.+.++.++.+....++++++.+.+.+.+|.|++..| ..+.|||... ..|++|.
T Consensus 155 ~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~~-~~~~~~~ 210 (656)
T KOG1052|consen 155 VTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKDY-FVPKGWF 210 (656)
T ss_pred ceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCcc-cCcCCcc
Confidence 556777777778889999999999988888999999764 2389999999 9999999
Q ss_pred cCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEec-------CCChhHH
Q 002454 448 MPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH-------DGVYDDL 520 (920)
Q Consensus 448 ~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~-------~gs~~~~ 520 (920)
.+.++++++|+++..+|| +...++. . ..+++.++.|||+||++++++.+||++++..++. +|+|+|+
T Consensus 211 ~~~~~~~l~v~~~~~~P~---~~~~~~~-~--~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~ 284 (656)
T KOG1052|consen 211 FPTNGKPLRVGVVTEPPF---VDLVEDL-A--ILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGL 284 (656)
T ss_pred ccCCCceEEEEEeccCCc---eeeeecc-c--ccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHH
Confidence 998999999999988664 4433331 0 1112558999999999999999999976666654 2689999
Q ss_pred HHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCC-ceeeeccCcHhHHHHHHHHHHHHHHHHhhhh
Q 002454 521 INGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEES-TWMFTKPFTWEMWMVTAASFIYTMFIVWLLE 599 (920)
Q Consensus 521 ~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~-~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~ 599 (920)
+++|.+|++|++ ++++++++|++++|||.||+..+++++++++...+ .|.|+.||++++|++++++++++++++|+++
T Consensus 285 v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~ 363 (656)
T KOG1052|consen 285 VGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWILE 363 (656)
T ss_pred HHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999 89999999999999999999999999999987766 7999999999999999999999999999999
Q ss_pred cccCccCcCc----cchhhhhHHHHHHHHHhccC-cccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCC
Q 002454 600 HQSNPEFRGT----LKDQISNILWFAFSTIFFSH-RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVT 674 (920)
Q Consensus 600 ~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~-~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~ 674 (920)
|..+.++..+ ......+++|+++++++.|+ ...|++.++|++.++||++++|++++|||+|+|+||++++.++|+
T Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~ 443 (656)
T KOG1052|consen 364 RLSPYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPID 443 (656)
T ss_pred ccccccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCccc
Confidence 9888776111 11125678999999999998 667899999999999999999999999999999999999999999
Q ss_pred ChHHhh-hCCcccccccchHHHHHHHHh---cCCCCC-ceeecCCCHHHHHHHHhcCC--eeEEEeechhHHHHHhhc--
Q 002454 675 DIQSLK-SGNLKVGCVDDSFVKKYLEEV---LGFRSG-NIVPFGNTEANYIQKFENNT--IDSLFLERPYEKVFLDKY-- 745 (920)
Q Consensus 675 s~~dL~-~s~~~vg~~~~~~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~~l~~~~--~~a~~~~~~~~~~~~~~~-- 745 (920)
+++||. ++++++|...+++...|+++. ...... ..+.+.+ .+++.+++++|. .++++.+.....+....+
T Consensus 444 ~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 522 (656)
T KOG1052|consen 444 SLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLAS-PEEGVERVRKGPSGGYAFASDELYLAYLFLRDEI 522 (656)
T ss_pred CHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCC-HHHHHHHHHcCCCCceEEEeccHHHHHHHhhcCC
Confidence 999998 589999999999999999877 545555 6777888 999999999995 466666655555544443
Q ss_pred CCceEEeeeeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHHcCCC---CCCCCcccCCCCCccccccchhHH
Q 002454 746 CKKYTAINTYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEWFKPS---SECSADERYSTRPENLTLHSFWGL 822 (920)
Q Consensus 746 ~~~~~~~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~~---~~c~~~~~~~~~~~~L~l~~~~g~ 822 (920)
|++..+.+.+...+++ ++||||||++.++.+|+++.|.|.+++|+++|+... ..|... . ..+.|++++++|+
T Consensus 523 c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~---~-~~~~l~~~~~~g~ 597 (656)
T KOG1052|consen 523 CDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQT---E-KTKALDLESFWGL 597 (656)
T ss_pred CceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCc---c-cccccchhhHHHH
Confidence 8776666699999999 999999999999999999999999999999999976 344443 2 5778999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccc
Q 002454 823 YIVYGATSIFCFLLFVIRLLNNSWSHQ 849 (920)
Q Consensus 823 f~il~~g~~ls~~vf~~E~~~~~~~~~ 849 (920)
|+++++|+++|+++|++|++|++++.+
T Consensus 598 F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 598 FLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 999999999999999999999887653
No 5
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=9.5e-42 Score=370.19 Aligned_cols=342 Identities=15% Similarity=0.266 Sum_probs=288.5
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEe-cCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~-D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+|++.+ ..+.+.|++.|++++|.+. +|...+. -+..|++.+.+.+|++++ +||.|||||.++.++..++
T Consensus 1 ~iG~if~~~---~~~~~~af~~av~~~N~~~---~l~~~~~~~~~~dsf~~~~~~C~~~~-~gV~AI~Gp~s~~~a~~v~ 73 (364)
T cd06390 1 QIGGLFPNQ---QSQEHAAFRFALSQLTEPP---KLLPQIDIVNISDSFEMTYTFCSQFS-KGVYAIFGFYDRKTVNMLT 73 (364)
T ss_pred CCceeeCCC---ChHHHHHHHHHHHHhccCc---ccccceEEeccccHHHHHHHHHHHhh-cCceEEEccCChhHHHHHH
Confidence 489999876 3567899999999999873 4444333 456899999999999997 5999999999999999999
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
++|+..+||+|+++++ . ....+|++++.|+ +++|+++++++|+|++|++||+++ || ...++.+.+.++
T Consensus 74 sic~~~~vP~i~~~~~---~---~~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g--~~~lq~l~~~~~ 141 (364)
T cd06390 74 SFCGALHVCFITPSFP---V---DTSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RG--LSVLQKVLDTAA 141 (364)
T ss_pred HhhcCCCCCceecCCC---C---CCCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-cc--HHHHHHHHHhhh
Confidence 9999999999987543 1 1344679999998 899999999999999999999766 88 899999999999
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccccccc
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~ 274 (920)
+.| ++|.....++.. ..++.+.|+++++.++++||+ +|+.+.+..+++++.+.++++.+|+||+|+......
T Consensus 142 ~~~-~~I~~~~~~~~~------~~d~~~~L~~ik~~~~rvIVl-~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~ 213 (364)
T cd06390 142 EKN-WQVTAVNILTTT------EEGYRKLFQDLDKKKERLIVV-DCESERLNAILNQIIKLEKNGIGYHYILANLGFMDI 213 (364)
T ss_pred ccC-ceeeEEEeecCC------hHHHHHHHHhccccCCeEEEE-ECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccc
Confidence 999 999876655532 368999999999999999999 999999999999999999999999999999533222
Q ss_pred ccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc------
Q 002454 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------ 348 (920)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~------ 348 (920)
+ .......+.|++++..+.+. ++.+++|..+|++....+++......+..+++++||||+++|+|++++..
T Consensus 214 ~--~~~~~~~~~nitg~r~~~~~-~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~ 290 (364)
T cd06390 214 D--LTKFRESGANVTGFQLVNYT-DTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDIS 290 (364)
T ss_pred c--HHHHhcCCcCceEEEEecCC-CHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 2 12234578899999988774 47899999999887766665444456788999999999999999997532
Q ss_pred -------C-------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCC
Q 002454 349 -------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (920)
Q Consensus 349 -------~-------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 407 (920)
| ...|..|+++|++++|+|+||+|+|+++|+|.++.++|+++.+.++++||+|+++.|+
T Consensus 291 ~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 291 RRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred cCCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 1 1358899999999999999999999999999999999999999999999999998875
No 6
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=9.3e-41 Score=361.42 Aligned_cols=352 Identities=18% Similarity=0.276 Sum_probs=270.3
Q ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEE-ecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 37 IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~-~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
||+|++.++ .+.+.|+++|++++|++. ++.+|.+.+ .++.+|++.+..++|+|++ ++|.|||||.++.++..
T Consensus 2 iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~-~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 2 IGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMT-QGILALVTSTGCASANA 77 (400)
T ss_pred eeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHh-cCeEEEECCCchhHHHH
Confidence 899999764 456899999999999776 678999998 8999999999999999995 69999999999999999
Q ss_pred HHHhhccCCccEEeecCCC---------CCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCc
Q 002454 113 VAEIASRVQVPILSFAAPA---------VTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDS 183 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~---------~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~ 183 (920)
++++|++.+||+|++++.. .++.. ...+|.+.+.|+ ..+.+|+++++.+|+|++|++|| |++|| .
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~--~~~~~~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~g--l 151 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSP--EGEEYTLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYD--I 151 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCc--CcCceeEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECccc--H
Confidence 9999999999999986521 01222 233556677786 57888999999999999999999 67788 8
Q ss_pred chHHHHHHHHhccCCceEeEEeecCCCC--CCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCC
Q 002454 184 GKLALLAEALQNVSSSEIQSRLVLPPIS--SISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (920)
Q Consensus 184 ~~~~~l~~~l~~~g~~~i~~~~~~~~~~--~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (920)
..++.+.+++.+.+ .+|.....-.... .....++...+.|.+++..+ ++||+ +|+++.+..++++|.++||++++
T Consensus 152 ~~lq~L~~~~~~~~-~~I~~~~v~~~~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv-~~s~~~~~~il~qA~~lgM~~~~ 228 (400)
T cd06392 152 RGLQSFLDQASRLG-LDVSLQKVDRNISRVFTNLFTTMKTEELNRYRDTL-RRAIL-LLSPRGAQTFINEAVETNLASKD 228 (400)
T ss_pred HHHHHHHHHHhhcC-ceEEEEEcccCcchhhhhHHHHHHHhhhhhccccc-eEEEE-EcCcHHHHHHHHHHHHhCcccCC
Confidence 88889999999999 8887655211100 00011233344555555445 88888 99999999999999999999999
Q ss_pred eEEEEecccccccccCChhhhcccceEEE----EEeeccCCCchhHHHH----HHHHHhccccCCCCCCCCCcchhhhHh
Q 002454 262 SVWIVTNTVANALDSLNTTVISSMEGTLG----IKSYYSDDSSPYKEFS----ALFRRNFTSEYPEEDHFHPSIHALRAH 333 (920)
Q Consensus 262 ~~~i~t~~~~~~~~~~~~~~~~~~~g~~~----~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~~a~~~Y 333 (920)
|+||+|+...... +..+.++|.++ +..+.+.. ....+|. .+|++....+. +.....+..+++++|
T Consensus 229 y~wI~t~~~~~~~-----dl~~~~~g~~~niT~~r~~~~~~-~~~~~~~~~~~~r~~~~~~~~~-~~~~~~l~~~aalay 301 (400)
T cd06392 229 SHWVFVNEEISDT-----EILELVHSALGRMTVIRQIFPLS-KDNNQRCIRNNHRISSLLCDPQ-EGYLQMLQVSNLYLY 301 (400)
T ss_pred eEEEEecCCcccc-----cHHHHhcccccceeeEEEecCCc-HHHHHHHHHHHHHHHhhhcccc-cccccccchhHHHHH
Confidence 9999999965532 33345555553 66655533 3344443 44543322211 011124678999999
Q ss_pred hHHHHHHHHHHhhc-----------cC-------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc----
Q 002454 334 DSIKIITEAIGRLN-----------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV---- 391 (920)
Q Consensus 334 Dav~~~a~Al~~~~-----------~~-------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~---- 391 (920)
|||+++|+|++... .| ...|..|+++|++++|+|+||+|+|+++|+|.+++|+|++++
T Consensus 302 DaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l~~~~~ 381 (400)
T cd06392 302 DSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILGTSYSET 381 (400)
T ss_pred HHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEecccccc
Confidence 99999999999742 11 135889999999999999999999999999999999999954
Q ss_pred -CCeeEEEEEecCCCCCc
Q 002454 392 -GKKYKELDFWLPNFGFS 408 (920)
Q Consensus 392 -~~~~~~vg~w~~~~g~~ 408 (920)
+.++++||+|++..|+.
T Consensus 382 ~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 382 FGKDVRRLATWDSEKGLN 399 (400)
T ss_pred CCCCceEeEEecCCCCCC
Confidence 67799999999998864
No 7
>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=8.6e-41 Score=367.71 Aligned_cols=339 Identities=39% Similarity=0.687 Sum_probs=298.2
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
|||+++|++ +..|.....|+++|+++||+++ +|++|++++.|+++||..+++++++|+.+++|.+||||.+|..+.
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~ 80 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAE 80 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHH
Confidence 699999999 7889999999999999999997 589999999999999999999999999988999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCc-cCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
+++++++++++|+|++++++ +.+ ....+||+||+.|++..++.++++++++++|+++++||++++|| ....+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~~--~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~~ 156 (350)
T cd06366 81 FVAEVANEWNVPVLSFAATS--PSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYG--SGGLPDLV 156 (350)
T ss_pred HHHHHhhcCCeeEEeccCCC--ccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCccc--chhHHHHH
Confidence 99999999999999998884 444 56778999999999999999999999999999999999999999 99999999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| ++++....++... ...|+.+++++++++++|+|++ ++...++..++++++++|+.+..++|+.++.+
T Consensus 157 ~~~~~~g-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~~dvvi~-~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 230 (350)
T cd06366 157 DALQEAG-IEISYRAAFPPSA----NDDDITDALKKLKEKDSRVIVV-HFSPDLARRVFCEAYKLGMMGKGYVWILTDWL 230 (350)
T ss_pred HHHHHcC-CEEEEEeccCCCC----ChhHHHHHHHHHhcCCCeEEEE-ECChHHHHHHHHHHHHcCCcCCCEEEEECcch
Confidence 9999999 9999988887642 2479999999999999999999 99999999999999999999888999999876
Q ss_pred cccc----ccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 002454 271 ANAL----DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (920)
Q Consensus 271 ~~~~----~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (920)
.... ...........+|++++.++.+..++.+++|.++|+++|..+.+. ...|+.+++.+||++++
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~-------- 300 (350)
T cd06366 231 SSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA-------- 300 (350)
T ss_pred hhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee--------
Confidence 5432 122233445678999988877654588999999999988532211 23578899999999998
Q ss_pred ccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCCcc
Q 002454 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFSK 409 (920)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~~~ 409 (920)
+.+|+|++|+|+||++|++....+.++++.++++++||.|+++.|++.
T Consensus 301 ---------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 301 ---------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred ---------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 458999999999998888878999999999999999999999888764
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=2.1e-40 Score=366.41 Aligned_cols=332 Identities=20% Similarity=0.245 Sum_probs=280.0
Q ss_pred ccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhc------------------CCeEEEEcCCc
Q 002454 47 MGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINK------------------EKVKVIAGMET 106 (920)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~------------------~~v~aiiGp~~ 106 (920)
.|.+...||.+|+++||+++ +|++|+++++|++++|..|+.++.+|+++ ++|.|||||.+
T Consensus 33 ~g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 33 KGFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred hHHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 47889999999999999998 89999999999999999999999999975 58999999999
Q ss_pred hHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 002454 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 107 s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (920)
|..+.+++++++.++||+|+++++++ ...++.+|||+||+.|++..|++++++++++++|++|++|+++++|| ++..
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~-~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG--~~~~ 189 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAE-ILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYG--RSAL 189 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCc-ccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchH--HHHH
Confidence 99999999999999999999999953 44456789999999999999999999999999999999999999999 9999
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCC-ChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISD-PKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~-~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
+.+++.+++.| +||+..+.++....... ...++..+++.++++++|+||+ .+....+..++++|+++|+ +++||
T Consensus 190 ~~f~~~~~~~G-icIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv-~~~~~~~~~l~~~a~~~g~---~~~wi 264 (403)
T cd06361 190 ETFIIQAEANG-VCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV-FARQFHVFLLFNKAIERNI---NKVWI 264 (403)
T ss_pred HHHHHHHHHCC-eEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE-EeChHHHHHHHHHHHHhCC---CeEEE
Confidence 99999999999 99999988876531111 1145566666688889999999 9999999999999999999 37999
Q ss_pred EecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHh
Q 002454 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (920)
Q Consensus 266 ~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (920)
+++.|................|++++.... +...+|.+.|++.+ ...+||||+++|+||++
T Consensus 265 gs~~w~~~~~~~~~~~~~~~~g~ig~~~~~----~~~~~F~~~~~~~~---------------~~~v~~AVyaiA~Al~~ 325 (403)
T cd06361 265 ASDNWSTAKKILTDPNVKKIGKVVGFTFKS----GNISSFHQFLKNLL---------------IHSIQLAVFALAHAIRD 325 (403)
T ss_pred EECcccCccccccCCcccccceEEEEEecC----CccchHHHHHHHhh---------------HHHHHHHHHHHHHHHHH
Confidence 999997643333333335667888887643 34455555555443 23579999999999999
Q ss_pred hccC-------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCC----eeEEEEEecCCCC
Q 002454 346 LNYN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGK----KYKELDFWLPNFG 406 (920)
Q Consensus 346 ~~~~-------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~----~~~~vg~w~~~~g 406 (920)
+..+ ..++++|+++|++++|+|++|++.||++|+. ...|+|++++++ .+++||.|++.+.
T Consensus 326 ~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 326 LCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred hccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 8731 2489999999999999999889999998886 678999999863 3799999998764
No 9
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.5e-40 Score=357.45 Aligned_cols=343 Identities=17% Similarity=0.271 Sum_probs=283.2
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CC-ceEEEEEe-cCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RN-HKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g-~~l~~~~~-D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
.||+|++.++ .+.+.||+.|++++|.+. +. .+|.+.+. -...|++.+.+++|++++ +||.|||||.++..+
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~-~GV~AIfGp~~~~s~ 76 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFS-RGVYAIFGFYDQMSM 76 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhh-cccEEEEecCCHhHH
Confidence 3899998653 467899999999999875 22 47766444 347899999999999997 599999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
..+.++|...+||+|.+... .....+|.+++.|+ +.+|+++++++|+|++|++|| |+++| ...++.+.
T Consensus 77 ~~v~s~c~~~~iP~i~~~~~------~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~g--l~~Lq~L~ 144 (372)
T cd06387 77 NTLTSFCGALHTSFITPSFP------TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERG--FSILQAIM 144 (372)
T ss_pred HHHHHhhccccCCeeeeCCC------CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchh--HHHHHHHH
Confidence 99999999999999987444 12445889999998 789999999999999999999 44667 66777787
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.++..+ ..|......+. . +..+++..++++++.+.++||+ +|+++.+..++++|.++||++++|+||+|+..
T Consensus 145 ~~~~~~~-~~V~~~~v~~~-~----~~~~~~~~l~el~~~~~r~iIl-d~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld 217 (372)
T cd06387 145 EAAVQNN-WQVTARSVGNI-K----DVQEFRRIIEEMDRRQEKRYLI-DCEVERINTILEQVVILGKHSRGYHYMLANLG 217 (372)
T ss_pred HhhccCC-ceEEEEEeccC-C----chHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHcCccccceEEEEecCC
Confidence 8888888 77765543222 1 2357899999999889999999 99999999999999999999999999999864
Q ss_pred ccccccCChhhhcccce---EEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 271 ANALDSLNTTVISSMEG---TLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g---~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
.... ...+.+.| ++++..+.+. ++..++|.++|++....+++......+..+++++||||+++|+|++++.
T Consensus 218 ~~~~-----dl~~~~~g~~NItg~rl~~~~-~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~ 291 (372)
T cd06387 218 FTDI-----SLERVMHGGANITGFQIVNNE-NPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLR 291 (372)
T ss_pred cccc-----cHHHhccCCcceeEEEEecCC-CchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence 3322 22234444 8999887764 4789999999988776666544444567899999999999999999752
Q ss_pred c-------------C-------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCC
Q 002454 348 Y-------------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (920)
Q Consensus 348 ~-------------~-------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 407 (920)
. | ...|..|+++|++++|+|+||+|+|+++|.|.++.++|+++.++++++||+|++..|+
T Consensus 292 ~~~~~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 292 RQRVDVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred hcCCCcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 1 1 1458899999999999999999999999999999999999999999999999998875
No 10
>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=2.3e-40 Score=366.85 Aligned_cols=354 Identities=19% Similarity=0.266 Sum_probs=284.1
Q ss_pred cEEEEEEEe-CC---CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEcCC
Q 002454 34 VTKIGAIVD-AN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGME 105 (920)
Q Consensus 34 ~i~IG~i~p-~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~-d~~~a~~~a~~li~~~~v~aiiGp~ 105 (920)
.|+||+++| ++ +..|...+.|+++|+++||+++ ++..|.+.+.+..+ |+..+++.+|+++. ++|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~-~~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLA-LGVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccc-cCcEEEECCC
Confidence 489999999 55 5567889999999999999998 67888888887544 77788888998875 6999999999
Q ss_pred chHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 002454 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (920)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (920)
+|..+.+++++|++++||+|++++++ +.... ..+|++|+.|++..++.++++++++++|++|++||+++. | ...
T Consensus 81 ~S~~~~av~~i~~~~~iP~Is~~~t~--~~lt~-~~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g--~~~ 154 (384)
T cd06393 81 QGSCTNAVQSICNALEVPHIQLRWKH--HPLDN-KDTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-G--LIR 154 (384)
T ss_pred ChHHHHHHHHHHhccCCCeEeccCCC--cccCc-cceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-h--HHH
Confidence 99999999999999999999998883 43433 346888999999999999999999999999999998765 5 444
Q ss_pred HHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 186 ~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
++.+.+.+++.| ++|+. ..++... .|++.+|+++++.++++||+ .++.+.+..+++||+++||+++.|+|+
T Consensus 155 l~~~~~~~~~~g-~~v~~-~~~~~~~------~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~~~~~ 225 (384)
T cd06393 155 LQELIMAPSRYN-IRLKI-RQLPTDS------DDARPLLKEMKRGREFRIIF-DCSHQMAAQILKQAMAMGMMTEYYHFI 225 (384)
T ss_pred HHHHHHhhhccC-ceEEE-EECCCCc------hHHHHHHHHHhhcCceEEEE-ECCHHHHHHHHHHHHHhccccCceEEE
Confidence 567888888889 89876 3355433 79999999999989999999 999999999999999999999999999
Q ss_pred EecccccccccCChhhhcccce--EEEEEeeccCCCchhHHHHHHHHHh-ccccCCCCCC---CCCcchhhhHhhHHHHH
Q 002454 266 VTNTVANALDSLNTTVISSMEG--TLGIKSYYSDDSSPYKEFSALFRRN-FTSEYPEEDH---FHPSIHALRAHDSIKII 339 (920)
Q Consensus 266 ~t~~~~~~~~~~~~~~~~~~~g--~~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~~~---~~~~~~a~~~YDav~~~ 339 (920)
+++......+. +.. ...| +.++....+ .++.+++|.++|+++ |........+ ...+.+++++||||+++
T Consensus 226 ~~~~~~~~~~~---~~~-~~~~~~it~~~~~~~-~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~ 300 (384)
T cd06393 226 FTTLDLYALDL---EPY-RYSGVNLTGFRILNV-DNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMV 300 (384)
T ss_pred EccCccccccc---hhh-hcCcceEEEEEecCC-CcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHH
Confidence 88764322221 110 0233 344443333 457899999999754 5432211111 12357899999999999
Q ss_pred HHHHHhhccCC------------CChHHHHHHHHhCccccccccEEEeC-CCccCCCcEEEEeccCCeeEEEEEecCCCC
Q 002454 340 TEAIGRLNYNI------------SSPEMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVVGKKYKELDFWLPNFG 406 (920)
Q Consensus 340 a~Al~~~~~~~------------~~~~~l~~~l~~~~f~g~sG~i~F~~-~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g 406 (920)
++|+++++... ..|..|+++|++++|+|+||+|+||+ +|.|.++.++|+++.++++++||+|+++.|
T Consensus 301 a~A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~~~g 380 (384)
T cd06393 301 SVCYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNPNTG 380 (384)
T ss_pred HHHHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcCCCC
Confidence 99999765421 23589999999999999999999995 788899999999999999999999999998
Q ss_pred Cc
Q 002454 407 FS 408 (920)
Q Consensus 407 ~~ 408 (920)
++
T Consensus 381 ~~ 382 (384)
T cd06393 381 LN 382 (384)
T ss_pred cC
Confidence 75
No 11
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=6e-40 Score=373.00 Aligned_cols=362 Identities=19% Similarity=0.281 Sum_probs=294.4
Q ss_pred ccEEEEEEEeCCC-------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhc-
Q 002454 33 EVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK- 95 (920)
Q Consensus 33 ~~i~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~- 95 (920)
+++.||++||.+. ..|.....|+++|+++||+++ +|++|+++++|++++|..|++.+.+++.+
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 4589999999982 357788999999999999998 69999999999999999999999988854
Q ss_pred ---------------------CCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHH
Q 002454 96 ---------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQ 154 (920)
Q Consensus 96 ---------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~ 154 (920)
++|.|||||.+|..+.+++++++.+++|+|+++++++ ...++..+||+||+.|++..+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~-~ls~~~~~~~~fR~~p~d~~~ 159 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSP-ELSDKTRYDYFSRTVPPDSFQ 159 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCch-hhccccccCCEEEecCChHHH
Confidence 6899999999999999999999999999999998853 444566889999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc-CCce
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSR 233 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~ 233 (920)
+.++++++++++|++|++||++++|| ....+.+.+.+++.| ++|+....++... ...|+.++++++++ .++|
T Consensus 160 ~~a~~~~l~~~~w~~vaii~~~~~~G--~~~~~~~~~~~~~~g-i~i~~~~~~~~~~----~~~d~~~~l~~l~~~~~a~ 232 (452)
T cd06362 160 AQAMVDIVKAFNWTYVSTVASEGNYG--EKGIEAFEKLAAERG-ICIAGSEKIPSSA----TEEEFDNIIRKLLSKPNAR 232 (452)
T ss_pred HHHHHHHHHHCCCcEEEEEEeCCHHH--HHHHHHHHHHHHHCC-eeEEEEEEcCCCC----CHHHHHHHHHHHhhcCCCe
Confidence 99999999999999999999999999 999999999999999 9999888876532 34789999999987 4799
Q ss_pred EEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHH-----
Q 002454 234 VFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL----- 308 (920)
Q Consensus 234 vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~----- 308 (920)
+||+ .+...++..++++|+++|+. ..+.||+++.|...... ........+|++++.+..... +.+++|.+.
T Consensus 233 viil-~~~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~i-~~f~~~l~~l~~~~ 308 (452)
T cd06362 233 VVVL-FCREDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSV-VEGLEDVAEGAITIELQSAEV-PGFDEYFLSLTPEN 308 (452)
T ss_pred EEEE-EcChHHHHHHHHHHHHcCCc-CceEEEEeccccccchh-hcccccccceEEEEEeccccc-ccHHHHhhhCCcCc
Confidence 9998 89999999999999999998 45799999988653221 123346678888777654322 334443322
Q ss_pred -----HHHhccccCCCC--------------C-------CCCCcchhhhHhhHHHHHHHHHHhhccC-------------
Q 002454 309 -----FRRNFTSEYPEE--------------D-------HFHPSIHALRAHDSIKIITEAIGRLNYN------------- 349 (920)
Q Consensus 309 -----~~~~~~~~~~~~--------------~-------~~~~~~~a~~~YDav~~~a~Al~~~~~~------------- 349 (920)
|.+.|+++.+.| . ......+++++||||+++|+||+++..+
T Consensus 309 ~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~ 388 (452)
T cd06362 309 NSRNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMK 388 (452)
T ss_pred CCCChHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCcc
Confidence 122222211111 0 0122447889999999999999988521
Q ss_pred CCChHHHHHHHHhCccccccc-cEEEeCCCccCCCcEEEEeccC----CeeEEEEEecCCCCC
Q 002454 350 ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNFGF 407 (920)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~sG-~i~F~~~g~~~~~~~~i~~~~~----~~~~~vg~w~~~~g~ 407 (920)
..++..|++.|++++|.|++| +|+||++|++ ...|+|++++. .++++||.|+++.|+
T Consensus 389 ~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 389 PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 147889999999999999998 8999999998 56999999973 469999999987664
No 12
>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=9.8e-40 Score=361.53 Aligned_cols=349 Identities=15% Similarity=0.225 Sum_probs=285.1
Q ss_pred EEEEEeCC---CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 37 IGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 37 IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
|-+++|.+ .........|+++|+++||+++ +|++|++++.|++|++..+...+..+.. ++|.|||||.||..+
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~-~~v~aiiGp~~s~~~ 80 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCA-RKPDLILGPVCEYAA 80 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHh-hCCCEEECCCCccHH
Confidence 34667765 3446788999999999999977 6899999999999998777777777775 699999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCcc-CCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch---H
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK---L 186 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~---~ 186 (920)
.+++++|+.++||+|+++++++ .... ...||++||+.|++..++.++++++++++|++|++||++++|| ++. .
T Consensus 81 ~~va~ia~~~~iP~Is~~a~~~-~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~--~~~~~~~ 157 (387)
T cd06386 81 APVARLASHWNIPMISAGALAA-GFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQE--RNCYFTL 157 (387)
T ss_pred HHHHHHHHhCCCcEEccccCch-hhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCC--ccceehH
Confidence 9999999999999999988843 3333 4568999999999999999999999999999999999999988 765 8
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
+.+.+.+++.| ++|+.....+.. ..++.+.|+++++.+ |+||+ +++.+.+..++++|+++||++.+|+||.
T Consensus 158 ~~l~~~~~~~g-i~v~~~~~~~~~------~~d~~~~l~~ik~~~-rvii~-~~~~~~~~~ll~~A~~~gm~~~~yv~i~ 228 (387)
T cd06386 158 EGVHHVFQEEG-YHMSIYPFDETK------DLDLDEIIRAIQASE-RVVIM-CAGADTIRSIMLAAHRRGLTSGDYIFFN 228 (387)
T ss_pred HHHHHHHHhcC-ceEEEEecCCCC------cccHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 89999999999 999876544332 268999999999877 99998 8899999999999999999999999999
Q ss_pred eccccc--cc-------ccCC---hhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCC-CCCCcchhhhHh
Q 002454 267 TNTVAN--AL-------DSLN---TTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED-HFHPSIHALRAH 333 (920)
Q Consensus 267 t~~~~~--~~-------~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~a~~~Y 333 (920)
.+...+ .. +..+ ......+.|+.++.++ ++.+++|.+++++++... +.+. ...++.+++.+|
T Consensus 229 ~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~----~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~aa~~y 303 (387)
T cd06386 229 IELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV----KPEFEKFSMEVKSSVEKA-GDLNDCDYVNMFVEGFH 303 (387)
T ss_pred EecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCC----ChHHHHHHHHHHHHHHhC-CCCcccccchHHHHHHH
Confidence 987631 10 1122 1223445566555443 367899999998666432 2222 234668899999
Q ss_pred hHHHHHHHHHHhh---ccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccC---CeeEEEEEecCC
Q 002454 334 DSIKIITEAIGRL---NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG---KKYKELDFWLPN 404 (920)
Q Consensus 334 Dav~~~a~Al~~~---~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~---~~~~~vg~w~~~ 404 (920)
||++++|+|++++ +....+|..|+++|++++|+|++|+++||++|+| ...+.++.+++ ++++.||.|...
T Consensus 304 Dav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r-~~~~~v~~~~~~~~~~~~~~~~~~~~ 379 (387)
T cd06386 304 DAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDR-YGDFSVIAMTDVEAGTYEVVGNYFGK 379 (387)
T ss_pred HHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCc-cccEEEEEccCCCCccEEEEeEEccc
Confidence 9999999999998 4223589999999999999999999999999999 55999988864 789999999753
No 13
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=1.8e-39 Score=360.99 Aligned_cols=350 Identities=17% Similarity=0.296 Sum_probs=279.6
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~-~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
+||+|++.+ +...+.|+++|++++|++. ++.++.+.+.++ .+|+..+++++|+|++ ++|.|||||.+|..+.
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~-~~V~aiiGp~~s~~~~ 76 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLS-RGVFAIFGSYDKSSVN 76 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHh-cCcEEEEecCcHHHHH
Confidence 489999988 5789999999999999875 456666666655 5899999999999996 5999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
+++++|++.+||+|+++++. +.. ...++|+||+.|+. ..++++++++++|++|++||++++ | ...++.+.+
T Consensus 77 ~~~~~~~~~~iP~i~~~~~~--~~l-~~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~--~~~~~~~~~ 147 (382)
T cd06380 77 TLTSYSDALHVPFITPSFPT--NDL-DDGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-G--LLRLQQLLD 147 (382)
T ss_pred HHHHHHhcCCCCeEecCCCc--ccC-CCCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-c--hHHHHHHHH
Confidence 99999999999999998883 333 45779999999963 458899999999999999998775 5 555667778
Q ss_pred HHhccCCceEeEEe-ecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 192 ALQNVSSSEIQSRL-VLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 192 ~l~~~g~~~i~~~~-~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
.+++.| .++.... .+.... ...|+..+|.++++.++|+||+ .++.+++..+++||+++||.+++|+||+++..
T Consensus 148 ~~~~~g-~~i~v~~~~~~~~~----~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~ 221 (382)
T cd06380 148 YLREKD-NKWQVTARRVDNVT----DEEEFLRLLEDLDRRKEKRIVL-DCESERLNKILEQIVDVGKNRKGYHYILANLG 221 (382)
T ss_pred HHhccC-CceEEEEEEecCCC----cHHHHHHHHHHhhcccceEEEE-ECCHHHHHHHHHHHHHhhhcccceEEEEccCC
Confidence 888877 5443322 222211 2378999999999999999999 99999999999999999999999999998764
Q ss_pred ccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC-
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN- 349 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~- 349 (920)
....+.. .......++.++....+ .++..++|.++|++.|..+++......++.+++++||||+++++|+++++..
T Consensus 222 ~~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~ 298 (382)
T cd06380 222 FDDIDLS--KFLFGGVNITGFQLVDN-TNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQR 298 (382)
T ss_pred cccccHH--HhccCceeeEEEeccCC-CCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3322210 01112223444443332 3578999999999887544433223457789999999999999999988631
Q ss_pred -------------------------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCC
Q 002454 350 -------------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPN 404 (920)
Q Consensus 350 -------------------------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~ 404 (920)
..+|..|+++|++++|+|++|+|+||++|++....+.|++++++++++||+|++.
T Consensus 299 ~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~ 378 (382)
T cd06380 299 GSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNED 378 (382)
T ss_pred cccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCC
Confidence 1368899999999999999999999999999888999999999999999999998
Q ss_pred CCC
Q 002454 405 FGF 407 (920)
Q Consensus 405 ~g~ 407 (920)
.|+
T Consensus 379 ~g~ 381 (382)
T cd06380 379 DGL 381 (382)
T ss_pred cCc
Confidence 775
No 14
>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=2.4e-39 Score=358.86 Aligned_cols=319 Identities=20% Similarity=0.342 Sum_probs=259.5
Q ss_pred CccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHH-HHHhhcCCeEEEEc-CC-
Q 002454 32 EEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAA-QELINKEKVKVIAG-ME- 105 (920)
Q Consensus 32 ~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a-~~li~~~~v~aiiG-p~- 105 (920)
+.+|+||+++|. .....|+++|++++|++. ++.++.-...+..+++..++..+ ++|++ ++|.|||| +.
T Consensus 17 ~~~i~IG~i~~~-----~~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~-~~V~aii~~~~~ 90 (377)
T cd06379 17 PKTVNIGAVLSN-----KKHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLIS-NQVYAVIVSHPP 90 (377)
T ss_pred CcEEEEeEEecc-----hhHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhh-cceEEEEEeCCC
Confidence 367999999984 367899999999999954 22233322121134666655445 56776 59999974 33
Q ss_pred chH---HHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCC
Q 002454 106 TWE---ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (920)
Q Consensus 106 ~s~---~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~ 182 (920)
++. .+.+++.+++.++||+|+++++++ ...++..+||+||+.|++..+++++++++++++|++|++||++++||
T Consensus 91 ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~-~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g-- 167 (377)
T cd06379 91 TSNDHLTPTSVSYTAGFYRIPVVGISTRDS-IFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEG-- 167 (377)
T ss_pred CCcccccHHHHHHHhhCCCCcEEecccCCc-cccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcch--
Confidence 333 467788899999999999988742 33344568999999999999999999999999999999999999999
Q ss_pred cchHHHHHHHHhccCCc----eEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 183 SGKLALLAEALQNVSSS----EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 183 ~~~~~~l~~~l~~~g~~----~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
.+....+++.+++.| + +++....++... .|+..+++++++.++|+||+ .|+.+++..++++|+++||+
T Consensus 168 ~~~~~~~~~~~~~~g-~~~~~~v~~~~~~~~~~------~d~~~~l~~ik~~~~~vIvl-~~~~~~~~~l~~qa~~~g~~ 239 (377)
T cd06379 168 RAAQKRFETLLEERE-IEFKIKVEKVVEFEPGE------KNVTSLLQEAKELTSRVILL-SASEDDAAVIYRNAGMLNMT 239 (377)
T ss_pred hHHHHHHHHHHHhcC-CccceeeeEEEecCCch------hhHHHHHHHHhhcCCeEEEE-EcCHHHHHHHHHHHHHcCCC
Confidence 999999999999999 9 888777776543 78999999999999999999 99999999999999999999
Q ss_pred CCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHH
Q 002454 259 GKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (920)
Q Consensus 259 ~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (920)
+++|+||+++.+... .....|++++....+ ..+++.+||||++
T Consensus 240 ~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~~-----------------------------~~~~~~~yDAV~~ 282 (377)
T cd06379 240 GEGYVWIVSEQAGAA--------RNAPDGVLGLQLING-----------------------------KNESSHIRDAVAV 282 (377)
T ss_pred CCCEEEEEecccccc--------ccCCCceEEEEECCC-----------------------------CCHHHHHHHHHHH
Confidence 999999999987331 134568888875421 1235789999999
Q ss_pred HHHHHHhhccC----------------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEec
Q 002454 339 ITEAIGRLNYN----------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWL 402 (920)
Q Consensus 339 ~a~Al~~~~~~----------------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~ 402 (920)
+|+|++++..+ ...|..++++|++++|+|++|+|.||++|++..+.|+|+++++.++++||.|+
T Consensus 283 ~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~ 362 (377)
T cd06379 283 LASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYN 362 (377)
T ss_pred HHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEc
Confidence 99999988421 12578999999999999999999999999997789999999999999999998
Q ss_pred CC
Q 002454 403 PN 404 (920)
Q Consensus 403 ~~ 404 (920)
++
T Consensus 363 ~~ 364 (377)
T cd06379 363 GD 364 (377)
T ss_pred Cc
Confidence 74
No 15
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.4e-39 Score=352.11 Aligned_cols=342 Identities=15% Similarity=0.252 Sum_probs=276.8
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC----CCceEEEEEe-cCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS----RNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~----~g~~l~~~~~-D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+|++.++ .+...|+++|++.+|.+. .+.+|...+. -+..|++.+.+.+|++++ +||.|||||.+|..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~-~gV~AI~Gp~ss~~~ 76 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYS-RGVFAIFGLYDKRSV 76 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHh-CCceEEEecCCHHHH
Confidence 4899998653 456799999999999865 2246665544 456899999999999997 599999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.+++++|++.+||+|+++++ . ...+.|.+++.|+ +..++++++++++|+++++||++++ | ...++.+.
T Consensus 77 ~~v~~i~~~~~IP~I~~~~~---~---~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~~~-~--~~~lq~l~ 144 (371)
T cd06388 77 HTLTSFCSALHISLITPSFP---T---EGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDTDR-G--YSILQAIM 144 (371)
T ss_pred HHHHHHhhCCCCCeeecCcc---c---cCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecCCc-c--HHHHHHHH
Confidence 99999999999999998654 1 2346777788887 4688888999999999999997543 4 55688899
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| ++|+.....+.. ..|++++|.+++++++++||+ +|+++.+..+++||+++||++++|+||+++..
T Consensus 145 ~~~~~~g-~~v~~~~~~~~~------~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~ 216 (371)
T cd06388 145 EKAGQNG-WQVSAICVENFN------DASYRRLLEDLDRRQEKKFVI-DCEIERLQNILEQIVSVGKHVKGYHYIIANLG 216 (371)
T ss_pred HhhHhcC-CeeeeEEeccCC------cHHHHHHHHHhcccccEEEEE-ECCHHHHHHHHHHHHhcCccccceEEEEccCc
Confidence 9999999 998775443321 259999999999999999999 99999999999999999999999999998863
Q ss_pred ccccccCChhhhcccce---EEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 271 ANALDSLNTTVISSMEG---TLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g---~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
... . ...+...| +.++....+ .++.+++|.++|.+.+..+++.. +..|...++++||||+++++|++++.
T Consensus 217 ~~~---~--~l~~~~~g~~nitg~~~~~~-~~~~v~~~~~~~~~~~~~~~~~~-~~~~~~~aAl~YDaV~l~a~A~~~l~ 289 (371)
T cd06388 217 FKD---I--SLERFMHGGANVTGFQLVDF-NTPMVTKLMQRWKKLDQREYPGS-ESPPKYTSALTYDGVLVMAEAFRNLR 289 (371)
T ss_pred ccc---c--cHHHHhccCCceEEEEeecC-CChhHHHHHHHHHhcCccccCCC-CCCccchHHHHHHHHHHHHHHHHHHH
Confidence 221 1 11222233 556655433 35789999999988877666432 23678899999999999999999863
Q ss_pred -------------cCC-------CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCC
Q 002454 348 -------------YNI-------SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (920)
Q Consensus 348 -------------~~~-------~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 407 (920)
.|. ..|..|+++|++++|+|+||+|+||++|+|.++.++|+++.++++++||+|++..|+
T Consensus 290 ~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~ 369 (371)
T cd06388 290 RQKIDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKL 369 (371)
T ss_pred hcCCCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCc
Confidence 111 234789999999999999999999999999888999999999999999999998886
Q ss_pred c
Q 002454 408 S 408 (920)
Q Consensus 408 ~ 408 (920)
.
T Consensus 370 ~ 370 (371)
T cd06388 370 V 370 (371)
T ss_pred c
Confidence 4
No 16
>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=1.6e-39 Score=369.30 Aligned_cols=360 Identities=19% Similarity=0.281 Sum_probs=290.4
Q ss_pred CCccEEEEEEEeCCC-----------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHH
Q 002454 31 IEEVTKIGAIVDANS-----------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQ 90 (920)
Q Consensus 31 ~~~~i~IG~i~p~s~-----------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~ 90 (920)
.++++.||++||.+. ..|.+...||.+|+++||+++ ||++|.+.++|+|+++..|++.+.
T Consensus 6 ~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~ 85 (472)
T cd06374 6 MDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSI 85 (472)
T ss_pred ecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHH
Confidence 457899999999982 247788999999999999998 899999999999999999999999
Q ss_pred HHhh-------------------------cCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeE
Q 002454 91 ELIN-------------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLI 145 (920)
Q Consensus 91 ~li~-------------------------~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~ 145 (920)
+++. +++|.|||||.+|..+.+++++++.+++|+|+++++++ ...++..+||+|
T Consensus 86 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~-~ls~~~~~p~~f 164 (472)
T cd06374 86 EFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSI-DLSDKTLFKYFL 164 (472)
T ss_pred HHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCch-hhcccccCCceE
Confidence 9986 24899999999999999999999999999999998853 444556899999
Q ss_pred EeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHH
Q 002454 146 RMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELK 225 (920)
Q Consensus 146 r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~ 225 (920)
|+.|++..++.++++++++++|++|++||++++|| +...+.+.+.+++.| ++|+....++... ...++.+++.
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~----~~~d~~~~l~ 237 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYG--ESGMEAFKELAAHEG-LCIAHSDKIYSNA----GEQSFDRLLR 237 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCC----chHHHHHHHH
Confidence 99999999999999999999999999999999999 999999999999999 9999888775432 3478999999
Q ss_pred hhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhH
Q 002454 226 KVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYK 303 (920)
Q Consensus 226 ~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 303 (920)
+|++++ +++|++ .+....+..++++|+++|+.+ .++||+++.|........ ......+|++++....+. .+.++
T Consensus 238 ~lk~~~~da~vvv~-~~~~~~~~~~l~~a~~~g~~~-~~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~-~~~F~ 313 (472)
T cd06374 238 KLRSRLPKARVVVC-FCEGMTVRGLLMAMRRLGVGG-EFQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPE-VPSFD 313 (472)
T ss_pred HHHhcCCCcEEEEE-EechHHHHHHHHHHHHhcCCC-ceEEEEecccccchHhhh-cchhhhheeEEEEecCCC-CccHH
Confidence 999764 555665 678888999999999999974 479999999865322222 344667899999766443 24555
Q ss_pred HHHHHH----------HHhccccCCC----------------CCCC-------CCcchhhhHhhHHHHHHHHHHhhcc--
Q 002454 304 EFSALF----------RRNFTSEYPE----------------EDHF-------HPSIHALRAHDSIKIITEAIGRLNY-- 348 (920)
Q Consensus 304 ~f~~~~----------~~~~~~~~~~----------------~~~~-------~~~~~a~~~YDav~~~a~Al~~~~~-- 348 (920)
+|.+.. -..||++.+. |.+. ....+++++||||+++|+||+++..
T Consensus 314 ~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~ 393 (472)
T cd06374 314 DYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDL 393 (472)
T ss_pred HHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhh
Confidence 554321 1112211111 1100 1124566899999999999998752
Q ss_pred -------C----CCChHHHHHHHHhCccccccc-cEEEeCCCccCCCcEEEEeccC-----CeeEEEEEecC
Q 002454 349 -------N----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (920)
Q Consensus 349 -------~----~~~~~~l~~~l~~~~f~g~sG-~i~F~~~g~~~~~~~~i~~~~~-----~~~~~vg~w~~ 403 (920)
+ ..+|..|+++|++++|+|++| +|.||++|++ ...|+|++++. .++++||.|++
T Consensus 394 ~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~-~~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 394 CPGHVGLCDAMKPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDS-PGRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCCCCCCcCCCCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCC-CCceEEEEEEECCCCCEEEEEEEEEeC
Confidence 1 145889999999999999999 8999999988 45899999984 36899999975
No 17
>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=3.6e-39 Score=353.12 Aligned_cols=348 Identities=16% Similarity=0.258 Sum_probs=281.1
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEe-cCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~-D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+|++... .+.+.|++.|++.+|+. +.+|...+. -+..|++.+.+.+|++++ +||.|||||.+|..+.+++
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~--~~~l~~~~~~~~~~dsf~~~~~~C~~~~-~GV~AI~Gp~ss~~~~~v~ 74 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS--EFRLTPHIDNLEVANSFAVTNAFCSQFS-RGVYAIFGFYDKKSVNTIT 74 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc--CceeeeeeEEecccchHHHHHHHHHHhh-cCcEEEEecCCHHHHHHHH
Confidence 4899998663 45789999999999997 467766433 466899999999999997 5999999999999999999
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
++|++.+||+|+++++ . ...++|.+++.|+ ..+++++++++++|++|++||+ ++|| ...++.+.+.++
T Consensus 75 ~i~~~~~IP~I~~~~~--~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~g--l~~lq~l~~~~~ 142 (370)
T cd06389 75 SFCGTLHVSFITPSFP--T----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRG--LSTLQAVLDSAA 142 (370)
T ss_pred HhhccCCCCeeeecCC--C----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchH--HHHHHHHHHhhc
Confidence 9999999999988655 1 2367899999998 5889999999999999999998 4588 888999999999
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccccccc
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~ 274 (920)
+.| ++|+....... . ......|++.+|++++++++++||+ .|+.+.+..+++||+++||++++|+||+++......
T Consensus 143 ~~g-~~V~~~~~~~i-~-~~~~~~d~~~~L~~ik~~~~~~Iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~ 218 (370)
T cd06389 143 EKK-WQVTAINVGNI-N-NDRKDEAYRSLFQDLENKKERRVIL-DCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDG 218 (370)
T ss_pred cCC-ceEEEEEeecC-C-CccchHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEccCCcccc
Confidence 999 88874432111 1 0112369999999999999999999 999999999999999999999999999987632221
Q ss_pred ccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC-----
Q 002454 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN----- 349 (920)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~----- 349 (920)
+... ......++.++....+ .++..++|.++|++....+++......++..++++||||+++++|++++...
T Consensus 219 ~l~~--~~~~~~nitg~~~~~~-~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~ 295 (370)
T cd06389 219 DLSK--IQFGGANVSGFQIVDY-DDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS 295 (370)
T ss_pred chhh--hccCCcceEEEEEecC-CCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 1111 1111224555554433 3578999999998744344433223567889999999999999999987421
Q ss_pred --------C-------CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCCc
Q 002454 350 --------I-------SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (920)
Q Consensus 350 --------~-------~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~~ 408 (920)
. .+|..|+++|++++|+|+||+|+||++|+|.++.++|+++.++++++||+|++..|+.
T Consensus 296 ~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 296 RRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred cCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 0 2688999999999999999999999999998889999999999999999999988764
No 18
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=5.1e-40 Score=349.48 Aligned_cols=327 Identities=17% Similarity=0.296 Sum_probs=259.9
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHH-HHHHHHHHHhhcCCeEEEEcCCchHH-H
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPF-QAATAAQELINKEKVKVIAGMETWEE-T 110 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~-~a~~~a~~li~~~~v~aiiGp~~s~~-~ 110 (920)
+||+|++..+..|+..+.|+++|++++|+++ ++.+|++++.|+..|+. .+..++|++++ ++|.|||||.+|.. +
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~-~gV~AIiGp~ss~~~~ 79 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILP-KGVVSVLGPSSSPASS 79 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHh-cCeEEEECCCCchHHH
Confidence 4899999998899999999999999999987 34699999999998775 78888999985 69999999999965 6
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.+++++|++.+||+|+++++.. +.....++++ +++.|++..+++|+++++++|+|++|++||+++++ +..|+
T Consensus 80 ~~v~~i~~~~~VP~Is~~~~~~-~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~------l~~L~ 151 (333)
T cd06394 80 SIVSHICGEKEIPHFKVGPEET-PKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC------LLRLE 151 (333)
T ss_pred HHHHHHhhccCCceEEeccccC-cccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH------HHHHH
Confidence 7999999999999999876531 3333344444 89999999999999999999999999999999874 56677
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.++..+ .. ...++... .+.+.|++++|++++++++|+||+ +|+.+.+..++++|+++||+.+.|+|++|+..
T Consensus 152 ~~l~~~~-~~---~~~i~~~~--~~~~~d~~~~L~~ik~~~~~~iVv-~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~ 224 (333)
T cd06394 152 ELLRQFL-IS---KETLSVRM--LDDSRDPTPLLKEIRDDKTATIII-DANASMSHTILLKASELGMTSAFYKYILTTMD 224 (333)
T ss_pred HHHHhhc-cc---CCceeeEE--ccCcccHHHHHHHHHhcCCCEEEE-ECChHHHHHHHHHHHHcCCCCCceEEEEecCC
Confidence 7776544 21 11222111 012468999999999999999999 99999999999999999999999999999886
Q ss_pred ccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccCC
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~ 350 (920)
....+..+.. .....+.+++.. +.+++..++|.++|+++|.+......-..+...++++||||+++
T Consensus 225 ~~~~~L~~~~--~~~~niTgF~l~-d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------- 290 (333)
T cd06394 225 FPLLRLDSIV--DDRSNILGFSMF-NQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------- 290 (333)
T ss_pred cccccHHHhh--cCCcceEEEEee-cCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------
Confidence 5432221111 112234444433 33458899999999888753222211222345789999999987
Q ss_pred CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCCc
Q 002454 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (920)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~~ 408 (920)
|+||+|+||+.|+|.+++++|+++..+++++||+|++..|+.
T Consensus 291 ----------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 ----------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred ----------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 999999999999999999999999999999999999998865
No 19
>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=1e-38 Score=362.79 Aligned_cols=361 Identities=19% Similarity=0.265 Sum_probs=294.2
Q ss_pred CCccEEEEEEEeCCC----------------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHH
Q 002454 31 IEEVTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQA 85 (920)
Q Consensus 31 ~~~~i~IG~i~p~s~----------------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a 85 (920)
.+++|.||++||.+. ..|.+...||.+|+++||+++ |+.+|+++++|++++|..|
T Consensus 9 ~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a 88 (510)
T cd06364 9 KKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKA 88 (510)
T ss_pred ecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHH
Confidence 467899999999983 357889999999999999998 7889999999999999999
Q ss_pred HHHHHHHhhcCC------------------eEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEe
Q 002454 86 ATAAQELINKEK------------------VKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRM 147 (920)
Q Consensus 86 ~~~a~~li~~~~------------------v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~ 147 (920)
++.+.+++.+++ |.|||||.+|..+.++++++..++||+|+++++++ ...++..||++||+
T Consensus 89 ~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~-~ls~~~~yp~ffRt 167 (510)
T cd06364 89 LEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSR-LLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCc-ccCCccccCCeeEc
Confidence 999999987544 46999999999999999999999999999988843 44456789999999
Q ss_pred ccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhh
Q 002454 148 ASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV 227 (920)
Q Consensus 148 ~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l 227 (920)
.|++..++.++++++++++|++|++|++|++|| +...+.+++.+++.| ++|+....++... ...|+.+++.++
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG--~~~~~~~~~~~~~~G-i~I~~~~~i~~~~----~~~d~~~~l~kl 240 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYG--RPGIEKFREEAEERD-ICIDFSELISQYS----DEEEIQRVVEVI 240 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcch--HHHHHHHHHHHHHCC-cEEEEEEEeCCCC----CHHHHHHHHHHH
Confidence 999999999999999999999999999999999 999999999999999 9999888776532 357899999999
Q ss_pred ccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHH
Q 002454 228 QDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSA 307 (920)
Q Consensus 228 ~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~ 307 (920)
+++++|+||+ .+...++..++++|+++|+.+. .||+++.|............+.+.|++++.+.... .+.+++|++
T Consensus 241 k~~~a~vVvl-~~~~~~~~~ll~qa~~~g~~~~--iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~-i~~f~~~l~ 316 (510)
T cd06364 241 QNSTAKVIVV-FSSGPDLEPLIKEIVRRNITGK--IWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQ-IPGFREFLQ 316 (510)
T ss_pred HhcCCeEEEE-EeCcHHHHHHHHHHHHhCCCCc--EEEEEchhhcccccccCCccceeeEEEEEEECCCc-CccHHHHHH
Confidence 9999999999 9999999999999999999874 89999988654333323344667888888765432 244555544
Q ss_pred H----------HHHhccccCCC------------------------------------CCCC-----C--------Ccch
Q 002454 308 L----------FRRNFTSEYPE------------------------------------EDHF-----H--------PSIH 328 (920)
Q Consensus 308 ~----------~~~~~~~~~~~------------------------------------~~~~-----~--------~~~~ 328 (920)
. |-+.||++.+. |.+. . ....
T Consensus 317 ~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~ 396 (510)
T cd06364 317 KVHPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRI 396 (510)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhh
Confidence 4 22222221111 1100 0 1123
Q ss_pred hhhHhhHHHHHHHHHHhhccCC----------------CChHHHHHHHHhCccccccc-cEEEeCCCccCCCcEEEEecc
Q 002454 329 ALRAHDSIKIITEAIGRLNYNI----------------SSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVV 391 (920)
Q Consensus 329 a~~~YDav~~~a~Al~~~~~~~----------------~~~~~l~~~l~~~~f~g~sG-~i~F~~~g~~~~~~~~i~~~~ 391 (920)
+...||||+++|+||+++..+. .++.+|++.|++++|.|.+| ++.||++|+. ...|+|+|++
T Consensus 397 ~~~v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~YdI~n~q 475 (510)
T cd06364 397 SYNVYLAVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNYSIINWH 475 (510)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCC-ccceeEEEee
Confidence 5679999999999999985331 35789999999999999988 8999999987 6799999998
Q ss_pred C----C--eeEEEEEecCC
Q 002454 392 G----K--KYKELDFWLPN 404 (920)
Q Consensus 392 ~----~--~~~~vg~w~~~ 404 (920)
. + .+++||.|++.
T Consensus 476 ~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 476 LSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred ecCCCCcEEEEEEEEEcCC
Confidence 3 2 37899999864
No 20
>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=7.6e-39 Score=351.13 Aligned_cols=355 Identities=17% Similarity=0.273 Sum_probs=275.6
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEE--EEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSL--QIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~--~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+|++.++..+ +.|+++|++++|++. ++++|++ ...|+ +|+..+.+++|+|++ ++|.|||||.++..+
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~-~gv~ai~Gp~~~~~~ 75 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMN-QGILALVSSIGCTSA 75 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHh-CCeEEEECCCcchHH
Confidence 4899999986444 459999999999876 6785554 77788 599999999999995 699999999888888
Q ss_pred HHHHHhhccCCccEEee----cCCCC---CCCcc--CCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCC
Q 002454 111 AVVAEIASRVQVPILSF----AAPAV---TPLSM--SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG 181 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~----~~~~~---~~~~~--~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~ 181 (920)
..++++|+.++||+|++ ++++. .+... +..||+++| |+ ..+++++++++++|+|++++++|+ +++|
T Consensus 76 ~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~d-~~~~- 150 (400)
T cd06391 76 GSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFYD-TDYD- 150 (400)
T ss_pred HHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEEe-CCcc-
Confidence 99999999999999974 33210 01222 445666666 65 678999999999999999998655 5567
Q ss_pred CcchHHHHHHHHhccCCceEeEEeecCCCCCCCCC-hHHHHH-HHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDP-KEAVRG-ELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 182 ~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~-~~d~~~-~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
...++.+.+.+++.| ++|.... +.... .++ ...+.. .+++|++ ++.++||+ +|+.+.+..++++|+++||
T Consensus 151 -~~~l~~l~~~~~~~~-i~I~~~~-~~~~~--~~~~~~~~~~~~~~~l~~~~~~~rviVl-~~~~~~~~~ll~~a~~~gm 224 (400)
T cd06391 151 -IRGIQEFLDKVSQQG-MDVALQK-VENNI--NKMITGLFRTMRIEELNRYRDTLRRAIL-VMNPATAKSFITEVVETNL 224 (400)
T ss_pred -HHHHHHHHHHHHHcC-CeEEEEe-cCcch--hhhhHHHHHHHHHHHHHhhcccccEEEE-ECCcHHHHHHHHHHHHcCC
Confidence 778889999999999 9998643 22111 000 012322 4455554 56788888 9999999999999999999
Q ss_pred CCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccC--CCCC-CCCCcchhhhHhh
Q 002454 258 VGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEY--PEED-HFHPSIHALRAHD 334 (920)
Q Consensus 258 ~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~-~~~~~~~a~~~YD 334 (920)
++++|+||+++......+..+ .....+.|+.++.++.+.. ....+|..+|..++...+ +... ...+..+++++||
T Consensus 225 ~~~~y~wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~~-~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayD 302 (400)
T cd06391 225 VAFDCHWIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPLP-QNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYD 302 (400)
T ss_pred CCCCeEEEEeCccccccccch-HHhcccceEEEeccCCchH-HHHHHHHHHHhhhccccccCccccccccccchhhHHHH
Confidence 999999999999887776533 3345667888888876643 567778788877663322 1111 1245689999999
Q ss_pred HHHHHHHHHHhhcc-----------C-------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-----
Q 002454 335 SIKIITEAIGRLNY-----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV----- 391 (920)
Q Consensus 335 av~~~a~Al~~~~~-----------~-------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~----- 391 (920)
||+++|+|++++.. + ...|..|+++|++++|+|+||+|+|+++|+|.++.|+|+++.
T Consensus 303 aV~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~~~~~ 382 (400)
T cd06391 303 TVLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTNYGEDL 382 (400)
T ss_pred HHHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEeeccccC
Confidence 99999999997631 1 135899999999999999999999999999999999999996
Q ss_pred CCeeEEEEEecCCCCCc
Q 002454 392 GKKYKELDFWLPNFGFS 408 (920)
Q Consensus 392 ~~~~~~vg~w~~~~g~~ 408 (920)
+.++++||+|++..|+.
T Consensus 383 ~~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 383 GRGVRKLGCWNPITGLN 399 (400)
T ss_pred CCcceEEEEEcCCcCCC
Confidence 88999999999998864
No 21
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=6.9e-39 Score=363.66 Aligned_cols=360 Identities=19% Similarity=0.295 Sum_probs=281.3
Q ss_pred ccEEEEEEEeCC--C-----------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHH----HHHHH
Q 002454 33 EVTKIGAIVDAN--S-----------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAAT----AAQEL 92 (920)
Q Consensus 33 ~~i~IG~i~p~s--~-----------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~----~a~~l 92 (920)
++|+||+++|.+ . ..|.+...|+++|+++||+++ +|++|+++++|+++++..+.+ .+.++
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 468999999998 1 267778999999999999998 789999999999997754444 44444
Q ss_pred hhc------------------CCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHH
Q 002454 93 INK------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQ 154 (920)
Q Consensus 93 i~~------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~ 154 (920)
+.+ ++|.|||||.+|..+.+++++++.++||+|+++++++ ...++..+||+||+.|++..+
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~-~ls~~~~~~~ffR~~p~d~~~ 159 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAP-ELSDDRRYDFFSRVVPPDSFQ 159 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCCh-hhcccccCCceEEccCCHHHH
Confidence 432 5899999999999999999999999999999988843 344456789999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc-CCce
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSR 233 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~ 233 (920)
++++++++++++|++|++||++++|| ....+.+.+.+++.|..+|.....++... ...|+.++|+++++ .++|
T Consensus 160 ~~ai~~~i~~~~w~~Vaii~~~~~yg--~~~~~~~~~~~~~~g~~~v~~~~~i~~~~----~~~d~~~~l~~ik~~~~~~ 233 (463)
T cd06376 160 AQAMVDIVKALGWNYVSTLASEGNYG--ESGVEAFTQISREAGGVCIAQSIKIPREP----RPGEFDKIIKRLLETPNAR 233 (463)
T ss_pred HHHHHHHHHHcCCeEEEEEEeCChHH--HHHHHHHHHHHHHcCCceEEEEEecCCCC----CHHHHHHHHHHHhccCCCe
Confidence 99999999999999999999999999 99999999999886415665555444322 34789999999986 6999
Q ss_pred EEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHH-----
Q 002454 234 VFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL----- 308 (920)
Q Consensus 234 vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~----- 308 (920)
+||+ .++..++..++++|+++|+.+ .|+||+++.|........ .....+.|.+++.+.... .+.+++|...
T Consensus 234 vIvl-~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~-~~~F~~~~~~l~~~~ 309 (463)
T cd06376 234 AVII-FANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDVAEGAITILPKRAS-IEGFDAYFTSRTLEN 309 (463)
T ss_pred EEEE-ecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcceeeeEEEEEecccc-chhHHHHHHhCCccc
Confidence 9999 999999999999999999986 489999999865332222 123567899998765433 3556665542
Q ss_pred -----HHHhccccCCC----------------CCCC---------CCcchhhhHhhHHHHHHHHHHhhcc---------C
Q 002454 309 -----FRRNFTSEYPE----------------EDHF---------HPSIHALRAHDSIKIITEAIGRLNY---------N 349 (920)
Q Consensus 309 -----~~~~~~~~~~~----------------~~~~---------~~~~~a~~~YDav~~~a~Al~~~~~---------~ 349 (920)
|-..+|++.+. |.+. .....++++||||+++|+||+++.. +
T Consensus 310 ~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C 389 (463)
T cd06376 310 NRRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGVC 389 (463)
T ss_pred CCCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCCC
Confidence 11112211111 1111 1123678999999999999998852 1
Q ss_pred ----CCChHHHHHHHHhCccccccc-cEEEeCCCccCCCcEEEEecc-----CCeeEEEEEecCC
Q 002454 350 ----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVV-----GKKYKELDFWLPN 404 (920)
Q Consensus 350 ----~~~~~~l~~~l~~~~f~g~sG-~i~F~~~g~~~~~~~~i~~~~-----~~~~~~vg~w~~~ 404 (920)
..++..|++.|++++|+|++| +|.||++|++ ...|+|++++ ..++++||.|+++
T Consensus 390 ~~~~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~~ 453 (463)
T cd06376 390 PEMEPADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTDE 453 (463)
T ss_pred ccCCCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECCe
Confidence 146889999999999999999 8999999987 4578888877 3478999999863
No 22
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=3.2e-39 Score=356.21 Aligned_cols=322 Identities=19% Similarity=0.280 Sum_probs=276.0
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH-
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE- 109 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~- 109 (920)
.++||+++|.++ ...+++.|+..+|.+. .+.+++++..|+.+||.+++.++|+++.+++|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 489999999883 2367777777777655 5899999999999999999999999998789999999999998
Q ss_pred --HHHHHHhhccCCccEEeecCCCCCCC-ccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 002454 110 --TAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 110 --~~~va~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (920)
+.+++.+++.++||+|+++++++ .. .++..+||+||+.|++..+++++++++++++|++|++||++++|| ++..
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~-~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g--~~~~ 153 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRES-IFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGY--RDFL 153 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeecccc-ccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCccc--HHHH
Confidence 89999999999999999988853 44 456789999999999999999999999999999999999999999 9999
Q ss_pred HHHHHHHhccCCce--EeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEE
Q 002454 187 ALLAEALQNVSSSE--IQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (920)
Q Consensus 187 ~~l~~~l~~~g~~~--i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (920)
+.+++.+++.| ++ ++....++... ..++...+.++++.++|+||+ .|+..++..++++|+++||++++|+|
T Consensus 154 ~~l~~~l~~~g-~~~~i~~~~~~~~~~-----~~~~~~~l~~l~~~~~~vivl-~~~~~~~~~il~~a~~~g~~~~~~~w 226 (362)
T cd06367 154 DRVETTLEESF-VGWEFQLVLTLDLSD-----DDGDARLLRQLKKLESRVILL-YCSKEEAERIFEAAASLGLTGPGYVW 226 (362)
T ss_pred HHHHHHHHhcc-cceeeeeeEEeccCC-----CcchHHHHHHHHhcCCcEEEE-eCCHHHHHHHHHHHHHcCCCCCCcEE
Confidence 99999999999 88 77666665533 126788888999889999998 99999999999999999999999999
Q ss_pred EEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHH
Q 002454 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (920)
Q Consensus 265 i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~ 344 (920)
|+++.+..... ...+...|++++..... ..+++++||||+++++|++
T Consensus 227 I~~~~~~~~~~----~~~~~~~G~~g~~~~~~-----------------------------~~~~~~~~Dav~~~a~Al~ 273 (362)
T cd06367 227 IVGELALGSGL----APEGLPVGLLGVGLDTW-----------------------------YSLEARVRDAVAIVARAAE 273 (362)
T ss_pred EECcccccccC----CccCCCCeeEEEEeccc-----------------------------ccHHHHHHHHHHHHHHHHH
Confidence 99999864211 22355678888875321 2346789999999999999
Q ss_pred hhccC------------------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CCeeEEEEEecC
Q 002454 345 RLNYN------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (920)
Q Consensus 345 ~~~~~------------------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~~~~~vg~w~~ 403 (920)
++..+ ..+|..|.++|++++|+|++|+|+||++|++..+.|+|++++ +.+|++||.|++
T Consensus 274 ~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 274 SLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred HHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 87431 146779999999999999999999999999878899999999 889999999985
No 23
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=6.2e-39 Score=362.54 Aligned_cols=359 Identities=17% Similarity=0.198 Sum_probs=292.5
Q ss_pred cEEEEEEEeCCC----------------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHH
Q 002454 34 VTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATA 88 (920)
Q Consensus 34 ~i~IG~i~p~s~----------------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~ 88 (920)
.|.||+++|.+. ..|.+...||.+|+++||++. ||++|.+.++|+++++..|++.
T Consensus 2 di~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~~ 81 (469)
T cd06365 2 DLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALES 81 (469)
T ss_pred CeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHHH
Confidence 578888888861 236788899999999999887 8999999999999999999999
Q ss_pred HHHHhhc-------------CCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHH
Q 002454 89 AQELINK-------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQM 155 (920)
Q Consensus 89 a~~li~~-------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~ 155 (920)
+.+++.. ++|.|+|||.+|..+.+++++++.++||+|+++++++ ...++..|||+||+.|++..++
T Consensus 82 ~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~-~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 82 SLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDP-LLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCc-cccchhhCCcceEecCCchhHH
Confidence 9999853 5799999999999999999999999999999998743 4445678899999999999999
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
.++++++++|+|++|++|+++++|| +...+.+.+++++.| ++|+....++... .+...++...+.+++++++|+|
T Consensus 161 ~ai~~li~~f~W~~Vaiv~~d~~yg--~~~~~~~~~~~~~~g-i~I~~~~~i~~~~--~~~~~~~~~~l~~i~~~~arvI 235 (469)
T cd06365 161 LGMVSLMLHFSWTWVGLVISDDDRG--EQFLSDLREEMQRNG-ICLAFVEKIPVNM--QLYLTRAEKYYNQIMTSSAKVI 235 (469)
T ss_pred HHHHHHHHhcCCeEEEEEEecChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCc--hhhHHHHHHHHHHhhcCCCeEE
Confidence 9999999999999999999999999 999999999999999 9999988887654 1112478899999999999999
Q ss_pred EEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHH------
Q 002454 236 IVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALF------ 309 (920)
Q Consensus 236 i~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~------ 309 (920)
|+ .++.+.+..++.++.+.+..+ ++||+++.|..... ......+.++|+++++++.+.. +.+++|.+++
T Consensus 236 vl-~~~~~~~~~l~~~~~~~~~~~--~~wi~s~~w~~~~~-~~~~~~~~~~G~lg~~~~~~~~-~~f~~fl~~l~~~~~~ 310 (469)
T cd06365 236 II-YGDTDSLLEVSFRLWQYLLIG--KVWITTSQWDVTTS-PKDFTLNSFHGTLIFSHHHSEI-PGFKDFLQTVNPSKYP 310 (469)
T ss_pred EE-EcCcHHHHHHHHHHHHhccCc--eEEEeecccccccc-ccccccceeeEEEEEEeccCcC-cchHHHhhccCcccCC
Confidence 99 888888877766666655544 79999999865332 2234456789999999877644 7788887663
Q ss_pred ----HHhccccCCCCC----------CCC----------------CcchhhhHhhHHHHHHHHHHhhccCC---------
Q 002454 310 ----RRNFTSEYPEED----------HFH----------------PSIHALRAHDSIKIITEAIGRLNYNI--------- 350 (920)
Q Consensus 310 ----~~~~~~~~~~~~----------~~~----------------~~~~a~~~YDav~~~a~Al~~~~~~~--------- 350 (920)
-+.||++.+.|. .+. ....+...||||+++|+||+++..+.
T Consensus 311 ~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~~ 390 (469)
T cd06365 311 EDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENNG 390 (469)
T ss_pred CccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCCC
Confidence 233443322211 000 12356779999999999999986431
Q ss_pred ----CChHHHHHHHHhCccccccc-cEEEeCCCccCCCcEEEEecc--C---CeeEEEEEecCC
Q 002454 351 ----SSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVV--G---KKYKELDFWLPN 404 (920)
Q Consensus 351 ----~~~~~l~~~l~~~~f~g~sG-~i~F~~~g~~~~~~~~i~~~~--~---~~~~~vg~w~~~ 404 (920)
..+.+|++.|++++|.|.+| .+.||++|+. ...|+|++++ + ..+++||.|++.
T Consensus 391 ~~~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 391 KRLIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred CCCCccHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 45789999999999999999 7999999997 6799999996 2 248999999863
No 24
>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=9.9e-39 Score=357.16 Aligned_cols=342 Identities=20% Similarity=0.291 Sum_probs=282.6
Q ss_pred CCccEEEEEEEeCCC---------------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHH
Q 002454 31 IEEVTKIGAIVDANS---------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAA 86 (920)
Q Consensus 31 ~~~~i~IG~i~p~s~---------------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~ 86 (920)
.++++.||+++|.+. ..|.....|+++|+++||+++ +|++|++++.|+++ +..+.
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 357899999999982 346778899999999999998 58999999999977 77799
Q ss_pred HHHHHHhhc---------------CCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCc
Q 002454 87 TAAQELINK---------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASND 151 (920)
Q Consensus 87 ~~a~~li~~---------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~ 151 (920)
+.+.+|+.+ ++|.+||||.+|..+.+++++++++++|+|+++++++ .......+|++||+.|++
T Consensus 82 ~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~-~lt~~~~~~~~fr~~~~~ 160 (410)
T cd06363 82 PPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSE-VLSNKELYPSFLRTVPSD 160 (410)
T ss_pred HHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCc-cccccccCCCeeEecCCc
Confidence 999999864 7999999999999999999999999999999988842 333456789999999999
Q ss_pred hHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC
Q 002454 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (920)
Q Consensus 152 ~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~ 231 (920)
..++.++++++.+++|+++++||++++|| ....+.+++.+++.| ++++....++... ....|+.++|.++++++
T Consensus 161 ~~~~~al~~~l~~~~~k~vaii~~~~~~g--~~~~~~~~~~l~~~g-i~i~~~~~~~~~~---~~~~d~~~~l~~i~~~~ 234 (410)
T cd06363 161 KDQIEAMVQLLQEFGWNWVAFLGSDDEYG--RDGLQLFSELIANTG-ICIAYQGLIPLDT---DPETDYQQILKQINQTK 234 (410)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEeCChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCC---chHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999 999999999999999 9999888776532 13478999999999999
Q ss_pred ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHH
Q 002454 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR 311 (920)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~ 311 (920)
+|+||+ .+.++.+..++++|+++|+.+. .|++++.|................+++++....+ ..+.+++|.++
T Consensus 235 ~dvIil-~~~~~~~~~il~qa~~~g~~~~--~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~--- 307 (410)
T cd06363 235 VNVIVV-FASRQPAEAFFNSVIQQNLTGK--VWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTV-TIPGFSDFIYS--- 307 (410)
T ss_pred CeEEEE-EcChHHHHHHHHHHHhcCCCCC--EEEEeCcccccccccCCccceeeccEEEEEeCCC-CCccHHHHHHH---
Confidence 999999 9999999999999999999764 7898887653211111112233445666654443 34666666655
Q ss_pred hccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC---------CCChHHHHHHHHhCccccccccEEEeCCCccCC
Q 002454 312 NFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN---------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNA 382 (920)
Q Consensus 312 ~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~---------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~ 382 (920)
+++.+||||+++++|++++..+ ..+++.|+++|++++|+|++|++.||++|++ .
T Consensus 308 ----------------~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~-~ 370 (410)
T cd06363 308 ----------------FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDP-N 370 (410)
T ss_pred ----------------HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCC-c
Confidence 3467999999999999998321 1368899999999999999999999998886 5
Q ss_pred CcEEEEeccCC----eeEEEEEecCC
Q 002454 383 DTLRIVNVVGK----KYKELDFWLPN 404 (920)
Q Consensus 383 ~~~~i~~~~~~----~~~~vg~w~~~ 404 (920)
..+.|++++.. ++++||+|++.
T Consensus 371 ~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 371 FGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred cceEEEEEEEcCCceeEEEEEEEECC
Confidence 67888888432 69999999984
No 25
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=1.1e-38 Score=358.81 Aligned_cols=356 Identities=16% Similarity=0.259 Sum_probs=292.0
Q ss_pred ccEEEEEEEeCCC-------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhh--
Q 002454 33 EVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELIN-- 94 (920)
Q Consensus 33 ~~i~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~-- 94 (920)
+++.||++||.+. ..|.+...||.+|+++||+++ ||.+|.+.++|+++++..|++.+.+++.
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 4689999999982 358899999999999999998 7999999999999999999999988873
Q ss_pred ----------------------cCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCch
Q 002454 95 ----------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDS 152 (920)
Q Consensus 95 ----------------------~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~ 152 (920)
.++|.|||||.+|..+.+++++++.++||+|+++++++ .+.++..+||+||+.|++.
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~-~Ls~~~~~~~ffRt~psd~ 159 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSA-KLSDKSRYDYFARTVPPDF 159 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCCh-hhcccccCCCeEEecCCcH
Confidence 24799999999999999999999999999999998843 4445678999999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc-CC
Q 002454 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQ 231 (920)
Q Consensus 153 ~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~-~~ 231 (920)
.+++++++++++++|++|++||++++|| +...+.+.+.+++.| ++|+....++... ...|+.++++++++ .+
T Consensus 160 ~qa~ai~~ll~~~~W~~Vaii~~~~~yG--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~----~~~d~~~~l~~l~~~~~ 232 (458)
T cd06375 160 YQAKAMAEILRFFNWTYVSTVASEGDYG--ETGIEAFEQEARLRN-ICIATSEKVGRSA----DRKSYDSVIRKLLQKPN 232 (458)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEeCchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCC----CHHHHHHHHHHHhccCC
Confidence 9999999999999999999999999999 999999999999999 9999888886543 34789999999875 69
Q ss_pred ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHH---
Q 002454 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL--- 308 (920)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~--- 308 (920)
+|+||+ .+...++..++++|+++|+. ..||+++.|..... .........+|++++.+.... .+.+++|++.
T Consensus 233 a~vVvl-~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~-~~~~~~~~~~G~i~~~~~~~~-i~~f~~yl~~l~p 306 (458)
T cd06375 233 ARVVVL-FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQES-IVKGSEDVAEGAITIELASHP-IPDFDRYFQSLTP 306 (458)
T ss_pred CEEEEE-ecChHHHHHHHHHHHHcCCc---EEEEEeccccccch-hhhccchhhceEEEEEecccc-chhHHHHHHhCCc
Confidence 999999 89999999999999999987 59999999864321 112233567899999876533 3667766655
Q ss_pred -------HHHhccccCCCCC------------C---------CCCcchhhhHhhHHHHHHHHHHhhcc--C---------
Q 002454 309 -------FRRNFTSEYPEED------------H---------FHPSIHALRAHDSIKIITEAIGRLNY--N--------- 349 (920)
Q Consensus 309 -------~~~~~~~~~~~~~------------~---------~~~~~~a~~~YDav~~~a~Al~~~~~--~--------- 349 (920)
|-..||++.+.|. + ......+...||||+++|+||+++.. +
T Consensus 307 ~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~ 386 (458)
T cd06375 307 ETNTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDA 386 (458)
T ss_pred CcCCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 2223333222211 0 01234678899999999999999862 1
Q ss_pred --CCChHHHH-HHHHhCccc-----cccc-cEEEeCCCccCCCcEEEEeccC--C----eeEEEEEecC
Q 002454 350 --ISSPEMLL-RQMLSSDFS-----GLSG-KIRFKDGELLNADTLRIVNVVG--K----KYKELDFWLP 403 (920)
Q Consensus 350 --~~~~~~l~-~~l~~~~f~-----g~sG-~i~F~~~g~~~~~~~~i~~~~~--~----~~~~vg~w~~ 403 (920)
..++.+|+ +.|++++|. |.+| ++.||++|+. ...|+|++++. + .+++||.|+.
T Consensus 387 ~~~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 387 MKPLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 14678899 599999999 9988 8999999986 67899999983 3 2789999964
No 26
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.9e-38 Score=354.05 Aligned_cols=350 Identities=15% Similarity=0.232 Sum_probs=284.7
Q ss_pred EEEEEEEeCCC----cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCch
Q 002454 35 TKIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (920)
Q Consensus 35 i~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s 107 (920)
|+||+++|+++ ..|.....|+++|+++||+++ +|++|++++.|+++||..|+.++++|+. ++|.+||||.+|
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~-~~v~aiiGp~~S 79 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWK-RGVVAFIGPECT 79 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHh-cCceEEECCCch
Confidence 68999999984 458899999999999999998 5899999999999999999999999996 599999999998
Q ss_pred HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHH
Q 002454 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 108 ~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (920)
.. +++.+++.++||+|+++++++ ...+...||++||+.|++..++.++++++++++|+++++||++++|| .+..+
T Consensus 80 ~~--~~a~i~~~~~iP~Is~~a~~~-~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g--~~~~~ 154 (404)
T cd06370 80 CT--TEARLAAAWNLPMISYKCDEE-PVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKY--SSVFE 154 (404)
T ss_pred hH--HHHHHHhhcCCcEEecccCCc-cccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCccc--HHHHH
Confidence 44 456799999999999988843 34445678999999999999999999999999999999999999999 99999
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCC-CCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEE
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSI-SDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWI 265 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~-~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i 265 (920)
.+++.+++.| ++|+....++..... .+...++.+.+.++++ .++++|+ .++..++..++++|+++||. +.+|+||
T Consensus 155 ~~~~~~~~~g-~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~v~-~~~~~~~~~~l~qa~~~g~~~~~~y~~i 231 (404)
T cd06370 155 TLKEEAELRN-ITISHVEYYADFYPPDPIMDNPFEDIIQRTKE-TTRIYVF-IGEANELRQFLMSMLDEGLLESGDYMVL 231 (404)
T ss_pred HHHHHHHHcC-CEEEEEEEECCCCCchhhhHHHHHHHHHhccC-CCEEEEE-EcCHHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 9999999999 999998888764210 0124688888988875 4677777 67778999999999999998 6889999
Q ss_pred Eecccccc------------------cccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCC------C
Q 002454 266 VTNTVANA------------------LDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE------D 321 (920)
Q Consensus 266 ~t~~~~~~------------------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~------~ 321 (920)
+++..... ..........+++|++.+.+..+ ++.+.+|.+.|++.+......+ .
T Consensus 232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 309 (404)
T cd06370 232 GVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV--SPDYDSFSIFVRKYNLEPPFNGDLGESEL 309 (404)
T ss_pred EEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC--CchHHHHHHHHHHhccCCCCccccccccc
Confidence 87641100 00111233356788888775444 5678889999988754322111 2
Q ss_pred CCCCcchhhhHhhHHHHHHHHHHhhccC---CCChHHHHHHHHhCccccccc-cEEEeCCCccCCCcEEEEeccCCeeE
Q 002454 322 HFHPSIHALRAHDSIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVGKKYK 396 (920)
Q Consensus 322 ~~~~~~~a~~~YDav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~f~g~sG-~i~F~~~g~~~~~~~~i~~~~~~~~~ 396 (920)
...|+.+++++|||++++++|++++... ..+++.|.++|++++|+|++| +|.||++|++ ...|.++++++++|-
T Consensus 310 ~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~-~~~y~v~~~~~~~~~ 387 (404)
T cd06370 310 VLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDA-EGNYSVLALQPIPPG 387 (404)
T ss_pred ccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCc-ccceEEEEecccccc
Confidence 3457788999999999999999998321 247999999999999999999 9999999988 588999999887654
No 27
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=3e-38 Score=352.11 Aligned_cols=359 Identities=12% Similarity=0.161 Sum_probs=284.5
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
+||++.|.+ +..+.....|+++|+++||+++ +|++|++++.|++|+|..++..+++++.+++|.+||||.+|..
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999977 3456777799999999999997 5799999999999999999999999998789999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKL 186 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~---~g~~~~~~ 186 (920)
+.+++++++.+++|+|+++++++ ...++..+|+++|+.|++..++.++++++++++|++|++||++++ ++......
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~-~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~ 159 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTA-KLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELW 159 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCc-cccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHH
Confidence 99999999999999999988743 444556789999999999999999999999999999999997543 22001123
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
+.+.+.++ .+ ++++..+.++... .++...+.+.+++++|+||+ +++.+++..++++|+++||.+++|+||.
T Consensus 160 ~~~~~~~~-~~-~~i~~~~~~~~~~------~d~~~~~l~~~~~~~~vii~-~~~~~~~~~i~~~a~~~g~~~~~y~~i~ 230 (391)
T cd06372 160 KAVENQLK-FH-FNITATVRYSSSN------PDLLQEKLRYISSVARVIIL-ICSSEDAKAILQAAEKLGLMKGKFVFFL 230 (391)
T ss_pred HHHHHHHh-hC-EEEEEEEecCCCC------hHHHHHHHHhhhccceEEEE-EcChHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 34455554 67 8888887776543 57776676666789999999 9999999999999999999988899999
Q ss_pred ecc-----ccccccc-CChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCC---CCCCcchhhhHhhHHH
Q 002454 267 TNT-----VANALDS-LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED---HFHPSIHALRAHDSIK 337 (920)
Q Consensus 267 t~~-----~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~---~~~~~~~a~~~YDav~ 337 (920)
+.. |...... ......+..+|++++.+..+...+...+|.++|++++......+. ....+.+++++||||+
T Consensus 231 ~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~ 310 (391)
T cd06372 231 LQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVL 310 (391)
T ss_pred ehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHH
Confidence 633 3211110 111223456788888776544456678899998888753321111 1234678999999999
Q ss_pred HHHHHHHhhccC---CCChHHHHHHHH---hCccccccccEEEeCCCccCCCcEEEEeccC----CeeEEEEEecCCC
Q 002454 338 IITEAIGRLNYN---ISSPEMLLRQML---SSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNF 405 (920)
Q Consensus 338 ~~a~Al~~~~~~---~~~~~~l~~~l~---~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~----~~~~~vg~w~~~~ 405 (920)
++++|++++... ..+|..+.+.|+ +++|+|++|+|+||++|+| .+.|.|.++++ ..++.||.|+..+
T Consensus 311 ~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 311 LYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQKSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred HHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccccCCccceeeEEEecchh
Confidence 999999996543 247889999999 5899999999999999998 78999999965 3489999999854
No 28
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=3.6e-38 Score=352.30 Aligned_cols=359 Identities=19% Similarity=0.246 Sum_probs=305.1
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
|||+++|++ +..|+....|+++|+++||+++ +|++|++++.|++++|..+++.+.+|+.+++|.+||||.+|..
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 599999999 5678999999999999999997 5899999999999999999999999998889999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLAL 188 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~ 188 (920)
+.+++++++.+++|+|+++++++ ....+..+||+||+.|++..++.++++++++++|++++++++++. || ....+.
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~~~-~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g--~~~~~~ 157 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCVAL-SLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENC--FFTLEA 157 (389)
T ss_pred HHHHHHHHhcCCCCEeccccccc-ccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccH--HHHHHH
Confidence 99999999999999999988843 343446789999999999999999999999999999999999988 88 888999
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
+.+.+++.| ++++....++... ...|+..+++++++.+ |+||+ ++.+.++..++++++++|+.+++++|++++
T Consensus 158 ~~~~~~~~G-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~-~vii~-~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~ 230 (389)
T cd06352 158 LEAALREFN-LTVSHVVFMEDNS----GAEDLLEILQDIKRRS-RIIIM-CGSSEDVRELLLAAHDLGLTSGDYVFILID 230 (389)
T ss_pred HHHHHHhcC-CeEEEEEEecCCc----cchhHHHHHHHhhhcc-eEEEE-ECCHHHHHHHHHHHHHcCCCCCcEEEEEEe
Confidence 999999999 9999988887642 1368999999999777 98888 888999999999999999998889999987
Q ss_pred ccccccc-----------cCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCC--CCCCCcchhhhHhhH
Q 002454 269 TVANALD-----------SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE--DHFHPSIHALRAHDS 335 (920)
Q Consensus 269 ~~~~~~~-----------~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~--~~~~~~~~a~~~YDa 335 (920)
.+..... ..........+|++++.++.+ .++.+++|.++|+++|...+..| ....++.+++.+|||
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDa 309 (389)
T cd06352 231 LFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPP-DNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDA 309 (389)
T ss_pred hhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCC-CCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHH
Confidence 7654321 112223355678888777655 56889999999999885443222 233567899999999
Q ss_pred HHHHHHHHHhhccCC---CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccC--CeeEEEEEecCCCC
Q 002454 336 IKIITEAIGRLNYNI---SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG--KKYKELDFWLPNFG 406 (920)
Q Consensus 336 v~~~a~Al~~~~~~~---~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~--~~~~~vg~w~~~~g 406 (920)
++++++|++++.... .++..+.+.|++.+|+|++|+++||++|++ ...+.|+++++ +++..++...+.++
T Consensus 310 v~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~~~~~~~~~~~~~ 384 (389)
T cd06352 310 VLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQLEVVYLYDTSSG 384 (389)
T ss_pred HHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCceEEEEEeccccce
Confidence 999999999996542 368899999999999999999999998888 57899988886 67888887777654
No 29
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=3.7e-38 Score=352.04 Aligned_cols=359 Identities=19% Similarity=0.251 Sum_probs=287.7
Q ss_pred EEEEEEeCCC----cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCC----CHHHHHHHHHHHhhcCCeEEEEcC
Q 002454 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR----DPFQAATAAQELINKEKVKVIAGM 104 (920)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~----d~~~a~~~a~~li~~~~v~aiiGp 104 (920)
+||+++|.+. ..|.....|+++|+++||+++ +|++|++++.|+++ ++..++..+.+++.+++|.|||||
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 5899999993 356788999999999999998 58999999999999 899999999999877899999999
Q ss_pred CchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCC--C
Q 002454 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG--D 182 (920)
Q Consensus 105 ~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~--~ 182 (920)
.+|..+.+++++++.++||+|+++++++ .......+||+||+.|++..++.++++++++++|+++++||+++++++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~-~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~ 159 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAA-GFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPC 159 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCcc-ccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchH
Confidence 9999999999999999999999988842 333346789999999999999999999999999999999999887631 1
Q ss_pred cchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCe
Q 002454 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDS 262 (920)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~ 262 (920)
....+.+.+.+++.| ++++... +.... ...|+.++|+++++.. |+||+ +++...+..++++|+++|+...+|
T Consensus 160 ~~~~~~~~~~~~~~g-~~v~~~~-~~~~~----~~~d~~~~l~~ik~~~-~vii~-~~~~~~~~~~~~qa~~~g~~~~~y 231 (396)
T cd06373 160 YFTLEGVYTVLKEEN-ITVSDFP-FDEDK----ELDDYKELLRDISKKG-RVVIM-CASPDTVREIMLAAHRLGLTSGEY 231 (396)
T ss_pred HHHHHHHHHHHhhcC-ceeeEEe-ecCCc----cccCHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCcE
Confidence 335678888999999 8887543 43321 1268999999999765 99998 999999999999999999999999
Q ss_pred EEEEeccccccc-----------ccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCC-CCCCCcchhh
Q 002454 263 VWIVTNTVANAL-----------DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE-DHFHPSIHAL 330 (920)
Q Consensus 263 ~~i~t~~~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~a~ 330 (920)
+||..+...... ...........+|++++..+.+ .++.+++|.++|++++..++..+ +...|+.+++
T Consensus 232 v~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~-~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~ 310 (396)
T cd06373 232 VFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREP-DNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAG 310 (396)
T ss_pred EEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCC-CChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHH
Confidence 999876543211 0001112234567777765444 35788999999988644333211 1234677899
Q ss_pred hHhhHHHHHHHHHHhhcc---CCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEec---cCCeeEEEEEecCC
Q 002454 331 RAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKELDFWLPN 404 (920)
Q Consensus 331 ~~YDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~---~~~~~~~vg~w~~~ 404 (920)
.+|||++++++||+++.. ...++++|+++|++.+|+|++|+++||++|++ ...+.++.+ .+++++.+|.+++.
T Consensus 311 ~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~~~~~~~g~~~~~~~~~~~ 389 (396)
T cd06373 311 AFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWDMTDTETGTFEVVANYNGS 389 (396)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeeeccCCCCceEEEEeecccc
Confidence 999999999999998732 11478999999999999999999999999987 567777554 67899999999885
Q ss_pred C
Q 002454 405 F 405 (920)
Q Consensus 405 ~ 405 (920)
+
T Consensus 390 ~ 390 (396)
T cd06373 390 N 390 (396)
T ss_pred c
Confidence 3
No 30
>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=8.7e-38 Score=349.88 Aligned_cols=357 Identities=15% Similarity=0.195 Sum_probs=281.1
Q ss_pred EEEEEEeCCCc---cc-HHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHH-----HHHHHHHHhhcCCeEEEEc
Q 002454 36 KIGAIVDANSQ---MG-KQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQ-----AATAAQELINKEKVKVIAG 103 (920)
Q Consensus 36 ~IG~i~p~s~~---~g-~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~-----a~~~a~~li~~~~v~aiiG 103 (920)
+||+++|++.. .| .....|+++|+++||+++ +|++|++++.|++++|.. +...+.+++..++|.+|||
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 58999999833 34 788899999999999997 589999999999766654 3444444444579999999
Q ss_pred CCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEE-EEEeCCCCCC
Q 002454 104 METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA-IYEDNVYGGD 182 (920)
Q Consensus 104 p~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~i-i~~~~~~g~~ 182 (920)
|.||..+.+++++++.++||+|+++++++ ...++..|||+||+.|++..++.++++++++++|+++++ +|.++.+++
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~-~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~- 158 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPAL-GFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDD- 158 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChh-hcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccc-
Confidence 99999999999999999999999998843 444557899999999999999999999999999999984 566554221
Q ss_pred cc---hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 183 SG---KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 183 ~~---~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+. ..+.+.+.+++.| ++|+.....+. +..|+..+|+++++.. |+||+ +++...+..++++|.++||.+
T Consensus 159 ~~~~~~~~~l~~~~~~~g-i~v~~~~~~~~------~~~d~~~~l~~ik~~~-~iii~-~~~~~~~~~i~~~a~~~g~~~ 229 (405)
T cd06385 159 RPCYFAMEGLYMELKKNN-ITVVDLVFEED------DLINYTTLLQDIKQKG-RVIYV-CCSPDIFRRLMLQFWREGLPS 229 (405)
T ss_pred cchHHHHHHHHHHHHhCC-eEEEEeeccCC------chhhHHHHHHHHhhcc-eEEEE-eCCHHHHHHHHHHHHHcCCCC
Confidence 33 4588899999999 99987653322 2368999999998654 99998 999999999999999999999
Q ss_pred CCeEEEEeccccccccc------------CChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCC-CCCCCc
Q 002454 260 KDSVWIVTNTVANALDS------------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE-DHFHPS 326 (920)
Q Consensus 260 ~~~~~i~t~~~~~~~~~------------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~ 326 (920)
++|+||+++.+...... .+......+++++.+..+.+ .++.+++|.++|+++...++... ....|+
T Consensus 230 ~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 308 (405)
T cd06385 230 EDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEP-QNPEYKEFLSDLKTDAKEMFNFTVEDSLMN 308 (405)
T ss_pred CcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCC-CChhHHHHHHHHHHHhhccCCCccchhhHH
Confidence 99999998775432221 11233456788887754444 35788999999988643323111 112367
Q ss_pred chhhhHhhHHHHHHHHHHhhcc---CCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEE---eccCCeeEEEEE
Q 002454 327 IHALRAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIV---NVVGKKYKELDF 400 (920)
Q Consensus 327 ~~a~~~YDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~---~~~~~~~~~vg~ 400 (920)
.+++.+||||++++.|++++.. ...+|+.|.++|++++|+|++|++.||++|+| ...+.++ ++++++++.||+
T Consensus 309 ~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~~~~~~~~~~g~~~~v~~ 387 (405)
T cd06385 309 IIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFALWDMTDTESGDFQVVSV 387 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeEEEEccCCCCCcEEEEEE
Confidence 8999999999999999999721 11379999999999999999999999999988 4677766 457889999999
Q ss_pred ecCCC
Q 002454 401 WLPNF 405 (920)
Q Consensus 401 w~~~~ 405 (920)
|+..+
T Consensus 388 ~~~~~ 392 (405)
T cd06385 388 YNGTQ 392 (405)
T ss_pred EcccC
Confidence 98743
No 31
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.1e-37 Score=339.28 Aligned_cols=319 Identities=21% Similarity=0.310 Sum_probs=265.0
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCC-CCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~-~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
+||+++++ ..|.....|+++|+++||+++ +|++|++++.|++ +||..+.+++|+|+.+ +|.+||||.+|..+.
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~-~V~aiiG~~~S~~~~ 77 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQ-GVAAIFGPSSSEASS 77 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhc-CcEEEECCCChhHHH
Confidence 59999997 468999999999999999998 4899999999998 9999999999999975 999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
+++++++++++|+|++++++ +... .++++||+.|++..++.++++++++++|++++++|++++++ ..+++
T Consensus 78 av~~~~~~~~vP~Is~~~~~--~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~------~~l~~ 147 (327)
T cd06382 78 IVQSICDAKEIPHIQTRWDP--EPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL------LRLQE 147 (327)
T ss_pred HHHHHHhccCCCceeccCCc--Cccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH------HHHHH
Confidence 99999999999999987773 3333 56889999999999999999999999999999999988754 44555
Q ss_pred HHhccCCc---eEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 192 ALQNVSSS---EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 192 ~l~~~g~~---~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
.+++.+ . .+.. ..+++ .. |++.+|.+++++++|+|++ .|....+..++++|+++|+.+..|+|++++
T Consensus 148 ~~~~~~-~~g~~v~~-~~~~~------~~-d~~~~l~~i~~~~~d~vv~-~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~ 217 (327)
T cd06382 148 LLQAFG-ISGITITV-RQLDD------DL-DYRPLLKEIKNSGDNRIII-DCSADILIELLKQAQQVGMMSEYYHYIITN 217 (327)
T ss_pred HHHhhc-cCCCeEEE-EEccC------Cc-cHHHHHHHHHhcCceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEec
Confidence 666555 4 3433 33433 12 8999999999999999999 999999999999999999999999999987
Q ss_pred ccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
......+... ......++.++..+.+ +++.+++|.++|+++|..+++......|+.+++.+|||++++
T Consensus 218 ~~~~~~~l~~--~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~--------- 285 (327)
T cd06382 218 LDLHTLDLED--YRYSGVNITGFRLVDP-DSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF--------- 285 (327)
T ss_pred CCccccchhh--hccCceeEEEEEEecC-CchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe---------
Confidence 7544322211 1122335565555444 358899999999999965433333445888999999999988
Q ss_pred CCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCC
Q 002454 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (920)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 407 (920)
|+||+|+||++|+|.++.++|+++.++++++||+|++..||
T Consensus 286 ------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 99999999999999999999999999999999999998775
No 32
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=2.8e-37 Score=340.98 Aligned_cols=342 Identities=18% Similarity=0.182 Sum_probs=272.0
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
|||++.|++ +..|.....|+++|+++||+++ +|++|++++.|++|++..++..+.++ +++|.+||||.+|..
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~~S~~ 78 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPVNPGY 78 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCCCchH
Confidence 589999997 4567889999999999999998 68999999999999988777555443 468999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
+.++++++++++||+|+++++++ ...+...||+++|+.|++ +.++++++++++|++|++||+++++| ....+.+
T Consensus 79 ~~a~a~va~~~~iP~Is~~a~~~-~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~--~~~~~~l 152 (382)
T cd06371 79 CEAAALLAKEWDKALFSWGCVNY-ELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIW--VETAQKL 152 (382)
T ss_pred HHHHHHHHHhcCceEEecccCch-hhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccch--HHHHHHH
Confidence 99999999999999999998843 444456789999999986 46788999999999999999999998 8889999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC-ceEEEEEecCH-----hHHHHHHHHHHHcCCCCCCeE
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASL-----DMTIHLFTEANRMGLVGKDSV 263 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vii~~~~~~-----~~~~~~l~~a~~~g~~~~~~~ 263 (920)
.+.+++.| ++|+....++... .|+.++|+++++.+ +|+||+ ++.. ..+..+++||+++||++.+|+
T Consensus 153 ~~~l~~~g-i~v~~~~~~~~~~------~d~~~~L~~lk~~~~~~viv~-~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~ 224 (382)
T cd06371 153 ASALRAHG-LPVGLVTSMGPDE------KGAREALKKVRSADRVRVVIM-CMHSVLIGGEEQRLLLETALEMGMTDGRYV 224 (382)
T ss_pred HHHHHHCC-CcEEEEEEecCCH------HHHHHHHHHHhcCCCcEEEEE-EeeccccCcHHHHHHHHHHHHcCCcCCcEE
Confidence 99999999 9999887776543 79999999999887 699998 6665 678899999999999999999
Q ss_pred EEEeccccccc-------ccC--ChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccc-cCCC-CCCCCCcchhhhH
Q 002454 264 WIVTNTVANAL-------DSL--NTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTS-EYPE-EDHFHPSIHALRA 332 (920)
Q Consensus 264 ~i~t~~~~~~~-------~~~--~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~-~~~~~~~~~a~~~ 332 (920)
||.++...... ... +.......++++.+..+.+ . .+|.++|++.+.. +++. .+...++.+++.+
T Consensus 225 ~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~----~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 299 (382)
T cd06371 225 FIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSG-E----QSFYEAFRAAQERGEIPSDLEPEQVSPLFGTI 299 (382)
T ss_pred EEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecCC-C----CcHHHHHHHHHhcCCCCCCCCccccchhHHHH
Confidence 99998532111 000 1122245778777765432 2 2344445444321 1111 0111234566789
Q ss_pred hhHHHHHHHHHHhhccC--CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEE
Q 002454 333 HDSIKIITEAIGRLNYN--ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELD 399 (920)
Q Consensus 333 YDav~~~a~Al~~~~~~--~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg 399 (920)
|||++++++|++++.+. ..++++++++|++++|+|++|+|+||++|++ ...|.++++.+++++-+-
T Consensus 300 YDav~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~~ 367 (382)
T cd06371 300 YNSIYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLYP 367 (382)
T ss_pred HHHHHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeeee
Confidence 99999999999999631 2479999999999999999999999999987 799999999998877653
No 33
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=2.9e-36 Score=336.34 Aligned_cols=356 Identities=16% Similarity=0.207 Sum_probs=275.1
Q ss_pred EEEEEEeCC----CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCH----HHHHHHHHHHhhcCCeEEEEcC
Q 002454 36 KIGAIVDAN----SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDP----FQAATAAQELINKEKVKVIAGM 104 (920)
Q Consensus 36 ~IG~i~p~s----~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~----~~a~~~a~~li~~~~v~aiiGp 104 (920)
+||+++|.+ +..-.....|+++|+++||+++ +|++|++++.|+++|+ ..+...+..+...++|.+||||
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 478888866 2233566779999999999998 6899999999986654 3333223222223578999999
Q ss_pred CchHHHHHHHHhhccCCccEEeecCCCCCCCccC-CCCceeEEeccCchHHHHHHHHHHHHcCCe-EEEEEEEeCCCCC-
Q 002454 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYGG- 181 (920)
Q Consensus 105 ~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~-~~~~~~~r~~p~~~~~~~aia~~l~~~~w~-~v~ii~~~~~~g~- 181 (920)
.||..+.+++++++.++||+|+++++++ ...++ ..||++||+.|++..++.++..++++++|+ ++++||+++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~-~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~ 159 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAF-GFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDR 159 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchh-hhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCC
Confidence 9999999999999999999999999843 33444 478999999999999999988888999999 6889997653220
Q ss_pred -CcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCC
Q 002454 182 -DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (920)
Q Consensus 182 -~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (920)
.....+.+.+.+++.| ++|+....+... ..|+.++|.++++ ++|+|++ +++..++..++++|+++|+.++
T Consensus 160 ~~~~~~~~~~~~~~~~g-i~v~~~~~~~~~------~~d~~~~l~~ik~-~~~vIi~-~~~~~~~~~i~~qa~~~g~~~~ 230 (399)
T cd06384 160 PHYFISEGVFLALQEEN-ANVSAHPYHIEK------NSDIIEIIQFIKQ-NGRIVYI-CGPLETFLEIMLQAQREGLTPG 230 (399)
T ss_pred cceEehHHHHHHHHhcC-ceEEEEEEeccc------hhhHHHHHHHHhh-cccEEEE-eCCchHHHHHHHHHHHcCCCCC
Confidence 0113566788888899 998876544432 3789999999996 8999998 9999999999999999999999
Q ss_pred CeEEEEeccccccccc-------------CChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCC--
Q 002454 261 DSVWIVTNTVANALDS-------------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-- 325 (920)
Q Consensus 261 ~~~~i~t~~~~~~~~~-------------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-- 325 (920)
+|+||..+.+...... ......+++++++.++.+.+. ++.+++|.++|++++..++.. +..|
T Consensus 231 ~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~-~~~~~~F~~~~~~~~~~~~~~--~~~p~~ 307 (399)
T cd06384 231 DYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPE-NPEYKEFQRELHARAKEDFGV--ELEPSL 307 (399)
T ss_pred cEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCC-CchHHHHHHHHHHHHhhhcCC--CcCcch
Confidence 9999988765422110 012223467888888766554 577899999998865443321 1123
Q ss_pred -cchhhhHhhHHHHHHHHHHhhcc---CCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEE---EeccCCeeEEE
Q 002454 326 -SIHALRAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI---VNVVGKKYKEL 398 (920)
Q Consensus 326 -~~~a~~~YDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i---~~~~~~~~~~v 398 (920)
+.+++++|||+++++.|++++.. ...++..|+++|++.+|+|++|+++||++|+| ...+.+ .++++++++.+
T Consensus 308 ~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~~~~~~~~~~~g~~~~v 386 (399)
T cd06384 308 MNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDFDLWAMTDHETGKYEVV 386 (399)
T ss_pred HhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccceEEEEeecCCCCeEEEE
Confidence 67799999999999999999821 11389999999999999999999999999988 445555 47789999999
Q ss_pred EEecCCC
Q 002454 399 DFWLPNF 405 (920)
Q Consensus 399 g~w~~~~ 405 (920)
|+|+..+
T Consensus 387 ~~~~~~~ 393 (399)
T cd06384 387 AHYNGIT 393 (399)
T ss_pred EEEcCCC
Confidence 9998854
No 34
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=6.6e-36 Score=328.40 Aligned_cols=335 Identities=17% Similarity=0.217 Sum_probs=285.9
Q ss_pred CccEEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCc
Q 002454 32 EEVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (920)
Q Consensus 32 ~~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~ 106 (920)
+++|+||++.|++ +..|.....|+++|++++|+.| .|++|++++.|++++|..+.+.+++|++ ++|.+|||+.+
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 3679999999999 5578899999999999999988 6899999999999999999999999996 69999999999
Q ss_pred hHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHH-HcCCeEEEEEEEeCCCCCCcch
Q 002454 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR-KYNWRRVAAIYEDNVYGGDSGK 185 (920)
Q Consensus 107 s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~-~~~w~~v~ii~~~~~~g~~~~~ 185 (920)
|..+.++++++++.++|+|++.++ ++......++|+||+.|.+..++.++++++. +++|+++++|++++.|| +..
T Consensus 102 s~~~~a~~~~~~~~~ip~i~~~s~--~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g--~~~ 177 (369)
T PRK15404 102 SSSTQPASDIYEDEGILMITPAAT--APELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYG--EGL 177 (369)
T ss_pred chhHHHhHHHHHHCCCeEEecCCC--CHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchh--HHH
Confidence 999999999999999999998877 3454456789999999999999999999874 46999999999999999 999
Q ss_pred HHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 186 ~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
.+.+++.+++.| .+++....++... .|+.+++.++++.++|+|++ ......+..++++++++|+.. .|+
T Consensus 178 ~~~~~~~~~~~G-~~v~~~~~~~~g~------~D~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~k~~~~~G~~~---~~i 246 (369)
T PRK15404 178 ARSVKDGLKKAG-ANVVFFEGITAGD------KDFSALIAKLKKENVDFVYY-GGYHPEMGQILRQAREAGLKT---QFM 246 (369)
T ss_pred HHHHHHHHHHcC-CEEEEEEeeCCCC------CchHHHHHHHHhcCCCEEEE-CCCchHHHHHHHHHHHCCCCC---eEE
Confidence 999999999999 9999888888755 78999999999999999988 777788899999999999864 467
Q ss_pred EecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHh
Q 002454 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (920)
Q Consensus 266 ~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (920)
+++.+.. ..+.....+..+|+++..++....+|..++|.++|++++ +..++.++..+||++++++.|+++
T Consensus 247 ~~~~~~~--~~~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~Y~~~~~l~~Al~~ 316 (369)
T PRK15404 247 GPEGVGN--KSLSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--------QDPSGPFVWTTYAAVQSLAAGINR 316 (369)
T ss_pred ecCcCCC--HHHHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--------CCCCccchHHHHHHHHHHHHHHHh
Confidence 6654322 111112235678888766655445678889999998865 334556788999999999999999
Q ss_pred hccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCe
Q 002454 346 LNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK 394 (920)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~ 394 (920)
+++. +++.|.++|++.+|+|+.|+++|+.+|+.....|.|++|++++
T Consensus 317 aG~~--~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 317 AGSD--DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADG 363 (369)
T ss_pred hCCC--CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCC
Confidence 9876 8999999999999999999999998887767788888887654
No 35
>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=7.1e-35 Score=316.36 Aligned_cols=337 Identities=14% Similarity=0.173 Sum_probs=249.7
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~v 113 (920)
+||+|++.++.. .+..-++.+|++++|+++ +++.++++..|+.+||.+++.++|+|+++ +|.|||||.++..+.++
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~-gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecCChhHHHHH
Confidence 589999987432 333444555556677766 45678888899999999999999999987 99999999999999999
Q ss_pred HHhhccCCccEEeecCCCCCCC-c------cCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 002454 114 AEIASRVQVPILSFAAPAVTPL-S------MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~-~------~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (920)
+++|+..+||+|++.+...++. . .....+|.|++.|+. .+..++++++++++|++|+++|+++++ ....
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~g---~~~l 154 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDYD---IRGL 154 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCch---HHHH
Confidence 9999999999999765411110 0 122346777888884 688999999999999999999998874 3445
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhc-------cCCceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-------DKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~-------~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+.+.+.++..| +.+.... .... ....+.+.++.++ ..+.++||+ .|+++.+..++++|+++||+.
T Consensus 155 ~~~~~~~~~~g-~~v~~~~-~~~~-----~~~~~~~l~~~~~~~~l~~~~~~~~~vIl-~~~~~~~~~~l~~a~~~gm~~ 226 (363)
T cd06381 155 QEFLDQLSRQG-IDVLLQK-VDLN-----ISKMATALFTTMRCEELNRYRDTLRRALL-LLSPNGAYTFIDASVETNLAI 226 (363)
T ss_pred HHHHHHHHhcC-ceEEEEe-cccc-----cchhhhhhhhHHHHHHHHhhcccceEEEE-EcCcHHHHHHHHHHHHcCCCc
Confidence 67777888888 7655322 2211 1122333333221 335557777 999999999999999999999
Q ss_pred CCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHH----HHHHhccccCCCCCCCCCcchhhhHhhH
Q 002454 260 KDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSA----LFRRNFTSEYPEEDHFHPSIHALRAHDS 335 (920)
Q Consensus 260 ~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~----~~~~~~~~~~~~~~~~~~~~~a~~~YDa 335 (920)
++|+|++++.|......+ ........|++++....+.. +..+.|.+ .|...+.++ + .....+...++++|||
T Consensus 227 ~~~~wi~~~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~-~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~al~yDa 302 (363)
T cd06381 227 KDSHWFLINEEISDTEID-ELVRYAHGRMTVIRQTFSKE-KTNQRCLRNNHRISSLLCDPK-D-GYLQMLEISNLYIYDS 302 (363)
T ss_pred CceEEEEeccccccchhh-HHHhhcCccEEEEEEecCCc-CchHHHHHHHHHHHHhhcCCC-C-CCCCChhHHHHHHHHH
Confidence 999999888876532211 23345677899998876543 44564444 443322222 1 1123456789999999
Q ss_pred HHHHHHHHHhhccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCe-----eEEEEEecCCCCC
Q 002454 336 IKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK-----YKELDFWLPNFGF 407 (920)
Q Consensus 336 v~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~-----~~~vg~w~~~~g~ 407 (920)
|+++ +++|++..|+|+||+|+|+++|.|.++.++|+++..++ .+.+|+|++..|+
T Consensus 303 V~~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 303 VLLL-----------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred HHHH-----------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCccccceEEeeeccCCCCC
Confidence 9998 78888999999999999999999999999999998655 8899999998775
No 36
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=3.1e-35 Score=322.12 Aligned_cols=327 Identities=22% Similarity=0.288 Sum_probs=283.4
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||++.|++ +..|.+...|+++|++++|+++ +|++|++++.|++++|..+.+.+++|+++ +|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCCccHhH
Confidence 599999999 5678999999999999999997 78999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.+++++++..+||+|++++. ++......+|++||+.|++..++.++++++ ++++|++|++++++++|| +...+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~~~~~~ 155 (334)
T cd06342 80 IPASPIYADAGIVMISPAAT--NPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYG--QGLADEF 155 (334)
T ss_pred HHhHHHHHhCCCeEEecCCC--CchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchh--hHHHHHH
Confidence 99999999999999999877 344445578999999999999999999987 467899999999999999 9999999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++|+....++... .|+...+.++++.++++|++ .+....+..+++++++.|+.. .|+.++.
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~~------~d~~~~l~~i~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (334)
T cd06342 156 KKALKAAG-GKVVAREGTTDGA------TDFSAILTKIKAANPDAVFF-GGYYPEAGPLVRQMRQLGLKA---PFMGGDG 224 (334)
T ss_pred HHHHHHcC-CEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cCcchhHHHHHHHHHHcCCCC---cEEecCc
Confidence 99999999 9999988887654 78999999999999999998 889999999999999999954 5676654
Q ss_pred cccccccCChhhhcccceEEEEEeeccC-CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
+.. ..+........+|++...++.+. .++..++|.++|+++| +..|+.++..+||+++++++|+++++.
T Consensus 225 ~~~--~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~al~~~~~ 294 (334)
T cd06342 225 LCD--PEFIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF--------GDPPGAYAPYAYDAANVLAEAIKKAGS 294 (334)
T ss_pred cCC--HHHHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh--------CCCCchhHHHHHHHHHHHHHHHHHhCC
Confidence 321 11111223456788887766643 4678889999998877 344677899999999999999999976
Q ss_pred CCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEec
Q 002454 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (920)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~ 390 (920)
. ++..+.++|++.+|+|++|+++|+++|++....+.|.||
T Consensus 295 ~--~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 T--DPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred C--CHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 5 899999999999999999999999999998999999875
No 37
>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=8.9e-35 Score=319.59 Aligned_cols=327 Identities=19% Similarity=0.283 Sum_probs=276.7
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC------CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCc
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS------RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~------~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~ 106 (920)
+||+++|+| +..|+....|+++|++++|++| .|++|+++.+|+++||..+.+++++|+++++|.+||||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 599999999 5678899999999999999965 4799999999999999999999999998889999999999
Q ss_pred hHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC--CeEEEEEEEeCCCCCCcc
Q 002454 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN--WRRVAAIYEDNVYGGDSG 184 (920)
Q Consensus 107 s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~--w~~v~ii~~~~~~g~~~~ 184 (920)
+..+.+++++++++++|+|++++++ +......+|++||+.|++..++.++++++.+++ |+++++++.+++|| +.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~--~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~ 156 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGAS--DSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFS--QD 156 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCC--chHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCccc--HH
Confidence 9999999999999999999998773 444467789999999999999999999999887 99999999999999 99
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEE
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (920)
....+++.+++.| ++++....++... .|+.++++++++.++|+|++ .+....+..+++++++.|+..+ ..
T Consensus 157 ~~~~~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~--~~ 226 (345)
T cd06338 157 VAEGAREKAEAAG-LEVVYDETYPPGT------ADLSPLISKAKAAGPDAVVV-AGHFPDAVLLVRQMKELGYNPK--AL 226 (345)
T ss_pred HHHHHHHHHHHcC-CEEEEEeccCCCc------cchHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCCC--EE
Confidence 9999999999999 9999888777644 68999999999999999999 9999999999999999999765 22
Q ss_pred EEecccccccccCChhhhcccceEEEEEeeccCC------CchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHH
Q 002454 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDD------SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (920)
Q Consensus 265 i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (920)
..+..... +.+........+|+++...+.+.. ++..++|.++|+++| +..|+.++..+||++++
T Consensus 227 ~~~~~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~p~~~~~~~y~a~~~ 296 (345)
T cd06338 227 YMTVGPAF--PAFVKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKY--------GKAPDYHAAGAYAAGQV 296 (345)
T ss_pred EEecCCCc--HHHHHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHh--------CCCCCcccHHHHHHHHH
Confidence 22222111 111112223457887776665432 477899999998888 34477788999999999
Q ss_pred HHHHHHhhccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEe
Q 002454 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (920)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~ 389 (920)
+++|+++++.. +++.+.++|++.+|+|++|++.|+++|++. ..+.+++
T Consensus 297 ~~~a~~~ag~~--~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~ 344 (345)
T cd06338 297 LQEAVERAGSL--DPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQ 344 (345)
T ss_pred HHHHHHHhCCC--CHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeee
Confidence 99999999876 899999999999999999999999877763 3555554
No 38
>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=1.3e-34 Score=317.71 Aligned_cols=323 Identities=20% Similarity=0.265 Sum_probs=273.8
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|++ +..|+....|+++|++++|+++ +|++|++++.|+++||..+++.+++|+.+++|.+||||.+|..+
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 80 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVV 80 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHH
Confidence 599999999 6779999999999999999998 68999999999999999999999999987899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCc---cCCCCceeEEeccCchHHHHHHHHHHHH-----cCCeEEEEEEEeCCCCCC
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLS---MSRRWPYLIRMASNDSEQMKCIADLARK-----YNWRRVAAIYEDNVYGGD 182 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~---~~~~~~~~~r~~p~~~~~~~aia~~l~~-----~~w~~v~ii~~~~~~g~~ 182 (920)
.++++++++.++|+|+++++++ ... +...+|++||+.|++..++.++++++.+ ++|++|++++++++||
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~-~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g-- 157 (344)
T cd06345 81 LALQDVAAENKVPFIVTGAASP-EITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWG-- 157 (344)
T ss_pred HHHHHHHHHcCCcEEeccCCCC-cccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhh--
Confidence 9999999999999999877732 232 2467899999999999999999999876 8999999999999999
Q ss_pred cchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCe
Q 002454 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDS 262 (920)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~ 262 (920)
......+++.+++.| ++|+....++... .|+..++.+|+++++|+|++ .+.+..+..+++++.+.|+...
T Consensus 158 ~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~-- 227 (344)
T cd06345 158 KGIDAGIKALLPEAG-LEVVSVERFSPDT------TDFTPILQQIKAADPDVIIA-GFSGNVGVLFTQQWAEQKVPIP-- 227 (344)
T ss_pred hHHHHHHHHHHHHcC-CeEEEEEecCCCC------CchHHHHHHHHhcCCCEEEE-eecCchHHHHHHHHHHcCCCCc--
Confidence 999999999999999 9999888887654 68999999999999999999 8888899999999999998543
Q ss_pred EEEEecccccccccCChhhhcccceEEEEEeecc---CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHH
Q 002454 263 VWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS---DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKII 339 (920)
Q Consensus 263 ~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~ 339 (920)
++..+.+... ..+........+|++....+.+ ..++..++|.++|+++| +..|+.+++.+||+++++
T Consensus 228 -~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--------g~~p~~~~~~~yda~~~l 297 (344)
T cd06345 228 -TIGISVEGNS-PAFWKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--------GGPPNYMGASTYDSIYIL 297 (344)
T ss_pred -eEEecCCcCC-HHHHHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--------CCCCcccchHHHHHHHHH
Confidence 3433332211 1111122244566665554443 24577889999998887 455888999999999999
Q ss_pred HHHHHhhccCCCChHHHHHHHHhCccccccccEEEeCCCccCCC
Q 002454 340 TEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNAD 383 (920)
Q Consensus 340 a~Al~~~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~ 383 (920)
++|+++++.. +++.+.++|++.+|+|++|+|+||++|++..+
T Consensus 298 ~~A~~~ag~~--~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~~ 339 (344)
T cd06345 298 AEAIERAGST--DGDALVEALEKTDFVGTAGRIQFYGDDSAFAH 339 (344)
T ss_pred HHHHHHhcCC--CHHHHHHHHHhCCCcCCceeEEECCCCCcCcC
Confidence 9999999886 89999999999999999999999999987443
No 39
>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=2.8e-34 Score=314.32 Aligned_cols=337 Identities=15% Similarity=0.170 Sum_probs=279.5
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||++.|+| +..|+....|+++|++++|++| .|++|+++.+|++++|.++++++++|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~ 80 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASR 80 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhH
Confidence 599999999 5678999999999999999998 68999999999999999999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.++.+++++.++|+|++... . .....||+||+.+.+..++..+++++.. .+++++++++.|++|| ....+.+
T Consensus 81 ~a~~~~~~~~~~~~i~~~~~---~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g--~~~~~~~ 153 (348)
T cd06355 81 KAVLPVFERHNGLLFYPVQY---E--GLEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYP--RTANKIL 153 (348)
T ss_pred HHHHHHHhccCCceecCCCc---c--CCCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHH--HHHHHHH
Confidence 99999999999999976533 1 1345689999999999999999999875 4799999999999999 9999999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++++....++... .|+.+++.++++.++|+|++ ...+..+..+++++++.|+.+....++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~ 225 (348)
T cd06355 154 KAQLESLG-GEVVGEEYLPLGH------TDFQSIINKIKAAKPDVVVS-TVNGDSNVAFFKQLKAAGITASKVPVLSFSV 225 (348)
T ss_pred HHHHHHcC-CeEEeeEEecCCh------hhHHHHHHHHHHhCCCEEEE-eccCCchHHHHHHHHHcCCCccCCeeEEccc
Confidence 99999999 9999988888755 89999999999999999999 8889999999999999999765445554332
Q ss_pred cccccccCChhhhcccceEEEEEeec-cCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
.... +........+|++....+. +..++..++|.++|+++|.. ...++.+++.+||+++++++|++++++
T Consensus 226 ~~~~---~~~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~------~~~~~~~a~~~Y~a~~~~~~Al~~ag~ 296 (348)
T cd06355 226 AEEE---LRGIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQ------DRVTNDPMEAAYIGVYLWKQAVEKAGS 296 (348)
T ss_pred cHHH---HhhcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCC------CCCCCcHHHHHHHHHHHHHHHHHHhCC
Confidence 1111 1111123456776655443 34567889999999888742 123456788999999999999999988
Q ss_pred CCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CCeeEEE
Q 002454 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (920)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~~~~~v 398 (920)
. +++.|.++|++.+|+++.|.++|++.++.....+.+.+++ +++++.|
T Consensus 297 ~--~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 297 F--DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred C--CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 6 8999999999999999999999997555445667777885 5666654
No 40
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=2.2e-34 Score=313.47 Aligned_cols=319 Identities=19% Similarity=0.300 Sum_probs=259.5
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~-~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
+||+|+|.++ +....|+++|+++||+++ ++.++.+.+.|+ ++||..+.+++|+|+. ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~ 76 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSSSSSAN 76 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCCHHHHH
Confidence 5999999985 889999999999999997 345888888887 6999999999999997 7999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
++++++++++||+|++++++ +... .++.+++.|+...++.++++++++++|+++++||++++++ . .++.+.+
T Consensus 77 av~~i~~~~~ip~is~~~~~--~~~~---~~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~--~-~l~~~~~ 148 (324)
T cd06368 77 TVQSICDALEIPHITTSWSP--NPKP---RQFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL--L-RLQELLD 148 (324)
T ss_pred HHHHHHhccCCCcEEecCCc--CCCC---CcceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH--H-HHHHHHH
Confidence 99999999999999998883 3332 2345566688889999999999999999999999887643 3 4566666
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccc
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~ 271 (920)
.+++.| ++++..... ... +|++++|.++++.++|+||+ .|+..++..++++|+++|+.+..|+||+++...
T Consensus 149 ~~~~~g-~~v~~~~~~-~~~------~d~~~~l~~i~~~~~d~Vi~-~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~ 219 (324)
T cd06368 149 ALSPKG-IQVTVRRLD-DDT------DMYRPLLKEIKREKERRIIL-DCSPERLKEFLEQAVEVGMMSEYYHYILTNLDF 219 (324)
T ss_pred hhccCC-ceEEEEEec-CCc------hHHHHHHHHHhhccCceEEE-ECCHHHHHHHHHHHHHhccccCCcEEEEccCCc
Confidence 777788 898876533 322 38999999999999999999 999999999999999999998899999987643
Q ss_pred cccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccCCC
Q 002454 272 NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (920)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~ 351 (920)
...+. ........++.++.... ..++..++|.++|+++|...++......|+.+++.+|||++++
T Consensus 220 ~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------ 284 (324)
T cd06368 220 HTLDL--ELFRYGGVNITGFRLVD-PDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------ 284 (324)
T ss_pred cccch--hhhhcCCceEEEEEEec-CCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe------------
Confidence 32111 11111223344443332 3468899999999998865443333346888999999999987
Q ss_pred ChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCeeEEEEEecCCCCC
Q 002454 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (920)
Q Consensus 352 ~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 407 (920)
||+++||++|+|.++.++|+++.+++++++|+|++..|+
T Consensus 285 -----------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 999999999999999999999999999999999998765
No 41
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.9e-34 Score=311.17 Aligned_cols=298 Identities=19% Similarity=0.283 Sum_probs=257.5
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
|||+++|++ +..|+....|+++|++++|++| .|++|+++++|+++||..+.+++++|+.+++|.+||||.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~ 80 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVT 80 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhh
Confidence 699999999 4568899999999999999998 68999999999999999999999999988899999999999999
Q ss_pred HHH-HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVV-AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~v-a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.++ ++++++.++|+|+++++++ .......++|+||+.|++..++.++++++.+++|+++++||++++|| +.....+
T Consensus 81 ~a~~~~~~~~~~vp~i~~~~~~~-~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g--~~~~~~~ 157 (312)
T cd06346 81 IAALTSVAVPNGVVMISPSSTSP-TLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYG--VGLADAF 157 (312)
T ss_pred HhhhhhhhccCCcEEEecCCCCc-cceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchh--hHHHHHH
Confidence 999 9999999999999988842 33344567899999999999999999999999999999999999999 9999999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++++....++... .|+.+++.++++.++|+|++ .+.+..+..++++++++|+.. .|++++.
T Consensus 158 ~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~---~~~~~~~ 226 (312)
T cd06346 158 TKAFEALG-GTVTNVVAHEEGK------SSYSSEVAAAAAGGPDALVV-IGYPETGSGILRSAYEQGLFD---KFLLTDG 226 (312)
T ss_pred HHHHHHcC-CEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCCCC---ceEeecc
Confidence 99999999 9999988888765 78999999999999999999 888899999999999999954 4677655
Q ss_pred cccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (920)
+... ..+........+|+++..++.+ ++..++|.++|+++| +..|+.+++.+||+++++++|
T Consensus 227 ~~~~-~~~~~~~~~~~~g~~~~~~~~~--~~~~~~f~~~~~~~~--------g~~p~~~~~~~Yd~~~~l~~A------- 288 (312)
T cd06346 227 MKSD-SFLPADGGYILAGSYGTSPGAG--GPGLEAFTSAYKAAY--------GESPSAFADQSYDAAALLALA------- 288 (312)
T ss_pred ccCh-HHHHhhhHHHhCCcEEccCCCC--chhHHHHHHHHHHHh--------CCCCCccchhhHHHHHHHHHH-------
Confidence 4321 1111122245678887655433 377899999999988 445788999999999999998
Q ss_pred CCChHHHHHHHHhCccccccccEEEeCCCcc
Q 002454 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~ 380 (920)
|.|++|+++|+++|++
T Consensus 289 ---------------~~g~~g~~~f~~~g~~ 304 (312)
T cd06346 289 ---------------YQGASGVVDFDENGDV 304 (312)
T ss_pred ---------------hCCCccceeeCCCCCc
Confidence 8899999999988876
No 42
>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=1.7e-33 Score=308.17 Aligned_cols=341 Identities=12% Similarity=0.119 Sum_probs=276.2
Q ss_pred EEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 35 i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
|+||++.|+| +..|.....|+++|++++|++| .|++|++++.|++++|..++.++++|+.+++|.+|||+.+|..
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~ 80 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSAT 80 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHH
Confidence 6899999999 5678999999999999999998 5899999999999999999999999999889999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
+.++.+++++.++|+|..... ......+|+||+.|++..++.++++++.....+++++|++|++|| +.....+
T Consensus 81 ~~A~~~~~~~~~~~~i~~~~~-----~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g--~~~~~~~ 153 (374)
T TIGR03669 81 REAIRPIIDRNEQLYFYTNQY-----EGGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFG--QLSADWV 153 (374)
T ss_pred HHHHHHHHHhcCceEEcCccc-----ccccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHH--HHHHHHH
Confidence 999999999999999964322 122346899999999999999999999765447899999999999 9889999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++++....++.+. .|+.+++.++++.++|+|++ ...+.+...+++|++++|+..+ ++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~g~------~Df~~~l~~i~~~~pD~V~~-~~~g~~~~~~~kq~~~~G~~~~---~~~~~~ 222 (374)
T TIGR03669 154 RVIAKENG-AEVVGEEFIPLSV------SQFSSTIQNIQKADPDFVMS-MLVGANHASFYEQAASANLNLP---MGTSTA 222 (374)
T ss_pred HHHHHHcC-CeEEeEEecCCCc------chHHHHHHHHHHcCCCEEEE-cCcCCcHHHHHHHHHHcCCCCc---ccchhh
Confidence 99999999 9999988888765 89999999999999999998 8888889999999999999653 222221
Q ss_pred cccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
......... .......|+++..++.+ ..++..++|.++|+++|.. ...++.+++.+||+++++++|++++++
T Consensus 223 ~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~------~p~~~~~a~~~Yda~~~l~~Ai~~AGs 295 (374)
T TIGR03669 223 MAQGYEHKR-FEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPD------APYINQEAENNYFSVYMYKQAVEEAGT 295 (374)
T ss_pred hhhhhhhhh-cCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCC------CCCCChHHHHHHHHHHHHHHHHHHhCC
Confidence 111001000 11134566666655543 2457789999999998832 112356788999999999999999998
Q ss_pred CCCChHHHHHHHHh-CccccccccEEEeCCCccCCCcEEEEeccC-CeeEEEEEec
Q 002454 349 NISSPEMLLRQMLS-SDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWL 402 (920)
Q Consensus 349 ~~~~~~~l~~~l~~-~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~-~~~~~vg~w~ 402 (920)
. +++.++++|++ .+|+|+.|+++|++.++.....+.+.+++. +++.-+..|+
T Consensus 296 ~--d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 296 T--DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred C--CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 6 89999999997 689999999999976655455666777765 3455555555
No 43
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=1.6e-33 Score=308.80 Aligned_cols=338 Identities=22% Similarity=0.301 Sum_probs=279.8
Q ss_pred ccEEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCch
Q 002454 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (920)
Q Consensus 33 ~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s 107 (920)
++|+||++.|+| +..|++...|+++|+++||+.| .|++|++++.|+++||..+.+.+++|+.+++|.+|||+.+|
T Consensus 9 ~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~S 88 (366)
T COG0683 9 DTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPTTS 88 (366)
T ss_pred CceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEeccC
Confidence 579999999999 6789999999999999999999 47779999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-CCeEEEEEEEeCCCCCCcchH
Q 002454 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 108 ~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~w~~v~ii~~~~~~g~~~~~~ 186 (920)
..+.++.+++++.++|+|+++++++ ........+++||+.|++..++.++++++... +.+++++|+.++.|| +++.
T Consensus 89 ~~~~a~~~v~~~~~i~~i~p~st~~-~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg--~~~~ 165 (366)
T COG0683 89 GVALAASPVAEEAGVPLISPSATAP-QLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYG--EGLA 165 (366)
T ss_pred cccccchhhHhhcCceEEeecCCCC-cccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcc--hhHH
Confidence 9999999999999999999999843 33444555669999999999999999999765 445999999999999 9999
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
+.+++.+++.| .+++....+.+.. .++..++.++++.++|+|++ .+...+...+++++++.|+....+ .
T Consensus 166 ~~~~~~l~~~G-~~~~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~r~~~~~G~~~~~~---~ 234 (366)
T COG0683 166 DAFKAALKALG-GEVVVEEVYAPGD------TDFSALVAKIKAAGPDAVLV-GGYGPDAALFLRQAREQGLKAKLI---G 234 (366)
T ss_pred HHHHHHHHhCC-CeEEEEEeeCCCC------CChHHHHHHHHhcCCCEEEE-CCCCccchHHHHHHHHcCCCCccc---c
Confidence 99999999999 9866556666655 45999999999999999998 999999999999999999987522 2
Q ss_pred ecccccccccCChhhhcccce-EEEEEe-eccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHH
Q 002454 267 TNTVANALDSLNTTVISSMEG-TLGIKS-YYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (920)
Q Consensus 267 t~~~~~~~~~~~~~~~~~~~g-~~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~ 344 (920)
.+..... . ..........+ .+.... +.+..+|..+.|.++|+++|.. ...++.++..+||+++++++|++
T Consensus 235 ~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~------~~~~~~~~~~~y~a~~~~~~ai~ 306 (366)
T COG0683 235 GDGAGTA-E-FEEIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGD------PAAPSYFAAAAYDAVKLLAKAIE 306 (366)
T ss_pred ccccCch-h-hhhhcccCccccEEEEecccccccCcchHHHHHHHHHHhCC------CCCcccchHHHHHHHHHHHHHHH
Confidence 2222110 1 11011112222 333333 3355667788899999998851 35677899999999999999999
Q ss_pred hhccCCCChHHHHHHHHhCc-cccccccEEEeCCCccCCCcEEEEeccCC
Q 002454 345 RLNYNISSPEMLLRQMLSSD-FSGLSGKIRFKDGELLNADTLRIVNVVGK 393 (920)
Q Consensus 345 ~~~~~~~~~~~l~~~l~~~~-f~g~sG~i~F~~~g~~~~~~~~i~~~~~~ 393 (920)
+++. ..+++.+.++|+... +++.+|.+.|++.+++....+.|.++...
T Consensus 307 ~a~~-~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 307 KAGK-SSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred HHhc-CCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 9994 237899999999886 68999999999988888889998888743
No 44
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.7e-33 Score=308.98 Aligned_cols=325 Identities=19% Similarity=0.323 Sum_probs=269.4
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|+| +..|+....|+++|++++|++| .|++|++++.|++++|..+.+++++|+.+++|.+||||.++..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~ 80 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQA 80 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHH
Confidence 599999999 5679999999999999999988 68999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHH-HHHHHHHc-CCeEEEEEEEeCC-CCCCcchHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKC-IADLARKY-NWRRVAAIYEDNV-YGGDSGKLA 187 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~a-ia~~l~~~-~w~~v~ii~~~~~-~g~~~~~~~ 187 (920)
.++.+++++.++|+|++++++ +.. ...++|+||+.|++..+... +..++.++ +|++++++|.+++ || +....
T Consensus 81 ~a~~~~~~~~~ip~i~~~~~~--~~~-~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g--~~~~~ 155 (344)
T cd06348 81 FAADPIAERAGVPVVGPSNTA--KGI-PEIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFS--VSETE 155 (344)
T ss_pred HhhhHHHHhCCCCEEeccCCC--CCc-CCCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHH--HHHHH
Confidence 999999999999999987763 332 34678999998776655544 45566777 9999999998655 98 99999
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
.+++.+++.| ++++....++... .|+.+++.+++++++|+|++ .+.+..+..+++++++.|+.. .++.+
T Consensus 156 ~~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~i~~~~~d~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~ 224 (344)
T cd06348 156 IFQKALRDQG-LNLVTVQTFQTGD------TDFQAQITAVLNSKPDLIVI-SALAADGGNLVRQLRELGYNG---LIVGG 224 (344)
T ss_pred HHHHHHHHcC-CEEEEEEeeCCCC------CCHHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCC---ceecc
Confidence 9999999999 9999888887654 78999999999999999999 899999999999999999976 35555
Q ss_pred cccccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 002454 268 NTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (920)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (920)
+.+... .+........+|++...++.+ ..++..++|.++|+++| +..|+.++..+||+++++++|++++
T Consensus 225 ~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------g~~p~~~~~~~yda~~~~~~A~~~a 294 (344)
T cd06348 225 NGFNTP--NVFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKY--------GKAPPQFSAQAFDAVQVVAEALKRL 294 (344)
T ss_pred ccccCH--HHHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHH--------CCCccHHHHHHHHHHHHHHHHHHHh
Confidence 443221 111123356678887776654 23466888988898887 4456778899999999999999999
Q ss_pred ccCC-CC-------hHHHHHHHHhCccccccccEEEeCCCccCCCcEE
Q 002454 347 NYNI-SS-------PEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLR 386 (920)
Q Consensus 347 ~~~~-~~-------~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~ 386 (920)
+... .+ +..|.++|++.+|+|++|+|.|+++|++....|.
T Consensus 295 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 295 NQKQKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred cCCCccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 7642 12 5788999999999999999999988888666554
No 45
>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=1.1e-33 Score=309.95 Aligned_cols=323 Identities=20% Similarity=0.281 Sum_probs=272.7
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC-----CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCch
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS-----RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~-----~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s 107 (920)
+||++.|++ +..|.+...|+++|++++|+.| +|++|+++++|++++|..+.+++++|+++++|.+|+||.+|
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 599999999 5678999999999999999987 58999999999999999999999999988899999999999
Q ss_pred HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc------CCeEEEEEEEeCCCCC
Q 002454 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGG 181 (920)
Q Consensus 108 ~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~------~w~~v~ii~~~~~~g~ 181 (920)
..+.++++++++.++|+|+++++ ++......+||+||+.|++..++.++++++.++ +|+++++++++++||
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g- 157 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAV--SDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFG- 157 (347)
T ss_pred HhHHHHHHHHHHhCCCEEecccc--chHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHh-
Confidence 99999999999999999998877 344456678999999999999999999999875 469999999999999
Q ss_pred CcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCC
Q 002454 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (920)
Q Consensus 182 ~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (920)
....+.+++.+++.| ++|+....++... .|+.+++.++++.++|+|++ .+...++..+++++++.|+...
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~G~~~~- 227 (347)
T cd06340 158 -TSVAEAIKKFAKERG-FEIVEDISYPANA------RDLTSEVLKLKAANPDAILP-ASYTNDAILLVRTMKEQRVEPK- 227 (347)
T ss_pred -HHHHHHHHHHHHHcC-CEEEEeeccCCCC------cchHHHHHHHHhcCCCEEEE-cccchhHHHHHHHHHHcCCCCc-
Confidence 999999999999999 9999888887654 68999999999999999999 9999999999999999999764
Q ss_pred eEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHH
Q 002454 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITE 341 (920)
Q Consensus 262 ~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~ 341 (920)
..+........ ..+........+|++...++.+...+..++|.++|+++| +..++.++..+||+++++++
T Consensus 228 ~~~~~~~~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~--------~~~~~~~~~~~Y~a~~~l~~ 297 (347)
T cd06340 228 AVYSVGGGAED--PSFVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARF--------GVDLSGNSARAYTAVLVIAD 297 (347)
T ss_pred EEEecCCCcCc--HHHHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHh--------CCCCChHHHHHHHHHHHHHH
Confidence 22211111111 111112235578888887776655678899999999888 33477889999999999999
Q ss_pred HHHhhccCCCChHHHHH--HHHhCccc---cccccEEEeCCCccCCC
Q 002454 342 AIGRLNYNISSPEMLLR--QMLSSDFS---GLSGKIRFKDGELLNAD 383 (920)
Q Consensus 342 Al~~~~~~~~~~~~l~~--~l~~~~f~---g~sG~i~F~~~g~~~~~ 383 (920)
|++++++. +++.+.+ +|++..+. +++|+++|+++|+..+.
T Consensus 298 A~~~ag~~--~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 298 ALERAGSA--DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHHHhcCC--CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 99999986 8999994 88887665 57899999988876443
No 46
>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=3.8e-33 Score=308.50 Aligned_cols=344 Identities=15% Similarity=0.230 Sum_probs=284.3
Q ss_pred CCccEEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCC
Q 002454 31 IEEVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGME 105 (920)
Q Consensus 31 ~~~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~ 105 (920)
++++|+||+++|++ +..|.+...|+++|++++|+.+ .|++|+++++|++++|..+.+.+++|+.+++|.+||||.
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 35789999999999 5678999999999999999988 689999999999999999999999999888999999999
Q ss_pred chHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcc
Q 002454 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSG 184 (920)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l-~~~~w~~v~ii~~~~~~g~~~~ 184 (920)
+|..+.++++++++.+||+|++.+.+. .......+||+||+.|++..++.++++++ ++++|+++++|+++++|| +.
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g--~~ 159 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASGAS-KWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFG--KD 159 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccccH-hhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHH--HH
Confidence 999999999999999999999876632 33334478999999999999999999986 467899999999999999 99
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEE
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (920)
..+.+++.+++.| ++++....++... .|+.+++.+++++++|+|++ .+...++..+++++++.|+... +
T Consensus 160 ~~~~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~ 228 (362)
T cd06343 160 YLKGLKDGLGDAG-LEIVAETSYEVTE------PDFDSQVAKLKAAGADVVVL-ATTPKFAAQAIRKAAELGWKPT---F 228 (362)
T ss_pred HHHHHHHHHHHcC-CeEEEEeeecCCC------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHHcCCCce---E
Confidence 9999999999999 9999888888755 78999999999999999999 8889899999999999999863 5
Q ss_pred EEecccccccccCChhhhcccceEEEEEeecc------CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHH
Q 002454 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYS------DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (920)
Q Consensus 265 i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (920)
+.++.+......+........+|++....+.. ..++..++|.+.|+++|.. ...++.++..+||++.+
T Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~y~a~~~ 302 (362)
T cd06343 229 LLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPE------GDPPDTYAVYGYAAAET 302 (362)
T ss_pred EEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCC------CCCCchhhhHHHHHHHH
Confidence 55554332211022222345678777665432 2357778888888877732 12477889999999999
Q ss_pred HHHHHHhhccCCCChHHHHHHHHhCcc---cc-ccccEEEeCCCccCCCcEEEEeccCCee
Q 002454 339 ITEAIGRLNYNISSPEMLLRQMLSSDF---SG-LSGKIRFKDGELLNADTLRIVNVVGKKY 395 (920)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~f---~g-~sG~i~F~~~g~~~~~~~~i~~~~~~~~ 395 (920)
+++|+++++.. .+++.++++|++.++ .+ ..|+++|+.++++....+.|.++++++|
T Consensus 303 ~~~a~~~ag~~-~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 303 LVKVLKQAGDD-LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred HHHHHHHhCCC-CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 99999999753 489999999999886 33 3459999866666667888888887764
No 47
>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=5.2e-33 Score=305.42 Aligned_cols=335 Identities=14% Similarity=0.170 Sum_probs=271.2
Q ss_pred EEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 35 i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
|+||++.|++ +..|.....|+++|++++|++| .|++|++++.|++++|.+++.++++|+.+++|.+|+|+.+|..
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~ 80 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSAS 80 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHH
Confidence 6899999999 5678889999999999999998 6899999999999999999999999999889999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
+.++.+++++.++|++.+... . .....|++||+.+++..++.++++++.. .+.++++++++|++|| ....+.
T Consensus 81 ~~a~~~~~~~~~~~~i~~~~~---~--~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g--~~~~~~ 153 (359)
T TIGR03407 81 RKAVLPVFEENNGLLFYPVQY---E--GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFP--RTANKI 153 (359)
T ss_pred HHHHHHHHhccCCceEeCCcc---c--CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHH--HHHHHH
Confidence 999999999999999976433 1 1346789999999999999999999876 4999999999999999 888889
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
+++.+++.| ++++....++... .|+..++.++++.++|+|++ ...+..+..+++++++.|+......++.+.
T Consensus 154 ~~~~~~~~G-~~vv~~~~~~~~~------~D~s~~v~~l~~~~pDav~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~ 225 (359)
T TIGR03407 154 IKAYLKSLG-GTVVGEDYTPLGH------TDFQTIINKIKAFKPDVVFN-TLNGDSNVAFFKQLKNAGITAKDVPVVSFS 225 (359)
T ss_pred HHHHHHHcC-CEEEeeEEecCCh------HhHHHHHHHHHHhCCCEEEE-eccCCCHHHHHHHHHHcCCCccCCcEEEee
Confidence 999999999 9999988887755 89999999999999999988 777778889999999999976543344433
Q ss_pred ccccccccCChhhhcccceEEEEEeec-cCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 269 TVANALDSLNTTVISSMEGTLGIKSYY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
........+. ....+|++....+. +..++..++|.++|+++|.. ...+..+++.+||+++++++|+++++
T Consensus 226 ~~~~~~~~~g---~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~y~a~~~~~~A~~~ag 296 (359)
T TIGR03407 226 VAEEEIRGIG---PENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGD------DRVTNDPMEAAYLGVYLWKAAVEKAG 296 (359)
T ss_pred cCHHHHhhcC---hHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCC------CCCCCcHHHHHHHHHHHHHHHHHHhC
Confidence 2211111111 23467766543333 34457788999999888732 12234456789999999999999998
Q ss_pred cCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CCee
Q 002454 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKY 395 (920)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~~~ 395 (920)
+. +++.++++|++.+|+++.|+++|+++++.....+.+.++. +++|
T Consensus 297 ~~--~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~~~g~~ 343 (359)
T TIGR03407 297 SF--DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIRADGQF 343 (359)
T ss_pred CC--CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEccCCCE
Confidence 86 8999999999999999999999997444434445555553 3444
No 48
>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=5.2e-33 Score=303.43 Aligned_cols=320 Identities=18% Similarity=0.218 Sum_probs=270.0
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|++ +..|.....|+++|++++|+.| .|++|++++.|+++||..+.+++++|+++++|.+|+||.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASR 80 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHH
Confidence 599999999 5578899999999999999998 68999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.++++++++.++|+|++.+.. . ....|++||+.|+...++.++++++...+|+++++|+.|+.|| +.....++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~--~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~~~~~ 153 (333)
T cd06331 81 KAVLPVVERGRGLLFYPTQYE--G---GECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWP--RESNRIAR 153 (333)
T ss_pred HHHHHHHHhcCceEEeCCCCC--C---CcCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhH--HHHHHHHH
Confidence 999999999999999875441 1 2345899999999999999999998776799999999999999 99999999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| .+++....++... .|+.+++.++++.++|+|++ .+.+.++..+++++++.|+......++ +..+
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~~~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~ 224 (333)
T cd06331 154 ALLEELG-GEVVGEEYLPLGT------SDFGSVIEKIKAAGPDVVLS-TLVGDSNVAFYRQFAAAGLDADRIPIL-SLTL 224 (333)
T ss_pred HHHHHcC-CEEEEEEEecCCc------ccHHHHHHHHHHcCCCEEEE-ecCCCChHHHHHHHHHcCCCcCCCeeE-Eccc
Confidence 9999999 9999888888755 78999999999999999998 889999999999999999974433333 3322
Q ss_pred ccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (920)
... . +........+|++...++.+ ...+..++|.++|+++|.. ...++.+++.+||+++++++|++++++.
T Consensus 225 ~~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yda~~~~~~A~~~ag~~ 296 (333)
T cd06331 225 DEN-E-LAAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGD------DAVINSPAEAAYEAVYLWAAAVEKAGST 296 (333)
T ss_pred chh-h-hhccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCC------CcCCCchhHHHHHHHHHHHHHHHHcCCC
Confidence 211 1 11112244678887776653 3457788899999887732 1246788999999999999999999886
Q ss_pred CCChHHHHHHHHhCccccccccEEEeCCCccC
Q 002454 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (920)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~ 381 (920)
+++.|.++|++.+|+|++|+++|++.+++.
T Consensus 297 --~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 297 --DPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred --CHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 899999999999999999999999877663
No 49
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=2.4e-33 Score=309.44 Aligned_cols=329 Identities=23% Similarity=0.359 Sum_probs=265.9
Q ss_pred HHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEee
Q 002454 51 AITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (920)
Q Consensus 51 ~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~ 127 (920)
...|+++|++++|+++ ++.+|++.+.|+++++..+...+...+..++|.+||||.++..+.+++.+++.++||+|++
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~ 81 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISP 81 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEES
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeec
Confidence 5789999999999997 6899999999998555555555555555679999999999999999999999999999999
Q ss_pred cCCCCCCCcc-CCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEE-e
Q 002454 128 AAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSR-L 205 (920)
Q Consensus 128 ~~~~~~~~~~-~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~-~ 205 (920)
++++. .... +..+|+++|+.|++..+++++++++++++|++|++||+++++| .+....+.+.+++.+ ..+... .
T Consensus 82 ~~~~~-~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~ 157 (348)
T PF01094_consen 82 GSTSP-SLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYG--NSLADSFQDLLRERG-GICVAFIS 157 (348)
T ss_dssp SGGSG-GGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHH--HHHHHHHHHHHHHHT-TCEEEEEE
T ss_pred ccccc-ccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccc--cccchhhhhhhcccc-cceecccc
Confidence 88853 4555 6799999999999999999999999999999999999999988 888999999999965 454444 3
Q ss_pred ecCCCCCCCCChHHHHHHHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhc
Q 002454 206 VLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVIS 283 (920)
Q Consensus 206 ~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~ 283 (920)
...... .+....+.++++ .++++||+ +++...+..++++|.+.|+...+|+||+++.+.............
T Consensus 158 ~~~~~~------~~~~~~~~~l~~~~~~~rvvil-~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~ 230 (348)
T PF01094_consen 158 VVISSD------SDAEELLKKLKEIKSGARVVIL-CSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFRE 230 (348)
T ss_dssp EEETTT------SHHHHHHHHHHHHTTTTSEEEE-ESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHC
T ss_pred cccccc------cchhhhhhhhhhccccceeeee-ecccccccccccchhhhhccccceeEEeecccccccccccccccc
Confidence 333322 334444444444 89999999 999999999999999999999999999999976543233344557
Q ss_pred ccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC----------CCCh
Q 002454 284 SMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN----------ISSP 353 (920)
Q Consensus 284 ~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~----------~~~~ 353 (920)
...|++++....+ ..+.+.+|.+++++.............+..+++.+|||++++++|++++.+. ...|
T Consensus 231 ~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g 309 (348)
T PF01094_consen 231 AFQGVLGFTPPPP-SSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQNG 309 (348)
T ss_dssp CHTTEEEEEESTT-TSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTH
T ss_pred cccceeeeeeecc-cccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCccccccH
Confidence 7889999976554 3578999999998764322222235677889999999999999999998642 1256
Q ss_pred HHHHHHHHhCccccccccEEEeC-CCccCCCcEEEEecc
Q 002454 354 EMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVV 391 (920)
Q Consensus 354 ~~l~~~l~~~~f~g~sG~i~F~~-~g~~~~~~~~i~~~~ 391 (920)
..+.+.|++++|+|++|++.|++ +|++.+..|.|++++
T Consensus 310 ~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 310 SQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 78999999999999999999998 889889999998864
No 50
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.7e-33 Score=303.43 Aligned_cols=318 Identities=16% Similarity=0.189 Sum_probs=265.8
Q ss_pred EEEEEEeCC--CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
+||++.|++ +..|.....|+++|++++|+.+ +|++|++++.|+++||..+.+++++|+.+++|.+|+|+.+|..+.
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~ 80 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATL 80 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHH
Confidence 489999999 5678899999999999999988 799999999999999999999999999988999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC-CeEEEEEEEeCC-CCCCcchHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNV-YGGDSGKLALL 189 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~-w~~v~ii~~~~~-~g~~~~~~~~l 189 (920)
++++++++.++|+|++++. ++... .++||+||+.|++..+++++++++.+.+ |+++++||++++ || +...+.+
T Consensus 81 a~~~~~~~~~ip~i~~~a~--~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g--~~~~~~~ 155 (332)
T cd06344 81 AALDIYQKAKLVLISPTST--SVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYS--QSLKQEF 155 (332)
T ss_pred HHHHHHhhcCceEEccCcC--chhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHh--HHHHHHH
Confidence 9999999999999998776 24433 5689999999999999999999998876 999999999886 99 9999999
Q ss_pred HHHHhc-cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 190 AEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 190 ~~~l~~-~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
++.+++ .| .+++....++.. ..++..++.++++.++|+|++ .+.......+++++++.+.. ..+++++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~------~~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~---~~i~~~~ 224 (332)
T cd06344 156 TSALLERGG-GIVVTPCDLSSP------DFNANTAVSQAINNGATVLVL-FPDTDTLDKALEVAKANKGR---LTLLGGD 224 (332)
T ss_pred HHHHHHhcC-CeeeeeccCCCC------CCCHHHHHHHHHhcCCCEEEE-eCChhHHHHHHHHHHhcCCC---ceEEecc
Confidence 999999 58 888765444332 256788999999999999999 88888899999999987762 2455555
Q ss_pred ccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
.+... +... ......+|+++..++.+. ++..++|.++|+++| +..|+.+++.+||+++++++|++++++
T Consensus 225 ~~~~~-~~~~-~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~--------~~~~~~~a~~~Yda~~~l~~A~~~ag~ 293 (332)
T cd06344 225 SLYTP-DTLL-DGGKDLEGLVLAVPWHPL-ASPNSPFAKLAQQLW--------GGDVSWRTATAYDATKALIAALSQGPT 293 (332)
T ss_pred cccCH-HHHH-hchhhhcCeEEEEecccc-cccchHHHHHHHHHh--------cCCchHHHHhHHHHHHHHHHHHHhCCC
Confidence 43221 1111 123456788888877765 467899999999988 445788999999999999999999987
Q ss_pred CCCChHHHH-HHHHhCccccccccEEEeCCCccCC
Q 002454 349 NISSPEMLL-RQMLSSDFSGLSGKIRFKDGELLNA 382 (920)
Q Consensus 349 ~~~~~~~l~-~~l~~~~f~g~sG~i~F~~~g~~~~ 382 (920)
. ++..+. ..+++..|+|+.|+++|+++|++..
T Consensus 294 ~--~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 294 R--EGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred h--hhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 6 666666 6778889999999999998888744
No 51
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1.5e-32 Score=300.64 Aligned_cols=317 Identities=16% Similarity=0.221 Sum_probs=267.2
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||++.|++ +..|.....|+++|++++|+.| .|++|++++.|+++||.++.+.+++|+.+ +|.+||||.++..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~~-~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh-CCeEEEcccchHHH
Confidence 599999999 5678999999999999999988 68999999999999999999999999986 99999999999999
Q ss_pred HHH-------HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC-CeEEEEEEEeCCCCCC
Q 002454 111 AVV-------AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGGD 182 (920)
Q Consensus 111 ~~v-------a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~-w~~v~ii~~~~~~g~~ 182 (920)
.++ +++++.+++|+|++.++++ .......+||+||+.|++..++.++++++...+ |+++++++.++.||
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g-- 156 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAP-ALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWG-- 156 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCc-hhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHH--
Confidence 988 7888999999999877632 333335679999999999999999999998875 99999999999999
Q ss_pred cchHHHHHHHHhc--cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCC
Q 002454 183 SGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (920)
Q Consensus 183 ~~~~~~l~~~l~~--~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (920)
+...+.+++.+++ .| ++++....++... .+|+.+++.++++.++|+|++ ...+..+..+++++++.|+..
T Consensus 157 ~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~-----~~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~- 228 (342)
T cd06329 157 QDVAAAFKAMLAAKRPD-IQIVGEDLHPLGK-----VKDFSPYVAKIKASGADTVIT-GNWGNDLLLLVKQAADAGLKL- 228 (342)
T ss_pred HHHHHHHHHHHHhhcCC-cEEeceeccCCCC-----CCchHHHHHHHHHcCCCEEEE-cccCchHHHHHHHHHHcCCCc-
Confidence 9999999999999 99 9998877666532 168999999999999999999 777888999999999999965
Q ss_pred CeEEEEecccccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHH
Q 002454 261 DSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKII 339 (920)
Q Consensus 261 ~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~ 339 (920)
.++....... . +........+|++...++.+ ..++..++|.++|+++| +..|+.++..+||+++++
T Consensus 229 --~~~~~~~~~~--~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~y~~~~~~ 295 (342)
T cd06329 229 --PFYTPYLDQP--G-NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY--------GRVPDYYEGQAYNGIQML 295 (342)
T ss_pred --eEEeccccch--h-HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh--------CCCCCchHHHHHHHHHHH
Confidence 3444433221 1 22223355678877766653 34577889999998887 445777899999999999
Q ss_pred HHHHHhhccCCCChHHHHHHHHhCccccccccEEEeCCCc
Q 002454 340 TEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGEL 379 (920)
Q Consensus 340 a~Al~~~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~ 379 (920)
++|++++++. +++.+.++|++.+|+|+.|+++|+..++
T Consensus 296 ~~a~~~ag~~--~~~~v~~al~~~~~~~~~g~~~~~~~~~ 333 (342)
T cd06329 296 ADAIEKAGST--DPEAVAKALEGMEVDTPVGPVTMRASDH 333 (342)
T ss_pred HHHHHHhCCC--CHHHHHHHHhCCccccCCCCeEEcccCc
Confidence 9999998876 8999999999999999999999985433
No 52
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.2e-32 Score=298.44 Aligned_cols=326 Identities=15% Similarity=0.210 Sum_probs=240.0
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEe-cCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchH--H
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIA-GMETWE--E 109 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~-D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~--~ 109 (920)
.++||++++-+. .....++-+...-+..++..++++++. -...||......+|+++.+.+|.|+| ||.++. .
T Consensus 2 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~ 77 (362)
T cd06378 2 GLNIAVVLSGTN----SSTAFLRGRLTKEDFLDLPLDVNVVTLLVNETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAV 77 (362)
T ss_pred CceEEEEecCCC----cchhhhccccccccccCCCCCccceeeecCCCCHHHHHHHHHHHhcccceEEEEecCCCCcccc
Confidence 478999988761 111111111111111112233333322 36689999999999999877799755 999987 3
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
+..++.++++.+||+|++++.++....++..+||++|+.|++..|++|+++++++|+|++|++||++++.+ ..+...+
T Consensus 78 a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~--~~~~~~l 155 (362)
T cd06378 78 AQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDWHAFSVVTSRFPGY--DDFVSAV 155 (362)
T ss_pred chhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCCeEEEEEEEcCCCH--HHHHHHH
Confidence 45677778889999999987743123355789999999999999999999999999999999999998755 6677778
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+...+ .++.....++... .+..+....+.++++.++++||+ +|+.+.+..++++|+++||++++|+||+++.
T Consensus 156 ~~~~~~~~-~~~~i~~~~~~~~---~~~~~~~~~l~~lk~~~arViVl-~~s~~~a~~if~~A~~~gm~g~~yvWI~t~~ 230 (362)
T cd06378 156 RTTVDNSF-VGWELQSVLTLDM---SDDDGDARTQRQLKKLESQVILL-YCSKEEAEYIFRAARSAGLTGPGYVWIVPSL 230 (362)
T ss_pred HHHHhhcc-cceeEEEEEeecc---CCCcchHHHHHHHHhcCCCEEEE-ECCHHHHHHHHHHHHHcCCcCCCeEEEeccc
Confidence 77777655 5544433332221 11234678888899899999999 9999999999999999999999999999998
Q ss_pred cccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc-
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY- 348 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~- 348 (920)
.....+ ........|++++.. ++|+. ...+..||||+++|+|++.+..
T Consensus 231 ~~~~~~---~~~~~~~~G~i~v~~-------------~~w~~---------------~~~a~~~DaV~vva~Al~~l~~~ 279 (362)
T cd06378 231 VLGNTD---LGPSEFPVGLISVSY-------------DGWRY---------------SLRARVRDGVAIIATGASAMLRQ 279 (362)
T ss_pred ccCCCc---cccccCCcceEeecc-------------ccccc---------------cHHHHHHHHHHHHHHHHHHHHhc
Confidence 665421 111244567666541 11110 1245789999999999986531
Q ss_pred ----------C-------CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccC-CeeEEEEEecC
Q 002454 349 ----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWLP 403 (920)
Q Consensus 349 ----------~-------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~-~~~~~vg~w~~ 403 (920)
| ...|..|+++|++++|+|+ +|+|+++|.+.++.|+|+++.. .+|++||+|+.
T Consensus 280 ~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~ 350 (362)
T cd06378 280 HGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKERVWEEVGKWEN 350 (362)
T ss_pred cCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCCCceEEEEEcC
Confidence 1 1358899999999999997 9999999999999999999996 59999999994
No 53
>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=1e-32 Score=303.45 Aligned_cols=334 Identities=22% Similarity=0.354 Sum_probs=281.4
Q ss_pred cEEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchH
Q 002454 34 VTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (920)
Q Consensus 34 ~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~ 108 (920)
+|+||+++|++ +..|.+...|+++|++++|++| +|++|+++++|+++|+..+.+++++|+.+++|.+||||.++.
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~ 80 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSA 80 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcH
Confidence 59999999999 4567899999999999999998 799999999999999999999999999988999999999999
Q ss_pred HHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHH-HcCCeEEEEEEEeCCCCCCcchHH
Q 002454 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR-KYNWRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 109 ~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~-~~~w~~v~ii~~~~~~g~~~~~~~ 187 (920)
.+.+++++++..++|+|++++. . .....+|+|++.|++..++.++++++. +++.+++++|+.++++| +....
T Consensus 81 ~~~~~~~~~~~~~ip~i~~~~~---~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g--~~~~~ 153 (343)
T PF13458_consen 81 QAEAVAPIAEEAGIPYISPSAS---S--PSPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYG--RSLAE 153 (343)
T ss_dssp HHHHHHHHHHHHT-EEEESSGG---G--GTTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHH--HHHHH
T ss_pred HHHHHHHHHHhcCcEEEEeecc---C--CCCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhh--hHHHH
Confidence 9999999999999999996544 2 246779999999999999999999975 47999999999999999 99999
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
.+++.+++.| ++++....++... .|+.+.+.++++.++|+|++ .+.+..+..+++++.+.|+..+.+....+
T Consensus 154 ~~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~~~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (343)
T PF13458_consen 154 AFRKALEAAG-GKVVGEIRYPPGD------TDFSALVQQLKSAGPDVVVL-AGDPADAAAFLRQLRQLGLKPPRIPLFGT 225 (343)
T ss_dssp HHHHHHHHTT-CEEEEEEEE-TTS------SHHHHHHHHHHHTTTSEEEE-ESTHHHHHHHHHHHHHTTGCSCTEEEEEG
T ss_pred HHHHHHhhcC-ceeccceeccccc------ccchHHHHHHhhcCCCEEEE-eccchhHHHHHHHHHhhccccccceeecc
Confidence 9999999999 9998888888755 79999999999999999888 89999999999999999988754544444
Q ss_pred cccccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 002454 268 NTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (920)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (920)
..+... +........+|++...++.+ ..++..++|.++|++.|.. ...|+.++..+||++.++++|++++
T Consensus 226 ~~~~~~---l~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yda~~~~~~al~~~ 296 (343)
T PF13458_consen 226 SLDDAS---LQQLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGE------EPPPSLYAAQGYDAARLLAQALERA 296 (343)
T ss_dssp GGSSHH---HHHHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSS------TGGTCHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCcHH---HHHhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCC------CCCCchhHHHHHHHHHHHHHHHHHh
Confidence 332222 12222346788888888765 3467889999999999842 1247889999999999999999999
Q ss_pred ccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CC
Q 002454 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GK 393 (920)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~ 393 (920)
++. +++.+.++|++.+|+|+.|++.|++.++.....+.|++++ +|
T Consensus 297 g~~--~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 297 GSL--DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp TSH--HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred CCC--CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 864 9999999999999999999999997666668889999988 54
No 54
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.7e-32 Score=297.82 Aligned_cols=331 Identities=17% Similarity=0.265 Sum_probs=272.8
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
|||++.|+| +..|.+...|+++|++++|+++ +|++|+++++|++++|..+.+.+++|+++++|.+|+|+.+|..+
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~ 80 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVS 80 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhH
Confidence 599999999 5678999999999999999988 69999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.++++++++.++|+|++++.. +... ...+|+||+.|++..++.++++++ ++++|++++++|.+++|| ......+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~--~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~ 155 (340)
T cd06349 81 MAASPIYQRAGLVQLSPTNSH--PDFT-KGGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWG--RTSADIF 155 (340)
T ss_pred HHhHHHHHhCCCeEEecCCCC--Cccc-cCCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHh--HHHHHHH
Confidence 999999999999999988763 3332 356999999999999999999997 667999999999999999 9999999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++++....+++.. .|+..++.+++++++|+|++ .+.+..+..+++++++.|+..+ ++.+..
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~~~~~~ 224 (340)
T cd06349 156 VKAAEKLG-GQVVAHEEYVPGE------KDFRPTITRLRDANPDAIIL-ISYYNDGAPIARQARAVGLDIP---VVASSS 224 (340)
T ss_pred HHHHHHcC-CEEEEEEEeCCCC------CcHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCCCc---EEccCC
Confidence 99999999 9999887777654 68999999999999999999 8899999999999999999753 444433
Q ss_pred cccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
+... .... ......+|++...+|.+ ..++..++|.++|+++| +..|+.++..+||++.++++|++++++
T Consensus 225 ~~~~-~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~p~~~~~~~y~~~~~~~~a~~~ag~ 294 (340)
T cd06349 225 VYSP-KFIE-LGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY--------GAQPDAFAAQAYDAVGILAAAVRRAGT 294 (340)
T ss_pred cCCH-HHHH-HhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--------CCCcchhhhhHHHHHHHHHHHHHHhCC
Confidence 2110 1111 12245678887776654 34577889999998877 344778899999999999999999987
Q ss_pred CCCChHHHHHH-HHhCccccccccEEEeCC-CccCCCcEEEEeccCCee
Q 002454 349 NISSPEMLLRQ-MLSSDFSGLSGKIRFKDG-ELLNADTLRIVNVVGKKY 395 (920)
Q Consensus 349 ~~~~~~~l~~~-l~~~~f~g~sG~i~F~~~-g~~~~~~~~i~~~~~~~~ 395 (920)
. +...+... +.+..+.|++|+|+|+.+ ++. ...+.++.+++++|
T Consensus 295 ~--~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~~ 340 (340)
T cd06349 295 D--RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGKF 340 (340)
T ss_pred C--CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCcC
Confidence 5 44433333 244567899999999976 444 44777777777653
No 55
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=1.4e-32 Score=300.05 Aligned_cols=318 Identities=16% Similarity=0.197 Sum_probs=268.4
Q ss_pred EEEEEEeCCC----cccHHHHHHHHHHHHHHhcCC-CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS-RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s~----~~g~~~~~a~~~Av~~iN~~~-~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|+++ ..|.....|+++|++++| .+ .|++|+++++|+++||.++.+.+++|+.+++|.+|||+.+|..+
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN-ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~ 79 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG-GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVA 79 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc-CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHH
Confidence 5899999993 347899999999999999 44 78999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.++++++++.++|+|++++++. ........||+||+.|++..++.++++++...+++++++++.+++|| +.....++
T Consensus 80 ~a~~~~~~~~~vp~i~~~s~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g--~~~~~~~~ 156 (334)
T cd06327 80 LAVQEVAREKKKIYIVTGAGSD-DLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFG--HSLERDAR 156 (334)
T ss_pred HHHHHHHHHhCceEEecCCCcc-ccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHh--HHHHHHHH
Confidence 9999999999999999887742 33334457999999999999999999999887899999999999999 99999999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| ++++....++... +|+.+++.++++.++|+|++ .+.+..+..+++++++.|+... ..++....+
T Consensus 157 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~ 227 (334)
T cd06327 157 KVVKANG-GKVVGSVRHPLGT------SDFSSYLLQAQASGADVLVL-ANAGADTVNAIKQAAEFGLTKG-QKLAGLLLF 227 (334)
T ss_pred HHHHhcC-CEEcCcccCCCCC------ccHHHHHHHHHhCCCCEEEE-eccchhHHHHHHHHHHhCCccC-CcEEEeccc
Confidence 9999999 9999888887654 78999999999999999999 8899999999999999999633 223333222
Q ss_pred ccccccCChhhhcccceEEEEEeeccC-CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (920)
... +........+|+++..++.+. .++..++|.++|+++| +..|+.+++.+||+++++++|++++++.
T Consensus 228 ~~~---~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------g~~p~~~~~~~Y~~~~~~~~A~~~ag~~ 296 (334)
T cd06327 228 LTD---VHSLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY--------GKMPSMVQAGAYSAVLHYLKAVEAAGTD 296 (334)
T ss_pred HHH---HHhhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH--------CcCCCcHHHHHHHHHHHHHHHHHHHCCC
Confidence 111 111122457888888777543 3678899999999888 4457788999999999999999999987
Q ss_pred CCChHHHHHHHHhC-ccccccccEEEeC-CCc
Q 002454 350 ISSPEMLLRQMLSS-DFSGLSGKIRFKD-GEL 379 (920)
Q Consensus 350 ~~~~~~l~~~l~~~-~f~g~sG~i~F~~-~g~ 379 (920)
+++++.++|++. .++++.|+++|++ +++
T Consensus 297 --~~~~v~~al~~~~~~~~~~g~~~~~~~~~~ 326 (334)
T cd06327 297 --DADKVVAKMKETPIYDLFAGNGYIRACDHQ 326 (334)
T ss_pred --ChHHHHHhccccceeccCCCCceeeccccc
Confidence 888999999997 4688999999986 443
No 56
>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=8.2e-32 Score=302.49 Aligned_cols=363 Identities=20% Similarity=0.314 Sum_probs=301.7
Q ss_pred CCccEEEEEEEeCC-------------CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhh-
Q 002454 31 IEEVTKIGAIVDAN-------------SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELIN- 94 (920)
Q Consensus 31 ~~~~i~IG~i~p~s-------------~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~- 94 (920)
-+++|.||+++|.+ ...|.+...||..|++++|+.- ||.++.+.++|++..+..|.+...+++.
T Consensus 28 ~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~~ 107 (878)
T KOG1056|consen 28 IPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINNPDLLPNIKLGARILDTCSRSTYALEQSLSFVRA 107 (878)
T ss_pred CCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcCcccCCCceeeeeEeeccCCcHHHHHhhHHHHHh
Confidence 46889999999998 1347788999999999999822 8999999999999999999998887773
Q ss_pred ---------------cCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHH
Q 002454 95 ---------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (920)
Q Consensus 95 ---------------~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia 159 (920)
...|.++|||..|..+.+++.+..-+.||+|+++++++ .++++.+|+|+.|+.|+|..|++||+
T Consensus 108 ~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~-~LSdk~ry~~F~RtVP~D~~Qa~Am~ 186 (878)
T KOG1056|consen 108 SLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSP-DLSDKTRYDYFLRTVPSDVFQAQAMV 186 (878)
T ss_pred cccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCc-ccccchhhhceeeecCChHHHHHHHH
Confidence 14689999999999999999999999999999999976 77889999999999999999999999
Q ss_pred HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc-CCceEEEEE
Q 002454 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIVL 238 (920)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vii~~ 238 (920)
++++.|+|++|..++++++|| +...+++++..++.| ++|...+.++... .+..+...++++.. .++++||+
T Consensus 187 ~il~~f~W~yVstv~s~~dYG--E~Gieaf~~~a~~~~-iCIa~s~ki~~~~----~~~~~~~~l~kl~~~~~a~vvV~- 258 (878)
T KOG1056|consen 187 DILKKFNWNYVSTVASEGDYG--ESGIEAFKEEAAERG-ICIAFSEKIYQLS----IEQEFDCVLRKLLETPNARVVVV- 258 (878)
T ss_pred HHHHHhCeeEeeehhcCccch--hhhHHHHHHhHHhcC-ceEEehhhccccc----chhHHHHHHHHHhhcCCCeEEEE-
Confidence 999999999999999999999 999999999999999 9999887766654 45778999999887 69999999
Q ss_pred ecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHH-------
Q 002454 239 QASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR------- 311 (920)
Q Consensus 239 ~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~------- 311 (920)
.+.++.++.++++|+++++.| .++|++++.|....+... ......+|.+++...... -+.+++|.+....
T Consensus 259 F~~~~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~-~~e~~a~g~i~i~l~~~~-v~~F~~y~~s~~p~nn~~n~ 335 (878)
T KOG1056|consen 259 FCRGEDARRLLKAARRANLTG-EFLWIASDGWASQNSPTE-APEREAEGAITIKLASPQ-VPGFDRYFQSLHPENNRRNP 335 (878)
T ss_pred ecCcchHHHHHHHHHHhCCCc-ceEEEecchhhccCChhh-hhhhhhceeEEEEecCCc-chhHHHHHHhcCccccccCc
Confidence 999999999999999999988 478999999987533332 233467888888765532 3566666554321
Q ss_pred ---hccccCCCCC----------------CC---------CCcchhhhHhhHHHHHHHHHHhhccC-------------C
Q 002454 312 ---NFTSEYPEED----------------HF---------HPSIHALRAHDSIKIITEAIGRLNYN-------------I 350 (920)
Q Consensus 312 ---~~~~~~~~~~----------------~~---------~~~~~a~~~YDav~~~a~Al~~~~~~-------------~ 350 (920)
.||++.+.|+ +. .........+|||+.+|+||+.+.+. .
T Consensus 336 w~~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~~ 415 (878)
T KOG1056|consen 336 WFAEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMKA 415 (878)
T ss_pred ccchhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCccc
Confidence 2333222221 11 11234567999999999999988642 1
Q ss_pred CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCC----eeEEEEEecCCCC
Q 002454 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGK----KYKELDFWLPNFG 406 (920)
Q Consensus 351 ~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~----~~~~vg~w~~~~g 406 (920)
.+|..|.+.+++++|.+..|.+.||++|+. ...|+|++++.. .+.++|.|+....
T Consensus 416 ~dg~~L~~~l~~vnF~~~~~~v~Fd~~gD~-~~~y~I~~~~~~~~~~~y~~vg~w~~~~~ 474 (878)
T KOG1056|consen 416 IDGSLLLKYLLNVNFTGPAGSVRFDENGDG-PGRYDILNYQLTNGSYTYKEVGYWSEGLS 474 (878)
T ss_pred cCHHHHHhhhheeEEecCCCceeecCCCCC-ccceeEEEeeccCCCccceeeeeeccccc
Confidence 589999999999999999999999999987 789999998752 6899999998754
No 57
>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=4.9e-32 Score=295.57 Aligned_cols=328 Identities=17% Similarity=0.246 Sum_probs=266.8
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
+||+++|++ +..|.....|+++|++++|...+|++|+++++|++++|..+.+.+++|+.+++|.+|+||.+|..+.+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~inggi~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a 80 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLGGKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLA 80 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhCCccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHH
Confidence 599999999 45688999999999999983337999999999999999999999999998889999999999999999
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
+++++++.++|+|++++... .......+||+||+.|++..++.++++++...+|+++++++++++|| +...+.+++.
T Consensus 81 ~~~~~~~~~ip~i~~~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g--~~~~~~~~~~ 157 (333)
T cd06359 81 VVPPVLESGTFYISTNAGPS-QLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAG--KDALAGFKRT 157 (333)
T ss_pred HHHHHHHcCCeEEecCCCcc-ccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhh--HHHHHHHHHH
Confidence 99999999999999866522 33334457999999999999999999999999999999999999999 8888888776
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccccc
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVAN 272 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~ 272 (920)
++ .+++....++... +|+.+++.++++.++|+|++ ...+..+..+++++++.|+... ..++.+.....
T Consensus 158 ~~----~~v~~~~~~~~~~------~d~~~~i~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~ 225 (333)
T cd06359 158 FK----GEVVGEVYTKLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMGVNFVKQYRQAGLKKD-IPLYSPGFSDE 225 (333)
T ss_pred hC----ceeeeeecCCCCC------cchHHHHHHHHhCCCCEEEE-EccCccHHHHHHHHHHcCcccC-CeeeccCcccC
Confidence 63 3555555555433 78999999999999999999 7788889999999999998542 34555443321
Q ss_pred ccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccCCC
Q 002454 273 ALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (920)
Q Consensus 273 ~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~ 351 (920)
..+........+|++...++.+ ..++..++|.++|+++| +..|+.++..+||+++++++|+++++....
T Consensus 226 --~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~A~~~ag~~~~ 295 (333)
T cd06359 226 --EDTLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--------GRLPTLYAAQAYDAAQLLDSAVRKVGGNLS 295 (333)
T ss_pred --HHHHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--------CCCCcHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 1111223355678887776654 24578899999998887 446788899999999999999999986433
Q ss_pred ChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEe
Q 002454 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (920)
Q Consensus 352 ~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~ 389 (920)
+++.+.++|++.+|+|++|+++|+++|+. .....+++
T Consensus 296 ~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~~ 332 (333)
T cd06359 296 DKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLRE 332 (333)
T ss_pred CHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEEe
Confidence 78999999999999999999999977554 34444443
No 58
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=1.3e-31 Score=294.59 Aligned_cols=340 Identities=16% Similarity=0.198 Sum_probs=276.8
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|+| +..|+....|+++|++++|++| .|++|++++.|++++|..+..++++|+++++|.+|||+.+|..+
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~ 80 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSR 80 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHH
Confidence 599999999 6689999999999999999998 68999999999999999999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.++++++++.++|++.+++. .. . ...|++|++.++...++.++++++.+.+.+++++|++|+.|| .+....++
T Consensus 81 ~a~~~~~~~~~~~~~~~~~~--~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g--~~~~~~~~ 153 (360)
T cd06357 81 KAVLPVVERHDALLWYPTLY--EG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYP--YESNRIMR 153 (360)
T ss_pred HHHHHHHHhcCceEEeCCCc--cC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcch--HHHHHHHH
Confidence 99999999999999987654 11 1 233678888888887888899998776668999999999999 88999999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| ++++....++... ...|+.+++.++++.++|+|++ .+.+..+..++++++++|+.+....+. +...
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~----~~~d~s~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~-~~~~ 226 (360)
T cd06357 154 DLLEQRG-GEVLGERYLPLGA----SDEDFARIVEEIREAQPDFIFS-TLVGQSSYAFYRAYAAAGFDPARMPIA-SLTT 226 (360)
T ss_pred HHHHHcC-CEEEEEEEecCCC----chhhHHHHHHHHHHcCCCEEEE-eCCCCChHHHHHHHHHcCCCccCceeE-Eeec
Confidence 9999999 9998765555441 2379999999999999999998 889999999999999999976533222 3221
Q ss_pred ccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (920)
.. ..+........+|+++..++.+ ..++..++|.++|+++|.. ...++.+++.+||+++++++|++++++.
T Consensus 227 ~~--~~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~------~~~~~~~~~~~yda~~~l~~Al~~ag~~ 298 (360)
T cd06357 227 SE--AEVAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGE------DAPVSACAEAAYFQVHLFARALQRAGSD 298 (360)
T ss_pred cH--HHHhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCC------CCCCCcHHHHHHHHHHHHHHHHHHcCCC
Confidence 11 1111112345778888766543 3457889999999988842 1235678899999999999999999887
Q ss_pred CCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEec-cCCeeEEEE
Q 002454 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELD 399 (920)
Q Consensus 350 ~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~-~~~~~~~vg 399 (920)
+++.++++|++.+|+|+.|.+.|+..++.......+.++ .+++|..+.
T Consensus 299 --~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 --DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred --CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 899999999999999999999999765443455666677 567776654
No 59
>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-32 Score=294.65 Aligned_cols=317 Identities=22% Similarity=0.324 Sum_probs=268.2
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|++ +..|+....|+++|++++|++| +|++|++++.|+++||..+.+.+++|+.+++|.+||||.++..+
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~ 80 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGAT 80 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHhH
Confidence 599999999 4568889999999999999987 78999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH-HHcCCeEEEEEEEeC-CCCCCcchHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDN-VYGGDSGKLAL 188 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l-~~~~w~~v~ii~~~~-~~g~~~~~~~~ 188 (920)
.+++++++..+||+|+++++. +.... ..+++||+.|++..++.++++++ .+++|+++++||+++ +|+ ....+.
T Consensus 81 ~~v~~~~~~~~ip~i~~~~~~--~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~--~~~~~~ 155 (334)
T cd06347 81 LAAGPIAEDAKVPMITPSATN--PKVTQ-GKDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYS--KGLAKA 155 (334)
T ss_pred HHhHHHHHHCCCeEEcCCCCC--CCccc-CCCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchh--HHHHHH
Confidence 999999999999999988773 33322 23589999999999999999997 567999999999886 788 888889
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
+++.+++.| ++++....++... .++.+.++++++.++|+|++ .+.......+++++++.|+.. .|+.++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~~------~d~~~~~~~~~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~---~i~~~~ 224 (334)
T cd06347 156 FKEAFKKLG-GEIVAEETFNAGD------TDFSAQLTKIKAKNPDVIFL-PGYYTEVGLIAKQARELGIKV---PILGGD 224 (334)
T ss_pred HHHHHHHcC-CEEEEEEEecCCC------CcHHHHHHHHHhcCCCEEEE-cCchhhHHHHHHHHHHcCCCC---cEEecc
Confidence 999999999 9998887777644 67999999999999999999 899999999999999999854 577776
Q ss_pred ccccccccCChhhhcccceEEEEEeeccC-CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 269 TVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
.|.... +........+|++...++.+. .++..++|.++|++++ +..|+.++..+||+++++++|+++++
T Consensus 225 ~~~~~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~Al~~ag 294 (334)
T cd06347 225 GWDSPK--LEEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKY--------GKEPDAFAALGYDAYYLLADAIERAG 294 (334)
T ss_pred cccCHH--HHHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--------CCCcchhHHHHHHHHHHHHHHHHHhC
Confidence 664321 111223467788777776543 3577889998888776 34577888999999999999999998
Q ss_pred cCCCChHHHHHHHHhC-ccccccccEEEeCCCcc
Q 002454 348 YNISSPEMLLRQMLSS-DFSGLSGKIRFKDGELL 380 (920)
Q Consensus 348 ~~~~~~~~l~~~l~~~-~f~g~sG~i~F~~~g~~ 380 (920)
.. +++.+.++|.+. +|+|++|+++|+++|+.
T Consensus 295 ~~--~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~ 326 (334)
T cd06347 295 ST--DPEAIRDALAKTKDFDGVTGKITIDENGNP 326 (334)
T ss_pred CC--CHHHHHHHHHhCCCcccceeeeEECCCCCc
Confidence 76 899999999865 79999999999987765
No 60
>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=6.5e-32 Score=297.38 Aligned_cols=307 Identities=26% Similarity=0.419 Sum_probs=256.2
Q ss_pred EEEEEEeCCC-------------cccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhc----
Q 002454 36 KIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK---- 95 (920)
Q Consensus 36 ~IG~i~p~s~-------------~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~---- 95 (920)
.||+++|.+. ..|.....|+.+|++++|+++ +|++|++++.|++++|.+|++.+++|+.+
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 3788888884 345678889999999999985 68999999999999999999999999987
Q ss_pred ---------CCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC
Q 002454 96 ---------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN 166 (920)
Q Consensus 96 ---------~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~ 166 (920)
++|.+||||.+|..+.+++++++.+++|+|+++++++ ....+..+||+||+.|++..++.++++++++++
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~-~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~ 159 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSP-LLSDKLQFPSFFRTVPSDTSQALAIVALLKHFG 159 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCCh-hhccccccCCeeEecCCcHHHHHHHHHHHHHCC
Confidence 7999999999999999999999999999999998843 333567789999999999999999999999999
Q ss_pred CeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 167 WRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 167 w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
|+++++++++++|| ....+.+++.+++.| ++++....++... ...|+..++++++++++|+|++ .+...++.
T Consensus 160 ~~~v~~l~~~~~~g--~~~~~~~~~~~~~~g-i~v~~~~~~~~~~----~~~d~~~~l~~l~~~~~~vvv~-~~~~~~~~ 231 (348)
T cd06350 160 WTWVGLVYSDDDYG--RSGLSDLEEELEKNG-ICIAFVEAIPPSS----TEEDIKRILKKLKSSTARVIVV-FGDEDDAL 231 (348)
T ss_pred CeEEEEEEecchhH--HHHHHHHHHHHHHCC-CcEEEEEEccCCC----cHHHHHHHHHHHHhCCCcEEEE-EeCcHHHH
Confidence 99999999999999 999999999999999 9999988887642 2478999999999999999999 99999999
Q ss_pred HHHHHHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCc
Q 002454 247 HLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPS 326 (920)
Q Consensus 247 ~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 326 (920)
.++++|+++|+ ... .|++++.|..... ......+..+|++++.++.+.. ....+|.+.+++
T Consensus 232 ~~~~~a~~~g~-~~~-~~i~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~-~~~~~f~~~~~~--------------- 292 (348)
T cd06350 232 RLFCEAYKLGM-TGK-YWIISTDWDTSTC-LLLFTLDAFQGVLGFSGHAPRS-GEIPGFKDFLRK--------------- 292 (348)
T ss_pred HHHHHHHHhCC-CCe-EEEEEccccCccc-cccCCcceeeeEEEEEEEeecC-CcCCChHHHHHH---------------
Confidence 99999999999 443 4556666544211 1122335678998888776532 233444444433
Q ss_pred chhhhHhhHHHHHHHHHHhhccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccC----CeeEEEEEec
Q 002454 327 IHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWL 402 (920)
Q Consensus 327 ~~a~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~----~~~~~vg~w~ 402 (920)
+++.+|||+++ .+.|+++|++ ...+.|.+++. ..+++||.|+
T Consensus 293 -~~~~~YDav~~--------------------------------~v~f~~~gd~-~~~~~i~~~~~~~~~~~~~~vg~~~ 338 (348)
T cd06350 293 -YAYNVYDAVYA--------------------------------EVKFDENGDR-LASYDIINWQIFPGGGGFVKVGFWD 338 (348)
T ss_pred -HHHHHHhheeE--------------------------------EEEecCCCCc-ccceeEEEEEEcCCcEEEEEEEEEc
Confidence 57889999988 7999988887 56788888765 7899999999
Q ss_pred CC
Q 002454 403 PN 404 (920)
Q Consensus 403 ~~ 404 (920)
+.
T Consensus 339 ~~ 340 (348)
T cd06350 339 PQ 340 (348)
T ss_pred CC
Confidence 74
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=6.1e-32 Score=297.06 Aligned_cols=329 Identities=19% Similarity=0.202 Sum_probs=267.3
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||++.|++ +..|.....|+++|++++|+++ +|++|++++.|+++||..+.+++++|+.+++|.+||||.++..+
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~ 80 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVA 80 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHH
Confidence 599999999 4568899999999999999998 68999999999999999999999999987899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
.++++++++.++|+|++.+.++ .......++++||+.|++..+..+++++++.+ +|+++++++.++.|| ......
T Consensus 81 ~~~~~~~~~~~ip~i~~~s~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g--~~~~~~ 157 (346)
T cd06330 81 LAVAPVAEELKVFFIATDPGTP-RLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYG--QDAWAD 157 (346)
T ss_pred HHHHHHHHHcCCeEEEcCCCCc-ccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHH--HHHHHH
Confidence 9999999999999999877632 33344678999999999999999999999877 499999999999999 888999
Q ss_pred HHHHHhccCC-ceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 189 LAEALQNVSS-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 189 l~~~l~~~g~-~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
+++.+++.|. ++++....++.. .+|+.+++.++++.++|+|++ .+.+.+...+++++++.|+.+ ...|+.+
T Consensus 158 ~~~~~~~~g~~~~~v~~~~~~~~------~~d~~~~v~~i~~~~~d~ii~-~~~~~~~~~~~~~~~~~g~~~-~~~~~~~ 229 (346)
T cd06330 158 FKAALKRLRPDVEVVSEQWPKLG------APDYGSEITALLAAKPDAIFS-SLWGGDLVTFVRQANARGLFD-GTTVVLT 229 (346)
T ss_pred HHHHHHHhCCCCeecccccCCCC------CcccHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHhcCccc-CceEEee
Confidence 9999998840 555544433332 368999999999999999998 888899999999999999965 4567766
Q ss_pred cccccccccCChhhhcccceEEEEEeec-cC--CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHH
Q 002454 268 NTVANALDSLNTTVISSMEGTLGIKSYY-SD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (920)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~ 344 (920)
...... +........+|++....+. +. .++..++|.++|+++| +..|+.++..+||++.++++|++
T Consensus 230 ~~~~~~---~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--------g~~p~~~~~~~y~a~~~l~~a~~ 298 (346)
T cd06330 230 LTGAPE---LAPLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKY--------GDYPTYGAYGAYQAVMALAAAVE 298 (346)
T ss_pred ccchhh---hhhhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHH--------CCCCChHHHHHHHHHHHHHHHHH
Confidence 653321 1112234456766544322 21 4578899999998887 44567788999999999999999
Q ss_pred hhccCCCCh--HHHHHHHHhCccccccccEEEeCCCccCCCcEE
Q 002454 345 RLNYNISSP--EMLLRQMLSSDFSGLSGKIRFKDGELLNADTLR 386 (920)
Q Consensus 345 ~~~~~~~~~--~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~ 386 (920)
++++..... +.+.++|++.+|+|+.|++.|++++++.....+
T Consensus 299 ~a~~~~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~~~~~ 342 (346)
T cd06330 299 KAGATDGGAPPEQIAAALEGLSFETPGGPITMRAADHQATQGAY 342 (346)
T ss_pred HhcCCCCCCcHHHHHHHHcCCCccCCCCceeeecCCCcccccce
Confidence 998752111 469999999999999999999976555344443
No 62
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1.5e-31 Score=291.11 Aligned_cols=317 Identities=17% Similarity=0.217 Sum_probs=259.8
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcC-C--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSD-S--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~-~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
+||++.|++ +..|.....|+++|++++|+. + +|++|++++.|++++|..+..++++|+.+++|.+|+||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~ 80 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGV 80 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHH
Confidence 599999999 567899999999999999654 3 6899999999999999999999999999889999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCcc-CCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
+.++++++++.++|+|++++++ +... ...++|+||+.+++..++..+++++... ++++++||.+++|| ++..+.
T Consensus 81 ~~a~~~~~~~~~ip~i~~~~~~--~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g--~~~~~~ 155 (333)
T cd06328 81 ALAVLPVAEENKKILIVEPAAA--DSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFG--RDGVAA 155 (333)
T ss_pred HHHHHHHHHHhCCcEEecCCCC--chhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCcccc--HHHHHH
Confidence 9999999999999999987773 3433 3446999999998888888888888766 89999999999999 999999
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHh-HHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~-~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
+++.+++.| ++++....++... .|+..++.++++.++|+|++ ...+. .+..+++++.+.|+... ....
T Consensus 156 ~~~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~~g~~~~---~~~~ 224 (333)
T cd06328 156 FKAALEKLG-AAIVTEEYAPTDT------TDFTPYAQRLLDALKKVLFV-IWAGAGGPWPKLQQMGVLGYGIE---ITLA 224 (333)
T ss_pred HHHHHHhCC-CEEeeeeeCCCCC------cchHHHHHHHHhcCCCEEEE-EecCchhHHHHHHHhhhhcCCCe---EEec
Confidence 999999999 9999988888755 78999999999999999988 54444 56777888887777542 2222
Q ss_pred cccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
..+.... .........+|.+....+.+..++..+.|.++|+++| +..|+.+++.+||++.++++|+++++
T Consensus 225 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--------g~~p~~~~~~~y~a~~~l~~Ai~~ag 294 (333)
T cd06328 225 GDILANL--TMYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--------GSPPDLFTAGGMSAAIAVVEALEETG 294 (333)
T ss_pred ccccCcc--ccccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--------CCCcchhhHHHHHHHHHHHHHHHHhC
Confidence 2221111 1111223456666555544345677888999998887 45578889999999999999999998
Q ss_pred cCCCChHHHHHHHHhCccccccccEEEeCCCcc
Q 002454 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~ 380 (920)
+. +++.+.++|++.+|+++.|+++|+.+++.
T Consensus 295 ~~--~~~~v~~aL~~~~~~~~~g~~~f~~~~~~ 325 (333)
T cd06328 295 DT--DTEALIAAMEGMSFETPKGTMTFRKEDHQ 325 (333)
T ss_pred CC--CHHHHHHHHhCCeeecCCCceEECcccch
Confidence 54 89999999999999999999999954443
No 63
>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=1.9e-31 Score=290.33 Aligned_cols=319 Identities=15% Similarity=0.175 Sum_probs=262.6
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||++.|+| +..|+....|+++|++++|+.+ .|++|+++++|++++|..+...+++|+.+++|.+|||+.+|..+
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~ 80 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASR 80 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHH
Confidence 599999999 6679999999999999999988 69999999999999999999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.++.+++++.++|+|.+.... .....+|+||+.+++..++.++++++...+.+++++|++|++|| ......++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~-----~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g--~~~~~~~~ 153 (334)
T cd06356 81 EAIRPIMDRTKQLYFYTTQYE-----GGVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFG--QISAEWVR 153 (334)
T ss_pred HHHHHHHHhcCceEEeCCCcc-----CCcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhh--HHHHHHHH
Confidence 999999999999999864331 12345899999999999999999999876568999999999999 99999999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| ++++....++... .|++.++.++++.++|+|++ ...+.....+++++++.|+ .. ...+.+...
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~ 223 (334)
T cd06356 154 KIVEENG-GEVVGEEFIPLDV------SDFGSTIQKIQAAKPDFVMS-ILVGANHLSFYRQWAAAGL-GN-IPMASSTLG 223 (334)
T ss_pred HHHHHcC-CEEEeeeecCCCc------hhHHHHHHHHHhcCCCEEEE-eccCCcHHHHHHHHHHcCC-cc-Cceeeeecc
Confidence 9999999 9999988888765 79999999999999999998 7788889999999999999 21 122222111
Q ss_pred ccccccCChhhhcccceEEEEEeeccC-CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccC
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 349 (920)
..... .........+|++...++.+. .++..++|.++|+++|.. ...++.+++.+||++.++++|++++++.
T Consensus 224 ~~~~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~------~p~~~~~~~~~y~a~~~~~~A~~~ag~~ 296 (334)
T cd06356 224 AQGYE-HKRLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPD------APYINEEAENNYEAIYLYKEAVEKAGTT 296 (334)
T ss_pred cchhH-HhccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCC------CCCCCchhHHHHHHHHHHHHHHHHHCCC
Confidence 11000 000112446777776665432 457789999999988731 1112567899999999999999999976
Q ss_pred CCChHHHHHHHHh-CccccccccEEEeCCCcc
Q 002454 350 ISSPEMLLRQMLS-SDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 350 ~~~~~~l~~~l~~-~~f~g~sG~i~F~~~g~~ 380 (920)
+++.|.++|++ .+|+|+.|+++|+..++.
T Consensus 297 --~~~~v~~aL~~~~~~~~~~g~~~~~~~~h~ 326 (334)
T cd06356 297 --DRDAVIEALESGLVCDGPEGKVCIDGKTHH 326 (334)
T ss_pred --CHHHHHHHHHhCCceeCCCceEEEecCCCc
Confidence 89999999997 588999999999965554
No 64
>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=3.5e-31 Score=290.16 Aligned_cols=326 Identities=17% Similarity=0.240 Sum_probs=274.4
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
+||+++|++ +..|.....|+++|++++|..-+|++|++++.|++++|..+.+++++|+.+++|.+|||+.++..+.+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~ 80 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAGGKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALA 80 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhCCCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHH
Confidence 599999998 44568999999999999974347999999999999999999999999998789999999999988888
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
+++++++.++|+|++++.+. .......+|++||+.|++..++..+++++.+.+|+++++++.++.|| ++....+++.
T Consensus 81 ~~~~~~~~~ip~v~~~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g--~~~~~~~~~~ 157 (336)
T cd06360 81 MVKVLREPGTPLINPNAGAD-DLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFG--YEVVEGFKEA 157 (336)
T ss_pred HHHHHHhcCceEEecCCCCc-cccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhh--HHHHHHHHHH
Confidence 89999999999999877732 33344457999999999999999999999999999999999999998 8888999999
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccccc
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVAN 272 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~ 272 (920)
+++.| ++++....++... .|+.+++.++++.++|+|++ ...+..+..+++++++.|+.+. ..++.++.+..
T Consensus 158 ~~~~G-~~v~~~~~~~~~~------~d~~~~v~~~~~~~pd~v~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~ 228 (336)
T cd06360 158 FTEAG-GKIVKELWVPFGT------SDFASYLAQIPDDVPDAVFV-FFAGGDAIKFVKQYDAAGLKAK-IPLIGSGFLTD 228 (336)
T ss_pred HHHcC-CEEEEEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHHcCCccC-CeEEecccccC
Confidence 99999 9998887777654 79999999999999999998 7888999999999999999643 34565544322
Q ss_pred ccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccCCC
Q 002454 273 ALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (920)
Q Consensus 273 ~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~ 351 (920)
. ..........+|++...++.+ ..++..++|.++|+++| +..|+.++..+||+++++++|++++++...
T Consensus 229 ~--~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~--------~~~~~~~~~~~yda~~~~~~A~~~a~~~~~ 298 (336)
T cd06360 229 G--TTLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY--------PDTPSVYAVQGYDAGQALILALEAVGGDLS 298 (336)
T ss_pred H--HHHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh--------CCCccHHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 1 111223356788887776654 34678899999998887 446788999999999999999999987534
Q ss_pred ChHHHHHHHHhCccccccccEEEeCCCccCCC
Q 002454 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNAD 383 (920)
Q Consensus 352 ~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~ 383 (920)
+++.+.++|++.+|+|+.|+++|+++|+...+
T Consensus 299 ~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 299 DGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred CHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 78899999999999999999999987776443
No 65
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=100.00 E-value=3.7e-31 Score=288.65 Aligned_cols=317 Identities=17% Similarity=0.225 Sum_probs=262.9
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
|||++.|+| +..|.....|+++|++++|+.| .|++|+++++|+++||..+++++++|+.+++|.+|||+.++..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a 80 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVR 80 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHH
Confidence 599999999 4578999999999999999998 68999999999999999999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.++.++++ .++|+|++.+.. . ....|++||+.+++..++.++++++ +..+|++++++++++.|| +.....+
T Consensus 81 ~a~~~~~~-~~vp~i~~~~~~--~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g--~~~~~~~ 152 (333)
T cd06358 81 NAVAPVVA-GRVPYVYTSLYE--G---GECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWP--RGSLAAA 152 (333)
T ss_pred HHHHHHHh-cCceEEeCCCcC--C---CCCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhh--HHHHHHH
Confidence 99999999 999999975542 1 2346899999999999988888887 446899999999999999 8889999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++|+....++... .|+.+++.++++.++|+|++ ......+..+++++++.|+..+.+ ..+..
T Consensus 153 ~~~~~~~G-~~v~~~~~~~~~~------~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~~--~~~~~ 222 (333)
T cd06358 153 KRYIAELG-GEVVGEEYVPLGT------TDFTSVLERIAASGADAVLS-TLVGQDAVAFNRQFAAAGLRDRIL--RLSPL 222 (333)
T ss_pred HHHHHHcC-CEEeeeeeecCCh------HHHHHHHHHHHHcCCCEEEE-eCCCCchHHHHHHHHHcCCCccCc--eeecc
Confidence 99999999 9999888887754 89999999999999999998 778888889999999999987522 11222
Q ss_pred cccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~ 348 (920)
+... ..........+|++...++.+ ..++..++|.++|+++|..+ ...++.+++.+||+++++++|++++++
T Consensus 223 ~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~-----~~~~~~~~~~~yda~~~~~~A~~~ag~ 295 (333)
T cd06358 223 MDEN--MLLASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDD-----APPLNSLSESCYEAVHALAAAAERAGS 295 (333)
T ss_pred cCHH--HHHhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCC-----CCCCChHHHHHHHHHHHHHHHHHHhCC
Confidence 2211 111111234677777665543 34578899999998887421 234677888999999999999999887
Q ss_pred CCCChHHHHHHHHhCccccccccEEEeCCCc
Q 002454 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGEL 379 (920)
Q Consensus 349 ~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~ 379 (920)
. +++.|.++|++.+|+|++|.++|++++.
T Consensus 296 ~--~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 L--DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred C--CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 5 8999999999999999999999997644
No 66
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.7e-31 Score=292.78 Aligned_cols=321 Identities=18% Similarity=0.188 Sum_probs=268.4
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--C--C--ceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCc
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--R--N--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~--g--~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~ 106 (920)
+||++.|++ +..|.+...|+++|++++|+.| . | ++|+++++|++++|..+.+.+++|+.+++|.+|||+.+
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 589999999 5678999999999999999987 2 4 48999999999999999999999998889999999999
Q ss_pred hHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 002454 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 107 s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (920)
+..+.. ++++++.++|+|++.+. ++......++|+||+.|++..++.++++++.+.+|+++++++.|+.|| +...
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~ 155 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSS--DLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYG--QPWV 155 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCC--cccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchh--HHHH
Confidence 998888 99999999999999888 345545677999999999999999999999889999999999999999 9999
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHh-HHHHHHHHHHHcCCCCCCeEEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~-~~~~~l~~a~~~g~~~~~~~~i 265 (920)
+.+++.+++.| ++++....++... .|+.+++.++++.++|+|++ .+... .+..++++++++|+.+. ++
T Consensus 156 ~~~~~~l~~~G-~~vv~~~~~~~~~------~D~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~g~~~~---~~ 224 (347)
T cd06336 156 AAYKAAWEAAG-GKVVSEEPYDPGT------TDFSPIVTKLLAEKPDVIFL-GGPSPAPAALVIKQARELGFKGG---FL 224 (347)
T ss_pred HHHHHHHHHcC-CEEeeecccCCCC------cchHHHHHHHHhcCCCEEEE-cCCCchHHHHHHHHHHHcCCCcc---EE
Confidence 99999999999 9999888887755 78999999999999999999 88888 99999999999999764 23
Q ss_pred EecccccccccCChhhhcccceEEEEEeeccC---CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHH
Q 002454 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSD---DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (920)
Q Consensus 266 ~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~A 342 (920)
........ ...........+|++...++.+. .++..++|.++|+++| +..|+.++..+||++.++++|
T Consensus 225 ~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~p~~~~~~~y~~~~~~~~A 295 (347)
T cd06336 225 SCTGDKYD-ELLVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY--------GEPPNSEAAVSYDAVYILKAA 295 (347)
T ss_pred eccCCCch-HHHHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH--------CCCCcHHHHHHHHHHHHHHHH
Confidence 22221110 11111223456788888776654 5678899999999888 344778899999999999999
Q ss_pred HHhhccCCCChHHHHHHHHh--------CccccccccEEEeCCCccCCC
Q 002454 343 IGRLNYNISSPEMLLRQMLS--------SDFSGLSGKIRFKDGELLNAD 383 (920)
Q Consensus 343 l~~~~~~~~~~~~l~~~l~~--------~~f~g~sG~i~F~~~g~~~~~ 383 (920)
++++++. ++..+.+++.. ..|.++.|.+.||++|+...+
T Consensus 296 l~~ag~~--~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 296 MEAAGSV--DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred HHhcCCC--CcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 9999876 56556655433 468888999999998887544
No 67
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.4e-31 Score=288.70 Aligned_cols=325 Identities=18% Similarity=0.233 Sum_probs=263.7
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|++ +..|.....|+++|++++|+.+ .|++|++++.|++++|..+.+.+++|+++++|.+|+||.++..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVA 80 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHH
Confidence 599999999 5678999999999999999997 68999999999999999999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCcc-CCCCceeEEeccCchHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~r~~p~~~~~~~aia~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
.++.+++++.+||+|++.++.. +... ...++|+||+.|++..++.++++++.. .+|++|+++|++++|| +.....
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~~~-~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g--~~~~~~ 157 (347)
T cd06335 81 LANLEFIQQNKIPLIGPWAAGT-PITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWG--RSNRKD 157 (347)
T ss_pred HhhhHHHHhcCCcEEecCCCCc-ccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchh--hhHHHH
Confidence 9999999999999999877632 3333 245689999999999999999998854 5699999999999999 999999
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
+++.+++.| ++++....++... .|+.+.+.++++.++++|++ .+....+..+++++++.|+... ++...
T Consensus 158 ~~~~~~~~G-~~v~~~~~~~~~~------~d~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 226 (347)
T cd06335 158 LTAALAARG-LKPVAVEWFNWGD------KDMTAQLLRAKAAGADAIII-VGNGPEGAQIANGMAKLGWKVP---IISHW 226 (347)
T ss_pred HHHHHHHcC-CeeEEEeeecCCC------ccHHHHHHHHHhCCCCEEEE-EecChHHHHHHHHHHHcCCCCc---Eeccc
Confidence 999999999 9999888887654 78999999999999999999 8899999999999999999643 33222
Q ss_pred ccccccccCChhhhcccceEEEEEeeccC--CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 002454 269 TVANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (920)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (920)
.... ..+........+|++....+... .++..++|.++|+++|...... ...++.+++.+||+++++++|++++
T Consensus 227 ~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~a 302 (347)
T cd06335 227 GLSG--GNFIEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQA 302 (347)
T ss_pred CCcC--chhhhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHHh
Confidence 2111 11111222446787776655432 4678899999999988432100 1135566788999999999999999
Q ss_pred ccCCCChHHHHHHHHhC--cccccccc--EEEeCCCcc
Q 002454 347 NYNISSPEMLLRQMLSS--DFSGLSGK--IRFKDGELL 380 (920)
Q Consensus 347 ~~~~~~~~~l~~~l~~~--~f~g~sG~--i~F~~~g~~ 380 (920)
+.. +++.++++|++. .+.|+.|. +.|+...++
T Consensus 303 g~~--~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h~ 338 (347)
T cd06335 303 GST--DGRAIKRALENLKKPVEGLVKTYDKPFSKEDHE 338 (347)
T ss_pred cCC--CHHHHHHHHHhccCCceeeecccCCCCChhhcc
Confidence 876 668999999876 56788774 457654443
No 68
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.98 E-value=5.9e-31 Score=287.09 Aligned_cols=325 Identities=16% Similarity=0.153 Sum_probs=261.9
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
|||++.|+| +..|+....|+++|++++|+.| +|++|+++++|+++||..+++++++|+.+++|.+|+ +.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~ 79 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGIT 79 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHH
Confidence 589999999 6678999999999999999998 689999999999999999999999999887898876 5678888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCcc-CCCCceeEEeccCchHHHHHHHHHHHHcC-----CeEEEEEEEeCCCCCCcc
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYN-----WRRVAAIYEDNVYGGDSG 184 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~r~~p~~~~~~~aia~~l~~~~-----w~~v~ii~~~~~~g~~~~ 184 (920)
.++++++++.++|+|++++++ +... ...+||+||+.|++..++.++++++.+.+ .+++++|+.+++|| +.
T Consensus 80 ~a~~~~~~~~~vp~i~~~~~~--~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g--~~ 155 (351)
T cd06334 80 EALIPKIAADKIPLMSGSYGA--TLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFG--KE 155 (351)
T ss_pred HHhhHHHhhcCCcEEecccch--hhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccc--hh
Confidence 899999999999999987663 3333 56689999999999999999999997755 79999999999999 99
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEE
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (920)
....+++.+++.| ++++....++... .|+.+++.++++.++|+|++ ...+.++..++++++++|+.. .+
T Consensus 156 ~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~i~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~---~~ 224 (351)
T cd06334 156 PIEALKALAEKLG-FEVVLEPVPPPGP------NDQKAQWLQIRRSGPDYVIL-WGWGVMNPVAIKEAKRVGLDD---KF 224 (351)
T ss_pred hHHHHHHHHHHcC-CeeeeeccCCCCc------ccHHHHHHHHHHcCCCEEEE-ecccchHHHHHHHHHHcCCCc---eE
Confidence 9999999999999 9999888887755 79999999999999999999 888889999999999999954 35
Q ss_pred EEecccccccccCChhhhcccceEEEEEeecc-CCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHH
Q 002454 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (920)
Q Consensus 265 i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 343 (920)
+.+..... ..+........+|+++..++.+ ..+|..++|.++|+++|..... ....++.+++.+||+++++++|+
T Consensus 225 ~~~~~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~--~~~~~~~~~~~gy~a~~~l~~Al 300 (351)
T cd06334 225 IGNWWSGD--EEDVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGN--DKEIGSVYYNRGVVNAMIMVEAI 300 (351)
T ss_pred EEeeccCc--HHHHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCC--cccccccHHHHHHHHHHHHHHHH
Confidence 54433211 1111223355678887766653 3568899999999888742110 01234678999999999999999
Q ss_pred HhhccCCC----ChH-------HHHHHHHhCccccccccEEEeCCCcc
Q 002454 344 GRLNYNIS----SPE-------MLLRQMLSSDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 344 ~~~~~~~~----~~~-------~l~~~l~~~~f~g~sG~i~F~~~g~~ 380 (920)
+++++... .+. .-++.+++.+..|+.|+++|....++
T Consensus 301 ~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~~ 348 (351)
T cd06334 301 RRAQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDHR 348 (351)
T ss_pred HHHHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccCC
Confidence 99987621 111 12234455577899999999865544
No 69
>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=99.97 E-value=2.6e-29 Score=266.51 Aligned_cols=321 Identities=14% Similarity=0.201 Sum_probs=233.3
Q ss_pred ccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCC---CCceEEEEEec-CCCCHHHHHHHHHHHhhcCCeEEEEc-CCch
Q 002454 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAG-METW 107 (920)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D-~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s 107 (920)
..|+||++++.. .+.+.|+++|++.+|++. ++.+|++++.. ...||+.+.+.+|+++-.+||.|||| |.++
T Consensus 17 ~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~s~ 92 (382)
T cd06377 17 HTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQTR 92 (382)
T ss_pred CceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCCCH
Confidence 469999999865 457999999999999887 46788877774 55799999999999953469999999 5888
Q ss_pred HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHH
Q 002454 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 108 ~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (920)
.++..+..+|...+||+|+++.... +......+.+.+++.|+...++.|+++++++|+|++|++||+.+. | ..
T Consensus 93 ~~~~~v~sic~~l~IP~I~~~~~~~-~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~-g-----l~ 165 (382)
T cd06377 93 PELVQLDFVSAALEIPVVSIVRREF-PRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRER-D-----PT 165 (382)
T ss_pred HHHHHHHHHhcCCCCCEEEecCCcc-cccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCc-C-----HH
Confidence 8889999999999999999866521 221222222334559999999999999999999999999999987 3 33
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHH-HHHHHhhccCC-ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAV-RGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~-~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
.|++.++..+...+...+.+......+.+..++ +..|+++++.+ .++|++ .|+.+.+..+++++.+. |+||
T Consensus 166 ~lq~l~~~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill-~cs~e~~~~il~~~~~~------y~wI 238 (382)
T cd06377 166 GLLLLWTNHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLF-GCDVARARRVLELTPPG------PHWI 238 (382)
T ss_pred HHHHHHHHhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEE-ECCHHHHHHHHHhhccc------eEEE
Confidence 455555554411222233332221111123455 99999999888 888888 99999999999887663 8999
Q ss_pred EecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHh
Q 002454 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (920)
Q Consensus 266 ~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (920)
+++.. .++.+. ....--|.++ +.. . . ....+++.||||+++++|++.
T Consensus 239 v~~~~--~le~~~--~~g~nigLl~---~~~----------------~--------~--~~~l~ali~DAV~lvA~a~~~ 285 (382)
T cd06377 239 LGDPL--PPEALR--TEGLPPGLLA---HGE----------------T--------T--QPPLEAYVQDALELVARAVGS 285 (382)
T ss_pred EcCCc--Chhhcc--CCCCCceEEE---Eee----------------c--------c--cccHHHHHHHHHHHHHHHHHH
Confidence 98732 111111 0111122221 110 0 0 002278999999999999997
Q ss_pred hc-------------cC--------CCChHHHHHHHHhCccccccccEEEeCCCcc--CCCcEEEEecc--CCe---eEE
Q 002454 346 LN-------------YN--------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELL--NADTLRIVNVV--GKK---YKE 397 (920)
Q Consensus 346 ~~-------------~~--------~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~--~~~~~~i~~~~--~~~---~~~ 397 (920)
+. +| ..+|..|.++|++++|+|+||+|.|+ +|.| .++.++|++++ ..+ |++
T Consensus 286 l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~~~W~k 364 (382)
T cd06377 286 ATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQPTWTT 364 (382)
T ss_pred hhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCCccceE
Confidence 52 11 12678999999999999999999995 5666 68999999998 444 599
Q ss_pred EEEecCCC
Q 002454 398 LDFWLPNF 405 (920)
Q Consensus 398 vg~w~~~~ 405 (920)
||.|++..
T Consensus 365 VG~W~~~~ 372 (382)
T cd06377 365 VGSWQGGR 372 (382)
T ss_pred EEEecCCC
Confidence 99999963
No 70
>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=9e-30 Score=278.81 Aligned_cols=326 Identities=17% Similarity=0.251 Sum_probs=265.4
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
+||+++|++ +..|.....|+++|++++|...+|++|++++.|++++|..+.+.+++|+.+++|.+|||+.++..+.+
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~ 80 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLGGKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALA 80 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhCCCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHH
Confidence 599999999 34677999999999999984337999999999999999999999999998779999999998888888
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
+.+.+++.++|+|++++... .......+|++||+.|++..++..+++++...+|+++++++.++.+| ++..+.+++.
T Consensus 81 ~~~~~~~~~ip~v~~~~~~~-~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~--~~~~~~~~~~ 157 (333)
T cd06332 81 VVPSLTESGTFLISPNAGPS-DLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAG--KDAVAGFKRT 157 (333)
T ss_pred HHHHHhhcCCeEEecCCCCc-cccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchh--HHHHHHHHHh
Confidence 88999999999999877632 33344457999999999999999999999999999999999999898 8888888888
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccccc
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVAN 272 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~ 272 (920)
++ | .+.....++... .|+.+++.++++.++|+|++ ...+..+..+++++++.|+.+. ..++.++.+..
T Consensus 158 ~~--~--~~~~~~~~~~~~------~d~~~~i~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~ 225 (333)
T cd06332 158 FK--G--EVVEEVYTPLGQ------LDFSAELAQIRAAKPDAVFV-FLPGGMAVNFVKQYDQAGLKKK-IPLYGPGFLTD 225 (333)
T ss_pred hc--E--EEeeEEecCCCC------cchHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCcccC-CceeccCCCCC
Confidence 77 5 455555555543 57888999999899999998 7777899999999999999542 45666555432
Q ss_pred ccccCChhhhcccceEEEEEeeccC-CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccCCC
Q 002454 273 ALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (920)
Q Consensus 273 ~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~ 351 (920)
. ..........+|++...++.+. .++..++|.++|+++| +..|+.++..+||+++++++|+++++....
T Consensus 226 ~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~a~~~ag~~~~ 295 (333)
T cd06332 226 Q--DTLPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY--------GRVPSVYAAQGYDAAQLLDAALRAVGGDLS 295 (333)
T ss_pred H--HHHHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh--------CCCCcHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 1 1112233567788887766542 3577889999998887 344778899999999999999999986544
Q ss_pred ChHHHHHHHHhCccccccccEEEeCCCccCCCcEEE
Q 002454 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI 387 (920)
Q Consensus 352 ~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i 387 (920)
+++.+.++|++.+|+|++|+|+|+++|+. ...+.+
T Consensus 296 ~~~~v~~al~~~~~~~~~g~i~f~~~~~~-~~~~~~ 330 (333)
T cd06332 296 DKDALRAALRAADFDSPRGPFKFNPNHNP-IQDFYL 330 (333)
T ss_pred CHHHHHHHHhcCceecCccceeECCCCCc-ccceeE
Confidence 67899999999999999999999987765 333443
No 71
>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=99.97 E-value=1.2e-30 Score=283.78 Aligned_cols=315 Identities=15% Similarity=0.188 Sum_probs=226.9
Q ss_pred CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecC-------CCCHHHHHHHHHHHhhcCCe--EEEEcCCchHHHHHHHH
Q 002454 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH-------NRDPFQAATAAQELINKEKV--KVIAGMETWEETAVVAE 115 (920)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~-------~~d~~~a~~~a~~li~~~~v--~aiiGp~~s~~~~~va~ 115 (920)
...|.+.+.|++.|++++|++. +.++.+.+.+. ++|...+.+++|+++++ ++ .|||||.++..+..+++
T Consensus 8 ~~~~~~~~~A~~~Av~~~N~~~-~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~-gv~~~AIiGp~ss~~a~~V~s 85 (368)
T cd06383 8 EDDNDVYKQIIDDALSYINRNI-GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADS-AIVPHLVLDTTTCGDASEIKS 85 (368)
T ss_pred ccchHHHHHHHHHHHHHHhcCC-CCceEEEEecccccccccCCcHHHHHHHHHHHHHc-cCCcEEEECCCcchhHHHHHH
Confidence 3468899999999999999984 77777777765 45777788889999974 77 89999999999999999
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCc-chHHHHHHHHh
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDS-GKLALLAEALQ 194 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~-~~~~~l~~~l~ 194 (920)
+|+.++||+|+++.+. . ....+||++|+.|++..+++|+++++++|+|++|++||+++... . ...+.+++...
T Consensus 86 i~~~~~IP~Is~s~~~---~-~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl--~~~l~~~l~~~~~ 159 (368)
T cd06383 86 VTGALGIPTFSASYGQ---E-GDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVM--DHKYKSLLQNWPT 159 (368)
T ss_pred HHhccCCCEEEccCCC---c-CcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchh--hHHHHHHHHhHHh
Confidence 9999999999986552 1 23478999999999999999999999999999999999777632 2 22223332233
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccccccc
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~ 274 (920)
..+ .++. +.. ..++...|+++++++.+.||+.++.++.+..++++|.++||++++|+||+++......
T Consensus 160 ~~~-~~v~-----~~~------~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~ 227 (368)
T cd06383 160 RHV-ITII-----NSI------IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIY 227 (368)
T ss_pred cCC-EEEE-----ecc------chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhh
Confidence 333 3332 111 2468899999998888555552555699999999999999999999999999865432
Q ss_pred ccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhcc------
Q 002454 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------ 348 (920)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~------ 348 (920)
+... ..-.-.++.++....+.+ ...+++..++.+. +............++++||||+++++|++.+..
T Consensus 228 dl~~--~~~~~~Nitgfrl~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~ 301 (368)
T cd06383 228 DDLS--CQLRNASIFVTRPMMDYQ-SSVRGALLRTDEP---TLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG 301 (368)
T ss_pred hhhh--hccccCcEEEeeccccch-hhhccceeeccCC---ccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC
Confidence 2211 112223566666543333 2335555443110 001110112345699999999999999996421
Q ss_pred C------CCCh-----------HHHHHHHHhCccccccccEEEeCCCccCCCcE
Q 002454 349 N------ISSP-----------EMLLRQMLSSDFSGLSGKIRFKDGELLNADTL 385 (920)
Q Consensus 349 ~------~~~~-----------~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~ 385 (920)
+ ..++ ..+.++|+.++|+|+||+|+||++|.|.+.++
T Consensus 302 ~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l 355 (368)
T cd06383 302 STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTI 355 (368)
T ss_pred CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeee
Confidence 1 0122 28899999999999999999999998855444
No 72
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=6.1e-30 Score=264.19 Aligned_cols=338 Identities=17% Similarity=0.209 Sum_probs=241.1
Q ss_pred EEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCCC--CceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 35 i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~--g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
|+||++++++ +..++....|..+|+++||++|+ |++|+.++.|.++|+...++.|++|+.+++|.+|||..+|.+
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSas 80 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSAS 80 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhhh
Confidence 6899999999 34567899999999999999994 999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH-HHcCCeEEEEEEEeCCCCCCcchHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
-+++.++.++.+-++..+..-. -....|++|-+.....++...+++|+ .++|.+|+.+|.+|+.|+ ++.-..
T Consensus 81 RKaVlPvvE~~~~LL~Yp~~YE-----G~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~p--re~Nri 153 (363)
T PF13433_consen 81 RKAVLPVVERHNALLFYPTQYE-----GFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYP--RESNRI 153 (363)
T ss_dssp HHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHH--HHHHHH
T ss_pred HHHHHHHHHhcCceEEeccccc-----cccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccch--HHHHHH
Confidence 9999999999999998765442 23566899999999999999999988 556779999999999999 999999
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
+++.+++.| ++++.+..+|.+. +|+.+.+.++++.+||+|+- ...++....|++++++.|+..+.. -|.+.
T Consensus 154 ~r~~l~~~G-gevvgE~Y~plg~------td~~~ii~~I~~~~Pd~V~s-tlvG~s~~aF~r~~~~aG~~~~~~-Pi~S~ 224 (363)
T PF13433_consen 154 IRDLLEARG-GEVVGERYLPLGA------TDFDPIIAEIKAAKPDFVFS-TLVGDSNVAFYRAYAAAGLDPERI-PIASL 224 (363)
T ss_dssp HHHHHHHTT--EEEEEEEE-S-H------HHHHHHHHHHHHHT-SEEEE-E--TTCHHHHHHHHHHHH-SSS----EEES
T ss_pred HHHHHHHcC-CEEEEEEEecCCc------hhHHHHHHHHHhhCCCEEEE-eCcCCcHHHHHHHHHHcCCCcccC-eEEEE
Confidence 999999999 9999999999866 89999999999999999998 999999999999999999987644 34444
Q ss_pred ccccccccCChhhhcccceEEEEEeec-cCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 269 TVANALDSLNTTVISSMEGTLGIKSYY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
..+.. .+.....+...|.+...+|. +.++|..++|.++|+++|.. +..++...-.+|.+|+++++|+++++
T Consensus 225 ~~~E~--E~~~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~------~~v~s~~~eaaY~~v~l~a~Av~~ag 296 (363)
T PF13433_consen 225 STSEA--ELAAMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGD------DRVTSDPMEAAYFQVHLWAQAVEKAG 296 (363)
T ss_dssp S--HH--HHTTS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-T------T----HHHHHHHHHHHHHHHHHHHHT
T ss_pred ecCHH--HHhhcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCC------CCCCCcHHHHHHHHHHHHHHHHHHhC
Confidence 43321 11111234678888888877 55679999999999998853 33566677779999999999999999
Q ss_pred cCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CCeeEEE
Q 002454 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (920)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~~~~~v 398 (920)
+. +++.++++|.+.+|+++.|.+++|...+-.....+|-+++ +++|..|
T Consensus 297 s~--d~~~vr~al~g~~~~aP~G~v~id~~n~H~~l~~rIg~~~~dG~f~Iv 346 (363)
T PF13433_consen 297 SD--DPEAVREALAGQSFDAPQGRVRIDPDNHHTWLPPRIGRVNADGQFDIV 346 (363)
T ss_dssp S----HHHHHHHHTT--EEETTEEEEE-TTTSBEEB--EEEEE-TTS-EEEE
T ss_pred CC--CHHHHHHHhcCCeecCCCcceEEcCCCCeecccceEEEEcCCCCEEEE
Confidence 98 9999999999999999999999996443334556665665 3555543
No 73
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=99.97 E-value=1.7e-29 Score=276.14 Aligned_cols=313 Identities=21% Similarity=0.342 Sum_probs=246.8
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCC---CceEEEEEecC-CCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSR---NHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~---g~~l~~~~~D~-~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
+||++++... .....|+++|++++|..+. +..+.+.+.+. .+||..+++.+|+++.+++|.|||||.++..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~ 77 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESAS 77 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCCHHHHH
Confidence 4899998764 7889999999999999873 44555554433 489999999999999667999999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
+++++|+.++||+|+++++.. .......+|+++|+.|++..+++++++++.+++|+++++||+++++. ..+++
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~------~~l~~ 150 (328)
T cd06351 78 AVQSICDALEIPHISISGGSE-GLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGL------SRLQE 150 (328)
T ss_pred HHHHHhccCCCCeEEeecCcc-cccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHH------HHHHH
Confidence 999999999999999988843 33344678999999999999999999999999999999999998854 33344
Q ss_pred HHhcc---CCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCc-eEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 192 ALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS-RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 192 ~l~~~---g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~-~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
.+++. + ..+. ...+.... ++++..++++++.++ ++|++ ++..+.+..++++|+++||++++|+||++
T Consensus 151 ~~~~~~~~~-~~v~-~~~~~~~~------~~~~~~l~~l~~~~~~~vil~-~~~~~~~~~~l~~a~~~gm~~~~~~~i~~ 221 (328)
T cd06351 151 LLDESGIKG-IQVT-VRRLDLDD------DNYRQLLKELKRSESRRIILD-CSSEEEAKEILEQAVELGMMGYGYHWILT 221 (328)
T ss_pred HHHhhcccC-ceEE-EEEecCCc------hhHHHHHHHHhhcccceEEEE-CCcHHHHHHHHHHHHHhccccCCcEEEEe
Confidence 44433 3 3333 33344432 378999999998888 66555 66659999999999999999999999999
Q ss_pred cccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
+......+. ........|++++....+. ++...+|..+|.. ..+......+...++.+||+++++
T Consensus 222 ~~~~~~~d~--~~~~~~~~~i~g~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~d~~~~~-------- 286 (328)
T cd06351 222 NLDLSDIDL--EPFQYGPANITGFRLVDPD-SPDVSQFLQRWLE----ESPGVNLRAPIYDAALLYDAVLLL-------- 286 (328)
T ss_pred cCCccccch--hhhccCCcceEEEEEeCCC-chHHHHHHHhhhh----ccCCCCcCccchhhHhhhcEEEEE--------
Confidence 986554322 1233456788888876654 3667778887732 222222445667888999998776
Q ss_pred cCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CCeeEEEEEecC
Q 002454 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (920)
Q Consensus 348 ~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~~~~~vg~w~~ 403 (920)
||++.|+++|.|.++.++|+++. +.++++||.|++
T Consensus 287 ---------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 ---------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred ---------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 99999999999999999999999 899999999995
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=278.97 Aligned_cols=331 Identities=13% Similarity=0.176 Sum_probs=260.9
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CC--ceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RN--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g--~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~ 108 (920)
+||++.|+| +..|.....++++|++++|..+ +| ++|+++++|++++|.++.+++++|+.+++|.+|||+.+|.
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~ 80 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPD 80 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcc
Confidence 599999999 5668888999999999999654 34 5899999999999999999999999988999999999999
Q ss_pred HHHHHHHhhccCCccEEeecCCCCC-----CCccCCCCceeEEeccCchHHHHHHHHHHHHcC-CeEEEEEEEeCCCCCC
Q 002454 109 ETAVVAEIASRVQVPILSFAAPAVT-----PLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGGD 182 (920)
Q Consensus 109 ~~~~va~~~~~~~iP~is~~~~~~~-----~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~-w~~v~ii~~~~~~g~~ 182 (920)
.+.++++++++.+||+|++.++.+. .......++|+||+.+++..+..+++++++..+ ++++++++.++.||
T Consensus 81 ~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g-- 158 (357)
T cd06337 81 TTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDG-- 158 (357)
T ss_pred hhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchh--
Confidence 9999999999999999987543110 001123478999999999888899999888877 99999999999999
Q ss_pred cchHHHHH---HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 183 SGKLALLA---EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 183 ~~~~~~l~---~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
....+.+. +.+++.| ++++....++... .|+.+++.+++++++|+|++ .+.+.++..++++++++|+..
T Consensus 159 ~~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~ik~a~pD~v~~-~~~~~~~~~~~~~~~~~G~~~ 230 (357)
T cd06337 159 NAFADPVIGLPAALADAG-YKLVDPGRFEPGT------DDFSSQINAFKREGVDIVTG-FAIPPDFATFWRQAAQAGFKP 230 (357)
T ss_pred HHHHHhhhcccHHHHhCC-cEEecccccCCCC------CcHHHHHHHHHhcCCCEEEe-CCCccHHHHHHHHHHHCCCCC
Confidence 76655544 5677789 9999888888765 78999999999999999998 889999999999999999976
Q ss_pred CCeEEEEec-cc--ccccccCChhhhcccceEEEEEeeccC-------CCchhHHHHHHHHHhccccCCCCCCCCCcchh
Q 002454 260 KDSVWIVTN-TV--ANALDSLNTTVISSMEGTLGIKSYYSD-------DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHA 329 (920)
Q Consensus 260 ~~~~~i~t~-~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a 329 (920)
. ++... .. ...... .....+|++....+.+. .++..++|.++|+++|. ..|...+
T Consensus 231 ~---~~~~~~~~~~~~~~~~----~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g--------~~~~~~~ 295 (357)
T cd06337 231 K---IVTIAKALLFPEDVEA----LGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATG--------RQWTQPL 295 (357)
T ss_pred C---eEEEeccccCHHHHHH----hhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhC--------CCccCcc
Confidence 4 33322 11 111111 12234565544333221 12457889999988873 3345556
Q ss_pred hhHhhHHHHHHHHHHhhccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEeccCCee
Q 002454 330 LRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKY 395 (920)
Q Consensus 330 ~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~~~~~ 395 (920)
.++||++.++++|++++++. .+++.|.++|++.+++++.|+++|+++ ...+..|+.+.+++|
T Consensus 296 ~~~~~~~~~l~~Ai~~Ags~-~d~~~v~~aL~~~~~~~~~G~~~f~~~---~~~~~~~~~~~~~~~ 357 (357)
T cd06337 296 GYAHALFEVGVKALVRADDP-DDPAAVADAIATLKLDTVVGPVDFGNS---PIKNVAKTPLVGGQW 357 (357)
T ss_pred hHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHcCCcccceeeeecCCC---CCccccccccccCCC
Confidence 77999999999999999874 378899999999999999999999865 245677777777654
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=5.6e-28 Score=264.81 Aligned_cols=321 Identities=15% Similarity=0.182 Sum_probs=257.2
Q ss_pred EEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 35 i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
|+||++.|+| +..|+....|+++|++++|+.+ .|++|+++..|+++||..+.+.+++|+.+++|.+|||+.++..
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~ 80 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPT 80 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchh
Confidence 6899999999 5668899999999999999998 6899999999999999999999999998669999999988877
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
+.++.+++.+.++|+|++++.+ +.......+++|++.+++...+..+++++.+.+|++++++++++.+| ......+
T Consensus 81 ~~~~~~~~~~~~iP~i~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~--~~~~~~~ 156 (336)
T cd06326 81 TAAALPLLEEAGVPLVGPFTGA--SSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFG--KDGLAGV 156 (336)
T ss_pred HHHHHHHHHHcCCeEEEecCCc--HHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcch--HHHHHHH
Confidence 7778899999999999986552 32222356899999999999999999999999999999999988888 8889999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| +++.....++... .|+.+++.++++.++|+|++ .++...+..+++++++.|+..+ ++....
T Consensus 157 ~~~~~~~G-~~~~~~~~~~~~~------~d~~~~~~~l~~~~~dav~~-~~~~~~a~~~i~~~~~~G~~~~---~~~~~~ 225 (336)
T cd06326 157 EKALAARG-LKPVATASYERNT------ADVAAAVAQLAAARPQAVIM-VGAYKAAAAFIRALRKAGGGAQ---FYNLSF 225 (336)
T ss_pred HHHHHHcC-CCeEEEEeecCCc------ccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHhcCCCCc---EEEEec
Confidence 99999999 9987776666543 67899999999889999998 7777889999999999999653 222222
Q ss_pred cccccccCChhhhcccceEEEEEee--c-cCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSY--Y-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~--~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (920)
... +.+........+|++....+ . ...+|..++|.+.|++++. ...|+.++..+||+++++++|++++
T Consensus 226 ~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-------~~~~~~~~~~~y~~~~~~~~a~~~~ 296 (336)
T cd06326 226 VGA--DALARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGP-------GAPPSYVSLEGYIAAKVLVEALRRA 296 (336)
T ss_pred cCH--HHHHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCC-------CCCCCeeeehhHHHHHHHHHHHHHc
Confidence 211 11111223455677653322 2 1235677888888877663 2356778889999999999999999
Q ss_pred ccCCCChHHHHHHHHhCcc-ccccccEEEeCCCcc
Q 002454 347 NYNISSPEMLLRQMLSSDF-SGLSGKIRFKDGELL 380 (920)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f-~g~sG~i~F~~~g~~ 380 (920)
++. .+++.++++|++.+. ++..|.++|++..+.
T Consensus 297 g~~-~~~~~v~~al~~~~~~~~~g~~~~~~~~~h~ 330 (336)
T cd06326 297 GPD-PTRESLLAALEAMGKFDLGGFRLDFSPGNHQ 330 (336)
T ss_pred CCC-CCHHHHHHHHHhcCCCCCCCeEEecCccccc
Confidence 864 489999999999865 455459999865544
No 76
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=4.9e-28 Score=263.21 Aligned_cols=302 Identities=16% Similarity=0.201 Sum_probs=244.5
Q ss_pred EEEEEEeCCC---cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 36 ~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
+||+++|+++ ..|.....|+++|++++| |+++++++.|+++ |..+.+.+++|+.+ +|.+||||.+|..+.+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in----G~~i~l~~~D~~~-~~~a~~~~~~li~~-~V~~iiG~~~s~~~~a 74 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN----GASIELRVYDTAG-AAGAAAAARQAVAE-GADIIVGPLLKENVAA 74 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc----CCCceEEEEeCCC-cccHHHHHHHHHHc-CCCEEEccCCHHHHHH
Confidence 5999999994 578899999999999999 8899999999999 99999999999975 9999999999999998
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
+++++.+.++|+|++++. .... . .+++||+.+++..++.++++++.+.+++++++++.+++|| .+....+++.
T Consensus 75 ~~~~~~~~~ip~i~~~~~--~~~~-~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g--~~~~~~f~~~ 147 (336)
T cd06339 75 LAAAAAELGVPVLALNND--ESVA-A--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYG--QRVADAFRQA 147 (336)
T ss_pred HHhhhccCCCCEEEccCC--cccc-C--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHH--HHHHHHHHHH
Confidence 999999999999997655 2222 2 5899999999999999999999888999999999999999 9999999999
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---------------------CceEEEEEecCHh-HHHHHHH
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---------------------QSRVFIVLQASLD-MTIHLFT 250 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---------------------~~~vii~~~~~~~-~~~~~l~ 250 (920)
+++.| ++++....++... .|+..++.++++. ++|+|++ .+.+. .+..+.+
T Consensus 148 ~~~~G-~~vv~~~~~~~~~------~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~-~~~~~~~~~~~~~ 219 (336)
T cd06339 148 WQQLG-GTVVAIESYDPSP------TDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDA-VALPDGEARLIKP 219 (336)
T ss_pred HHHcC-CceeeeEecCCCH------HHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEE-EecChhhhhhhcc
Confidence 99999 9999998888755 8999999999987 9999988 66665 7777777
Q ss_pred HHHHcCCCCCCeEEEEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCC-cchh
Q 002454 251 EANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHA 329 (920)
Q Consensus 251 ~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~a 329 (920)
+++..+.......+++++.+... .+........+|++...+.. ....+|.++|+++| +..| +.++
T Consensus 220 ~~~~~~~~~~~~~~~g~~~~~~~--~~~~~~g~~~~g~~~~~~~~----~~~~~f~~~y~~~~--------~~~p~~~~~ 285 (336)
T cd06339 220 QLLFYYGVPGDVPLYGTSRWYSG--TPAPLRDPDLNGAWFADPPW----LLDANFELRYRAAY--------GWPPLSRLA 285 (336)
T ss_pred hhhhhccCcCCCCEEEeccccCC--CCCcccCcccCCcEEeCCCc----ccCcchhhhHHHHh--------cCCCCchHH
Confidence 87776641112357777776542 11112234567776654311 12237888888877 4557 8899
Q ss_pred hhHhhHHHHHHHHHHhhccCCCChHHHHHHHH-hCccccccccEEEeCCCcc
Q 002454 330 LRAHDSIKIITEAIGRLNYNISSPEMLLRQML-SSDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 330 ~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~-~~~f~g~sG~i~F~~~g~~ 380 (920)
+.+|||+.+++.++++.+.. . ++. ...|+|++|+++|+++|+.
T Consensus 286 a~~YDa~~l~~~~~~~~~~~--~------al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 286 ALGYDAYALAAALAQLGQGD--A------ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHhHHHHHHHHHHccccc--c------ccCCCCccccCcceEEECCCCeE
Confidence 99999999999888877543 2 443 3479999999999987764
No 77
>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=9.3e-27 Score=255.35 Aligned_cols=328 Identities=14% Similarity=0.147 Sum_probs=258.6
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|++ +..|.+...|+++|++++|+.| +|+++++++.|++++|..+.+.+++|+.+++|.+|||+.++...
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~~ 80 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAGG 80 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccch
Confidence 599999999 5678999999999999999998 68999999999999999999999999987799999999988777
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l 189 (920)
.++ +.+++.++|+|++.+.. +.... .|+.|++.+++..++.++++++...+.+++++++.++. || +.....+
T Consensus 81 ~~~-~~~~~~~ip~v~~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g--~~~~~~~ 153 (341)
T cd06341 81 SAL-PYLAGAGIPVIGGAGTS--AWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAV--SAAAALL 153 (341)
T ss_pred hHH-HHHhhcCCceecCCCCC--chhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHH--HHHHHHH
Confidence 665 88899999999987662 32222 57888999999999999999999989999999987765 88 8889999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| ++++....++... .|+...+.++++.++|+|++ ..+...+..+++++++.|+..+. +....
T Consensus 154 ~~~~~~~G-~~v~~~~~~~~~~------~d~~~~~~~i~~~~pdaV~~-~~~~~~a~~~~~~~~~~G~~~~~---~~~~~ 222 (341)
T cd06341 154 ARSLAAAG-VSVAGIVVITATA------PDPTPQAQQAAAAGADAIIT-VLDAAVCASVLKAVRAAGLTPKV---VLSGT 222 (341)
T ss_pred HHHHHHcC-CccccccccCCCC------CCHHHHHHHHHhcCCCEEEE-ecChHHHHHHHHHHHHcCCCCCE---EEecC
Confidence 99999999 9988776666543 67889999999899999998 88888999999999999997752 22222
Q ss_pred cccccccCChhhhcccceEEEEEeeccC--CCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhc
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~ 347 (920)
... ..+........+|++....+.+. .+|..+.|.+.++ +|..++ +..|+.+++.+||+++++++|+++++
T Consensus 223 ~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~-~~~~~~----~~~~~~~~~~~yda~~~~~~a~~~ag 295 (341)
T cd06341 223 CYD--PALLAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMA-RYAPQL----DPPEQGFALIGYIAADLFLRGLSGAG 295 (341)
T ss_pred CCC--HHHHHhcCcccCceEEEeeeccccCCCHHHHHHHHHHH-HhCCCC----CCCcchHHHHHHHHHHHHHHHHHhcC
Confidence 111 11122234567898888776653 5677777776544 443332 45688899999999999999999998
Q ss_pred cCCCChHH-HHHHHHhCccccccc---cEEEeCCCccCCCcEEEEe
Q 002454 348 YNISSPEM-LLRQMLSSDFSGLSG---KIRFKDGELLNADTLRIVN 389 (920)
Q Consensus 348 ~~~~~~~~-l~~~l~~~~f~g~sG---~i~F~~~g~~~~~~~~i~~ 389 (920)
.. .+++. ++++|++.+.....| .+.+..++.+....+.+++
T Consensus 296 ~~-~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 340 (341)
T cd06341 296 GC-PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGRPSTCYSFVQ 340 (341)
T ss_pred CC-CChHHHHHHHhhcCCCCCCCCcccCccCccCCCCCchhhhhee
Confidence 75 46777 999999986543333 3444455555455555544
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=1.4e-26 Score=249.56 Aligned_cols=301 Identities=14% Similarity=0.144 Sum_probs=228.1
Q ss_pred cHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEE
Q 002454 48 GKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPIL 125 (920)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~i 125 (920)
+.....|+++|+++||+.| .|++|+++..|. ++|..++..+++|+. ++|.+|+|+.+|..+.++.+++++.++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li~-~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALLA-QGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHHH-CCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 5678899999999999987 689999999975 789999999999995 689999999999999999999999999999
Q ss_pred eecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEe
Q 002454 126 SFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL 205 (920)
Q Consensus 126 s~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~ 205 (920)
++++++. ......++||+||+.|++..+++++++++...+.+++++|+.+++|| ..+.+.+++.+++.| ++++..+
T Consensus 88 ~~~a~~~-~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g--~~~~~~~~~~~~~~G-~~vv~~~ 163 (347)
T TIGR03863 88 NAGAPDD-ALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPAD--ALYADAFRRSAKRFG-AKIVAER 163 (347)
T ss_pred eCCCCCh-HHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCccc--HHHHHHHHHHHHHCC-CEEEEeE
Confidence 9988732 33345678999999999999999999999888999999999999999 999999999999999 9999998
Q ss_pred ecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccccccccCChhhhccc
Q 002454 206 VLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSM 285 (920)
Q Consensus 206 ~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~ 285 (920)
.++.... +..+|+.......+.+++|+|++ .....+....+... .++ .... ...
T Consensus 164 ~~~~~~~--~~~~d~s~~~~~~~~s~pDvv~~-~~~~~~~~~~~~~~----------~~~-~~~~------------~g~ 217 (347)
T TIGR03863 164 PFTFSGD--PRRTDQSEVPLFTQGADYDVVVV-ADEAGEFARYLPYA----------TWL-PRPV------------AGS 217 (347)
T ss_pred EeccCCc--hhhhhcccCceeecCCCCCEEEE-ecchhhHhhhcccc----------ccc-cccc------------ccc
Confidence 8876531 11234442222233479999998 55443321111100 000 0000 011
Q ss_pred ceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhhccCCCChHHHHHHHHhCcc
Q 002454 286 EGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDF 365 (920)
Q Consensus 286 ~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~f 365 (920)
.|+.....+...+++..++|.++|+++| +..|+.+++.+||+++++++|++++++. ++++++++|++.++
T Consensus 218 ~G~~~~~~~~~~~~~~~~~f~~~f~~~~--------g~~p~~~~a~aY~av~~~a~Ai~~AGs~--d~~aV~~aL~~~~~ 287 (347)
T TIGR03863 218 AGLVPTAWHRAWERWGATQLQSRFEKLA--------GRPMTELDYAAWLAVRAVGEAVTRTRSA--DPATLRDYLLSDEF 287 (347)
T ss_pred cCccccccCCcccchhHHHHHHHHHHHh--------CCCCChHHHHHHHHHHHHHHHHHHhcCC--CHHHHHHHHcCCCc
Confidence 1222111122223466789999999988 5567788899999999999999999987 99999999999876
Q ss_pred --ccccc-cEEEeCCCccCCCcEEEEec
Q 002454 366 --SGLSG-KIRFKDGELLNADTLRIVNV 390 (920)
Q Consensus 366 --~g~sG-~i~F~~~g~~~~~~~~i~~~ 390 (920)
.+..| +++|.+.+++......+.+.
T Consensus 288 ~~~~~~g~~~~~R~~Dhq~~~~~~~~~~ 315 (347)
T TIGR03863 288 ELAGFKGRPLSFRPWDGQLRQPVLLVHP 315 (347)
T ss_pred eecccCCCcceeeCCCcccccceEeccc
Confidence 57777 79998644443444555444
No 79
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.95 E-value=1.6e-25 Score=241.17 Aligned_cols=281 Identities=26% Similarity=0.403 Sum_probs=237.6
Q ss_pred EEEEEEeCCC-----cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc----CCeEEEEcCCc
Q 002454 36 KIGAIVDANS-----QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK----EKVKVIAGMET 106 (920)
Q Consensus 36 ~IG~i~p~s~-----~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~----~~v~aiiGp~~ 106 (920)
+||+++|.+. ..+.....++..|++++|+..+++++++.+.|+++++..+...+.+++.+ +++.+||||.+
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~~~ 80 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINNDLPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGPSS 80 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhccCCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECCCC
Confidence 4899999874 35667888999999999987779999999999999999999999999976 69999999999
Q ss_pred hHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 002454 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 107 s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (920)
++.+.+++++++.+++|+|++++++. ...++..+|+++|+.|++..++.++++++++++|++++++|+++++| ....
T Consensus 81 s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~--~~~~ 157 (298)
T cd06269 81 SSSAEAVASLLGALHIPQISYSATSP-LLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYG--RRLL 157 (298)
T ss_pred chHHHHHHHHhccCCCcEEecccCch-hhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhh--HHHH
Confidence 99999999999999999999998843 44445678999999999999999999999999999999999999998 9999
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
+.+++.+++.| +++.....++... .++...++++++.++++||+ ++.++.+..++++|.+.|++ .+++||+
T Consensus 158 ~~~~~~~~~~~-~~v~~~~~~~~~~------~~~~~~l~~l~~~~~~viv~-~~~~~~~~~~l~~a~~~g~~-~~~~~i~ 228 (298)
T cd06269 158 ELLEEELEKNG-ICVAFVESIPDGS------EDIRRLLKELKSSTARVIVV-FSSEEDALRLLEEAVELGMM-TGYHWII 228 (298)
T ss_pred HHHHHHHHHCC-eeEEEEEEcCCCH------HHHHHHHHHHHhcCCcEEEE-EechHHHHHHHHHHHHcCCC-CCeEEEE
Confidence 99999999999 9998888777643 68999999999999999998 88889999999999999998 7899999
Q ss_pred ecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHhh
Q 002454 267 TNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (920)
Q Consensus 267 t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~ 346 (920)
++.|... ..+........+.++... .+..+|||+++
T Consensus 229 ~~~~~~~--~~~~~~~~~~~~~~~~~~----------------------------------~~~~~~dav~~-------- 264 (298)
T cd06269 229 TDLWLTS--CLDLELLEYFPGNLTGFG----------------------------------EAALVYDAVYA-------- 264 (298)
T ss_pred EChhhcc--ccccCCccccceEEEEEE----------------------------------eeEeEEEEEEe--------
Confidence 9987643 011122233444443332 34567888877
Q ss_pred ccCCCChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEecc-CCeeEEEEEecC
Q 002454 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (920)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~~-~~~~~~vg~w~~ 403 (920)
+.+.+..+.+++.. ...+++||.|++
T Consensus 265 -------------------------------~~~~~~~~~~~~~~~~~~~~~vg~w~~ 291 (298)
T cd06269 265 -------------------------------GRRANYDLDIIQLTPSGGFVKVGTWSP 291 (298)
T ss_pred -------------------------------cCcCCceEEEEEECCCCCEEEEEEEcC
Confidence 55557788888887 789999999997
No 80
>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=99.94 E-value=2.1e-26 Score=249.69 Aligned_cols=357 Identities=20% Similarity=0.258 Sum_probs=284.8
Q ss_pred CCCccEEEEEEEeCC-----CcccHHHHHHHHHHHHHHhcCC---CCceEEEEEecCCCCHHHHHHHHHHHhhcC-CeEE
Q 002454 30 NIEEVTKIGAIVDAN-----SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKE-KVKV 100 (920)
Q Consensus 30 ~~~~~i~IG~i~p~s-----~~~g~~~~~a~~~Av~~iN~~~---~g~~l~~~~~D~~~d~~~a~~~a~~li~~~-~v~a 100 (920)
.+..+..++.++|+. ...|+....|+++|++++|+.+ +|+.|+++..|++||+..+.++..+++... .-..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~m 116 (865)
T KOG1055|consen 37 PSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLM 116 (865)
T ss_pred CCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhe
Confidence 345678899999987 3457899999999999999999 899999999999999999999999999753 3447
Q ss_pred EEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCC
Q 002454 101 IAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG 180 (920)
Q Consensus 101 iiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g 180 (920)
++|+ |+.....++.-+..++.-+++++++++ .+.++.++|++||+.|+..........++++++|++++.++.+..--
T Consensus 117 ll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp-~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f 194 (865)
T KOG1055|consen 117 LLGG-CSSVTTLIAEAAKMWNLIVLSYGASSP-ALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVF 194 (865)
T ss_pred eccC-CCCcchHHHhhccccceeeecccCCCc-cccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhh
Confidence 7777 999999999999999999999999965 66678999999999999999999999999999999999999987633
Q ss_pred CCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCC
Q 002454 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (920)
Q Consensus 181 ~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (920)
..-.+.+...+.+.+ ++++.+..+- .|....+.+++..+.|+|+. ..+...++.+++++...+|.|.
T Consensus 195 --~~~~~dl~~~~~~~~-ieiv~~qsf~---------~dp~~~vk~l~~~D~RiI~g-~f~~~~Arkv~C~~Y~~~myg~ 261 (865)
T KOG1055|consen 195 --SSTLNDLEARLKEAG-IEIVFRQSFS---------SDPADSVKNLKRQDARIIVG-LFYETEARKVFCEAYKERLYGR 261 (865)
T ss_pred --cchHHHHHHhhhccc-cEEEEeeccc---------cCHHHHHhhccccchhheec-cchHhhhhHHHHhhchhhcccc
Confidence 566888999999999 9988776554 34566789999999999998 8999999999999999999999
Q ss_pred CeEEEEecccccccccCCh--------hhhcccceEEEEEeec--cC-----CCchhHHHHHHHHHhccccCCCCCCCCC
Q 002454 261 DSVWIVTNTVANALDSLNT--------TVISSMEGTLGIKSYY--SD-----DSSPYKEFSALFRRNFTSEYPEEDHFHP 325 (920)
Q Consensus 261 ~~~~i~t~~~~~~~~~~~~--------~~~~~~~g~~~~~~~~--~~-----~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 325 (920)
.|+|+.............. ....+++|.+.+.... .. ......+|...+.+...... .....
T Consensus 262 ky~w~~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~---~~~~~ 338 (865)
T KOG1055|consen 262 KYVWFLIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP---EETGG 338 (865)
T ss_pred eeEEEEEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc---ccccC
Confidence 9999988775443332111 2234566766654322 11 11223445554443332111 12345
Q ss_pred cchhhhHhhHHHHHHHHHHhhccCC---------------CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEec
Q 002454 326 SIHALRAHDSIKIITEAIGRLNYNI---------------SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (920)
Q Consensus 326 ~~~a~~~YDav~~~a~Al~~~~~~~---------------~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~ 390 (920)
...+.++||++|++|.|++++.... .-...|.++|.+++|+|++|.+.|.+ |.| .....|-|+
T Consensus 339 ~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR-~a~t~ieQ~ 416 (865)
T KOG1055|consen 339 FQEAPLAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GER-MALTLIEQF 416 (865)
T ss_pred cccCchHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhh-HHHHHHHHH
Confidence 5678899999999999999886431 22568899999999999999999998 776 567778899
Q ss_pred cCCeeEEEEEecCCCC
Q 002454 391 VGKKYKELDFWLPNFG 406 (920)
Q Consensus 391 ~~~~~~~vg~w~~~~g 406 (920)
++++++++|+|++..+
T Consensus 417 qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 417 QDGKYKKIGYYDSTKD 432 (865)
T ss_pred hCCceEeecccccccc
Confidence 9999999999998653
No 81
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.94 E-value=5.6e-25 Score=237.02 Aligned_cols=285 Identities=24% Similarity=0.380 Sum_probs=231.2
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|.+ +..|.+...|+++|++++|+.+ .|+++++++.|+++++..+.+.+++++.+++|.+||||.++..+
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~~ 80 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGVA 80 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 599999999 4578899999999999999987 68999999999999999999999999986699999999999888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.+++++++..+||+|++.+... ....+..+|++|++.|+...++..+++++.+++|+++++++.++.++ ......++
T Consensus 81 ~~~~~~~~~~~iP~i~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~--~~~~~~~~ 157 (299)
T cd04509 81 LAVAPVAEALKIPLISPGATAP-GLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYG--RGLLEAFK 157 (299)
T ss_pred HHHHHHHhhCCceEEeccCCCc-ccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHH--HHHHHHHH
Confidence 8899999999999999987742 33344568999999999999999999999999999999999998888 88899999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| +++.....++... +++.+.++++++.++|+|++ ++++..+..+++++++.|+. +++.|++.+.+
T Consensus 158 ~~~~~~g-~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~v~~-~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~ 228 (299)
T cd04509 158 AAFKKKG-GTVVGEEYYPLGT------TDFTSLLQKLKAAKPDVIVL-CGSGEDAATILKQAAEAGLT-GGYPILGITLG 228 (299)
T ss_pred HHHHHcC-CEEEEEecCCCCC------ccHHHHHHHHHhcCCCEEEE-cccchHHHHHHHHHHHcCCC-CCCcEEecccc
Confidence 9999999 9987766665433 57888899998888999998 88889999999999999998 77899998876
Q ss_pred ccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHH
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~ 338 (920)
...... .......+|++...++.+........+...+...+...+ +..++.+++.+||++++
T Consensus 229 ~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 229 LSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY----EDQPDYFAALAYDAVLL 290 (299)
T ss_pred cCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh----CCCCChhhhhhcceeee
Confidence 543211 123356778888877665433333333221112222111 55688899999999987
No 82
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.93 E-value=1.9e-24 Score=233.79 Aligned_cols=278 Identities=21% Similarity=0.259 Sum_probs=225.6
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|+| +..|.....|+++|++++|+ + +|+++++++.|+++|+..+.+.+++|+.+++|.+|||+.++..+
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~~ 79 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPAT 79 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHHH
Confidence 599999999 56788999999999999999 7 78999999999999999999999999987799999999888777
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.++.+.+.+.++|+|++.... +... ...+++|++.|++..++..+++++.+.||+++++++.++.+| +.....++
T Consensus 80 ~~~~~~~~~~~vP~v~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~--~~~~~~~~ 154 (312)
T cd06333 80 MAVAPVAEEAKTPMISLAPAA--AIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYG--ESGLKELK 154 (312)
T ss_pred HHHHHHHHhcCCCEEEccCCc--cccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHH--HHHHHHHH
Confidence 788899999999999987662 2222 456889999999999999999999999999999999988888 88889999
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEeccc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~ 270 (920)
+.+++.| +++.....++... .++...+.++++.++|+|++ .++...+..+++++++.|+..+ +++++..
T Consensus 155 ~~~~~~G-~~v~~~~~~~~~~------~d~~~~~~~l~~~~pdaIi~-~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~ 223 (312)
T cd06333 155 ALAPKYG-IEVVADERYGRTD------TSVTAQLLKIRAARPDAVLI-WGSGTPAALPAKNLRERGYKGP---IYQTHGV 223 (312)
T ss_pred HHHHHcC-CEEEEEEeeCCCC------cCHHHHHHHHHhCCCCEEEE-ecCCcHHHHHHHHHHHcCCCCC---EEeecCc
Confidence 9999999 9988776666533 46888899988788999998 7777778889999999998764 3444332
Q ss_pred ccccccCChhhhcccceEEEEEee------ccC---CCchhHHHHHHHHHhccccCCCCCCCC-CcchhhhHhhHHHHHH
Q 002454 271 ANALDSLNTTVISSMEGTLGIKSY------YSD---DSSPYKEFSALFRRNFTSEYPEEDHFH-PSIHALRAHDSIKIIT 340 (920)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~------~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~a~~~YDav~~~a 340 (920)
.. ..+........+|++.+..+ .+. .++..++|.++|+++| +.. |+.+++.+||++++++
T Consensus 224 ~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~--------g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 224 AS--PDFLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY--------GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred Cc--HHHHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh--------CCCCCCchhHHHHHHHHHHH
Confidence 21 11112223456777665432 221 2356888999998887 444 7889999999999998
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=217.55 Aligned_cols=279 Identities=25% Similarity=0.378 Sum_probs=229.4
Q ss_pred EEEEEEeCC---CcccHHHHHHHHHHHHHHhcCC--CCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 36 ~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~--~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
+||+++|.+ +..+.+...|+++|++++|+.+ +|++|++++.|+++++..+.+.+++++.+ +|.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~~~-~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELVDD-GVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHHhC-CceEEEcCCcchhH
Confidence 589999998 5678899999999999999987 68999999999999999999999999964 89999999998888
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC-CeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~-w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
..+.+.+.+.+||+|++.+.. +......+|++|++.|++..+++++++++...+ |+++++++.+++++ ....+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~--~~~~~~~ 155 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATS--PALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYG--RGLAAAF 155 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCC--cccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchh--HHHHHHH
Confidence 889999999999999988773 332224679999999999999999999998887 99999999998888 8889999
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++.+++.| +++.....++... .++.+.+.++++.++++|++ .+++..+..+++++++.|+. ..|+..+.
T Consensus 156 ~~~~~~~g-~~i~~~~~~~~~~------~~~~~~~~~l~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~---~~~~~~~~ 224 (298)
T cd06268 156 REALKKLG-GEVVAEETYPPGA------TDFSPLIAKLKAAGPDAVFL-AGYGGDAALFLKQAREAGLK---VPIVGGDG 224 (298)
T ss_pred HHHHHHcC-CEEEEEeccCCCC------ccHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCC---CcEEecCc
Confidence 99999999 9988776665433 56888999999888999988 88889999999999999983 36777776
Q ss_pred cccccccCChhhhcccceEEEEEeeccCC-CchhHHHH-HHHHHhccccCCCCCCCCCcchhhhHhhHHHHHH
Q 002454 270 VANALDSLNTTVISSMEGTLGIKSYYSDD-SSPYKEFS-ALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIIT 340 (920)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a 340 (920)
+..... . ....+..+|+++..++.+.. .+....|. +.|++.+ +..|+.++..+||++++++
T Consensus 225 ~~~~~~-~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 225 AAAPAL-L-ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--------GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred cCCHHH-H-HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--------CCCcccchHHHHHHHHHHc
Confidence 543211 1 12234567888887766432 33444454 6666665 5678889999999999987
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=9.6e-21 Score=195.13 Aligned_cols=325 Identities=14% Similarity=0.110 Sum_probs=235.2
Q ss_pred ccHHHHHHHHHHHHHHhcCC--CCceEEE----------EEecCCC--CHHHHHHHHHHHhhc-CCeEEEEcCCchHHHH
Q 002454 47 MGKQAITAMKIAVQNFNSDS--RNHKLSL----------QIRDHNR--DPFQAATAAQELINK-EKVKVIAGMETWEETA 111 (920)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~--~g~~l~~----------~~~D~~~--d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~~ 111 (920)
.-+..+.|++.|++.+++.. .|..+.+ +..+..| +.=+++++...|..+ +.-.+++||.|..++.
T Consensus 16 s~~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~ 95 (380)
T cd06369 16 SLKFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATF 95 (380)
T ss_pred hHHHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehh
Confidence 35678889999999998766 6877777 5554433 233456666666643 4578999999999999
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH------HHcCCeEEEEEEEeCCCC-CCcc
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA------RKYNWRRVAAIYEDNVYG-GDSG 184 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l------~~~~w~~v~ii~~~~~~g-~~~~ 184 (920)
++++....+++|+||.++-+ ...+. .+.+-|+.|+.+..+..+.++. ++++|+++. ||.+++-. ++-=
T Consensus 96 ~~~~~~~~~~~P~ISaGsfg--lscd~--k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~ 170 (380)
T cd06369 96 QMVDDEFNLSLPIISAGSFG--LSCDY--KENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFW 170 (380)
T ss_pred hhhhhhhcCCCceEeccccc--cCCCc--hhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceee
Confidence 99999999999999988873 22232 3489999999999999999999 488998555 99887522 0111
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEE
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (920)
.+.++....+..+ ..+.....++ ..+++.+.+++.+ ..+||||+ ++++++.+.++.+ ++..++|++
T Consensus 171 ~i~al~a~~~~f~-~~~~~~~~l~-------~~~~~~~il~~~~-~~sRIiIm-CG~p~~ir~lm~~----~~~~gDYVf 236 (380)
T cd06369 171 YINALEAGVAYFS-SALKFKELLR-------TEEELQKLLTDKN-RKSNVIIM-CGTPEDIVNLKGD----RAVAEDIVI 236 (380)
T ss_pred EhHhhhhhhhhhh-hcccceeeec-------CchhHHHHHHHhc-cCccEEEE-eCCHHHHHHHHhc----CccCCCEEE
Confidence 2445555455444 3443333322 2367888888775 68999999 9999999999886 555578999
Q ss_pred EEecccccccccCChhhhcccceEEEEEeeccCCCchhHHHHHHHHHhccccCCCCCCCCC-cchhhhHhhHHHHHHHHH
Q 002454 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHALRAHDSIKIITEAI 343 (920)
Q Consensus 265 i~t~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~a~~~YDav~~~a~Al 343 (920)
|..+.+..... .+.....+++.++.+++..|.. +.+++ . ..+ +... +.+++..||||+++++||
T Consensus 237 ~~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~~-~~~~~--------~-~~f----n~~l~~~~aa~fyDaVLLYa~AL 301 (380)
T cd06369 237 ILIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRNS-TNNSS--------F-TTD----NSLLKDDYVAAYHDGVLLFGHVL 301 (380)
T ss_pred EEEecccchhc-cCcchHHHHhceEEEecCCCCC-ccccc--------C-CCC----CcchHHHHHHHHHHHHHHHHHHH
Confidence 99998754321 2234456789999998655432 33222 0 000 1122 278999999999999999
Q ss_pred HhhccCC--CChHHHHHHHHhCccccccccEEEeCCCccCCCcEEEEec--cCCeeEEEEEecCCCC
Q 002454 344 GRLNYNI--SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV--VGKKYKELDFWLPNFG 406 (920)
Q Consensus 344 ~~~~~~~--~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~~~~~~~i~~~--~~~~~~~vg~w~~~~g 406 (920)
++....+ ..+..+.+.|++++|+|++|++++|++|+| ..+|.++.. ..++++.||.++...+
T Consensus 302 ~EtL~~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~n 367 (380)
T cd06369 302 KKFLESQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTSTN 367 (380)
T ss_pred HHHHHhCCCCCcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCCC
Confidence 9986542 234889999999999999999999999999 778888765 4589999999988543
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.87 E-value=8.6e-21 Score=197.26 Aligned_cols=222 Identities=21% Similarity=0.420 Sum_probs=186.2
Q ss_pred CCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcc
Q 002454 450 SNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTY 529 (920)
Q Consensus 450 ~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~ 529 (920)
.+.++|+||+. ++|+||.+.+ ++ ++.|+++|+++++++++|.+ +++++. .|.+++..+.+|++
T Consensus 22 ~~~~~l~v~~~--~~~~P~~~~~-~g----------~~~G~~vdl~~~ia~~lg~~--~~~~~~--~~~~~~~~l~~G~v 84 (247)
T PRK09495 22 AADKKLVVATD--TAFVPFEFKQ-GD----------KYVGFDIDLWAAIAKELKLD--YTLKPM--DFSGIIPALQTKNV 84 (247)
T ss_pred ccCCeEEEEeC--CCCCCeeecC-CC----------ceEEEeHHHHHHHHHHhCCc--eEEEeC--CHHHHHHHHhCCCc
Confidence 34568999976 5689998753 32 78999999999999999998 555554 59999999999999
Q ss_pred cEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCc
Q 002454 530 DAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT 609 (920)
Q Consensus 530 D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 609 (920)
|+++++++.+++|.+.++||.||+..++.+++++....
T Consensus 85 Di~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------------ 122 (247)
T PRK09495 85 DLALAGITITDERKKAIDFSDGYYKSGLLVMVKANNND------------------------------------------ 122 (247)
T ss_pred CEEEecCccCHHHHhhccccchheecceEEEEECCCCC------------------------------------------
Confidence 99887799999999999999999999999998765432
Q ss_pred cchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccc
Q 002454 610 LKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCV 689 (920)
Q Consensus 610 ~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~ 689 (920)
+++++||. +.+||+.
T Consensus 123 ---------------------------------------------------------------~~~~~dL~--g~~I~v~ 137 (247)
T PRK09495 123 ---------------------------------------------------------------IKSVKDLD--GKVVAVK 137 (247)
T ss_pred ---------------------------------------------------------------CCChHHhC--CCEEEEe
Confidence 78999997 6899999
Q ss_pred cchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcC-CceEEee-eeeecceeeEecCC
Q 002454 690 DDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC-KKYTAIN-TYRFGGLGFAFQRG 767 (920)
Q Consensus 690 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~k~ 767 (920)
.|+....++... .+..+++.+++ ..+.+++|.+|++|+++.+.....+++++.. ..+.... .....+++++++|+
T Consensus 138 ~g~~~~~~l~~~--~~~~~i~~~~~-~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~ 214 (247)
T PRK09495 138 SGTGSVDYAKAN--IKTKDLRQFPN-IDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKG 214 (247)
T ss_pred cCchHHHHHHhc--CCCCceEEcCC-HHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCc
Confidence 888878888765 44567888888 8999999999999999999888877776543 2233433 45566889999999
Q ss_pred CcchHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 768 SPIALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 768 sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+.+++.||++|.++.++|.++++.++|+...
T Consensus 215 ~~l~~~~n~al~~~~~~g~~~~i~~k~~~~~ 245 (247)
T PRK09495 215 SELREKVNGALKTLKENGTYAEIYKKWFGTE 245 (247)
T ss_pred HHHHHHHHHHHHHHHHCCcHHHHHHHHcCCC
Confidence 9999999999999999999999999999764
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.86 E-value=7.6e-21 Score=201.83 Aligned_cols=227 Identities=15% Similarity=0.216 Sum_probs=184.4
Q ss_pred CCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHH----HCCC-ccceEEEecCCChhHHHHH
Q 002454 449 PSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVD----HLNY-DLPYEFVPHDGVYDDLING 523 (920)
Q Consensus 449 ~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~----~ln~-~~~~~~~~~~gs~~~~~~~ 523 (920)
....+.|+||+. +.|+||.+.++++ ++.||++|++++|++ ++|. .+++++++. +|..++..
T Consensus 36 i~~~g~L~Vg~~--~~~pP~~f~~~~g----------~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~--~~~~~i~~ 101 (302)
T PRK10797 36 IAKNGVIVVGHR--ESSVPFSYYDNQQ----------KVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI--TSQNRIPL 101 (302)
T ss_pred HHhCCeEEEEEc--CCCCCcceECCCC----------CEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc--ChHhHHHH
Confidence 345678999998 6789999875433 799999998777765 5653 244888875 47889999
Q ss_pred HHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccC
Q 002454 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (920)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (920)
|.+|++|++++++++|++|.+.++||.||...+..+++++...
T Consensus 102 L~~G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~------------------------------------- 144 (302)
T PRK10797 102 LQNGTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGD------------------------------------- 144 (302)
T ss_pred HHCCCccEEecCCccCcchhhcceecccEeeccEEEEEECCCC-------------------------------------
Confidence 9999999999889999999999999999999999999987642
Q ss_pred ccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCC
Q 002454 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (920)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~ 683 (920)
|++++||. |
T Consensus 145 ---------------------------------------------------------------------i~sl~dL~--G 153 (302)
T PRK10797 145 ---------------------------------------------------------------------IKDFADLK--G 153 (302)
T ss_pred ---------------------------------------------------------------------CCChHHcC--C
Confidence 78999996 6
Q ss_pred cccccccchHHHHHHHHhcC--CCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhh--cCCceEEee-eeeec
Q 002454 684 LKVGCVDDSFVKKYLEEVLG--FRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK--YCKKYTAIN-TYRFG 758 (920)
Q Consensus 684 ~~vg~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~-~~~~~ 758 (920)
++||+..|+....++++... ....+++.+.+ ..+.+++|.+|++|+++.+.......+.+ ..+.+.+.+ .+...
T Consensus 154 k~V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~-~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~ 232 (302)
T PRK10797 154 KAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKD-HGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQE 232 (302)
T ss_pred CEEEEeCCCcHHHHHHHHhhhcCCceEEEEeCC-HHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcC
Confidence 89999999887777765322 22356778888 99999999999999999998776554332 223344444 55667
Q ss_pred ceeeEecCCCc-chHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 759 GLGFAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 759 ~~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+++++++|+++ ++..+|.+|.+++++|.+++|.++|+...
T Consensus 233 ~~~~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~~ 273 (302)
T PRK10797 233 AYGCMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKNP 273 (302)
T ss_pred ceeEEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCCC
Confidence 89999999988 99999999999999999999999999864
No 87
>PRK11260 cystine transporter subunit; Provisional
Probab=99.86 E-value=1.9e-20 Score=196.86 Aligned_cols=230 Identities=20% Similarity=0.407 Sum_probs=192.8
Q ss_pred CccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHH
Q 002454 444 KGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLING 523 (920)
Q Consensus 444 ~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~ 523 (920)
........++.|+||+. ..++||.+.++++ ++.|+.+|+++++++++|++ +++++. .|.+++.+
T Consensus 32 ~~l~~i~~~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~--~e~~~~--~~~~~~~~ 95 (266)
T PRK11260 32 GLLNKVKERGTLLVGLE--GTYPPFSFQGEDG----------KLTGFEVEFAEALAKHLGVK--ASLKPT--KWDGMLAS 95 (266)
T ss_pred ccHHHhhcCCeEEEEeC--CCcCCceEECCCC----------CEEEehHHHHHHHHHHHCCe--EEEEeC--CHHHHHHH
Confidence 33444566788999986 5688998765443 78999999999999999999 566654 59999999
Q ss_pred HHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccC
Q 002454 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (920)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (920)
|.+|++|+++++++.+++|.+.+.||.||...++.+++++.....
T Consensus 96 l~~G~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~~----------------------------------- 140 (266)
T PRK11260 96 LDSKRIDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGNEGT----------------------------------- 140 (266)
T ss_pred HhcCCCCEEEeccccCHHHHhccccCCceeecceEEEEEcCCcCC-----------------------------------
Confidence 999999999888899999999999999999999999988754321
Q ss_pred ccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCC
Q 002454 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (920)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~ 683 (920)
+++++||. +
T Consensus 141 ---------------------------------------------------------------------~~~~~dL~--g 149 (266)
T PRK11260 141 ---------------------------------------------------------------------IKTAADLK--G 149 (266)
T ss_pred ---------------------------------------------------------------------CCCHHHcC--C
Confidence 78999985 6
Q ss_pred cccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEee-eeeecceee
Q 002454 684 LKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGGLGF 762 (920)
Q Consensus 684 ~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 762 (920)
.++|+..|+....++.+. .+..++..+++ ..+.++++.+|++|+++.+.....+++++....+.+.. .+...++++
T Consensus 150 ~~Igv~~G~~~~~~l~~~--~~~~~i~~~~~-~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 (266)
T PRK11260 150 KKVGVGLGTNYEQWLRQN--VQGVDVRTYDD-DPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGV 226 (266)
T ss_pred CEEEEecCCcHHHHHHHh--CCCCceEecCC-HHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEE
Confidence 899999998888888765 55567888888 89999999999999999998887777776654333334 566778999
Q ss_pred EecCCCc-chHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 763 AFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 763 ~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+++|+++ +++.+|++|.++.++|.++++.++|+...
T Consensus 227 ~v~~~~~~l~~~ln~~l~~~~~~g~~~~i~~k~~~~~ 263 (266)
T PRK11260 227 ALRKGNPDLLKAVNQAIAEMQKDGTLKALSEKWFGAD 263 (266)
T ss_pred EEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCCc
Confidence 9999988 99999999999999999999999999864
No 88
>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=2.1e-20 Score=192.11 Aligned_cols=222 Identities=20% Similarity=0.382 Sum_probs=183.8
Q ss_pred eEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEe
Q 002454 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (920)
Q Consensus 455 l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~ 534 (920)
||||+. +.++||.+.++++ +..|+++|+++++++++|++ +++++. +|.+++.+|.+|++|++++
T Consensus 1 l~V~~~--~~~~P~~~~~~~~----------~~~G~~~dl~~~i~~~~g~~--~~~~~~--~~~~~~~~l~~g~~D~~~~ 64 (225)
T PF00497_consen 1 LRVGVD--EDYPPFSYIDEDG----------EPSGIDVDLLRAIAKRLGIK--IEFVPM--PWSRLLEMLENGKADIIIG 64 (225)
T ss_dssp EEEEEE--SEBTTTBEEETTS----------EEESHHHHHHHHHHHHHTCE--EEEEEE--EGGGHHHHHHTTSSSEEES
T ss_pred CEEEEc--CCCCCeEEECCCC----------CEEEEhHHHHHHHHhhcccc--cceeec--ccccccccccccccccccc
Confidence 689996 4688999988654 89999999999999999999 555553 5999999999999999998
Q ss_pred ceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhh
Q 002454 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQI 614 (920)
Q Consensus 535 ~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (920)
+++.+++|.+.++||.||+....+++++++...+
T Consensus 65 ~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~---------------------------------------------- 98 (225)
T PF00497_consen 65 GLSITPERAKKFDFSDPYYSSPYVLVVRKGDAPP---------------------------------------------- 98 (225)
T ss_dssp SEB-BHHHHTTEEEESESEEEEEEEEEETTSTCS----------------------------------------------
T ss_pred cccccccccccccccccccchhheeeeccccccc----------------------------------------------
Confidence 8999999999999999999999999999753211
Q ss_pred hhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccccchHH
Q 002454 615 SNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFV 694 (920)
Q Consensus 615 ~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~~~~~ 694 (920)
...+++++||. +.+||+..|+..
T Consensus 99 -------------------------------------------------------~~~~~~~~dl~--~~~i~~~~g~~~ 121 (225)
T PF00497_consen 99 -------------------------------------------------------IKTIKSLDDLK--GKRIGVVRGSSY 121 (225)
T ss_dssp -------------------------------------------------------TSSHSSGGGGT--TSEEEEETTSHH
T ss_pred -------------------------------------------------------cccccchhhhc--CcccccccchhH
Confidence 01267777884 689999999888
Q ss_pred HHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceE-E-eeeeeecceeeEecCCCc-ch
Q 002454 695 KKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYT-A-INTYRFGGLGFAFQRGSP-IA 771 (920)
Q Consensus 695 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~k~sp-~~ 771 (920)
.+++.+.... ..+++.+.+ .++++++|.+|++|+++.+...+.+++++...... . .......+++++++++.+ ++
T Consensus 122 ~~~l~~~~~~-~~~~~~~~~-~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 199 (225)
T PF00497_consen 122 ADYLKQQYPS-NINIVEVDS-PEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELL 199 (225)
T ss_dssp HHHHHHHTHH-TSEEEEESS-HHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHH
T ss_pred HHHhhhhccc-hhhhccccc-HHHHHHHHhcCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHH
Confidence 8888765211 567778888 99999999999999999999999998887754322 2 236667778888877666 99
Q ss_pred HHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 772 LDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 772 ~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
+.||++|.+|.++|.++++.+||+..
T Consensus 200 ~~~n~~i~~l~~~G~~~~i~~ky~g~ 225 (225)
T PF00497_consen 200 EIFNKAIRELKQSGEIQKILKKYLGD 225 (225)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHhCcHHHHHHHHHcCC
Confidence 99999999999999999999999863
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.84 E-value=1.3e-19 Score=189.86 Aligned_cols=224 Identities=20% Similarity=0.348 Sum_probs=179.4
Q ss_pred CCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcc
Q 002454 450 SNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTY 529 (920)
Q Consensus 450 ~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~ 529 (920)
+..++++||+. +.|+||.+.++++ ++.|+++||++++++++|.+ +++++. .|+.++..+..|++
T Consensus 23 ~~~~~l~v~~~--~~~pPf~~~~~~g----------~~~G~~vdl~~~ia~~lg~~--~~~~~~--~~~~~~~~l~~g~~ 86 (260)
T PRK15010 23 ALPETVRIGTD--TTYAPFSSKDAKG----------DFVGFDIDLGNEMCKRMQVK--CTWVAS--DFDALIPSLKAKKI 86 (260)
T ss_pred ccCCeEEEEec--CCcCCceeECCCC----------CEEeeeHHHHHHHHHHhCCc--eEEEeC--CHHHHHHHHHCCCC
Confidence 44577999987 5689999976543 79999999999999999999 555553 59999999999999
Q ss_pred cEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCc
Q 002454 530 DAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT 609 (920)
Q Consensus 530 D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 609 (920)
|++++++..|++|.+.++||.||+..+.++++++....
T Consensus 87 Di~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------------ 124 (260)
T PRK15010 87 DAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPI------------------------------------------ 124 (260)
T ss_pred CEEEecCcCCHHHHhhcccccceEeccEEEEEECCCCC------------------------------------------
Confidence 99988899999999999999999999999999877543
Q ss_pred cchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccc
Q 002454 610 LKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCV 689 (920)
Q Consensus 610 ~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~ 689 (920)
..+++||. |.+||+.
T Consensus 125 ---------------------------------------------------------------~~~~~dl~--g~~Igv~ 139 (260)
T PRK15010 125 ---------------------------------------------------------------QPTLDSLK--GKHVGVL 139 (260)
T ss_pred ---------------------------------------------------------------CCChhHcC--CCEEEEe
Confidence 24688885 7899999
Q ss_pred cchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHH-HHhhc-CCceEEee-e-----eeeccee
Q 002454 690 DDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKY-CKKYTAIN-T-----YRFGGLG 761 (920)
Q Consensus 690 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~-~~~~~-~~~~~~~~-~-----~~~~~~~ 761 (920)
.|+....++.........+++.+++ .++.+++|.+|++|+++.+.....+ +.++. .+.+.... . +...+++
T Consensus 140 ~gs~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (260)
T PRK15010 140 QGSTQEAYANETWRSKGVDVVAYAN-QDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTG 218 (260)
T ss_pred cCchHHHHHHHhcccCCceEEecCC-HHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceE
Confidence 9998777776653333345667777 8999999999999999998776653 33332 22223222 1 1123467
Q ss_pred eEecCCCc-chHHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 762 FAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 762 ~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
++++++.+ +...+|++|.++.++|.++++.+||+..
T Consensus 219 ~a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~~ 255 (260)
T PRK15010 219 VGLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFDF 255 (260)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 99999887 9999999999999999999999999974
No 90
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.83 E-value=3.1e-19 Score=185.45 Aligned_cols=218 Identities=22% Similarity=0.386 Sum_probs=179.0
Q ss_pred CCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCccc
Q 002454 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (920)
Q Consensus 451 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D 530 (920)
..++|+||+. +.++||.+.+.++ ++.|+++|+++++++++|++ ++++.. .|..++..+.+|++|
T Consensus 19 ~~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~--~~~~~~--~~~~~~~~l~~g~~D 82 (243)
T PRK15007 19 AAETIRFATE--ASYPPFESIDANN----------QIVGFDVDLAQALCKEIDAT--CTFSNQ--AFDSLIPSLKFRRVE 82 (243)
T ss_pred cCCcEEEEeC--CCCCCceeeCCCC----------CEEeeeHHHHHHHHHHhCCc--EEEEeC--CHHHHhHHHhCCCcC
Confidence 3567999997 5688999876543 89999999999999999999 555543 599999999999999
Q ss_pred EEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCcc
Q 002454 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (920)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (920)
+++++++.+++|.+.+.||.||+..+..++.+.. .
T Consensus 83 ~~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~-~-------------------------------------------- 117 (243)
T PRK15007 83 AVMAGMDITPEREKQVLFTTPYYDNSALFVGQQG-K-------------------------------------------- 117 (243)
T ss_pred EEEEcCccCHHHhcccceecCccccceEEEEeCC-C--------------------------------------------
Confidence 9887788999999999999999998887776543 1
Q ss_pred chhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccccc
Q 002454 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (920)
Q Consensus 611 ~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~ 690 (920)
+++++||. +.+||+..
T Consensus 118 --------------------------------------------------------------~~~~~dL~--g~~Igv~~ 133 (243)
T PRK15007 118 --------------------------------------------------------------YTSVDQLK--GKKVGVQN 133 (243)
T ss_pred --------------------------------------------------------------CCCHHHhC--CCeEEEec
Confidence 57889996 68999999
Q ss_pred chHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEee-----eeeecceeeEec
Q 002454 691 DSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-----TYRFGGLGFAFQ 765 (920)
Q Consensus 691 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~ 765 (920)
|+...+++.+. .+..+++.+++ .++.+++|.+|++|+++.+.....+++++...+..... .....+++++++
T Consensus 134 g~~~~~~l~~~--~~~~~~~~~~~-~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 (243)
T PRK15007 134 GTTHQKFIMDK--HPEITTVPYDS-YQNAKLDLQNGRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVR 210 (243)
T ss_pred CcHHHHHHHHh--CCCCeEEEcCC-HHHHHHHHHcCCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEe
Confidence 98888888765 44556777888 89999999999999999998887777766554422221 122345789999
Q ss_pred CCCc-chHHHHHHHHhhhccchHHHHHHHHcC
Q 002454 766 RGSP-IALDISRAILDLSEDGRLKTLEEEWFK 796 (920)
Q Consensus 766 k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~ 796 (920)
++.+ ++..||++|.++.++|.++++.++|+.
T Consensus 211 ~~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 211 QGNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred CCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9876 999999999999999999999999985
No 91
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.83 E-value=3e-19 Score=185.82 Aligned_cols=225 Identities=13% Similarity=0.260 Sum_probs=178.6
Q ss_pred ccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHH
Q 002454 445 GWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLING 523 (920)
Q Consensus 445 ~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~ 523 (920)
.+......+.|+||+. +++|||.+.+.+ .| ++.||++|+++++++++ |..+++++.+. +|...+..
T Consensus 30 ~l~~i~~~g~l~vg~~--~~~pP~~~~~~~-----~g----~~~G~~vdl~~~ia~~llg~~~~~~~~~~--~~~~~~~~ 96 (259)
T PRK11917 30 KLESIKSKGQLIVGVK--NDVPHYALLDQA-----TG----EIKGFEIDVAKLLAKSILGDDKKIKLVAV--NAKTRGPL 96 (259)
T ss_pred hHHHHHhCCEEEEEEC--CCCCCceeeeCC-----CC----ceeEeeHHHHHHHHHHhcCCCccEEEEEc--ChhhHHHH
Confidence 3445567789999998 578999987532 12 89999999999999994 86655666654 46777889
Q ss_pred HHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccC
Q 002454 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (920)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (920)
|.+|++|++++++++|++|.+.++||.||+..+..++++++..
T Consensus 97 l~~g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~------------------------------------- 139 (259)
T PRK11917 97 LDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKN------------------------------------- 139 (259)
T ss_pred HHCCCccEEEecccCChhhhheeeeccCceeeceEEEEECCCC-------------------------------------
Confidence 9999999999999999999999999999999999999987643
Q ss_pred ccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCC
Q 002454 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (920)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~ 683 (920)
+++++||. |
T Consensus 140 ---------------------------------------------------------------------~~s~~dL~--g 148 (259)
T PRK11917 140 ---------------------------------------------------------------------YKSLADMK--G 148 (259)
T ss_pred ---------------------------------------------------------------------CCCHHHhC--C
Confidence 68999997 7
Q ss_pred cccccccchHHHHHHHHhcC--CCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEeeeeeeccee
Q 002454 684 LKVGCVDDSFVKKYLEEVLG--FRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAINTYRFGGLG 761 (920)
Q Consensus 684 ~~vg~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 761 (920)
.+||+..|+.....+.+... ....+++.+++ ..+.++++.+|++|+++.+......+.++. ...+...+...+++
T Consensus 149 ~~V~v~~gs~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~l~~GrvDa~~~d~~~~~~~~~~~--~~~~~~~~~~~~~~ 225 (259)
T PRK11917 149 ANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPD-YPSIKAALDAKRVDAFSVDKSILLGYVDDK--SEILPDSFEPQSYG 225 (259)
T ss_pred CeEEEecCCcHHHHHHHhhHhcCCceeEEecCC-HHHHHHHHHcCCCcEEEecHHHHHHhhhcC--CeecCCcCCCCceE
Confidence 89999888876665544321 11235567788 899999999999999999887665554432 12222356677899
Q ss_pred eEecCCCc-chHHHHHHHHhhhccchHHHHHHHHc
Q 002454 762 FAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWF 795 (920)
Q Consensus 762 ~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~ 795 (920)
++++|+++ ++..+|++|.++.. .+++|.+||-
T Consensus 226 ~a~~k~~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 226 IVTKKDDPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 99999998 99999999999864 7999999984
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.82 E-value=4.7e-19 Score=185.07 Aligned_cols=226 Identities=19% Similarity=0.384 Sum_probs=184.8
Q ss_pred CccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHH
Q 002454 444 KGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLING 523 (920)
Q Consensus 444 ~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~ 523 (920)
.++..... +.|+|++. +.|+||.+.++++ ++.|+++|+++.+++.+|++ +++++. +|.+++..
T Consensus 16 ~~~~~~~~-~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~--~~~~~~--~~~~~~~~ 78 (250)
T TIGR01096 16 ATAAAAKE-GSVRIGTE--TGYPPFESKDANG----------KLVGFDVDLAKALCKRMKAK--CKFVEQ--NFDGLIPS 78 (250)
T ss_pred hhHHHhhC-CeEEEEEC--CCCCCceEECCCC----------CEEeehHHHHHHHHHHhCCe--EEEEeC--CHHHHHHH
Confidence 34444444 78999985 5788999875543 89999999999999999998 666663 59999999
Q ss_pred HHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccC
Q 002454 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (920)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (920)
+.+|++|++++++..+++|.+.+.||.|++..+..++++.+...
T Consensus 79 l~~G~~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~------------------------------------ 122 (250)
T TIGR01096 79 LKAKKVDAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSDL------------------------------------ 122 (250)
T ss_pred HhCCCcCEEEecCccCHHHhhccccccchhcCCeEEEEECCCCc------------------------------------
Confidence 99999999988888999999999999999999999999876543
Q ss_pred ccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCC
Q 002454 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (920)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~ 683 (920)
+.+++||. +
T Consensus 123 ---------------------------------------------------------------------~~~~~dl~--g 131 (250)
T TIGR01096 123 ---------------------------------------------------------------------AKTLEDLD--G 131 (250)
T ss_pred ---------------------------------------------------------------------CCChHHcC--C
Confidence 46888986 6
Q ss_pred cccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCC--ceEEee-eeee---
Q 002454 684 LKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCK--KYTAIN-TYRF--- 757 (920)
Q Consensus 684 ~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~~-~~~~--- 757 (920)
.++|+..|+....++.+.... ..++..+.+ .++++++|.+|++|+++.+.....+++++... .+.+.. .+..
T Consensus 132 ~~i~~~~g~~~~~~l~~~~~~-~~~~~~~~s-~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 209 (250)
T TIGR01096 132 KTVGVQSGTTHEQYLKDYFKP-GVDIVEYDS-YDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKY 209 (250)
T ss_pred CEEEEecCchHHHHHHHhccC-CcEEEEcCC-HHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccc
Confidence 899999998888888765321 456777888 99999999999999999999988887776542 133333 2221
Q ss_pred --cceeeEecCCCc-chHHHHHHHHhhhccchHHHHHHHHc
Q 002454 758 --GGLGFAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWF 795 (920)
Q Consensus 758 --~~~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~ 795 (920)
..++++++++++ ++..||++|.+|.++|.++.+.+||+
T Consensus 210 ~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 210 FGDGYGIGLRKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred cCCceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 247899999988 99999999999999999999999996
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.82 E-value=6.2e-19 Score=184.54 Aligned_cols=225 Identities=20% Similarity=0.337 Sum_probs=178.1
Q ss_pred CCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcc
Q 002454 450 SNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTY 529 (920)
Q Consensus 450 ~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~ 529 (920)
+....|+|++. +.|+||.+.++++ ++.|+++|+++++++++|.+ +++++. .|+.++.++.+|++
T Consensus 23 a~~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~vdi~~~ia~~lg~~--i~~~~~--pw~~~~~~l~~g~~ 86 (259)
T PRK15437 23 AIPQNIRIGTD--PTYAPFESKNSQG----------ELVGFDIDLAKELCKRINTQ--CTFVEN--PLDALIPSLKAKKI 86 (259)
T ss_pred ccCCeEEEEeC--CCCCCcceeCCCC----------CEEeeeHHHHHHHHHHcCCc--eEEEeC--CHHHHHHHHHCCCC
Confidence 45578999986 5688999876554 89999999999999999999 555543 49999999999999
Q ss_pred cEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCc
Q 002454 530 DAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT 609 (920)
Q Consensus 530 D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 609 (920)
|+++++++.|++|.+.++||.||...+.++++++....
T Consensus 87 D~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~------------------------------------------ 124 (259)
T PRK15437 87 DAIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDI------------------------------------------ 124 (259)
T ss_pred CEEEecCCCCHHHhhhccccchhhcCceEEEEECCCCC------------------------------------------
Confidence 99998899999999999999999999999999886542
Q ss_pred cchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccc
Q 002454 610 LKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCV 689 (920)
Q Consensus 610 ~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~ 689 (920)
..+++||. +.+||+.
T Consensus 125 ---------------------------------------------------------------~~~~~dl~--g~~Igv~ 139 (259)
T PRK15437 125 ---------------------------------------------------------------QPTVESLK--GKRVGVL 139 (259)
T ss_pred ---------------------------------------------------------------CCChHHhC--CCEEEEe
Confidence 24788885 7899999
Q ss_pred cchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHH-HHhhc-CCceEEee------eeeeccee
Q 002454 690 DDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKY-CKKYTAIN------TYRFGGLG 761 (920)
Q Consensus 690 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~-~~~~~-~~~~~~~~------~~~~~~~~ 761 (920)
.|+....++.........+++.+.+ ..+.+++|.+|++|+++.+.....+ +.++. ...+.... .+...+++
T Consensus 140 ~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ 218 (259)
T PRK15437 140 QGTTQETFGNEHWAPKGIEIVSYQG-QDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTG 218 (259)
T ss_pred cCcHHHHHHHhhccccCceEEecCC-HHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceE
Confidence 9998777776543222356677888 8899999999999999998766543 33322 11122211 22223467
Q ss_pred eEecCCCc-chHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 762 FAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 762 ~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
++++++.+ +++.+|++|.++..+|.++++.++|+...
T Consensus 219 ia~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~~~ 256 (259)
T PRK15437 219 MGLRKEDNELREALNKAFAEMRADGTYEKLAKKYFDFD 256 (259)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcCCc
Confidence 88888776 99999999999999999999999999763
No 94
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.82 E-value=4.2e-19 Score=187.38 Aligned_cols=230 Identities=16% Similarity=0.198 Sum_probs=183.3
Q ss_pred ccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCc-cceEEEecCCChhHHHHH
Q 002454 445 GWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYD-LPYEFVPHDGVYDDLING 523 (920)
Q Consensus 445 ~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~-~~~~~~~~~gs~~~~~~~ 523 (920)
.+.-....+.|+||+. +++||.+.+.++ ++.|+++||++++++++|++ +++... +|++++..
T Consensus 25 ~~~~i~~~~~l~v~~~---~~pP~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~~~~~~~----~w~~~~~~ 87 (275)
T TIGR02995 25 TLEELKEQGFARIAIA---NEPPFTYVGADG----------KVSGAAPDVARAIFKRLGIADVNASIT----EYGALIPG 87 (275)
T ss_pred hHHHHHhCCcEEEEcc---CCCCceeECCCC----------ceecchHHHHHHHHHHhCCCceeeccC----CHHHHHHH
Confidence 3444556788999986 478898876544 78999999999999999986 233332 59999999
Q ss_pred HHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccC
Q 002454 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (920)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (920)
+.+|++|+++.++++|++|.+.++||.||....+.++++++....
T Consensus 88 l~~G~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~----------------------------------- 132 (275)
T TIGR02995 88 LQAGRFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKG----------------------------------- 132 (275)
T ss_pred HHCCCcCEEeecccCCHHHHhccccccceeecceeEEEECCCCCC-----------------------------------
Confidence 999999998888999999999999999999999999998875432
Q ss_pred ccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhh-C
Q 002454 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKS-G 682 (920)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-s 682 (920)
+++++||.+ .
T Consensus 133 ---------------------------------------------------------------------i~~~~dl~~~~ 143 (275)
T TIGR02995 133 ---------------------------------------------------------------------LKSYKDIAKNP 143 (275)
T ss_pred ---------------------------------------------------------------------CCCHHHhccCC
Confidence 788999964 4
Q ss_pred CcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCC-ceEEeeeeee----
Q 002454 683 NLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCK-KYTAINTYRF---- 757 (920)
Q Consensus 683 ~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~~~---- 757 (920)
+.+||+..|+...+++++. ..+..+++.+++ .++.+++|.+|++|+++.+.....+++++... .......+..
T Consensus 144 g~~Igv~~g~~~~~~l~~~-~~~~~~i~~~~~-~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (275)
T TIGR02995 144 DAKIAAPGGGTEEKLAREA-GVKREQIIVVPD-GQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVR 221 (275)
T ss_pred CceEEEeCCcHHHHHHHHc-CCChhhEEEeCC-HHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccc
Confidence 7899999999888887763 234456778888 99999999999999999999888887765321 1122121111
Q ss_pred cceeeEecCCCc-chHHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 758 GGLGFAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 758 ~~~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
..++++++++++ +++.||++|.++.++|.++++.++|--.
T Consensus 222 ~~~~~~~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~~~ 262 (275)
T TIGR02995 222 YYGGAAFRPEDKELRDAFNVELAKLKESGEFAKIIAPYGFS 262 (275)
T ss_pred cceeEEECCCCHHHHHHHHHHHHHHHhChHHHHHHHHhCCC
Confidence 233788888877 9999999999999999999999999443
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.77 E-value=7.6e-18 Score=215.50 Aligned_cols=221 Identities=14% Similarity=0.259 Sum_probs=182.4
Q ss_pred CCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCc
Q 002454 449 PSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKT 528 (920)
Q Consensus 449 ~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~ 528 (920)
..+.++++||+. +.||||.+.++++ ++.||++|+++.+++++|++ +++++.. +|..+...|.+|+
T Consensus 298 l~~~~~l~v~~~--~~~pP~~~~d~~g----------~~~G~~~Dll~~i~~~~g~~--~~~v~~~-~~~~~~~~l~~g~ 362 (1197)
T PRK09959 298 IKQHPDLKVLEN--PYSPPYSMTDENG----------SVRGVMGDILNIITLQTGLN--FSPITVS-HNIHAGTQLNPGG 362 (1197)
T ss_pred HHHCCceEEEcC--CCCCCeeEECCCC----------cEeeehHHHHHHHHHHHCCe--EEEEecC-CHHHHHHHHHCCC
Confidence 344567999987 7899999987554 89999999999999999998 7777654 5888899999999
Q ss_pred ccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcC
Q 002454 529 YDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRG 608 (920)
Q Consensus 529 ~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~ 608 (920)
+|++.+ +..|++|.+.++||.||+..++++++++....
T Consensus 363 ~D~i~~-~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~~----------------------------------------- 400 (1197)
T PRK09959 363 WDIIPG-AIYSEDRENNVLFAEAFITTPYVFVMQKAPDS----------------------------------------- 400 (1197)
T ss_pred ceEeec-ccCCccccccceeccccccCCEEEEEecCCCC-----------------------------------------
Confidence 998765 66899999999999999999999998764321
Q ss_pred ccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccc
Q 002454 609 TLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGC 688 (920)
Q Consensus 609 ~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~ 688 (920)
+.++ . .|.+||+
T Consensus 401 ----------------------------------------------------------------~~~~---~-~g~~vav 412 (1197)
T PRK09959 401 ----------------------------------------------------------------EQTL---K-KGMKVAI 412 (1197)
T ss_pred ----------------------------------------------------------------cccc---c-cCCEEEE
Confidence 2222 2 4789999
Q ss_pred ccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcC--CceEEee-eeeecceeeEec
Q 002454 689 VDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC--KKYTAIN-TYRFGGLGFAFQ 765 (920)
Q Consensus 689 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~ 765 (920)
..|+...+++.+. ++..+++.+++ ..+++++|.+|++|+++.+...+.|+++++. ++..... .+....++|+++
T Consensus 413 ~~g~~~~~~~~~~--~p~~~~~~~~~-~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~ 489 (1197)
T PRK09959 413 PYYYELHSQLKEM--YPEVEWIKVDN-ASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFP 489 (1197)
T ss_pred eCCcchHHHHHHH--CCCcEEEEcCC-HHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeC
Confidence 9998888888766 55678899999 9999999999999999999999999887752 2333333 344567899999
Q ss_pred CCCc-chHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 766 RGSP-IALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 766 k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
|+.| +...+|++|..+.++ .++++.+||+...
T Consensus 490 k~~~~L~~~lnk~l~~i~~~-~~~~i~~kW~~~~ 522 (1197)
T PRK09959 490 RGEPELKDIINKALNAIPPS-EVLRLTEKWIKMP 522 (1197)
T ss_pred CCCHHHHHHHHHHHHhCCHH-HHHHHHhhcccCC
Confidence 9998 999999999999999 7888999998753
No 96
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.77 E-value=5.7e-18 Score=191.67 Aligned_cols=230 Identities=16% Similarity=0.161 Sum_probs=179.6
Q ss_pred CccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHH
Q 002454 444 KGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLING 523 (920)
Q Consensus 444 ~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~ 523 (920)
..+....+.++|+||+... |+.+..+++ ...||++||++++++++|++ ++++.. .+|++++..
T Consensus 34 ~~l~~I~~~g~LrVg~~~~----P~~~~~~~~----------~~~G~~~DLl~~ia~~LGv~--~e~v~~-~~~~~ll~a 96 (482)
T PRK10859 34 NQLEQIQERGELRVGTINS----PLTYYIGND----------GPTGFEYELAKRFADYLGVK--LEIKVR-DNISQLFDA 96 (482)
T ss_pred ccHHHHHhCCEEEEEEecC----CCeeEecCC----------CcccHHHHHHHHHHHHhCCc--EEEEec-CCHHHHHHH
Confidence 4455566788999999842 344443332 34899999999999999999 555432 369999999
Q ss_pred HHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccC
Q 002454 524 VYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSN 603 (920)
Q Consensus 524 l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~ 603 (920)
|.+|++|++++++++|++|.+.++||.||+....++++++....
T Consensus 97 L~~G~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~~------------------------------------ 140 (482)
T PRK10859 97 LDKGKADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQPR------------------------------------ 140 (482)
T ss_pred HhCCCCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCCCC------------------------------------
Confidence 99999999888899999999999999999999999998876532
Q ss_pred ccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCC
Q 002454 604 PEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (920)
Q Consensus 604 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~ 683 (920)
+++++||. |
T Consensus 141 ---------------------------------------------------------------------i~~l~dL~--G 149 (482)
T PRK10859 141 ---------------------------------------------------------------------PRSLGDLK--G 149 (482)
T ss_pred ---------------------------------------------------------------------CCCHHHhC--C
Confidence 78999997 7
Q ss_pred cccccccchHHHHHHHHhcC-CCCCcee--ecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEeeeeeecce
Q 002454 684 LKVGCVDDSFVKKYLEEVLG-FRSGNIV--PFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAINTYRFGGL 760 (920)
Q Consensus 684 ~~vg~~~~~~~~~~l~~~~~-~~~~~~~--~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 760 (920)
.+|++..|+.....+.+... .+...+. .+.+ .++.+++|.+|++|+++.+.....+....+.++..........++
T Consensus 150 k~I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s-~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~ 228 (482)
T PRK10859 150 GTLTVAAGSSHVETLQELKKKYPELSWEESDDKD-SEELLEQVAEGKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPV 228 (482)
T ss_pred CeEEEECCCcHHHHHHHHHHhCCCceEEecCCCC-HHHHHHHHHCCCCCEEEECcHHHHHHHHhCCCceeeeecCCCcee
Confidence 89999999887777754321 2333333 3456 899999999999999999987776554444444222223345678
Q ss_pred eeEecCC-Cc-chHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 761 GFAFQRG-SP-IALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 761 ~~~~~k~-sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+++++|+ ++ ++..+|++|.++.++|.++++.++|+...
T Consensus 229 ~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg~~ 268 (482)
T PRK10859 229 AWALPPSGDDSLYAALLDFFNQIKEDGTLARLEEKYFGHV 268 (482)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHhhhh
Confidence 9999994 56 99999999999999999999999999764
No 97
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.73 E-value=6.3e-19 Score=167.32 Aligned_cols=107 Identities=29% Similarity=0.644 Sum_probs=82.4
Q ss_pred cHhHHHHHHHHHHHHHHHHhhhhcccCccCcC-------ccchhhhhHHHHHHHHHhccC-cccccccchhhHHHHHHHH
Q 002454 577 TWEMWMVTAASFIYTMFIVWLLEHQSNPEFRG-------TLKDQISNILWFAFSTIFFSH-RANIQSNLTRVVVVLWLFV 648 (920)
Q Consensus 577 ~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~s~Ri~~~~w~~~ 648 (920)
++.+|++++++++++++++|+++|..+.+++. +....+.+++|++++.+++|+ ...|++.+.|++.++|+++
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 57899999999999999999999987665544 334568999999999999887 5678999999999999999
Q ss_pred HHHHHHHhhccccceeeeeccCCCCCChHHhhhCC
Q 002454 649 VFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGN 683 (920)
Q Consensus 649 ~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~ 683 (920)
+++++++|+|+|+|+||.++.+++|+|+|||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999998655
No 98
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.73 E-value=8.8e-17 Score=166.36 Aligned_cols=210 Identities=15% Similarity=0.201 Sum_probs=156.2
Q ss_pred CeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHH---HHHHcCccc
Q 002454 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLI---NGVYDKTYD 530 (920)
Q Consensus 454 ~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~---~~l~~~~~D 530 (920)
+|+||+. +.||||.+. + . .||++||++++++++|++ +++++. +|++++ ..|.+|++|
T Consensus 1 ~l~vg~~--~~~pPf~~~--~-----------~-~Gfdvdl~~~ia~~lg~~--~~~~~~--~~~~~~~~~~~L~~g~~D 60 (246)
T TIGR03870 1 TLRVCAA--TKEAPYSTK--D-----------G-SGFENKIAAALAAAMGRK--VVFVWL--AKPAIYLVRDGLDKKLCD 60 (246)
T ss_pred CeEEEeC--CCCCCCccC--C-----------C-CcchHHHHHHHHHHhCCC--eEEEEe--ccchhhHHHHHHhcCCcc
Confidence 4789998 789999985 2 1 499999999999999999 555554 477765 699999999
Q ss_pred EEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCcc
Q 002454 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (920)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (920)
++++ ++++++| +.||.||+.++.+++++++....
T Consensus 61 ii~~-~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~------------------------------------------ 94 (246)
T TIGR03870 61 VVLG-LDTGDPR---VLTTKPYYRSSYVFLTRKDRNLD------------------------------------------ 94 (246)
T ss_pred EEEe-CCCChHH---HhcccCcEEeeeEEEEeCCCCCC------------------------------------------
Confidence 9884 8888887 67999999999999999875421
Q ss_pred chhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCc-ccccc
Q 002454 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNL-KVGCV 689 (920)
Q Consensus 611 ~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~-~vg~~ 689 (920)
+++++|+.-.|+ ++|+.
T Consensus 95 --------------------------------------------------------------~~~~~d~~L~g~~~vgv~ 112 (246)
T TIGR03870 95 --------------------------------------------------------------IKSWNDPRLKKVSKIGVI 112 (246)
T ss_pred --------------------------------------------------------------CCCccchhhccCceEEEe
Confidence 677765322267 99999
Q ss_pred cchHHHHHHHHhcCCC-----CCceeecC---------CCHHHHHHHHhcCCeeEEEeechhHHHHHhhcC-Cce-EEee
Q 002454 690 DDSFVKKYLEEVLGFR-----SGNIVPFG---------NTEANYIQKFENNTIDSLFLERPYEKVFLDKYC-KKY-TAIN 753 (920)
Q Consensus 690 ~~~~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~-~~~-~~~~ 753 (920)
.|+..+.++++..... ..++..+. + ..+.+++|.+|++|+++.+.....+++.+.. .+. ....
T Consensus 113 ~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~ 191 (246)
T TIGR03870 113 FGSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQID-PRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIP 191 (246)
T ss_pred cCChHHHHHHhcCccccccccccccccccCcccccccCC-HHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEecc
Confidence 9998888887632110 01112221 3 5788999999999999998777766665432 221 1111
Q ss_pred -ee---------eecceeeEecCCCc-chHHHHHHHHhhhccchHHHHHHHH
Q 002454 754 -TY---------RFGGLGFAFQRGSP-IALDISRAILDLSEDGRLKTLEEEW 794 (920)
Q Consensus 754 -~~---------~~~~~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~ 794 (920)
.. ...+++++++|+++ +++.||++|.+|. |.+++|..+|
T Consensus 192 ~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 192 DDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 11 11136899999998 9999999999999 4899999988
No 99
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.69 E-value=3.8e-16 Score=164.30 Aligned_cols=231 Identities=13% Similarity=0.192 Sum_probs=162.1
Q ss_pred CCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCccc
Q 002454 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (920)
Q Consensus 452 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D 530 (920)
..+|++++. .||||.+.+.++ ...|+..++++++++++ ++++++... .|++++..+ .++.|
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~~~----------~~~G~~~~i~~~i~~~~~~~~~~~~~~----pw~r~l~~l-~~~~d 78 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSGPS----------KGRGVFDVILQEIRRALPQYEHRFVRV----SFARSLKEL-QGKGG 78 (268)
T ss_pred cceeEEEec---ccCCeeEeCCCC----------CCCChHHHHHHHHHHHcCCCceeEEEC----CHHHHHHHH-hcCCC
Confidence 457888875 578898874332 67899999999999998 888444443 499999999 77777
Q ss_pred EEEeceeeecCceeeeeecccccc-ccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCc
Q 002454 531 AAVGDLTILGNRTEYVEFTQPYAE-SGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGT 609 (920)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~-~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~ 609 (920)
.++.++++|++|++.++||.||.. ...+++++++.....
T Consensus 79 ~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~---------------------------------------- 118 (268)
T TIGR02285 79 VCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGV---------------------------------------- 118 (268)
T ss_pred eEEeeccCCcchhhceeecCCccccCCceEEEccchhhhc----------------------------------------
Confidence 777679999999999999999975 578888887643210
Q ss_pred cchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhh-hCCccccc
Q 002454 610 LKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLK-SGNLKVGC 688 (920)
Q Consensus 610 ~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~-~s~~~vg~ 688 (920)
...+..-.++.+|. -.++++|+
T Consensus 119 ---------------------------------------------------------~~~~d~~~~~~~l~~l~g~~vgv 141 (268)
T TIGR02285 119 ---------------------------------------------------------RDEQDGDVDLKKLLASKKKRLGV 141 (268)
T ss_pred ---------------------------------------------------------cccCCCCccHHHHhcCCCeEEEE
Confidence 00000001243342 23688998
Q ss_pred ccchHH----HHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhc-C--CceEEee-ee--eec
Q 002454 689 VDDSFV----KKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY-C--KKYTAIN-TY--RFG 758 (920)
Q Consensus 689 ~~~~~~----~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~-~--~~~~~~~-~~--~~~ 758 (920)
..|+.. +.++++.......++..+++ ..+.+++|..|++|+++.+.....+++++. . ..+.... .. ...
T Consensus 142 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (268)
T TIGR02285 142 IASRSYGQQIDDILSDSGYQHNTRIIGNAA-MGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHI 220 (268)
T ss_pred ecceeccHHHHHHHHhCCcccceeeeccch-HHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccce
Confidence 776533 34443321111123445566 788999999999999999998888877642 1 1222222 11 223
Q ss_pred ceeeEecCCC---cchHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 759 GLGFAFQRGS---PIALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 759 ~~~~~~~k~s---p~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+++++++|+. .++..||++|.+|.++|.++++.+||+...
T Consensus 221 ~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~~~ 263 (268)
T TIGR02285 221 SVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLSPE 263 (268)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCCHh
Confidence 5789999974 399999999999999999999999999764
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.67 E-value=2.1e-15 Score=160.23 Aligned_cols=227 Identities=22% Similarity=0.405 Sum_probs=182.1
Q ss_pred CCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCccc
Q 002454 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYD 530 (920)
Q Consensus 451 ~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D 530 (920)
..+.++|++... ..+||.+.+... | ++.||++|+++.+++.++......+++ ..|++++..|..|++|
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~-----~----~~~G~dvdl~~~ia~~l~~~~~~~~~~--~~~~~~~~~l~~g~~D 99 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKG-----G----KLVGFDVDLAKAIAKRLGGDKKVEFVP--VAWDGLIPALKAGKVD 99 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCC-----C----eEEeeeHHHHHHHHHHhCCcceeEEec--cchhhhhHHHhcCCcC
Confidence 455688888733 345888876551 2 899999999999999998863234444 3699999999999999
Q ss_pred EEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCcc
Q 002454 531 AAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTL 610 (920)
Q Consensus 531 ~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 610 (920)
+.+.++++|++|.+.++||.||+..+..+++++.....
T Consensus 100 ~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~------------------------------------------ 137 (275)
T COG0834 100 IIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIG------------------------------------------ 137 (275)
T ss_pred EEEeccccCHHHhccccccccccccCeEEEEECCCCcC------------------------------------------
Confidence 99999999999999999999999999999998876642
Q ss_pred chhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccccc
Q 002454 611 KDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD 690 (920)
Q Consensus 611 ~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~ 690 (920)
+.+++||. ++++|+..
T Consensus 138 --------------------------------------------------------------~~~~~DL~--gk~v~v~~ 153 (275)
T COG0834 138 --------------------------------------------------------------IKSLEDLK--GKKVGVQL 153 (275)
T ss_pred --------------------------------------------------------------cCCHHHhC--CCEEEEEc
Confidence 68999998 59999999
Q ss_pred chH--HHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHH--HhhcCCceEEee-eeee-cceeeEe
Q 002454 691 DSF--VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVF--LDKYCKKYTAIN-TYRF-GGLGFAF 764 (920)
Q Consensus 691 ~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~-~~~~-~~~~~~~ 764 (920)
|+. ........ .....++.+++ ..+.++++.+|++|+++.+.....++ ..+......... .... .++++++
T Consensus 154 gt~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (275)
T COG0834 154 GTTDEAEEKAKKP--GPNAKIVAYDS-NAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIAL 230 (275)
T ss_pred CcchhHHHHHhhc--cCCceEEeeCC-HHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEe
Confidence 887 44443332 33467888999 88999999999999999999988873 333333333333 3333 6899999
Q ss_pred cCC--CcchHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 765 QRG--SPIALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 765 ~k~--sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+|+ ..+++.+|.+|.++.++|.++++.++|+...
T Consensus 231 ~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~~~ 266 (275)
T COG0834 231 RKGDDPELLEAVNKALKELKADGTLQKISDKWFGPD 266 (275)
T ss_pred ccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcCcc
Confidence 999 4699999999999999999999999999854
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.65 E-value=7.8e-16 Score=197.08 Aligned_cols=227 Identities=12% Similarity=0.163 Sum_probs=186.4
Q ss_pred CccccCCCCCCeEEEeecCCcccceEEe-ecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHH
Q 002454 444 KGWAMPSNQEPMRIGVPTRTFFEKFVVI-KDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLIN 522 (920)
Q Consensus 444 ~~~~~~~~~~~l~v~~~~~~~~~p~~~~-~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~ 522 (920)
..+.+..+.++|+||+. ++++|+.+. ++++ ++.||.+|+++.+++++|++ +++++.. +|+++++
T Consensus 47 ~e~~~l~~~~~l~vgv~--~~~~p~~~~~~~~g----------~~~G~~~D~l~~ia~~lG~~--~e~v~~~-~~~~~l~ 111 (1197)
T PRK09959 47 KELRWLASKKNLVIAVH--KSQTATLLHTDSQQ----------RVRGINADYLNLLKRALNIK--LTLREYA-DHQKAMD 111 (1197)
T ss_pred HHHHHHhhCCeEEEEec--CCCCCCceeecCCC----------ccceecHHHHHHHHHhcCCc--eEEEeCC-CHHHHHH
Confidence 44556677889999998 556555444 3343 89999999999999999999 7777642 7999999
Q ss_pred HHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhccc
Q 002454 523 GVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQS 602 (920)
Q Consensus 523 ~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~ 602 (920)
+|.+|++|++.+.++.+++|.+.++||.||+....++++++...
T Consensus 112 ~l~~g~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~------------------------------------ 155 (1197)
T PRK09959 112 ALEEGEVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDS------------------------------------ 155 (1197)
T ss_pred HHHcCCCcEecCccccccccccchhcCCCccCCCceEEEeCCCC------------------------------------
Confidence 99999999998888999999999999999999999999887543
Q ss_pred CccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhC
Q 002454 603 NPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSG 682 (920)
Q Consensus 603 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s 682 (920)
+++++|+.
T Consensus 156 ----------------------------------------------------------------------~~~~~~l~-- 163 (1197)
T PRK09959 156 ----------------------------------------------------------------------MRPLTSSK-- 163 (1197)
T ss_pred ----------------------------------------------------------------------CCCccccc--
Confidence 56777775
Q ss_pred CcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCC-ceEEee--eeeecc
Q 002454 683 NLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCK-KYTAIN--TYRFGG 759 (920)
Q Consensus 683 ~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~--~~~~~~ 759 (920)
++++++..|+....++++. ++..+++.+++ ..+++++|.+|++|+++.+...+.++++++.. ...+.. ......
T Consensus 164 ~~~i~~~~g~~~~~~~~~~--~p~~~i~~~~s-~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~ 240 (1197)
T PRK09959 164 PVNIARVANYPPDEVIHQS--FPKATIISFTN-LYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQY 240 (1197)
T ss_pred CeEEEEeCCCCCHHHHHHh--CCCCEEEeCCC-HHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCc
Confidence 6889999998888888776 66778999999 99999999999999999999999888876531 222222 222334
Q ss_pred eeeEecCCCc-chHHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 760 LGFAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 760 ~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
.+++++|+.+ +...+|++|..+.++|.. .+.++|+..
T Consensus 241 ~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 241 NFFLTRKESVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred eeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 6688999999 999999999999999987 799999975
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=99.65 E-value=1.1e-14 Score=148.31 Aligned_cols=214 Identities=23% Similarity=0.434 Sum_probs=174.8
Q ss_pred eEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEe
Q 002454 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (920)
Q Consensus 455 l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~ 534 (920)
|+||+. +.++||.+.+.++ .+.|+..++++.+++++|++ +++++.. |.+++..|.+|++|+++.
T Consensus 1 l~i~~~--~~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~--~~~~~~~--~~~~~~~l~~g~~D~~~~ 64 (218)
T cd00134 1 LTVGTA--GTYPPFSFRDANG----------ELTGFDVDLAKAIAKELGVK--VKFVEVD--WDGLITALKSGKVDLIAA 64 (218)
T ss_pred CEEecC--CCCCCeeEECCCC----------CEEeeeHHHHHHHHHHhCCe--EEEEeCC--HHHHHHHHhcCCcCEEee
Confidence 578887 6788999875443 89999999999999999988 6666643 899999999999999988
Q ss_pred ceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhh
Q 002454 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQI 614 (920)
Q Consensus 535 ~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (920)
....+++|.+.+.|+.|+.....+++++++..
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------------ 96 (218)
T cd00134 65 GMTITPERAKQVDFSDPYYKSGQVILVKKGSP------------------------------------------------ 96 (218)
T ss_pred cCcCCHHHHhhccCcccceeccEEEEEECCCC------------------------------------------------
Confidence 77778899888999999999999999988754
Q ss_pred hhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccccchHH
Q 002454 615 SNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFV 694 (920)
Q Consensus 615 ~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~~~~~ 694 (920)
+.+++||. +.++++..++..
T Consensus 97 ----------------------------------------------------------~~~~~dl~--g~~i~~~~~~~~ 116 (218)
T cd00134 97 ----------------------------------------------------------IKSVKDLK--GKKVAVQKGSTA 116 (218)
T ss_pred ----------------------------------------------------------CCChHHhC--CCEEEEEcCchH
Confidence 46899996 688988877777
Q ss_pred HHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhc-CCceEEee--eeeecceeeEecCCCc-c
Q 002454 695 KKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY-CKKYTAIN--TYRFGGLGFAFQRGSP-I 770 (920)
Q Consensus 695 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~k~sp-~ 770 (920)
..++.+... ...+..+.+ .++.++++.+|++|+++.+.....+..++. +++..+.. ......++++..++++ +
T Consensus 117 ~~~~~~~~~--~~~~~~~~~-~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l 193 (218)
T cd00134 117 EKYLKKALP--EAKVVSYDD-NAEALAALENGRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKEL 193 (218)
T ss_pred HHHHHHhCC--cccEEEeCC-HHHHHHHHHcCCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHH
Confidence 777776532 456777888 999999999999999999988888777665 54433332 3334456777777775 9
Q ss_pred hHHHHHHHHhhhccchHHHHHHHHc
Q 002454 771 ALDISRAILDLSEDGRLKTLEEEWF 795 (920)
Q Consensus 771 ~~~~n~~i~~l~e~G~~~~~~~~~~ 795 (920)
...++++|..+.++|.++.+.++|+
T Consensus 194 ~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 194 LDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHHHHHhCccHHHHHHhhC
Confidence 9999999999999999999999996
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.64 E-value=9.7e-15 Score=148.65 Aligned_cols=215 Identities=23% Similarity=0.466 Sum_probs=177.1
Q ss_pred CeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEE
Q 002454 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAV 533 (920)
Q Consensus 454 ~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~ 533 (920)
+|+||+. +.++||...+.++ .+.|+.+|+++.+.+++|++ +++.+. .|..++..+.+|++|+++
T Consensus 1 ~l~v~~~--~~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~--~~~~~~--~~~~~~~~l~~g~~D~~~ 64 (219)
T smart00062 1 TLRVGTN--GDYPPFSFADEDG----------ELTGFDVDLAKAIAKELGLK--VEFVEV--SFDNLLTALKSGKIDVVA 64 (219)
T ss_pred CEEEEec--CCCCCcEEECCCC----------CcccchHHHHHHHHHHhCCe--EEEEec--cHHHHHHHHHCCcccEEe
Confidence 4789997 6788998876544 78999999999999999988 666664 689999999999999999
Q ss_pred eceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchh
Q 002454 534 GDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQ 613 (920)
Q Consensus 534 ~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 613 (920)
++...+.+|...+.|+.|+...+.+++++++..
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------- 97 (219)
T smart00062 65 AGMTITPERAKQVDFSDPYYKSGQVILVRKDSP----------------------------------------------- 97 (219)
T ss_pred ccccCCHHHHhheeeccceeeceeEEEEecCCC-----------------------------------------------
Confidence 877778888888999999999999998887643
Q ss_pred hhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccccchH
Q 002454 614 ISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSF 693 (920)
Q Consensus 614 ~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~~~~ 693 (920)
+.+++||. |.++++..|+.
T Consensus 98 -----------------------------------------------------------~~~~~dL~--g~~i~~~~g~~ 116 (219)
T smart00062 98 -----------------------------------------------------------IKSLEDLK--GKKVAVVAGTT 116 (219)
T ss_pred -----------------------------------------------------------CCChHHhC--CCEEEEecCcc
Confidence 68999995 68999988877
Q ss_pred HHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhc--CCceEEeeeeee-cceeeEecCCCc-
Q 002454 694 VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY--CKKYTAINTYRF-GGLGFAFQRGSP- 769 (920)
Q Consensus 694 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~k~sp- 769 (920)
...++... ....++..+.+ ..+.+.++.+|++|+++.......+...+. +.+......... ..++++++++++
T Consensus 117 ~~~~~~~~--~~~~~~~~~~~-~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (219)
T smart00062 117 GEELLKKL--YPEAKIVSYDS-QAEALAALKAGRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPE 193 (219)
T ss_pred HHHHHHHh--CCCceEEEcCC-HHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHH
Confidence 77777654 33456777887 889999999999999999988877776654 343333333333 788999999997
Q ss_pred chHHHHHHHHhhhccchHHHHHHHHc
Q 002454 770 IALDISRAILDLSEDGRLKTLEEEWF 795 (920)
Q Consensus 770 ~~~~~n~~i~~l~e~G~~~~~~~~~~ 795 (920)
+.+.++++|.++.++|.++++.++|+
T Consensus 194 ~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 194 LLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHHHHHhCchHHHHHhccC
Confidence 99999999999999999999999985
No 104
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.63 E-value=1.4e-14 Score=149.38 Aligned_cols=211 Identities=15% Similarity=0.196 Sum_probs=157.7
Q ss_pred eEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEe
Q 002454 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (920)
Q Consensus 455 l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~ 534 (920)
|+||+. +.|+||.+. ...||++||++++++++|.++++...+. .+..++..+.+|++|++++
T Consensus 2 l~v~~~--~~~~P~~~~--------------~~~G~~~el~~~i~~~~g~~i~~~~~~~--~~~~~~~~l~~g~~Di~~~ 63 (232)
T TIGR03871 2 LRVCAD--PNNLPFSNE--------------KGEGFENKIAQLLADDLGLPLEYTWFPQ--RRGFVRNTLNAGRCDVVIG 63 (232)
T ss_pred eEEEeC--CCCCCccCC--------------CCCchHHHHHHHHHHHcCCceEEEecCc--chhhHHHHHhcCCccEEEe
Confidence 788887 678898752 2359999999999999999965555442 2445677899999999865
Q ss_pred ceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhh
Q 002454 535 DLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQI 614 (920)
Q Consensus 535 ~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (920)
+++|.+.++||.||...++++++++.....
T Consensus 64 ----~~~r~~~~~fs~py~~~~~~lv~~~~~~~~---------------------------------------------- 93 (232)
T TIGR03871 64 ----VPAGYEMVLTTRPYYRSTYVFVTRKDSLLD---------------------------------------------- 93 (232)
T ss_pred ----ccCccccccccCCcEeeeEEEEEeCCCccc----------------------------------------------
Confidence 577889999999999999999998874321
Q ss_pred hhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccccchHH
Q 002454 615 SNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFV 694 (920)
Q Consensus 615 ~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~~~~~ 694 (920)
+++++|+.-.+.+||+..|+..
T Consensus 94 ----------------------------------------------------------~~~~~d~~l~g~~V~v~~g~~~ 115 (232)
T TIGR03871 94 ----------------------------------------------------------VKSLDDPRLKKLRIGVFAGTPP 115 (232)
T ss_pred ----------------------------------------------------------ccchhhhhhcCCeEEEEcCChH
Confidence 6888883223789999999888
Q ss_pred HHHHHHhcCCCCCceee---------cCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEee-ee------eec
Q 002454 695 KKYLEEVLGFRSGNIVP---------FGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TY------RFG 758 (920)
Q Consensus 695 ~~~l~~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~------~~~ 758 (920)
.+++.+.... .+++. ..+ ..+.+++|.+|++|+++.+.....+.+++......+.. .. ...
T Consensus 116 ~~~l~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 (232)
T TIGR03871 116 AHWLARHGLV--ENVVGYSLFGDYRPESP-PGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDY 192 (232)
T ss_pred HHHHHhcCcc--cccccccccccccccCC-HHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccc
Confidence 8888654211 12211 235 78999999999999999998888777665322222222 11 223
Q ss_pred ceeeEecCCCc-chHHHHHHHHhhhccchHHHHHHHHcC
Q 002454 759 GLGFAFQRGSP-IALDISRAILDLSEDGRLKTLEEEWFK 796 (920)
Q Consensus 759 ~~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~ 796 (920)
+++++++++++ ++..||++|.++. |.++++.+||.-
T Consensus 193 ~~~~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg~ 229 (232)
T TIGR03871 193 RIAMGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYGV 229 (232)
T ss_pred eEEEEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcCC
Confidence 56888999887 9999999999986 478999999953
No 105
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=99.58 E-value=3e-13 Score=142.59 Aligned_cols=217 Identities=23% Similarity=0.372 Sum_probs=174.2
Q ss_pred EEEEEEeCC--CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHH
Q 002454 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~v 113 (920)
+||+++|.+ ...+.....|++.|++++ |..+++++.|+.+++....+.+.+++. +++.++||+.++.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~ii~~~~~~~~~~~ 74 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-----GRGLEVILADSQSDPERALEALRDLIQ-QGVDGIIGPPSSSSALAV 74 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-----CCceEEEEecCCCCHHHHHHHHHHHHH-cCCCEEEecCCCHHHHHH
Confidence 589999987 556677888888888887 567889999999999888888989886 489999999888777667
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeC-CCCCCcchHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGKLALLAEA 192 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~-~~g~~~~~~~~l~~~ 192 (920)
...+...++|+|...... +... .+++++++.|++..++..+++++.+.+|+++++++.+. .++ ....+.+++.
T Consensus 75 ~~~~~~~~ip~v~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~--~~~~~~~~~~ 148 (269)
T cd01391 75 VELAAAAGIPVVSLDATA--PDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYG--RERLEGFKAA 148 (269)
T ss_pred HHHHHHcCCcEEEecCCC--CccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchh--hHHHHHHHHH
Confidence 888899999999988772 3222 56889999999999999999999999999999999887 555 7778899999
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC-CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecccc
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~~~ 271 (920)
+++.| .++......+.. ...++......+++. ++++|++ .++ ..+..+++++.+.|+.++++.|++.+.+.
T Consensus 149 ~~~~~-~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~i~~-~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 149 LKKAG-IEVVAIEYGDLD-----TEKGFQALLQLLKAAPKPDAIFA-CND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred HHhcC-cEEEeccccCCC-----ccccHHHHHHHHhcCCCCCEEEE-cCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 99988 776544333321 124566666667665 6888888 655 89999999999999986677888777654
Q ss_pred c
Q 002454 272 N 272 (920)
Q Consensus 272 ~ 272 (920)
.
T Consensus 221 ~ 221 (269)
T cd01391 221 A 221 (269)
T ss_pred c
Confidence 3
No 106
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.48 E-value=6.1e-13 Score=133.67 Aligned_cols=241 Identities=15% Similarity=0.180 Sum_probs=184.1
Q ss_pred ecCCCCCCCCC--CccccCCCCCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEE
Q 002454 433 IWPGNLINRNP--KGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEF 510 (920)
Q Consensus 433 ~Wpg~~~~~~p--~~~~~~~~~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~ 510 (920)
.|||.+. ..| ..+.-...+++|||++.++| .++....+ ...|+++++.+.+++.||.+ .+.
T Consensus 2 ~~p~q~~-~~~ee~~l~~Iq~rGvLrV~tinsp----~sy~~~~~----------~p~G~eYelak~Fa~yLgV~--Lki 64 (473)
T COG4623 2 LIPGQPR-EQPEENDLAAIQARGVLRVSTINSP----LSYFEDKG----------GPTGLEYELAKAFADYLGVK--LKI 64 (473)
T ss_pred CCCCccc-cCcccchHHHHHhcCeEEEEeecCc----cceeccCC----------CccchhHHHHHHHHHHhCCe--EEE
Confidence 4666654 332 23444567899999999874 34433222 56799999999999999999 555
Q ss_pred EecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHH
Q 002454 511 VPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIY 590 (920)
Q Consensus 511 ~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~ 590 (920)
.+.. .-+.++.+|.+|++|+++.++...++|.+.+.....|+..++.++.++....
T Consensus 65 ~~~~-n~dqLf~aL~ng~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R----------------------- 120 (473)
T COG4623 65 IPAD-NIDQLFDALDNGNADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR----------------------- 120 (473)
T ss_pred EecC-CHHHHHHHHhCCCcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC-----------------------
Confidence 5543 4689999999999999999999999999999988999999999888887665
Q ss_pred HHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccC
Q 002454 591 TMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLE 670 (920)
Q Consensus 591 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~ 670 (920)
T Consensus 121 -------------------------------------------------------------------------------- 120 (473)
T COG4623 121 -------------------------------------------------------------------------------- 120 (473)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCCChHHhhhCCcccccccchHHHHHHHHhcC-CCCCceeecCC--CHHHHHHHHhcCCeeEEEeechhHHHHHhhcCC
Q 002454 671 PNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLG-FRSGNIVPFGN--TEANYIQKFENNTIDSLFLERPYEKVFLDKYCK 747 (920)
Q Consensus 671 ~~i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~-~~~~~~~~~~~--~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~ 747 (920)
.+++++|. +.++.+..|+....-++.... ..+..+-.++. ..++.++++..|+++..+.++.....+.+-+.+
T Consensus 121 --p~~l~~L~--g~~i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gkldytiads~~is~~q~i~P~ 196 (473)
T COG4623 121 --PRSLGQLK--GRQITVAKGSAHVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGKLDYTIADSVEISLFQRVHPE 196 (473)
T ss_pred --CCCHHHcc--CceeeccCCcHHHHHHHHHHHhhcchhhhhhcccccHHHHHHHHhcCCcceeeeccHHHHHHHHhCcc
Confidence 48999997 456666667655444332211 11222222222 378999999999999999999999988888888
Q ss_pred ceEEeeeeeecceeeEecCCCc--chHHHHHHHHhhhccchHHHHHHHHcCCC
Q 002454 748 KYTAINTYRFGGLGFAFQRGSP--IALDISRAILDLSEDGRLKTLEEEWFKPS 798 (920)
Q Consensus 748 ~~~~~~~~~~~~~~~~~~k~sp--~~~~~n~~i~~l~e~G~~~~~~~~~~~~~ 798 (920)
+-...+.-...+.++.+|.++. +...++.++..+.|.|.++++++||+...
T Consensus 197 laVafd~tde~~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g~larleeky~gH~ 249 (473)
T COG4623 197 LAVAFDLTDEQPVAWYLPRDDDSTLSAALLDFLNEAKEDGLLARLEEKYLGHG 249 (473)
T ss_pred ceeeeecccccCceeeccCCchHHHHHHHHHHHHHhhcchHHHHHHHHHhccc
Confidence 7555555555889999998754 99999999999999999999999999754
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=99.34 E-value=4.4e-11 Score=135.49 Aligned_cols=300 Identities=12% Similarity=0.167 Sum_probs=162.8
Q ss_pred ccEEEEEEEeCCC---cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 33 EVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 33 ~~i~IG~i~p~s~---~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
.+-+|++++|+++ ..|..+..||..|. +. ..+...++.++|+..++. .....+.+. +|+.+||||...+.
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~-~~~~~~~l~~~Dt~~~~~--~~~~~~a~~-~ga~~ViGPL~k~~ 290 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YA-DADSRPELRFYDTNADSA--DALYQQAVA-DGADFVIGPLLKSN 290 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH-------TT--S-EEEEETTTS-H--HHHHHHHHH-TT--EEE---SHHH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---cc-cccCCCceEEecCCCCCH--HHHHHHHHH-cCCCEEEcCCCHHH
Confidence 4568999999994 45778888888888 11 134567888999887743 334555554 69999999999988
Q ss_pred HHHHHHhhcc--CCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHH
Q 002454 110 TAVVAEIASR--VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 110 ~~~va~~~~~--~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (920)
...++..-.. -.||++...... .. .. .+.++.+.-+.+..++.+|+.+...|.++..||+.++++| +.+.+
T Consensus 291 V~~l~~~~~~~~~~vp~LaLN~~~--~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g--~R~~~ 363 (536)
T PF04348_consen 291 VEALAQLPQLQAQPVPVLALNQPD--NS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWG--QRMAE 363 (536)
T ss_dssp HHHHHH-GG-GGTT-EEEES---T--T-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHH--HHHHH
T ss_pred HHHHHhcCcccccCCceeeccCCC--cc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHH--HHHHH
Confidence 8877765432 489999998773 22 11 3445566656677899999999999999999999999999 99999
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
.|.+..++.| +.+.....+.. ..++...++.-...+.|.|++ .+++.+++.+--...-. .......+.|
T Consensus 364 aF~~~W~~~g-g~~~~~~~~~~-------~~~~~~~i~~r~r~d~D~ifl-~a~~~~ar~ikP~l~~~--~a~~lPvyat 432 (536)
T PF04348_consen 364 AFNQQWQALG-GQVAEVSYYGS-------PADLQAAIQPRRRQDIDAIFL-VANPEQARLIKPQLDFH--FAGDLPVYAT 432 (536)
T ss_dssp HHHHHHHHHH-SS--EEEEESS-------TTHHHHHHHHS--TT--EEEE----HHHHHHHHHHHTT---T-TT-EEEE-
T ss_pred HHHHHHHHcC-CCceeeEecCC-------HHHHHHHHhhcCCCCCCEEEE-eCCHHHHHHHhhhcccc--cCCCCCEEEe
Confidence 9999999988 78765555543 257888888666678999999 88888888877666543 1222233444
Q ss_pred cccccccccCChhhhcccceEEEEEe-ec-cCCCchhHHHHHHHHHhccccCCCCCCCCCcchhhhHhhHHHHHHHHHHh
Q 002454 268 NTVANALDSLNTTVISSMEGTLGIKS-YY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (920)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~-~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~ 345 (920)
+...+ ...+......+.|+.+... +. +...+... .+...+... ........+++|||..++.+- .+
T Consensus 433 S~~~~--g~~~~~~~~dL~gv~f~d~Pwll~~~~~~~~----~~~~~~~~~-----~~~~~RL~AlG~DA~~L~~~l-~~ 500 (536)
T PF04348_consen 433 SRSYS--GSPNPSQDRDLNGVRFSDMPWLLDPNSPLRQ----QLAALWPNA-----SNSLQRLYALGIDAYRLAPRL-PQ 500 (536)
T ss_dssp GGG----HHT-HHHHHHTTT-EEEE-GGGG---SHHHH----HHH-HHTTT------HHHHHHHHHHHHHHHHHHTH-HH
T ss_pred ccccC--CCCCcchhhhhcCCEEeccccccCCCchHHH----HHHhhccCC-----ccHHHHHHHHHHHHHHHHHHH-HH
Confidence 43321 1223334456888877653 22 22223222 333332110 111223467789987664322 11
Q ss_pred hccCCCChHHHHHHHHhCccccccccEEEeCCCcc
Q 002454 346 LNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~~f~g~sG~i~F~~~g~~ 380 (920)
+ +.+....+.|.||.++++++|..
T Consensus 501 l-----------~~~~~~~~~G~TG~L~~~~~g~i 524 (536)
T PF04348_consen 501 L-----------RQFPGYRLDGLTGQLSLDEDGRI 524 (536)
T ss_dssp H-----------HHSTT--EEETTEEEEE-TT-BE
T ss_pred H-----------hhCCCCcccCCceeEEECCCCeE
Confidence 1 22223578999999999987753
No 108
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.31 E-value=1.4e-11 Score=114.57 Aligned_cols=123 Identities=28% Similarity=0.458 Sum_probs=103.5
Q ss_pred CCCChHHhhhC-CcccccccchHHHHHHHHhcCCC---------CCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHH
Q 002454 672 NVTDIQSLKSG-NLKVGCVDDSFVKKYLEEVLGFR---------SGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVF 741 (920)
Q Consensus 672 ~i~s~~dL~~s-~~~vg~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~ 741 (920)
||++++||..+ +.+||+..|+..+.++++..... ..+++.+++ ..+++.+|++|+ ||++.+.+.+.++
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~g~-da~v~d~~~~~~~ 78 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKS-YAEGVQRVRVSN-YAFLMESTYLDYE 78 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCC-HHHHHHHHHcCC-CEEEeehHhHHHH
Confidence 48999999743 58999999999999987652210 025667888 999999999999 9999999999988
Q ss_pred HhhcCCceEEeeeeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHHcC
Q 002454 742 LDKYCKKYTAINTYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEWFK 796 (920)
Q Consensus 742 ~~~~~~~~~~~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~~ 796 (920)
+++.|++..+...+...+++++++||++|++.+|.+|.+|.++|.++++.++|+.
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 79 LSQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred HhCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 8878875434436777889999999999999999999999999999999999985
No 109
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.81 E-value=7.7e-08 Score=100.55 Aligned_cols=199 Identities=16% Similarity=0.087 Sum_probs=136.8
Q ss_pred CCCeEEEeecCCcccceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccE
Q 002454 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDA 531 (920)
Q Consensus 452 ~~~l~v~~~~~~~~~p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~ 531 (920)
.++|+||+. +.++|+ .+.+...++.+.+++++|++ +++++. ++|+.++..+.+|++|+
T Consensus 31 ~~~l~vg~~--~~~~~~-----------------~~~~~~~~l~~~l~~~~g~~--v~~~~~-~~~~~~~~~l~~g~~Di 88 (254)
T TIGR01098 31 PKELNFGIL--PGENAS-----------------NLTRRWEPLADYLEKKLGIK--VQLFVA-TDYSAVIEAMRFGRVDI 88 (254)
T ss_pred CCceEEEEC--CCCCHH-----------------HHHHHHHHHHHHHHHHhCCc--EEEEeC-CCHHHHHHHHHcCCccE
Confidence 356999987 333321 44566779999999999998 555543 36999999999999999
Q ss_pred EEeceeeec---Cceeeeeeccccccc------cEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhccc
Q 002454 532 AVGDLTILG---NRTEYVEFTQPYAES------GFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQS 602 (920)
Q Consensus 532 ~~~~~~~t~---~r~~~~~fs~p~~~~------~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~ 602 (920)
++.+..... +|.+...|+.|+... ...++++++..
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~~------------------------------------ 132 (254)
T TIGR01098 89 AWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADSP------------------------------------ 132 (254)
T ss_pred EEECcHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCCC------------------------------------
Confidence 986554333 566667788876543 24566665432
Q ss_pred CccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhC
Q 002454 603 NPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSG 682 (920)
Q Consensus 603 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s 682 (920)
|++++||.
T Consensus 133 ----------------------------------------------------------------------i~~~~dL~-- 140 (254)
T TIGR01098 133 ----------------------------------------------------------------------IKSLKDLK-- 140 (254)
T ss_pred ----------------------------------------------------------------------CCChHHhc--
Confidence 78999996
Q ss_pred Cccccccc-chH-----HHHHHHHhcCCCC----CceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcC---Cce
Q 002454 683 NLKVGCVD-DSF-----VKKYLEEVLGFRS----GNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYC---KKY 749 (920)
Q Consensus 683 ~~~vg~~~-~~~-----~~~~l~~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~---~~~ 749 (920)
|.+|++.. ++. ...++.+...... .++....+ ..+.++++.+|++|+++.+.+....+.++.. ..+
T Consensus 141 gk~I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~-~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~ 219 (254)
T TIGR01098 141 GKTFAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGS-HDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKV 219 (254)
T ss_pred CCEEEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCc-hHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhhe
Confidence 68888743 221 1334544433221 34555555 7889999999999999998888776665542 123
Q ss_pred EEee-eeeecceeeEecCC-Cc-chHHHHHHHHhh
Q 002454 750 TAIN-TYRFGGLGFAFQRG-SP-IALDISRAILDL 781 (920)
Q Consensus 750 ~~~~-~~~~~~~~~~~~k~-sp-~~~~~n~~i~~l 781 (920)
.+.. .....+++++++|+ .+ +++.+|++|..+
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 220 RVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred EEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 3333 44445689999999 55 999999999864
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=98.75 E-value=4.5e-07 Score=95.32 Aligned_cols=200 Identities=15% Similarity=0.129 Sum_probs=140.7
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+++|.+ .........|++.+.++. | +++.+.|+..++....+.+++++.+ ++.++|+...+.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~~~~~~ 72 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA-----G--YQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDLTAPTIV 72 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc-----C--CeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCcchhHH
Confidence 589999986 445667777787777773 3 5567778888888888888888864 889888766554444456
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+...++|+|...... +. .++++++.+++...+..+++++...+.++++++..+..+.........+++.++
T Consensus 73 ~~l~~~~ip~v~~~~~~--~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~ 145 (264)
T cd01537 73 KLARKAGIPVVLVDRDI--PD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALK 145 (264)
T ss_pred HHhhhcCCCEEEeccCC--CC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHH
Confidence 77888999999987662 21 245677888999999999999998899999999876552211556788888887
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.|..++........ ...+....+.++.+.+ +++++. .+...+..+++++++.|..
T Consensus 146 ~~~~~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~~~~~g~~ 203 (264)
T cd01537 146 EAGPIEIVLVQEGDW------DAEKGYQAAEELLTAHPDPTAIFA--ANDDMALGALRALREAGLR 203 (264)
T ss_pred HcCCcChhhhccCCC------CHHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHhCCC
Confidence 654112211111111 2345667777776665 666665 4556777899999999985
No 111
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.74 E-value=5.7e-09 Score=79.68 Aligned_cols=57 Identities=30% Similarity=0.620 Sum_probs=40.4
Q ss_pred ceEEeecCCCCCCCCCCCcceeeeeHHHHHHHHHHCCCccceEEEe--------cCCChhHHHHHHHc
Q 002454 467 KFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVP--------HDGVYDDLINGVYD 526 (920)
Q Consensus 467 p~~~~~~~~~~~~~g~~~~~~~G~~~dl~~~la~~ln~~~~~~~~~--------~~gs~~~~~~~l~~ 526 (920)
||++.+++... .+ ++.+++|||+||+++|++.+||++++..++ .+|+|+||+++|.+
T Consensus 1 Pfvm~~~~~~~-~~--g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGEN-LT--GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSG-SB--GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcc-cC--CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 67777665211 12 377999999999999999999994333332 25899999999874
No 112
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.73 E-value=1.6e-07 Score=98.89 Aligned_cols=164 Identities=13% Similarity=0.144 Sum_probs=129.7
Q ss_pred ChhHHHHHHHcCcccEEEeceeeecCceeeeeeccc--cccccEEEEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHH
Q 002454 516 VYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQP--YAESGFSMIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMF 593 (920)
Q Consensus 516 s~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p--~~~~~~~~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~ 593 (920)
.|.+++..|.+|++|+++++..++.+|.+.++|+.| |....+++++|....
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 579999999999999999999999999999999988 777788888887654
Q ss_pred HHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHHHHHHHHHHhhccccceeeeeccCCCC
Q 002454 594 IVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNV 673 (920)
Q Consensus 594 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i 673 (920)
|
T Consensus 105 -------------------------------------------------------------------------------i 105 (287)
T PRK00489 105 -------------------------------------------------------------------------------W 105 (287)
T ss_pred -------------------------------------------------------------------------------C
Confidence 7
Q ss_pred CChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEee
Q 002454 674 TDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN 753 (920)
Q Consensus 674 ~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~ 753 (920)
++++||. |.++++..+....+++.+.. ...+++.+.+ ..+. .+..|.+|+++..........+. .+..+ +
T Consensus 106 ~sl~DL~--Gk~ia~~~~~~~~~~l~~~g--i~~~iv~~~g-s~ea--a~~~G~aDaivd~~~~~~~l~~~--~L~~v-~ 175 (287)
T PRK00489 106 QGVEDLA--GKRIATSYPNLTRRYLAEKG--IDAEVVELSG-AVEV--APRLGLADAIVDVVSTGTTLRAN--GLKIV-E 175 (287)
T ss_pred CChHHhC--CCEEEEcCcHHHHHHHHHcC--CceEEEECCC-chhh--hhcCCcccEEEeeHHHHHHHHHC--CCEEE-E
Confidence 8999997 67999988888888887642 2345666665 3343 56679999998877666665553 34334 5
Q ss_pred eeeecceeeEecC--CCc-chHHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 754 TYRFGGLGFAFQR--GSP-IALDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 754 ~~~~~~~~~~~~k--~sp-~~~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
.+.....+++.+| .+| ....+|..+.++ .|.+..+.++|+..
T Consensus 176 ~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~~ 220 (287)
T PRK00489 176 VILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLMM 220 (287)
T ss_pred eeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEEE
Confidence 4555678999999 677 888999999999 59999999999975
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=98.70 E-value=2.1e-06 Score=90.35 Aligned_cols=206 Identities=14% Similarity=0.104 Sum_probs=140.7
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcC-CchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp-~~s~~~~~v 113 (920)
+||++.|.. .....+...+++.+.++. | +++.+.++..++....+.+.+++.+ ++.++|+. .+.......
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~-----g--~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~~~~~~ 72 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL-----G--VELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSAALTPA 72 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc-----C--ceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhHHHH
Confidence 589999875 555677788888877773 3 5566677777888888888888875 88988764 333333335
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCC--CCCCcchHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~~l 189 (920)
...+.+.++|+|...... +. .+.+..+.+++...+..+++++... |-+++++++.+.. ++ ....+.+
T Consensus 73 ~~~l~~~~ip~V~~~~~~--~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~r~~gf 143 (267)
T cd01536 73 LKKANAAGIPVVTVDSDI--DG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNA--QERVKGF 143 (267)
T ss_pred HHHHHHCCCcEEEecCCC--Cc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchH--HHHHHHH
Confidence 556677899999986652 21 2344567788888889999999777 8899999987654 44 5667888
Q ss_pred HHHHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 190 ~~~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
++.+++. | .++........ ...+..+.+.++.+.+ +++|+ +++...+..+++++++.|+. .+...++
T Consensus 144 ~~~~~~~~~-~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~--~~~d~~a~~~~~~l~~~g~~-~~i~ivg 213 (267)
T cd01536 144 RDALKEYPD-IEIVAVQDGNW------DREKALQAMEDLLQANPDIDAIF--AANDSMALGAVAALKAAGRK-GDVKIVG 213 (267)
T ss_pred HHHHHhCCC-cEEEEEecCCC------cHHHHHHHHHHHHHhCCCccEEE--EecCCchHHHHHHHHhcCCC-CCceEEe
Confidence 8998887 5 55443221111 1245566777776544 45544 45667888899999999986 4444444
Q ss_pred ec
Q 002454 267 TN 268 (920)
Q Consensus 267 t~ 268 (920)
.+
T Consensus 214 ~d 215 (267)
T cd01536 214 VD 215 (267)
T ss_pred cC
Confidence 43
No 114
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=98.67 E-value=1.2e-06 Score=92.19 Aligned_cols=197 Identities=15% Similarity=0.152 Sum_probs=137.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||++.|.. .........|++.+.++. | +++.+.+...++.+..+..++++. +++.+++....+..... .
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~~~-~ 71 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-----G--YSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDDEL-L 71 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-----C--CEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcchHH-H
Confidence 489999885 445566666777666653 3 445567888888888888999886 48888877555545544 6
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (920)
..+...++|+|...... +. +.+..+.+++...++.+++++...|.+++++++.+.. ++ ....+.+++.
T Consensus 72 ~~~~~~~ipvv~~~~~~--~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~g~~~~ 141 (264)
T cd06267 72 EELAALGIPVVLVDRPL--DG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTA--RERLEGYREA 141 (264)
T ss_pred HHHHHcCCCEEEecccc--cC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchH--HHHHHHHHHH
Confidence 66889999999987662 21 3455677888888999999998889999999987654 33 5566788888
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+++.| .++.......... ...+..+.+.++...+ +++|+. .+...+..+++++++.|..
T Consensus 142 ~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~ 202 (264)
T cd06267 142 LEEAG-IPLDEELIVEGDF----SEESGYEAARELLASGERPTAIFA--ANDLMAIGALRALRELGLR 202 (264)
T ss_pred HHHcC-CCCCcceEEeccc----chhhHHHHHHHHHhcCCCCcEEEE--cCcHHHHHHHHHHHHhCCC
Confidence 88877 5443222222211 1245566777766554 676665 5667778899999999985
No 115
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.56 E-value=5.8e-06 Score=87.42 Aligned_cols=204 Identities=15% Similarity=0.084 Sum_probs=134.2
Q ss_pred EEEEEEeCCC-cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCch-HHHHHH
Q 002454 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s-~~~~~v 113 (920)
|||+++|... ..-.+...|++.+.++.-. .|+++++.+.|+..|+....+...+++.+ +|.+||....+ ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~--~g~~~~l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKK--AGLISEFIVTSADGDVAQQIADIRNLIAQ-GVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhc--cCCeeEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhhhHHH
Confidence 5899997652 2233455555555544211 26788899999999999999999998874 89988875443 323334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+.+.++|+|...... + . +.+.++.+++...+..+++++... +-++++++..+............+++
T Consensus 78 l~~~~~~~iPvv~~~~~~--~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~ 149 (272)
T cd06300 78 IEEACEAGIPVVSFDGTV--T---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKE 149 (272)
T ss_pred HHHHHHCCCeEEEEecCC--C---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHH
Confidence 556777899999886541 1 1 346678899999999999999776 88899999753321111455677888
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
++.+.+.+++... ... . .+..+..+.+.++.+++ +++|+. .+.. +..+++.+++.|+..
T Consensus 150 a~~~~~~~~~~~~--~~~-~---~~~~~~~~~~~~~l~~~~~~~~i~~--~~d~-A~g~~~al~~~g~~~ 210 (272)
T cd06300 150 VLKEYPGIKIVGE--VYG-D---WDQAVAQKAVADFLASNPDVDGIWT--QGGD-AVGAVQAFEQAGRDI 210 (272)
T ss_pred HHHHCCCcEEEee--cCC-C---CCHHHHHHHHHHHHHhCCCcCEEEe--cCCC-cHHHHHHHHHcCCCC
Confidence 8877641333321 111 1 12245566777776554 465554 4445 999999999999843
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=98.55 E-value=5.2e-06 Score=88.25 Aligned_cols=201 Identities=13% Similarity=0.168 Sum_probs=136.5
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
|||++.|.+.........|++..+++.+-. .|.++++.+.|+.+++......+++++. ++|.++|+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~~~~~~~g~~-~g~~v~l~~~~~~~~~~~~~~~~~~l~~-~~vd~iI~~~~~~-~~~~-- 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFKDGLKEAGYK-EGKNVKIDYQNAQGDQSNLPTIARKFVA-DKPDLIVAIATPA-AQAA-- 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHHHHHHHhCcc-CCceEEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEcCcHH-HHHH--
Confidence 589999876545556666666544444322 4789999999999999999999999886 5899999865532 2222
Q ss_pred hhccCCccEEeecCCCCCCCcc----CCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCcchHHH
Q 002454 116 IASRVQVPILSFAAPAVTPLSM----SRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLAL 188 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~----~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~ 188 (920)
.....++|+|...... +... ....+.......++...+..+++++... |.+++++++.+.. ++ ....+.
T Consensus 76 ~~~~~~iPvV~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~--~~r~~g 151 (281)
T cd06325 76 ANATKDIPIVFTAVTD--PVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANS--VVQVKE 151 (281)
T ss_pred HHcCCCCCEEEEecCC--ccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccH--HHHHHH
Confidence 2567899999887541 2111 1111222223455666678888888776 9999999986543 44 566788
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
+++.+++.| +++..... . ...++.+.++++.+ ++|+|++ .+...+..+++++.+.|+
T Consensus 152 ~~~~~~~~g-~~~~~~~~--~------~~~~~~~~~~~~~~-~~dai~~--~~d~~a~~~~~~~~~~~~ 208 (281)
T cd06325 152 LKKAAAKLG-IEVVEATV--S------SSNDVQQAAQSLAG-KVDAIYV--PTDNTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHHHhCC-CEEEEEec--C------CHHHHHHHHHHhcc-cCCEEEE--cCchhHHhHHHHHHHHHH
Confidence 999999999 88765321 1 12566777777764 4687766 445677788888888876
No 117
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=98.51 E-value=1.9e-05 Score=83.56 Aligned_cols=208 Identities=11% Similarity=0.068 Sum_probs=134.2
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEE-EEcCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~a-iiGp~~s~~~~~v 113 (920)
+||++.|.. ...-.....+++.+.++ .|+++.+...|+..++....+..+.++.+ +|.+ |+.|..+......
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~~ 74 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK-----LGVSVDIQAAPSEGDQQGQLSIAENMINK-GYKGLLFSPISDVNLVPA 74 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH-----hCCeEEEEccCCCCCHHHHHHHHHHHHHh-CCCEEEECCCChHHhHHH
Confidence 589999853 33344555666666665 36777777677778888777888888764 7876 4566554433344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+.+.++|+|...... . ....+ .+.+++...+..+++++... |.++++++....+........+.+.+
T Consensus 75 ~~~~~~~~iPvV~~~~~~--~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 75 VERAKKKGIPVVNVNDKL--I---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHCCCeEEEECCCC--C---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 566778899999876541 1 11222 35778888899999999776 88999999764432211344577899
Q ss_pred HHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 192 ~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
.+++. | .++.... .... ...+....+.++.+. ++++|+ +.+...+..+++.+++.|.. .+...++.
T Consensus 147 ~~~~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~al~~~g~~-~di~vig~ 215 (275)
T cd06320 147 AIKKASG-IEVVASQ-PADW-----DREKAYDVATTILQRNPDLKAIY--CNNDTMALGVVEAVKNAGKQ-GKVLVVGT 215 (275)
T ss_pred HHhhCCC-cEEEEec-CCCc-----cHHHHHHHHHHHHHhCCCccEEE--ECCchhHHHHHHHHHhcCCC-CCeEEEec
Confidence 99998 8 7764322 1111 123445566665544 355543 46777788899999999985 33333433
No 118
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.45 E-value=1.2e-05 Score=85.80 Aligned_cols=303 Identities=11% Similarity=0.107 Sum_probs=178.5
Q ss_pred ccEEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 33 ~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
.+-+|+.++|++ +..|.....||..|.. .+...++-..++.+.|+...|..++-+ .+.++|+..|+||.-...
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~~~~~~~~~i~dT~~~~l~~i~a---qaqq~G~~~VVGPLlK~n 331 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQTAQVAELKIYDTSAQPLDAILA---QAQQDGADFVVGPLLKPN 331 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccCCccccceeeccCCcccHHHHHH---HHHhcCCcEEeccccchh
Confidence 457899999999 4567788888887765 222223333678888988887666543 334689999999999988
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
...+...- +..||++....+. ... ..+.+....-+.+..++..|+.+-.-|.++..++...+++| +..+++|
T Consensus 332 Ve~L~~~~-q~~i~vLALN~~~---n~r--~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG--~Rv~~AF 403 (604)
T COG3107 332 VEALLASN-QQPIPVLALNQPE---NSR--NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLG--DRVANAF 403 (604)
T ss_pred HHHHHhCc-CCCCceeeecCCc---ccc--CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHH--HHHHHHH
Confidence 88776533 3789999887772 222 23444444444455688899999999999999999999999 9999999
Q ss_pred HHHHhccCCceEeEEeecCCCCC------------CCCChHHHHHHH----HhhccCC-ceEEEEEecCHhHHHHHHHHH
Q 002454 190 AEALQNVSSSEIQSRLVLPPISS------------ISDPKEAVRGEL----KKVQDKQ-SRVFIVLQASLDMTIHLFTEA 252 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~------------~~~~~~d~~~~l----~~l~~~~-~~vii~~~~~~~~~~~~l~~a 252 (920)
.+..++.| ...+....+..... .++...+..... ..+.+.+ .|.|++ ...+.+++.+--..
T Consensus 404 ~~~Wq~~g-g~~v~~~~fg~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyi-vAtp~el~~IKP~i 481 (604)
T COG3107 404 NQEWQKLG-GGTVLQQKFGSTSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYI-VATPSELALIKPMI 481 (604)
T ss_pred HHHHHHhc-CCchhHhhcCcHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEE-EecchhHhHHhhHH
Confidence 99999988 63332222211000 000001111000 1122233 788888 78888887776666
Q ss_pred HHcCCCCCCeEEEEecccccccccCChhhhcccceEEEE-Eeec-cCCCchhHHHHHHHHHhccccCCCCCCCCCcchhh
Q 002454 253 NRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGI-KSYY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHAL 330 (920)
Q Consensus 253 ~~~g~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~ 330 (920)
.-.+....--.+..+..... ...+.....++|+.+- .|+. ..+.|.+++....|..
T Consensus 482 a~~~~~~~~p~yaSSr~~~g---T~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~------------------- 539 (604)
T COG3107 482 AMANGSDSPPLYASSRSSQG---TNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPN------------------- 539 (604)
T ss_pred HhhcCCCCcceeeecccccc---CCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCC-------------------
Confidence 65444322112222222111 1112223446666432 2222 2333445444444421
Q ss_pred hHhhHHHHHHHHHHhhccCCCChHHHHHHH---Hh---CccccccccEEEeCCCcc
Q 002454 331 RAHDSIKIITEAIGRLNYNISSPEMLLRQM---LS---SDFSGLSGKIRFKDGELL 380 (920)
Q Consensus 331 ~~YDav~~~a~Al~~~~~~~~~~~~l~~~l---~~---~~f~g~sG~i~F~~~g~~ 380 (920)
-|..+.++|.+++ ...|...+ +. -..+|+||.++.|++...
T Consensus 540 -~~sl~RLyAmGvD--------AwrLan~f~elrqV~G~~i~G~TG~Lsad~~c~I 586 (604)
T COG3107 540 -DYSLARLYAMGVD--------AWRLANHFSELRQVPGYQIDGLTGTLSADPDCVI 586 (604)
T ss_pred -chHHHHHHHhcch--------HHHHHHHhHHhhcCCCcccccccceeecCCCceE
Confidence 1333444444332 33333332 22 367899999999977654
No 119
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.44 E-value=8.5e-05 Score=75.61 Aligned_cols=201 Identities=14% Similarity=0.161 Sum_probs=135.3
Q ss_pred ccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCc-eEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNH-KLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~-~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
+.++||+....+.+.-.....|++-|+.+. |+ .+++......+|+..+.+.++++..+ +.+++++-.+...-.
T Consensus 29 ~~~~VaI~~~veHpaLd~~~~G~~~aLk~~-----G~~n~~i~~~na~~~~~~a~~iarql~~~-~~dviv~i~tp~Aq~ 102 (322)
T COG2984 29 DQITVAITQFVEHPALDAAREGVKEALKDA-----GYKNVKIDYQNAQGDLGTAAQIARQLVGD-KPDVIVAIATPAAQA 102 (322)
T ss_pred cceeEEEEEeecchhHHHHHHHHHHHHHhc-----CccCeEEEeecCCCChHHHHHHHHHhhcC-CCcEEEecCCHHHHH
Confidence 567788888877544456666777666665 33 67788888999999999999999864 667777665544333
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCC----CceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCC-CCCCcc
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRR----WPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSG 184 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~----~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~-~g~~~~ 184 (920)
.+... .++|++-.+.+ |+...+.. -|----+.-+|..-...-.++++.. +.++++++|..+. .. ..
T Consensus 103 ~~s~~---~~iPVV~aavt--d~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns--~~ 175 (322)
T COG2984 103 LVSAT---KTIPVVFAAVT--DPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANS--VS 175 (322)
T ss_pred HHHhc---CCCCEEEEccC--chhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCccc--HH
Confidence 33332 34999988887 34332211 1111123445555455556666664 8899999998776 44 77
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH---hHHHHHHHHHHHcCC
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL---DMTIHLFTEANRMGL 257 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~---~~~~~~l~~a~~~g~ 257 (920)
..+.++..+++.| ++++- ...+.. .|....++.|. .++|+|++ .++. .....+++.+.+.+.
T Consensus 176 l~eelk~~A~~~G-l~vve-~~v~~~-------ndi~~a~~~l~-g~~d~i~~-p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 176 LVEELKKEARKAG-LEVVE-AAVTSV-------NDIPRAVQALL-GKVDVIYI-PTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHCC-CEEEE-EecCcc-------cccHHHHHHhc-CCCcEEEE-ecchHHHHHHHHHHHHHHHhCC
Confidence 7899999999999 88753 333332 35566666665 68999999 6665 345566777777775
No 120
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.41 E-value=1.8e-05 Score=83.25 Aligned_cols=194 Identities=12% Similarity=0.168 Sum_probs=126.4
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
+||+++|.. .........+++.+.++. |+. +.+.++..|+....+..++++. ++++++|. +.+.. ....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-----g~~--~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~-~~~~ 71 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-----GYS--LLLATTDYDAEREADAVETLLR-QRVDGLILTVADAA-TSPA 71 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-----CCE--EEEeeCCCCHHHHHHHHHHHHh-cCCCEEEEecCCCC-chHH
Confidence 378999854 333445566666666552 444 4455667788777788888876 58888875 44332 2335
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeC---CCCCCcchHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN---VYGGDSGKLALLA 190 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~---~~g~~~~~~~~l~ 190 (920)
...+.+.++|+|..... .. ...++ ...++...+..+++++...|.++++++..+. +++ ......+.
T Consensus 72 ~~~~~~~~ipvV~~~~~---~~---~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~ 140 (266)
T cd06282 72 LDLLDAERVPYVLAYND---PQ---PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRA--RQRYAGYR 140 (266)
T ss_pred HHHHhhCCCCEEEEecc---CC---CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchH--HHHHHHHH
Confidence 56678889999987644 21 22343 3477788899999999888999999997532 233 45678888
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhh-ccC-CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV-QDK-QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l-~~~-~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.+++.| +++......+. ...+....+.++ ++. .+++|+. ++...+..+++++++.|+.
T Consensus 141 ~~l~~~~-~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~ 201 (266)
T cd06282 141 AAMRAAG-LAPLPPVEIPF------NTAALPSALLALLTAHPAPTAIFC--SNDLLALAVIRALRRLGLR 201 (266)
T ss_pred HHHHHcC-CCCCccccCCC------cHHHHHHHHHHHhcCCCCCCEEEE--CCcHHHHHHHHHHHHcCCC
Confidence 9999888 66433222221 112233445544 332 5677665 6777788999999999985
No 121
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.40 E-value=7.1e-05 Score=80.08 Aligned_cols=209 Identities=11% Similarity=0.122 Sum_probs=129.0
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeE-EEEcCCchHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEETA 111 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~-aiiGp~~s~~~~ 111 (920)
.-+||++.|.. ...-.+...+++.+.++. |++ +.+.++..|+.......++++.+ ++. ++++|..+....
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~-----G~~--~~~~~~~~d~~~~~~~~~~l~~~-~~dgiii~~~~~~~~~ 97 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKL-----GYN--LVVLDSQNNPAKELANVQDLTVR-GTKILLINPTDSDAVG 97 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHc-----CCe--EEEecCCCCHHHHHHHHHHHHHc-CCCEEEEcCCChHHHH
Confidence 45799999853 334456677777777763 444 45567777888787878887764 666 556665544434
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-CC-eEEEEEEEeCCCCCCcchHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~w-~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.....+.+.++|+|...... . ..+.+..+.+++...+..+++++... +. .+++++..+..........+.+
T Consensus 98 ~~l~~~~~~~ipvV~~~~~~--~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf 170 (295)
T PRK10653 98 NAVKMANQANIPVITLDRGA--T-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGF 170 (295)
T ss_pred HHHHHHHHCCCCEEEEccCC--C-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHH
Confidence 45566777899999886441 1 11234456777777788888888664 43 3566655432211114556889
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
++++++.| .++... .. .. .+..+....+.++.+.. +++|+ +.+...+..+++++++.|+ .+...++-
T Consensus 171 ~~al~~~g-~~~~~~--~~-~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~A~g~l~al~~~G~--~dv~vig~ 239 (295)
T PRK10653 171 KQAVAAHK-FNVLAS--QP-AD---FDRTKGLNVMQNLLTAHPDVQAVF--AQNDEMALGALRALQTAGK--SDVMVVGF 239 (295)
T ss_pred HHHHhhCC-CEEEEe--cC-CC---CCHHHHHHHHHHHHHhCCCcCEEE--ECCChhHHHHHHHHHHcCC--CceEEEEe
Confidence 99999999 776421 11 11 11233344555655443 45544 4667777789999999998 24444444
Q ss_pred c
Q 002454 268 N 268 (920)
Q Consensus 268 ~ 268 (920)
+
T Consensus 240 d 240 (295)
T PRK10653 240 D 240 (295)
T ss_pred C
Confidence 3
No 122
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=98.26 E-value=7.5e-05 Score=78.09 Aligned_cols=204 Identities=17% Similarity=0.181 Sum_probs=141.7
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~va 114 (920)
||++.|.. .........|++.|.++.+ ..+.+. .|..+|+..-.+.+++++. +++.+|| .|..+.......
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g-----~~~~~~-~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~~~~~~~~~l 73 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELG-----YEVEIV-FDAQNDPEEQIEQIEQAIS-QGVDGIIVSPVDPDSLAPFL 73 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHT-----CEEEEE-EESTTTHHHHHHHHHHHHH-TTESEEEEESSSTTTTHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcC-----CEEEEe-CCCCCCHHHHHHHHHHHHH-hcCCEEEecCCCHHHHHHHH
Confidence 78888887 3456678889998888874 344444 7999999999999999997 4788666 677776677777
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCC--eEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW--RRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w--~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
.-+...+||+|..... .....+....+.++....+..+++++....- .+++++....++.........+.+.
T Consensus 74 ~~~~~~gIpvv~~d~~------~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 74 EKAKAAGIPVVTVDSD------EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHTTSEEEEESST------HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHhhcCceEEEEecc------ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 8899999999986544 1122244557788899999999999966422 6788776555433223456778888
Q ss_pred Hhc-cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCC
Q 002454 193 LQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (920)
Q Consensus 193 l~~-~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (920)
+++ .+ +++......... ..+.....+.++.+.++ +-.+++++...+..+++.+++.|+.+.
T Consensus 148 l~~~~~-~~~~~~~~~~~~-----~~~~a~~~~~~~l~~~~-~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPG-VEIVDEYEYTDW-----DPEDARQAIENLLQANP-VDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTT-EEEEEEEEECTT-----SHHHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcce-eeeeeeeeccCC-----CHHHHHHHHHHhhhcCC-ceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 887 45 676653332221 33555666666555553 333336889999999999999999665
No 123
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.26 E-value=0.00014 Score=76.57 Aligned_cols=207 Identities=12% Similarity=0.105 Sum_probs=130.2
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEE-EEcCCchHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~a-iiGp~~s~~~~~va 114 (920)
||+++|.. .....+...+++.+.++. |+. +.+.++..++....+...+++. +++.+ |+++..+.......
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~-----g~~--v~~~~~~~~~~~~~~~~~~~~~-~~~dgii~~~~~~~~~~~~l 73 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL-----GYE--LTVLDAQNDAAKQLNDIEDLIT-RGVDAIIINPTDSDAVVPAV 73 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc-----Cce--EEecCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChHHHHHHH
Confidence 78888853 445566777777777763 344 4566777888888888888776 47886 55565544333344
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
..+...++|+|...... + ..+.+-.+..++...+..+++++... |-+++++++.+............++++
T Consensus 74 ~~l~~~~ipvv~~~~~~--~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 74 KAANEAGIPVFTIDREA--N-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHCCCcEEEEccCC--C-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 45667899999886541 1 11223346677777788899999776 779999998744321115566888888
Q ss_pred Hhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 193 LQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 193 l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
+++. | .++.... ... .+..+....+.++.+. ++++|+ +.+...+..+++++++.|+ ++...++.+.
T Consensus 147 l~~~~~-~~~~~~~---~~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~--~di~iig~d~ 215 (268)
T cd06323 147 VDKYPG-LKVVASQ---PAD---FDRAKGLNVMENILQAHPDIKGVF--AQNDEMALGAIEALKAAGK--DDVKVVGFDG 215 (268)
T ss_pred HHhCCC-cEEEecc---cCC---CCHHHHHHHHHHHHHHCCCcCEEE--EcCCchHHHHHHHHHHcCC--CCcEEEEeCC
Confidence 8884 7 6654211 111 1112333445554433 456544 4666777788999999998 4444554433
No 124
>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=98.22 E-value=0.00017 Score=76.37 Aligned_cols=206 Identities=10% Similarity=0.041 Sum_probs=127.6
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEE-EcCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~ai-iGp~~s~~~~~v 113 (920)
+||++.|.. ...-.....+++.+.++. |++ +.+.++..++....+...+++. +++.++ +++..+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-----g~~--~~~~~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~~~~~~ 72 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-----GYD--AVELSAENSAKKELENLRTAID-KGVSGIIISPTNSSAAVTL 72 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-----CCe--EEEecCCCCHHHHHHHHHHHHh-cCCCEEEEcCCchhhhHHH
Confidence 378888854 333344455555554442 434 4566888888888888888876 578866 566655444455
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc------CCeEEEEEEEeCC--CCCCcch
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNV--YGGDSGK 185 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~------~w~~v~ii~~~~~--~g~~~~~ 185 (920)
...+.+.++|+|..... . .. ..++..+.+++...+..+++++... |.+++++++.+.. .+ ...
T Consensus 73 l~~~~~~~ipvV~~~~~---~--~~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~--~~r 143 (277)
T cd06319 73 LKLAAQAKIPVVIADIG---A--EG--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNG--QKR 143 (277)
T ss_pred HHHHHHCCCCEEEEecC---C--CC--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccH--HHH
Confidence 66777889999986543 1 01 1234456677777777777777553 6789999985432 23 556
Q ss_pred HHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCCCCCeE
Q 002454 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (920)
Q Consensus 186 ~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~ 263 (920)
.+.+++.+++.| ..+.... .... ....+..+.+.++.++. +++|+ +.+...+..+++++++.|+. .+..
T Consensus 144 ~~gf~~~l~~~~-~~~~~~~--~~~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~g~~~al~~~g~~-~di~ 214 (277)
T cd06319 144 TKGFKEAMKEAG-CDLAGIR--QQKD---FSYQETFDYTNDLLTANPDIRAIW--LQGSDRYQGALDAIATAGKT-GKVL 214 (277)
T ss_pred HHHHHHHHHhcC-CceEeec--cCCC---CCHHHHHHHHHHHHHhCCCCCEEE--ECCCccchHHHHHHHHcCCC-CCEE
Confidence 788999999998 7654211 1111 01133345566655444 44544 46666778899999999986 3343
Q ss_pred EEEe
Q 002454 264 WIVT 267 (920)
Q Consensus 264 ~i~t 267 (920)
.++-
T Consensus 215 vvg~ 218 (277)
T cd06319 215 LICF 218 (277)
T ss_pred EEEc
Confidence 3433
No 125
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.13 E-value=0.00046 Score=72.88 Aligned_cols=211 Identities=11% Similarity=0.023 Sum_probs=127.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCch-HHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s-~~~~~v 113 (920)
|||++.|.- ...-.....+++.+.++ .|+.+.+...++..++....+..++++. +++.++|-.... ......
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgvii~~~~~~~~~~~ 74 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE-----LGVKVTFQGPASETDVAGQVNLLENAIA-RGPDAILLAPTDAKALVPP 74 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH-----cCCEEEEecCccCCCHHHHHHHHHHHHH-hCCCEEEEcCCChhhhHHH
Confidence 689998763 22233444555544444 3666666544446788877788888776 478877753332 222334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+...++|+|...... + ... + +-.+.+++...+..+++++... |.++++++....++.........+++
T Consensus 75 l~~~~~~~ipvV~~~~~~--~--~~~--~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 75 LKEAKDAGIPVVLIDSGL--N--SDI--A-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHCCCCEEEecCCC--C--CCc--c-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 344567899999875431 1 111 1 2235677777888899998776 89999999754443211345677888
Q ss_pred HHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 192 ~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
++++. | .++... ... . ....+-...+.++.+. ++++|+ +.+...+..+++.+++.|+. ++...++.+
T Consensus 148 a~~~~~~-~~~~~~--~~~-~---~~~~~~~~~~~~~l~~~~~~~~i~--~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPG-IEIVAT--QYS-D---SDYAKALDITEDLLTANPDLKGIF--GANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCC-cEEEec--ccC-C---cCHHHHHHHHHHHHHhCCCceEEE--ecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99888 7 665431 111 1 1122333455555433 355544 46778888999999999985 445555444
Q ss_pred c
Q 002454 269 T 269 (920)
Q Consensus 269 ~ 269 (920)
.
T Consensus 218 ~ 218 (273)
T cd06310 218 A 218 (273)
T ss_pred C
Confidence 3
No 126
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=98.13 E-value=0.00014 Score=76.67 Aligned_cols=212 Identities=15% Similarity=0.141 Sum_probs=130.7
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
.||+++|.. .........|++.+.++. |+.+.+...|... ......+.+++..+++.++|............
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~ 73 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRDT-----GYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNPELL 73 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHhC-----CCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCccHHH
Confidence 389999875 456677778888877653 6677666554332 22445556655557899888743332233445
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+...++|+|...... +. ...++ +..+....+..+++++...|.++++++..+..+.....-...+++.++
T Consensus 74 ~~~~~~~ipvv~i~~~~--~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 74 DLLDEAGVPYVRIAPGT--PD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHhcCCCEEEEecCC--CC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 56778899999886551 21 22233 456788888889999988899999999865543211333577888888
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEecc
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTNT 269 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t~~ 269 (920)
+.| .++.......... ...+..+.+.++.+ .++++|+. ++...+..+++.+++.|.. +.+...++-+.
T Consensus 146 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~~~~~~g~~~p~~i~vig~d~ 216 (270)
T cd01545 146 EAG-LPLDPELVAQGDF----TFESGLEAAEALLALPDRPTAIFA--SNDDMAAGVLAVAHRRGLRVPDDLSVVGFDD 216 (270)
T ss_pred HcC-CCCChhhEEeCCC----ChhhHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEEECC
Confidence 888 6542111111111 11222234444433 35677665 6678888999999999984 33444454443
No 127
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=98.12 E-value=0.00031 Score=74.23 Aligned_cols=214 Identities=13% Similarity=0.074 Sum_probs=130.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||++.|.- ...-.....+++.+.++. |++ +.+.+...+...-.+....++. +++.++| .|.........
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~~~~ 72 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR-----GFD--LKFADAQQKQENQISAIRSFIA-QGVDVIILAPVVETGWDPV 72 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc-----CCE--EEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCccccchHH
Confidence 489999843 333345555555555553 444 4456666677777777888876 4777664 45443332334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+.+.++|+|...... +. ....+++.++.+++...+..+++++... +-+++++++.+........-.+.+++
T Consensus 73 i~~~~~~~iPvV~~~~~~--~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 73 LKEAKAAGIPVILVDRGV--DV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHCCCCEEEEecCc--CC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 455778899999887541 11 1113456778899999999999999776 88899999765432111344677888
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEEe
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVT 267 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~t 267 (920)
++++.+..++... . ... ....+..+.+.++.+. ++++|+ +.+...+..+++.+++.|+.. ++...++-
T Consensus 149 ~l~~~~~~~~~~~--~-~~~---~~~~~~~~~~~~~l~~~~~~~~aI~--~~~d~~a~g~~~a~~~~g~~ip~di~iig~ 220 (273)
T cd06309 149 VIKKYPNMKIVAS--Q-TGD---FTRAKGKEVMEALLKAHGDDIDAVY--AHNDEMALGAIQAIKAAGKKPGKDIKIVSI 220 (273)
T ss_pred HHHHCCCCEEeec--c-CCc---ccHHHHHHHHHHHHHhCCCCccEEE--ECCcHHHHHHHHHHHHcCCCCCCCeEEEec
Confidence 8887631443321 1 111 1123334445554433 356654 467777788999999999863 44444444
Q ss_pred cc
Q 002454 268 NT 269 (920)
Q Consensus 268 ~~ 269 (920)
+.
T Consensus 221 d~ 222 (273)
T cd06309 221 DG 222 (273)
T ss_pred CC
Confidence 33
No 128
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.11 E-value=0.0016 Score=71.25 Aligned_cols=203 Identities=11% Similarity=0.006 Sum_probs=119.8
Q ss_pred CccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHH
Q 002454 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEE 109 (920)
Q Consensus 32 ~~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~ 109 (920)
..+-+||++.|.. .........+++.+.++. |+.+.+...+...+...-.+....++. ++|.+|| .|.....
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-----G~~l~i~~~~~~~~~~~q~~~i~~l~~-~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL-----GVDLKVLEAGGYYNLAKQQQQLEQCVA-WGADAILLGAVTPDG 117 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh-----CCEEEEEcCCCCCCHHHHHHHHHHHHH-hCCCEEEEeCCChHH
Confidence 3568899999875 333345556666666553 555544433333455555566677765 5787665 4544333
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-----CCeEEEEEEEeCCCCCCcc
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-----NWRRVAAIYEDNVYGGDSG 184 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-----~w~~v~ii~~~~~~g~~~~ 184 (920)
..... .+.+.++|+|...... . .... ...+.+++...+...++++... |-++++++..+........
T Consensus 118 ~~~~l-~~~~~giPvV~~~~~~--~--~~~~---~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 118 LNPDL-ELQAANIPVIALVNGI--D--SPQV---TTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred hHHHH-HHHHCCCCEEEecCCC--C--Cccc---eEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 22233 4667899999764331 1 1111 2346788888888888888665 4789999975432211134
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
-.+.+++.+++.| +++... ..... +.+.-.+.++++.+. ++++|+. +...+..+++.+++.|+.
T Consensus 190 R~~Gf~~~l~~~~-i~~~~~-~~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~---~d~~A~ga~~al~~~g~~ 255 (343)
T PRK10936 190 VEQGFRAAIAGSD-VRIVDI-AYGDN-----DKELQRNLLQELLERHPDIDYIAG---SAVAAEAAIGELRGRNLT 255 (343)
T ss_pred HHHHHHHHHhcCC-CEEEEe-ecCCC-----cHHHHHHHHHHHHHhCCCccEEEe---CCHHHHHHHHHHHhcCCC
Confidence 4677888888888 776542 11111 112233455554433 4676643 356788889999999984
No 129
>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=98.10 E-value=0.00015 Score=76.30 Aligned_cols=204 Identities=19% Similarity=0.234 Sum_probs=130.4
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE--cCCchHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEETAV 112 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii--Gp~~s~~~~~ 112 (920)
+||+++|.. .........+++.++++. |+.+ .+.|+..++....+....++.+ +|.++| ++..+ ..
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~---~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH-----GYTL--LVASSGYDLDREYAQARKLLER-GVDGLALIGLDHS---PA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEE--EEecCCCCHHHHHHHHHHHHhc-CCCEEEEeCCCCC---HH
Confidence 489999854 334456666776666664 4444 4578888888888888888864 676655 33322 23
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALL 189 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~---~g~~~~~~~~l 189 (920)
....+...++|+|...... + ....++ +..++...+..+++++...|.+++++|..... ++ ......+
T Consensus 70 ~~~~l~~~~iPvv~~~~~~--~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf 139 (268)
T cd06273 70 LLDLLARRGVPYVATWNYS--P---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRA--RARRAGV 139 (268)
T ss_pred HHHHHHhCCCCEEEEcCCC--C---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccH--HHHHHHH
Confidence 3445677899999876441 1 112333 55788888999999998889999999985432 23 4557888
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEE
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (920)
.+.+++.+ +.+.....+.... ..++..+.+.++.+ ..+++|+. ++...+..+++++++.|+.. .+...++
T Consensus 140 ~~~l~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~~~~~~l~~~g~~~p~~i~vig 212 (268)
T cd06273 140 RAALAEAG-LELPELWQVEAPY----SIADGRAALRQLLEQPPRPTAVIC--GNDVLALGALYEARRLGLSVPEDLSIVG 212 (268)
T ss_pred HHHHHHcC-CCCCHHHeeeCCC----cHHHHHHHHHHHHcCCCCCCEEEE--cChHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 89998887 6543222221111 12233455556543 35777665 67777888999999999853 3333443
Q ss_pred e
Q 002454 267 T 267 (920)
Q Consensus 267 t 267 (920)
-
T Consensus 213 ~ 213 (268)
T cd06273 213 F 213 (268)
T ss_pred c
Confidence 3
No 130
>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=98.10 E-value=0.00037 Score=73.70 Aligned_cols=211 Identities=15% Similarity=0.118 Sum_probs=128.5
Q ss_pred EEEEEeCC--CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 37 IGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 37 IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
||++.|.. .........|++.+.++. |+ ++.+.++..++....+....++. ++|.++|- +..++.....
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~-----g~--~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~~~~~~ 73 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEED-----GV--EVIVLDANGDVARQAAQVEDLIA-QKVDGIILWPTDGQAYIPG 73 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhc-----CC--EEEEEcCCcCHHHHHHHHHHHHH-cCCCEEEEecCCccccHHH
Confidence 78888863 445667777777777762 44 45566788888888888888876 47887744 5444333344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEE-eccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR-MASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r-~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
...+...++|+|..... .+ ....+++.. +.+++...+..+++.+.+. |-+++++++.+.+++......+.++
T Consensus 74 l~~~~~~~iPvV~~~~~--~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~ 148 (275)
T cd06317 74 LRKAKQAGIPVVITNSN--IS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFE 148 (275)
T ss_pred HHHHHHCCCcEEEeCCC--CC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHH
Confidence 45567899999977644 11 122344322 3456666777788887664 7789999986544331134457788
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc---CCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
+.+++.| ..+....... .. ....+....+.++.+ .++++|+. ++...+..+++++++.|+. .+...++.
T Consensus 149 ~~~~~~~-~~~~~~~~~~-~~---~~~~~~~~~~~~~l~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~-~dv~v~g~ 220 (275)
T cd06317 149 DELAEVC-PGVEVLDTQP-AD---WDREKAQVAMEALITKFGDDIDGVYA--GDDNMARGALNAAKEAGLA-GGIVIVGA 220 (275)
T ss_pred HHHHhhC-CCCEEEeccC-CC---CCHHHHHHHHHHHHHhCCCCccEEEE--CCCcHHHHHHHHHHhcCCc-CCcEEEEe
Confidence 8998886 4332221111 11 011222334444332 24677665 6667788999999999987 44444443
Q ss_pred c
Q 002454 268 N 268 (920)
Q Consensus 268 ~ 268 (920)
+
T Consensus 221 d 221 (275)
T cd06317 221 N 221 (275)
T ss_pred C
Confidence 3
No 131
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=98.08 E-value=0.0014 Score=71.15 Aligned_cols=219 Identities=13% Similarity=0.122 Sum_probs=141.2
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeE-EEEcCCchHHHHH
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEETAV 112 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~-aiiGp~~s~~~~~ 112 (920)
..+||++.+.. +..+..++..++++.-+.. |....+...|...|+....+..++++. +++. .++.|.++.....
T Consensus 33 ~~~i~~~~~~~---~~~f~~~~~~g~~~~a~~~-g~~~~~~~~~~~~d~~~Q~~~i~~~ia-~~~daIiv~~~d~~~~~~ 107 (322)
T COG1879 33 GKTIGVVVPTL---GNPFFQAVRKGAEAAAKKL-GVVVAVVIADAQNDVAKQIAQIEDLIA-QGVDAIIINPVDPDALTP 107 (322)
T ss_pred CceEEEEeccC---CChHHHHHHHHHHHHHHHc-CCcEEEEecccccChHHHHHHHHHHHH-cCCCEEEEcCCChhhhHH
Confidence 37899999876 3344444444444433331 235667777889999999999999986 4776 5557888888888
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH-cC-CeEEEEEEEeCCCCCCcchHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YN-WRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~-~~-w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
+..-+...+||+|....... .. ......+..+....+...++++.+ ++ .-+++++.....+.....-...++
T Consensus 108 ~v~~a~~aGIpVv~~d~~~~--~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~~ 181 (322)
T COG1879 108 AVKKAKAAGIPVVTVDSDIP--GP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGFR 181 (322)
T ss_pred HHHHHHHCCCcEEEEecCCC--CC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhHH
Confidence 99999999999999877722 21 233444555777777777888854 32 244666665543332355678889
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
+.+++.+ .++.......... +.+.-.+....+..+.+++-.+++.+...+....+.+++.|..+ ....++.|.
T Consensus 182 ~~l~~~~-~~~~v~~~~~~~~----~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~-~v~v~g~D~ 254 (322)
T COG1879 182 DALKEHP-PDIEVVDVQTGDW----DRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG-DVVVVGFDG 254 (322)
T ss_pred HHHHhCC-CcEEEeeccCCcc----cHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC-ceEEEEecC
Confidence 9999887 4322222122111 22334456666666777766665677777777788888888877 333333444
No 132
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.08 E-value=0.00056 Score=72.17 Aligned_cols=209 Identities=11% Similarity=0.049 Sum_probs=133.3
Q ss_pred EEEEEEeCC--CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEc-CCchHHHH
Q 002454 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAG-METWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~-d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~ 111 (920)
|||++.|.. .........+++.|.++. |+.+.+ .++.. ++....+...+++. +++.++|. |.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~-----g~~v~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~ 72 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL-----GVDVEY--RGPETFDVADMARLIEAAIA-AKPDGIVVTIPDPDALD 72 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh-----CCEEEE--ECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCCChHHhH
Confidence 588998864 344566777888777774 455544 44444 88777788888876 48887776 43333233
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.....+.+.++|++...... +... ..+.+..+..++...+..+++++.+ .|-++++++..+............++
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~--~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~ 148 (271)
T cd06312 73 PAIKRAVAAGIPVISFNAGD--PKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFA 148 (271)
T ss_pred HHHHHHHHCCCeEEEeCCCC--Cccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHH
Confidence 34455667899999886541 1111 2244566888899999999999988 89999999975433211145677888
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
+++++.+ ..+.. +.... ...+....++++.+. ++++|+. .+...+..+++.+++.|+. .+...++-
T Consensus 149 ~~~~~~~-~~~~~---~~~~~----~~~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~-~di~vvg~ 216 (271)
T cd06312 149 DGLGGAG-ITEEV---IETGA----DPTEVASRIAAYLRANPDVDAVLT--LGAPSAAPAAKALKQAGLK-GKVKLGGF 216 (271)
T ss_pred HHHHhcC-ceeeE---eecCC----CHHHHHHHHHHHHHhCCCccEEEE--eCCccchHHHHHHHhcCCC-CCeEEEEe
Confidence 8888888 65421 11111 113334455554333 4676554 6677788899999999987 44444443
No 133
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=98.05 E-value=0.00025 Score=74.58 Aligned_cols=210 Identities=11% Similarity=0.109 Sum_probs=130.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
.||+++|.. .........|++.+.++. |+++ .+.++..|+..-.+..++++. +++.++|...+........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~-----g~~~--~~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~ 72 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA-----GYTV--FLANSGEDVERQEQLLSTMLE-HGVAGIILCPAAGTSPDLL 72 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHHH-cCCCEEEEeCCCCccHHHH
Confidence 388999864 344556777777776664 4554 445666777777777777775 5888887754333333345
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+...++|+|...... +. ...+ .+.++....+..+++++...|-++++++..+..........+.+.+.++
T Consensus 73 ~~~~~~~ipvV~~~~~~--~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 73 KRLAESGIPVVLVAREV--AG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHhcCCCEEEEeccC--CC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 56778899999875441 11 1222 3667788888889999988899999998754332111455688888888
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEEec
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTN 268 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~t~ 268 (920)
+.| ..+.....+.... ........+.++... ++++|+. .+...+..+++.+++.|+.. ++...++.+
T Consensus 145 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 145 EAG-LPFDSELVVEGPP----SRQGGAEAVAQLLDLPPRPTAIVC--FNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HcC-CCCCchhEEecCc----chhhHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 877 5432211111111 112233445554333 4676654 66677888999999999853 344444443
No 134
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=98.03 E-value=0.00074 Score=71.22 Aligned_cols=213 Identities=13% Similarity=0.075 Sum_probs=131.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||+++|.. .........|++.+.++. ..+++++.++..++....+...+++. .+|.++| .|..+.....+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~------~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 73 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL------GGVELQFEDAKNDVATQLSQVENFIA-QGVDAIIVVPVDTAATAPI 73 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc------CCcEEEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEecCchhhhHHH
Confidence 589999864 333445555565555551 13556667888888888888888876 4788665 56554444455
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+...++|+|...... +.. .+.+..+..++...+..+++++... +-++++++...........-.+.+++
T Consensus 74 ~~~l~~~~iPvv~~~~~~--~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 74 VKAANAAGIPLVYVNRRP--ENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHCCCeEEEecCCC--CCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 566788999999875541 111 1234457788888888899998765 55699999765432111344577888
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++++.|..++... .. .. .+.......+.++.+. ++++|+ +++...+..+++.+++.|..+++...++-+.
T Consensus 148 ~l~~~~~~~~~~~--~~-~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 148 VLAKYPDIKVVEE--QT-AN---WSRAEAMDLMENWLSSGGKIDAVV--ANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHCCCcEEEec--CC-CC---ccHHHHHHHHHHHHHhCCCCCEEE--ECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 8887651222211 11 11 1112233455554333 467654 4777788899999999998754555555444
No 135
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=98.02 E-value=0.00052 Score=72.48 Aligned_cols=210 Identities=12% Similarity=0.087 Sum_probs=128.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcC-CchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp-~~s~~~~~v 113 (920)
+||+++|.. .........+++.+.++. |+. +.+.++..|+....+....++.. ++.++|.. .++.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~--~~~~~~~~~~~~~~~~l~~~~~~-~vdgii~~~~~~~~~~~~ 72 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL-----GGD--LRVYDAGGDDAKQADQIDQAIAQ-KVDAIIIQHGRAEVLKPW 72 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc-----CCE--EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhhHHH
Confidence 488898854 333455666776666654 444 44567888888888888888864 89988774 333333344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH--cCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~--~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+...++|+|...... +. +.+..+.+++...++.+++++.. .|.++++++... .......-...+++
T Consensus 73 i~~~~~~~ipvV~~~~~~--~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~-~~~~~~~R~~g~~~ 143 (273)
T cd06305 73 VKRALDAGIPVVAFDVDS--DN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVA-GFPPLDRRYDVWQA 143 (273)
T ss_pred HHHHHHcCCCEEEecCCC--CC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEcc-CCchHHHHHHHHHH
Confidence 455678899999886541 11 22335677888889989999876 588999999754 22111333456777
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--c--eEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--S--RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~--~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
.+++.+..++........ . ....+....++++.... + ++|+ +.+...+..+++.+++.|+.. +...++.
T Consensus 144 ~~~~~~~~~~~~~~~~~~-~---~~~~~~~~~~~~~l~~~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~~-di~iig~ 216 (273)
T cd06305 144 VLKAYPGIKEVAELGDVS-N---NTAQDAAAQVEAVLKKYPKGGIDAIW--AAWDEFAKGAKQALDEAGRTD-EIKIYGV 216 (273)
T ss_pred HHHHCCCcEEeccccccc-c---cchhHHHHHHHHHHHHCCCcccCeEE--EcChhhhHHHHHHHHHcCCCC-CceEEEe
Confidence 777654122222111110 0 11233445566654443 3 5444 467778888999999999864 3444444
Q ss_pred cc
Q 002454 268 NT 269 (920)
Q Consensus 268 ~~ 269 (920)
+.
T Consensus 217 d~ 218 (273)
T cd06305 217 DI 218 (273)
T ss_pred cC
Confidence 43
No 136
>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=97.98 E-value=0.00014 Score=77.48 Aligned_cols=116 Identities=16% Similarity=0.187 Sum_probs=72.5
Q ss_pred CCChHHhhhCCcccccc-cchHHH-----HHHHHhcCCCCC---ceeecC-CCHHHHHHHHhcCCeeEEEeechhHHHHH
Q 002454 673 VTDIQSLKSGNLKVGCV-DDSFVK-----KYLEEVLGFRSG---NIVPFG-NTEANYIQKFENNTIDSLFLERPYEKVFL 742 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~-~~~~~~-----~~l~~~~~~~~~---~~~~~~-~~~~~~~~~l~~~~~~a~~~~~~~~~~~~ 742 (920)
|++++||. |.++++. .++... ..+.+..+.... +.+.+. + ..+.++.|.+|++|+++.+......+.
T Consensus 127 i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~-~~~~~~al~~G~vDa~~~~~~~~~~~~ 203 (288)
T TIGR03431 127 IKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGS-HEAAILAVANGTVDAATTNDENLDRMI 203 (288)
T ss_pred CCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCc-hHHHHHHHHcCCCCeEeccHHHHHHHH
Confidence 79999995 6888874 333211 122222222211 123344 4 788999999999999999887766655
Q ss_pred hhcC-C---ceEEee-eeeecceeeEecCCC-c-chHHHHHHHHhhhccchHHHHH
Q 002454 743 DKYC-K---KYTAIN-TYRFGGLGFAFQRGS-P-IALDISRAILDLSEDGRLKTLE 791 (920)
Q Consensus 743 ~~~~-~---~~~~~~-~~~~~~~~~~~~k~s-p-~~~~~n~~i~~l~e~G~~~~~~ 791 (920)
+... . .+.+.. .-.....+++++++- + +.+.++++|.++.+++..+++.
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~~ 259 (288)
T TIGR03431 204 RKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFEK 259 (288)
T ss_pred HcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHHh
Confidence 4321 1 122221 111224578899994 4 9999999999999997665544
No 137
>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=97.96 E-value=0.0017 Score=68.55 Aligned_cols=204 Identities=10% Similarity=0.071 Sum_probs=125.1
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~va 114 (920)
||++.|.. ...-.....+++.+.++....+. .+.+.+.+...++....+....++. +++.+|| .|..........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~--g~~~~~~~~~~~~~~~~~~~~~l~~-~~vDgiii~~~~~~~~~~~i 78 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAYP--DVEFILVTASNDTEQQNAQQDLLIN-RKIDALVILPFESAPLTQPV 78 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhCC--CeEEEEEcCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCchhhHHHH
Confidence 78888643 33445666777777777654433 3556667777777666666666775 4677555 344333322333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
..+.+.+||+|...... +. .. .....+.+++...+..+++++... +.++++++..... .....-.+.+.+.
T Consensus 79 ~~~~~~gIpvV~~d~~~--~~--~~--~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~-~~~~~R~~gf~~~ 151 (274)
T cd06311 79 AKAKKAGIFVVVVDRGL--SS--PG--AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPT-PIDNERVDAFDAA 151 (274)
T ss_pred HHHHHCCCeEEEEcCCC--CC--Cc--ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCC-cchhHHHHHHHHH
Confidence 44667899999876541 11 11 112246788888888889988776 7889999976443 2224456788999
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+++.+ +++.... .... +.......+.++.+. ++++|+. .+...+..+++.+++.|...
T Consensus 152 l~~~~-~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~~ 211 (274)
T cd06311 152 IAKYP-IKILDRQ--YANW----NRDDAFSVMQDLLTKFPKIDAVWA--HDDDMAVGVLAAIKQAGRTD 211 (274)
T ss_pred HhhCC-cEEEecc--CCCC----cHHHHHHHHHHHHHhCCCcCEEEE--CCCcHHHHHHHHHHHcCCCC
Confidence 98888 7765321 1111 112233444454333 4666554 56667888999999999763
No 138
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.95 E-value=0.0048 Score=66.43 Aligned_cols=215 Identities=9% Similarity=-0.002 Sum_probs=123.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
+||++.|.. ...-.....|++-+.++ .|+.+.+...+...++....+...+++. +++.+||- +..+......
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~-----~g~~v~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKT-----LGVSVDIFASPSEGDFQSQLQLFEDLSN-KNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHH-----cCCeEEEecCCCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChHHHHHH
Confidence 699999864 33344555666655554 2566666544555676666777777775 47776654 3333222222
Q ss_pred HHhhccCCccEEeecCCCCCCCc--cCCCCceeEEeccCchHHHHHHHHHHHHc-CC--eEEEEEEEeCCCCCCcchHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLS--MSRRWPYLIRMASNDSEQMKCIADLARKY-NW--RRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~--~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~w--~~v~ii~~~~~~g~~~~~~~~ 188 (920)
...+...++|++...... +.. ..........+..+....+...++++... |. ++++++..+........-.+.
T Consensus 100 l~~~~~~giPvV~~~~~~--~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 100 VARAWKKGIYLVNLDEKI--DMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHCCCcEEEeCCCC--CcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 233456899999887541 211 11111223446788888899999988553 53 789888654332211445577
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
+++.+++.|.+++... ... . ....+....+.++.+. ++++|+ +.+...+..+++.+++.|.. .+...++
T Consensus 178 f~~al~~~~~~~~~~~--~~~-~---~~~~~~~~~~~~ll~~~~~~~~I~--~~~d~~A~g~~~al~~~G~~-~dv~vvg 248 (311)
T PRK09701 178 ATEAFKKASQIKLVAS--QPA-D---WDRIKALDVATNVLQRNPNIKAIY--CANDTMAMGVAQAVANAGKT-GKVLVVG 248 (311)
T ss_pred HHHHHHhCCCcEEEEe--cCC-C---CCHHHHHHHHHHHHHhCCCCCEEE--ECCcchHHHHHHHHHHcCCC-CCEEEEE
Confidence 8888877651332221 111 1 1112234455555433 466654 47777888999999999985 3343343
Q ss_pred e
Q 002454 267 T 267 (920)
Q Consensus 267 t 267 (920)
-
T Consensus 249 ~ 249 (311)
T PRK09701 249 T 249 (311)
T ss_pred e
Confidence 3
No 139
>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=97.93 E-value=0.00038 Score=73.40 Aligned_cols=202 Identities=14% Similarity=0.111 Sum_probs=132.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+++|.- .....+...|++.+.++. |+.+-+ .++..++..- +....|. +++|+++|=.........+.
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~-----Gy~l~l--~~t~~~~~~e-~~i~~l~-~~~vDGiI~~s~~~~~~~l~ 73 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREH-----GYQLLL--CNTGDDEEKE-EYIELLL-QRRVDGIILASSENDDEELR 73 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHT-----TCEEEE--EEETTTHHHH-HHHHHHH-HTTSSEEEEESSSCTCHHHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHc-----CCEEEE--ecCCCchHHH-HHHHHHH-hcCCCEEEEecccCChHHHH
Confidence 699999987 333445555665555553 665544 5556666655 5555554 56888766443333334566
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeE-EEEEEEeCCCCCCcchHHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRR-VAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~-v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
.+.+. ++|+|....... .....|+ +..++...+..+++++.+.|.++ ++++..+.+......-.+.+++++
T Consensus 74 ~~~~~-~iPvV~~~~~~~----~~~~~~~---V~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 74 RLIKS-GIPVVLIDRYID----NPEGVPS---VYIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHT-TSEEEEESS-SC----TTCTSCE---EEEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHc-CCCEEEEEeccC----CcccCCE---EEEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 66666 999998765511 1113344 44667778888999999999999 999998765421144556789999
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCce--EEEEEecCHhHHHHHHHHHHHcC-CCCCC
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR--VFIVLQASLDMTIHLFTEANRMG-LVGKD 261 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~--vii~~~~~~~~~~~~l~~a~~~g-~~~~~ 261 (920)
++.| +.+.......... +.++-...++++.+.+|+ +|+ +++...+..+++.+++.| ...+.
T Consensus 146 ~~~G-l~~~~~~i~~~~~----~~~~g~~~~~~ll~~~p~idai~--~~nd~~A~ga~~~l~~~gr~~ip~ 209 (279)
T PF00532_consen 146 KEAG-LPIDEEWIFEGDF----DYESGYEAARELLESHPDIDAIF--CANDMMAIGAIRALRERGRLKIPE 209 (279)
T ss_dssp HHTT-SCEEEEEEEESSS----SHHHHHHHHHHHHHTSTT-SEEE--ESSHHHHHHHHHHHHHTT-TCTTT
T ss_pred HHcC-CCCCcccccccCC----CHHHHHHHHHHHHhhCCCCEEEE--EeCHHHHHHHHHHHHHcCCcccCh
Confidence 9999 8655544433222 234445666777666666 765 488999999999999999 65543
No 140
>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=97.93 E-value=0.00064 Score=71.50 Aligned_cols=208 Identities=16% Similarity=0.142 Sum_probs=128.3
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+++|.. ...-.....+++-+.++. |+.+.+. .+..++....+..+.++. ++++++|-..+.. .....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~-~~~~~ 71 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-----KYNIILS--NSDNDKEKELKVLNNLLA-KQVDGIIFMGGKI-SEEHR 71 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-----CCeEEEE--eCCCCHHHHHHHHHHHHH-hcCCEEEEeCCCC-cHHHH
Confidence 378888864 333445555666555543 5565544 445677766777777765 5888777321111 12344
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC---CCCCcchHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALLAE 191 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~---~g~~~~~~~~l~~ 191 (920)
..+...++|+|..... .+ ....+ ...+++...+..+++++...|-++++++..+.. .+ ......+++
T Consensus 72 ~~l~~~~ipvV~~~~~--~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~--~~r~~gf~~ 141 (268)
T cd06298 72 EEFKRSPTPVVLAGSV--DE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSING--DERLAGYKE 141 (268)
T ss_pred HHHhcCCCCEEEEccc--cC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccch--hHHHHHHHH
Confidence 4566779999988654 11 11223 357788888888999998889999999985443 33 666788899
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC-ceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEEecc
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVTNT 269 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~t~~ 269 (920)
.+++.| .++.......... +.......+.++.+.. +++|+. ++...+..+++.+++.|+.. .+..+++-+.
T Consensus 142 ~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~di~vvg~d~ 214 (268)
T cd06298 142 ALSEAN-IEFDESLIFEGDY----TYESGYELAEELLEDGKPTAAFV--TDDELAIGILNAAQDAGLKVPEDFEIIGFNN 214 (268)
T ss_pred HHHHcC-CCCCHHHeEeCCC----ChhHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCccceEEEeecc
Confidence 998888 6643221111111 1122334555655444 677765 56666889999999999853 3444554443
No 141
>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=97.90 E-value=0.00092 Score=70.24 Aligned_cols=195 Identities=12% Similarity=0.078 Sum_probs=119.9
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
||++.|.. ...-.....+++.|.++. |+.+ .+.|+..++....+....++. .+|+++|......... ...
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~~~~-~~vdgiii~~~~~~~~-~~~ 72 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA-----GYGV--LLGDTRSDPEREQEYLDLLRR-KQADGIILLDGSLPPT-ALT 72 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCHH-HHH
Confidence 78888865 333445566666666652 4554 556777787766666666554 5888777632221222 222
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC--CCCCcchHHHHHHHH
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~l 193 (920)
.. ..++|+|..... . .. +.+..+..++...++.+++++...|.++++++..+.. .+ ......+.+.+
T Consensus 73 ~~-~~~ipvv~~~~~---~--~~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~~ 141 (267)
T cd06284 73 AL-AKLPPIVQACEY---I--PG---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLA--RDRLEGYRQAL 141 (267)
T ss_pred HH-hcCCCEEEEecc---c--CC---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhH--HHHHHHHHHHH
Confidence 33 359999977533 1 11 2223467788888899999998889999999976432 23 45567888899
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
++.| +++.......... ...+..+.+.++.+. .+++|+. ++...+..+++++++.|..
T Consensus 142 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~al~~~g~~ 201 (267)
T cd06284 142 AEAG-LPADEELIQEGDF----SLESGYAAARRLLALPDRPTAIFC--FSDEMAIGAISALKELGLR 201 (267)
T ss_pred HHcC-CCCCcceEEeCCC----ChHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 8887 6543221111111 112334455554333 4677665 5666688899999999985
No 142
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.84 E-value=0.005 Score=66.89 Aligned_cols=209 Identities=12% Similarity=0.091 Sum_probs=116.1
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~ 110 (920)
.+.+||++.|.. ...-.+...+++.+.++. +++ .+++.++..++....+...+++. .+|.++|= +..+...
T Consensus 23 ~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~----g~~--~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~ 95 (330)
T PRK15395 23 ADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA----PDV--QLLMNDSQNDQSKQNDQIDVLLA-KGVKALAINLVDPAAA 95 (330)
T ss_pred CCceEEEEEecCcchHHHHHHHHHHHHHHhc----CCe--EEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEeccCHHHH
Confidence 458899999843 223344455555554443 123 34455666677666666666665 57886664 3333333
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc------------CCeEEEEEEEeCC
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------------NWRRVAAIYEDNV 178 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~------------~w~~v~ii~~~~~ 178 (920)
......+...++|+|...... ........+-...+..++...+..+++++.++ |-.++++|.....
T Consensus 96 ~~~l~~l~~~giPvV~vd~~~--~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~~ 173 (330)
T PRK15395 96 PTVIEKARGQDVPVVFFNKEP--SRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEPG 173 (330)
T ss_pred HHHHHHHHHCCCcEEEEcCCc--cccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCCC
Confidence 334455677899999987641 11111111222346777877777766666442 3334455544322
Q ss_pred CCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC----CceEEEEEecCHhHHHHHHHHHHH
Q 002454 179 YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEANR 254 (920)
Q Consensus 179 ~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~----~~~vii~~~~~~~~~~~~l~~a~~ 254 (920)
......-...+++++++.| +.+.... ..... .....-.+.+.++.+. ++++|+ +++...+..+++.+++
T Consensus 174 ~~~~~~R~~G~~~al~~~g-~~~~~~~-~~~~~---~~~~~a~~~~~~~l~~~~~~~~~ai~--~~~d~~A~gvl~al~~ 246 (330)
T PRK15395 174 HPDAEARTTYVIKELNDKG-IKTEQLQ-LDTAM---WDTAQAKDKMDAWLSGPNANKIEVVI--ANNDAMAMGAVEALKA 246 (330)
T ss_pred CchHHHHHHHHHHHHHhcC-CCeeeee-cccCC---cCHHHHHHHHHHHHhhCcCCCeeEEE--ECCchHHHHHHHHHHh
Confidence 1111334677888898888 6654321 21111 1112333455554432 356655 4777888899999999
Q ss_pred cCC
Q 002454 255 MGL 257 (920)
Q Consensus 255 ~g~ 257 (920)
.|+
T Consensus 247 ~Gl 249 (330)
T PRK15395 247 HNK 249 (330)
T ss_pred cCC
Confidence 997
No 143
>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=97.83 E-value=0.0013 Score=69.02 Aligned_cols=208 Identities=12% Similarity=0.101 Sum_probs=124.2
Q ss_pred EEEEEeCC-----CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 37 IGAIVDAN-----SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 37 IG~i~p~s-----~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
||+++|.. .........+++.+.++ .|+.+.+...++. ....+.+.+++.++++.++|.........
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~-----~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~~~~ 73 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE-----HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRPDDP 73 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH-----CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCCCCh
Confidence 78898862 23344555566555544 2666666554432 23445566777666788777643322222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
....+...++|+|...... + ....++ +.+++...+..+++++...|.++++++.............+.+++
T Consensus 74 -~~~~~~~~~ipvV~~~~~~--~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 144 (268)
T cd06271 74 -RVALLLERGFPFVTHGRTE--L---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYRR 144 (268)
T ss_pred -HHHHHHhcCCCEEEECCcC--C---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHHH
Confidence 2345667899999875441 1 123344 457788888889999988899999999765432211445678889
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCC-CeEEEEec
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK-DSVWIVTN 268 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~-~~~~i~t~ 268 (920)
.+++.| ..+.....+.... ......+.+.++.+. .+++|+. ++...+..+++.+++.|+..+ +...++-+
T Consensus 145 ~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~vp~~i~iig~d 217 (268)
T cd06271 145 ALAEAG-LPLDPALIVSGDM----TEEGGYAAAAELLALPDRPTAIVC--SSELMALGVLAALAEAGLRPGRDVSVVGFD 217 (268)
T ss_pred HHHHhC-CCCCCceEEeCCC----ChHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHhCCCCCcceeEEEec
Confidence 998888 6542222222111 112334455554332 4777766 566777889999999998533 34444333
No 144
>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=97.83 E-value=0.0039 Score=66.89 Aligned_cols=218 Identities=9% Similarity=0.080 Sum_probs=124.6
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||++.|.. ...-.....+++.+.++. +..+.+.+.+...++..-.+...+++. ++|.++| .|..+.....+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~-----~~g~~~~~~~~~~~~~~q~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 74 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN-----GGKVEFTFYDAKNNQSTQNEQIDTALA-KGVDLLAVNLVDPTAAQTV 74 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh-----CCCeeEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEecCchhhHHHH
Confidence 589999854 333345556666666654 234556666777888877777878876 4787555 45444433445
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCe-----------EEEEEEEeCCCC
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWR-----------RVAAIYEDNVYG 180 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~-----------~v~ii~~~~~~g 180 (920)
...+...++|+|...... +.......+-+..+.+++...+..+++++... +-+ .++++..+....
T Consensus 75 ~~~~~~~giPvV~~~~~~--~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 75 INKAKQKNIPVIFFNREP--EEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHCCCCEEEeCCCC--cccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 556677899999876541 21111112223456778887888888887553 221 234454432221
Q ss_pred CCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 181 ~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
....-...+++.+++.| ..+.......... ........+.++... ++++|+. .+...+..+++++++.|.
T Consensus 153 ~~~~R~~gf~~~l~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~L~~~~~~~~ai~~--~~d~~a~g~~~al~~~g~ 225 (303)
T cd01539 153 DAIARTKYSIETLNDAG-IKTEELASDTANW----DRAQAKDKMDALLLKYGDKIEAVIA--NNDAMALGAIEALQKYGY 225 (303)
T ss_pred hhhhhhhhHHHHHHhcC-CCeEEEEeecCCC----CHHHHHHHHHHHHHhcCCCccEEEE--CCchHHHHHHHHHHHcCC
Confidence 11334567888998887 6543221111111 112233445554332 3666554 667777789999999998
Q ss_pred CCC----CeEEEEec
Q 002454 258 VGK----DSVWIVTN 268 (920)
Q Consensus 258 ~~~----~~~~i~t~ 268 (920)
..+ +...++.+
T Consensus 226 ~~p~~~~di~iig~d 240 (303)
T cd01539 226 NKGDKSKNIPVVGVD 240 (303)
T ss_pred CcCCCCCceEEEccC
Confidence 653 44444443
No 145
>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=97.82 E-value=0.0013 Score=69.17 Aligned_cols=200 Identities=12% Similarity=0.108 Sum_probs=121.1
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
.||+++|.. .........+++.+.++. |+++. +.++..++....+..+.++. +++++||=.........+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 72 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ-----GYNLI--LCNTEGDPERQRSYLRMLAQ-KRVDGLLVMCSEYDQPLLA 72 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEEE--EEeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCChHHHH
Confidence 388999864 344556667777666653 45554 45666677766677777765 4677555322221222223
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
.+....++|+|...... + ....++ +..++...+..+++++...|-++++++...............+.+.++
T Consensus 73 ~l~~~~~ipvV~i~~~~--~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 73 MLERYRHIPMVVMDWGP--E---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHhcCCCCEEEEeccc--C---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 33345799999876541 1 122233 557777788888999988899999999754332111345677888888
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.| .++.......... +.....+.++++.+. .+++|+. ++...+..+++.+++.|..
T Consensus 145 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ 203 (269)
T cd06275 145 EAG-LPVNPGWIVEGDF----ECEGGYEAMQRLLAQPKRPTAVFC--GNDLMAMGALCAAQEAGLR 203 (269)
T ss_pred HcC-CCCCHHHhccCCC----ChHHHHHHHHHHHcCCCCCcEEEE--CChHHHHHHHHHHHHcCCC
Confidence 888 6643211111111 112334455565433 4676554 7778888999999999974
No 146
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=97.82 E-value=0.0028 Score=66.74 Aligned_cols=210 Identities=14% Similarity=0.126 Sum_probs=126.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||++.|.. .....+...+++.+.++. .|+.+ .+.++..++..-.+..++++. .++.+|| .|.........
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~----~g~~~--~~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~ 73 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY----PDVEL--IIADAADDNSKQVADIENFIR-QGVDLLIISPNEAAPLTPV 73 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc----CCcEE--EEEcCCCCHHHHHHHHHHHHH-hCCCEEEEecCchhhchHH
Confidence 488998853 223344455554444432 25555 445666777777777777775 4777554 34333322233
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+.+.++|++...... + .. .+...+..++...+..+++++.+. |-++++++...........-.+.+++
T Consensus 74 ~~~~~~~~ipvV~~~~~~--~--~~---~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 74 VEEAYRAGIPVILLDRKI--L--SD---KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHCCCCEEEeCCCC--C--Cc---cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 344567899999886441 1 11 223346678888899999999775 88999999754432211344677888
Q ss_pred HHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 192 ~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
.+++. | +++.... ... .+..+....+.++.++ ++++|+. .+...+..+++.+++.|+. .+...++-+
T Consensus 147 ~l~~~~~-~~~~~~~---~~~---~~~~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPK-IKIVAQQ---DGD---WLKEKAEEKMEELLQANPDIDLVYA--HNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCC-CEEEEec---CCC---ccHHHHHHHHHHHHHhCCCCcEEEe--CCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 99888 7 7654321 111 0112223344454322 4676554 6788888999999999987 555555544
Q ss_pred c
Q 002454 269 T 269 (920)
Q Consensus 269 ~ 269 (920)
.
T Consensus 217 ~ 217 (270)
T cd06308 217 G 217 (270)
T ss_pred C
Confidence 4
No 147
>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=97.79 E-value=0.0023 Score=67.20 Aligned_cols=199 Identities=12% Similarity=0.153 Sum_probs=123.7
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
.||++.|.. ...-.....+++.|.++. |+.+ .+.+...++........+++. .++.+||-.........+
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~~-~~~dgiii~~~~~~~~~l- 71 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH-----GYQV--LVCNSDNDPEKEKEYLESLLA-YQVDGLIVNPTGNNKELY- 71 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-----CCEE--EEEcCCCCHHHHHHHHHHHHH-cCcCEEEEeCCCCChHHH-
Confidence 378999865 334556677777776654 4444 445666677666677777775 477766532222222223
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEAL 193 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~l 193 (920)
..+...++|+|...... + ... +..+..++...+..+++++...|-++++++..... ..........+++.+
T Consensus 72 ~~~~~~~ipvV~~~~~~--~---~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 72 QRLAKNGKPVVLVDRKI--P---ELG---VDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred HHHhcCCCCEEEEcCCC--C---CCC---CCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 44567899999886541 1 112 22355677888889999998889999999976543 211134567788888
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
++.| ............. ...+..+.+.++.+. .+++|+. ++...+..+++.+++.|+.
T Consensus 144 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ 203 (267)
T cd06283 144 AEHG-IGVNEELIEIDDE----DADELDERLRQLLNKPKKKTAIFA--ANGLILLEVLKALKELGIR 203 (267)
T ss_pred HHcC-CCCCcceeEeccc----chHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 8877 5432221111111 123445566666544 4677665 6677788899999999985
No 148
>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=97.79 E-value=0.0024 Score=67.22 Aligned_cols=208 Identities=10% Similarity=0.068 Sum_probs=126.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
.||+++|.. .........|++.+.++. |+.+.+ .++..++..-.+....++. .+|.+||--.+...... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~-----g~~~~~--~~~~~~~~~~~~~i~~~~~-~~vdgii~~~~~~~~~~-~ 71 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA-----GKHLII--TAGHHSAEKEREAIEFLLE-RRCDALILHSKALSDDE-L 71 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC-----CCEEEE--EeCCCchHHHHHHHHHHHH-cCCCEEEEecCCCCHHH-H
Confidence 388999865 444556666776666663 555554 4444566655666666765 57887775332212222 3
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+...++|+|...... + ....++ +..++...++.+++++...|-++++++..+........-.+.+++.++
T Consensus 72 ~~~~~~~ipvV~~~~~~--~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 72 IELAAQVPPLVLINRHI--P---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHhhCCCCEEEEeccC--C---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 44567899999886541 1 111232 568888899999999988899999999764332111344677888888
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
+.| .+........... ...+..+.+.++.++ .+++|+. ++...+..+++.+++.|+. +.+...++-
T Consensus 144 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~di~v~g~ 212 (268)
T cd06270 144 EAG-IALDESLIIEGDF----TEEGGYAAMQELLARGAPFTAVFC--ANDEMAAGAISALREHGISVPQDVSIIGF 212 (268)
T ss_pred HcC-CCCCcceEEECCC----CHHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceeEEEe
Confidence 888 6542221111111 123345556665544 4676654 6677888899999999985 334443433
No 149
>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=97.76 E-value=0.0045 Score=65.17 Aligned_cols=208 Identities=12% Similarity=0.052 Sum_probs=126.9
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEE-EcCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~ai-iGp~~s~~~~~v 113 (920)
+||+++|.. ...-.+...+++.+.++. |..+.+.+.++..++..-.+....++. .++.++ +.|.........
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~dgiIi~~~~~~~~~~~ 74 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL-----NPGVKVTVVSADYDLNKQVSQIDNFIA-AKVDLILLNAVDSKGIAPA 74 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh-----CCCeEEEEccCCCCHHHHHHHHHHHHH-hCCCEEEEeCCChhHhHHH
Confidence 489999865 333455666666666664 234556666777787766666767665 467654 445443322333
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+.+.++|+|..... .+ .. ...+.+++...++.+++++... |.++++++....... ...-.+.+++
T Consensus 75 i~~~~~~~ipvv~~~~~--~~----~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~-~~~R~~g~~~ 144 (271)
T cd06321 75 VKRAQAAGIVVVAVDVA--AE----GA---DATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSA-VLDRVAGCKA 144 (271)
T ss_pred HHHHHHCCCeEEEecCC--CC----Cc---cceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCch-HHHHHHHHHH
Confidence 34456679999998654 12 11 1246788888889999999777 999999997653321 1344577888
Q ss_pred HHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 192 ~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
.+++. + .+..... ..... +. ..-...+.++.+. ++++|+. .+...+..+++.+++.|+ .+..+++.+
T Consensus 145 ~~~~~~~-~~~~~~~-~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 145 ALAKYPG-IKLLSDD-QNGKG---SR-DGGLRVMQGLLTRFPKLDGVFA--INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHHhCCC-cEEEeee-cCCCC---Ch-hhHHHHHHHHHHhCCCCCEEEE--CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 88887 5 5432211 11111 11 1223345554333 4677655 677788889999999998 344555444
Q ss_pred c
Q 002454 269 T 269 (920)
Q Consensus 269 ~ 269 (920)
.
T Consensus 215 ~ 215 (271)
T cd06321 215 G 215 (271)
T ss_pred C
Confidence 3
No 150
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.74 E-value=0.0013 Score=69.08 Aligned_cols=198 Identities=15% Similarity=0.108 Sum_probs=121.2
Q ss_pred EEEEEEeCC--CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHH
Q 002454 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~v 113 (920)
.||+++|.. .........+++.+.++. |+.+ .+.++..++..-.+....+.. .+++++|-....... +
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~~-~~~dgiii~~~~~~~--~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-----GYLL--LVVNTGGDDELEAEAVEALLD-HRVDGIIYATMYHRE--V 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCCCh--h
Confidence 489999874 444556667777766653 4554 444555566555566666664 577776664322111 1
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
.......++|++...... +. ... ..+.+++...+..+++++...|.++++++..+............+.+.+
T Consensus 71 ~~~~~~~~ipvv~~~~~~--~~---~~~---~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 TLPPELLSVPTVLLNCYD--AD---GAL---PSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred HHHHHhcCCCEEEEeccc--CC---CCC---CeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 122345789999875441 11 222 3467888888999999998889999999986543211144567788888
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
++.| .++.......... ...+....+.++.+. ++++|+. ++...+..+++.+++.|+.
T Consensus 143 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~ 202 (269)
T cd06288 143 AEAG-IPFDPDLVVHGDW----SADDGYEAAAALLDLDDRPTAIFC--GNDRMAMGAYQALLERGLR 202 (269)
T ss_pred HHcC-CCCCHHHeEeCCC----ChHHHHHHHHHHHhCCCCCCEEEE--eCcHHHHHHHHHHHHcCCC
Confidence 8887 6532211111111 112334455555433 4677754 7777888899999999985
No 151
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.74 E-value=0.0089 Score=64.83 Aligned_cols=204 Identities=9% Similarity=-0.006 Sum_probs=121.0
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~ 110 (920)
...+||++.|.. .........|++-+.++. |+.+. +.++..++..-.+....++. ++|+++|= +......
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~-----g~~l~--i~~~~~~~~~~~~~i~~l~~-~~vDGiIi~~~~~~~~ 95 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESL-----GAKVF--VQSANGNEETQMSQIENMIN-RGVDVLVIIPYNGQVL 95 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHc-----CCEEE--EECCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChhhH
Confidence 468999999855 445556666666666553 44544 45666777777777777775 57886653 3332222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCC-CCcchHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG-GDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g-~~~~~~~~l 189 (920)
......+...++|+|...... + .. +....+.+++...++.+++++...+.++++++....... ........+
T Consensus 96 ~~~l~~~~~~~iPvV~id~~~--~---~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~gf 168 (330)
T PRK10355 96 SNVIKEAKQEGIKVLAYDRMI--N---NA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAGQ 168 (330)
T ss_pred HHHHHHHHHCCCeEEEECCCC--C---CC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHHH
Confidence 334455678899999875441 1 11 112257789999999999999888888877665422110 003345666
Q ss_pred HHHHhcc---CCceEeEEeecCCCCCCCCChHHHHHHHHhhc-c--CCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 190 AEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-D--KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 190 ~~~l~~~---g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~-~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
++.+++. |.+++.... .. .. ....+....++++. + ..+++|+ +.+...+..+++.+++.|+.
T Consensus 169 ~~~l~~~~~~~~i~~~~~~-~~-~~---~~~~~~~~~~~~lL~~~~~~~~aI~--~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 169 MKVLKPYIDSGKIKVVGDQ-WV-DG---WLPENALKIMENALTANNNKIDAVV--ASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHhhhccCCCeEEeccc-CC-CC---CCHHHHHHHHHHHHHhCCCCccEEE--ECCCchHHHHHHHHHHCCCC
Confidence 7777653 202221111 10 01 11122334445543 2 2467655 47788888999999999986
No 152
>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=97.73 E-value=0.0023 Score=66.86 Aligned_cols=195 Identities=13% Similarity=0.086 Sum_probs=124.2
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
||+++|.- .........+++.+.++. |+++ .+.++..++..-.+..++++. +++.++|....... ..+..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~~dgii~~~~~~~-~~~~~ 72 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN-----GYQM--LLMNTNFSIEKEIEALELLAR-QKVDGIILLATTIT-DEHRE 72 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC-HHHHH
Confidence 78888754 344456777777766653 5555 445566778777777888775 58888886433222 23445
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeC-CCCCCcchHHHHHHHHh
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGKLALLAEALQ 194 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~-~~g~~~~~~~~l~~~l~ 194 (920)
.+.+.++|+|..... .+ ..+ .+.++....+..+++++.+.+-++++++.... ...........+++.++
T Consensus 73 ~~~~~~ipvv~~~~~--~~-----~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 73 AIKKLNVPVVVVGQD--YP-----GIS---SVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHhcCCCCEEEEecc--CC-----CCC---EEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 566778999988643 11 222 36678888899999999888999999986432 21111345678889999
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC-ceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+.| .+.. ....... ......+.+.++.+.. +++|+. ++...+..+++.+++.|+..
T Consensus 143 ~~~-~~~~-~~~~~~~-----~~~~~~~~~~~~l~~~~~~~i~~--~~d~~a~g~~~~l~~~g~~v 199 (259)
T cd01542 143 EHG-ICPP-NIVETDF-----SYESAYEAAQELLEPQPPDAIVC--ATDTIALGAMKYLQELGRRI 199 (259)
T ss_pred HcC-CChH-HeeeccC-----chhhHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 888 5111 1111111 1123344555554444 677665 66778889999999999864
No 153
>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=97.73 E-value=0.0045 Score=65.59 Aligned_cols=215 Identities=12% Similarity=0.078 Sum_probs=120.8
Q ss_pred EEEEEEeCC--CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCC--CCHHHHHHHHHHHhhcCCeEEEEcCCchH-HH
Q 002454 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAGMETWE-ET 110 (920)
Q Consensus 36 ~IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~d~~~a~~~a~~li~~~~v~aiiGp~~s~-~~ 110 (920)
|||+++|.. .........+++.+.+ + .|+.+.+...++. .++..-.+....++. ++|.+||=...+. ..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~---~--~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLE---E--LNIPYELTQFSSRPGIDHRLQSQQLNEALQ-SKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHH---H--cCCcEEEEEeccCcccCHHHHHHHHHHHHH-cCCCEEEEcCCchhhH
Confidence 589999863 1222233333333333 2 2677776654433 355555666666665 5788776532222 22
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH--cCCeEEEEEEEeCCCCCCcchHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~--~~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
..+.. +.+.++|.+...... .+.......+..-.+.+++...+..+++++.. .|.++++++.....+. ...-.+.
T Consensus 75 ~~~~~-l~~~~~p~V~i~~~~-~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~-~~~R~~g 151 (280)
T cd06303 75 KLIER-VLASGKTKIILQNIT-TPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYI-STARGDT 151 (280)
T ss_pred HHHHH-HHhCCCCeEEEeCCC-CCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcc-hhHHHHH
Confidence 33333 444566766653321 11100000122344677888888889998877 7899999997643321 1445678
Q ss_pred HHHHHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 189 LAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 189 l~~~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
+++++++. | +++... ..... +..+....+.++.+. ++++|+ +++...+..+++.+++.|+. ++...+
T Consensus 152 f~~al~~~~~-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~nd~~A~g~l~al~~~G~~-~dv~vv 221 (280)
T cd06303 152 FIDCVHARNN-WTLTSE--FYTDA----TRQKAYQATSDILSNNPDVDFIY--ACSTDIALGASDALKELGRE-DDILIN 221 (280)
T ss_pred HHHHHHhCCC-ceEEEe--ecCCC----CHHHHHHHHHHHHHhCCCCcEEE--ECCcHHHHHHHHHHHHcCCC-CCcEEE
Confidence 88889887 6 654321 11111 122334455555433 456655 47788888999999999986 445455
Q ss_pred Eecc
Q 002454 266 VTNT 269 (920)
Q Consensus 266 ~t~~ 269 (920)
+-+.
T Consensus 222 g~d~ 225 (280)
T cd06303 222 GWGG 225 (280)
T ss_pred ecCC
Confidence 4433
No 154
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.72 E-value=0.0022 Score=67.32 Aligned_cols=207 Identities=11% Similarity=0.121 Sum_probs=123.0
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
||++.|.. ...-.....+++.+.++. |+.+ .+.+...++..-.+...+++. +++.++|-...... .....
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~-~~~~~ 72 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAA-----GYQL--LLGNTGYSPEREEELLRTLLS-RRPAGLILTGLEHT-ERTRQ 72 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHc-----CCEE--EEecCCCCchhHHHHHHHHHH-cCCCEEEEeCCCCC-HHHHH
Confidence 78999864 333345555666655553 4554 445555566666666777765 57887764322212 22334
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (920)
.+...++|+|..... .+ . +....+..+....+..+++++...|.++++++..+........-...+++.+++
T Consensus 73 ~~~~~~ipvv~~~~~--~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~ 144 (268)
T cd01575 73 LLRAAGIPVVEIMDL--PP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRA 144 (268)
T ss_pred HHHhcCCCEEEEecC--CC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHH
Confidence 455679999987433 11 1 122245677888888899999988999999998764311113445778888888
Q ss_pred cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
.| ............. ......+.+.++.+. ++++|+. ++...+..+++.+++.|.. +++...++-
T Consensus 145 ~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~di~vig~ 212 (268)
T cd01575 145 AG-LDPPLVVTTPEPS----SFALGRELLAELLARWPDLDAVFC--SNDDLALGALFECQRRGISVPEDIAIAGF 212 (268)
T ss_pred cC-CCCCceeEeccCC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCcceEEEec
Confidence 87 5332222111111 112334455555433 5677665 6677788899999999974 344444443
No 155
>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=97.72 E-value=0.0025 Score=67.28 Aligned_cols=207 Identities=14% Similarity=0.135 Sum_probs=119.4
Q ss_pred EEEEEEEeCC--------CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CC
Q 002454 35 TKIGAIVDAN--------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-ME 105 (920)
Q Consensus 35 i~IG~i~p~s--------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~ 105 (920)
-.||+++|.. .........|++.+.++ .|+++.+...+. + . .+.+.+.+...++.+||- +.
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~v~~~~~--~--~-~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE-----RGYDLLLSFVSS--P--D-RDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHH-----cCCEEEEEeCCc--h--h-HHHHHHHHHhCCCCEEEEeCC
Confidence 4689999863 11233344445444333 366766654433 2 1 233445554457887653 32
Q ss_pred chHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch
Q 002454 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (920)
Q Consensus 106 ~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (920)
... . .....+...++|+|...... + ... +..+.+++...+..+++++...|.++++++..+.........
T Consensus 74 ~~~-~-~~~~~~~~~~ipvV~~~~~~--~---~~~---~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r 143 (275)
T cd06295 74 HDQ-D-PLPERLAETGLPFVVWGRPL--P---GQP---YCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEER 143 (275)
T ss_pred CCC-h-HHHHHHHhCCCCEEEECCcc--C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHH
Confidence 222 2 22345677899999876541 2 122 334677888889999999988899999999865432111445
Q ss_pred HHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCe
Q 002454 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDS 262 (920)
Q Consensus 186 ~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~ 262 (920)
...+.+.+++.| ..+.......... ........+.++.++ ++++|+. ++...+..+++.+++.|.. +++.
T Consensus 144 ~~gf~~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~~l~~~g~~ip~~i 216 (275)
T cd06295 144 LEGYREALAEAG-LPLDPRLVAPGDF----TEESGRAAMRALLERGPDFDAVFA--ASDLMALGALRALREAGRRVPEDV 216 (275)
T ss_pred HHHHHHHHHHcC-CCCChhhEEeccC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCccce
Confidence 678888888877 5433221111111 112233445554333 4677766 5567778899999999984 3344
Q ss_pred EEEEec
Q 002454 263 VWIVTN 268 (920)
Q Consensus 263 ~~i~t~ 268 (920)
..++-+
T Consensus 217 ~ii~~d 222 (275)
T cd06295 217 AVVGFD 222 (275)
T ss_pred EEEeeC
Confidence 444443
No 156
>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=97.71 E-value=0.0071 Score=63.52 Aligned_cols=195 Identities=15% Similarity=0.128 Sum_probs=120.1
Q ss_pred EEEEEeCCC-cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHHH
Q 002454 37 IGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~va 114 (920)
||++.|... ..-.+...+++.+.++ .|+.+ .+.++..++....+...+++. +++.++|- |..+.......
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~-----~g~~~--~i~~~~~~~~~~~~~~~~~~~-~~vdgiii~~~~~~~~~~~~ 73 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK-----QKVNL--IVSIANQDLNKQLSDVEDFIT-KKVDAIVLSPVDSKGIRAAI 73 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh-----cCCEE--EEecCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChhhhHHHH
Confidence 788888652 2233445555555443 24444 456777788777777878776 47887765 54433323333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
..+.+.++|+|..... .+ ..+.+..+.++....+...++++... |-+++++++..+... ...-.+.++++
T Consensus 74 ~~~~~~~ipvV~~~~~--~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~-~~~R~~gf~~~ 145 (267)
T cd06322 74 AKAKKAGIPVITVDIA--AE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQS-VVDRVRGFKEA 145 (267)
T ss_pred HHHHHCCCCEEEEccc--CC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCcc-HHHHHHHHHHH
Confidence 4566789999988543 11 11223457788888888888888765 778999997543221 14456788889
Q ss_pred Hhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 193 LQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 193 l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
+++. | +++... .... +. +.....+.++... ++++|+. ++...+..+++.+++.|.
T Consensus 146 ~~~~~~-~~~~~~---~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 146 LADYPN-IKIVAV---QPGI---TR-AEALTAAQNILQANPDLDGIFA--FGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHhCCC-cEEEEe---cCCC---Ch-HHHHHHHHHHHHhCCCCCEEEE--cCCcHHHHHHHHHHHCCC
Confidence 9888 8 765321 1111 11 2233344554333 4676554 677778889999999998
No 157
>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=97.71 E-value=0.0037 Score=65.49 Aligned_cols=205 Identities=13% Similarity=0.133 Sum_probs=122.9
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
.||+++|.. .....+...+++.+.++. |+.+.+...+ ..++....+....++. +++.++|- +..... ..+
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~~-~~~ 72 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-----GYAVTLSMLA-EADEEALRAAVRRLLA-QRVDGVIVNAPLDDA-DAA 72 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-----CCeEEEEeCC-CCchHHHHHHHHHHHh-cCCCEEEEeCCCCCh-HHH
Confidence 388999854 334456666666666663 5566554332 2234555556666664 57887763 322222 233
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
.. ....++|+|..... .. .. +-.+..++...+..+++++...|-++++++..+............+.+.+
T Consensus 73 ~~-~~~~~ipvv~~~~~--~~----~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 73 LA-AAPADVPVVFVDGS--PS----PR---VSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HH-HHhcCCCEEEEecc--CC----CC---CCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 33 35678999988654 11 22 23467888888999999998899999999976544221134556788888
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC-CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
++.| ..+.... .... ......+.+.++.+. .+++|+. ++...+..+++.+++.|.. +++...++-
T Consensus 143 ~~~~-~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~ai~~--~~d~~a~g~~~~~~~~g~~ip~~i~ii~~ 209 (264)
T cd01574 143 EAAG-IAPPPVL--EGDW----SAESGYRAGRELLREGDPTAVFA--ANDQMALGVLRALHELGLRVPDDVSVVGF 209 (264)
T ss_pred HHCC-CCcceee--ecCC----CHHHHHHHHHHHHhCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCccceEEecc
Confidence 8777 6654221 1111 112233445555433 3676554 6777888999999999974 334444433
No 158
>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=97.71 E-value=0.0035 Score=68.28 Aligned_cols=209 Identities=16% Similarity=0.135 Sum_probs=125.3
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE--cCCchHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEE 109 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii--Gp~~s~~ 109 (920)
..-.||+++|.. .....+...+++.+.++ .|+.+.+ .+...++..-.+..+.++. ++|.++| ++..+
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~-----~g~~~~i--~~~~~~~~~~~~~~~~l~~-~~vdGiIi~~~~~~-- 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM-----YKYNIIL--SNSDEDPEKEVQVLNTLLS-KQVDGIIFMGGTIT-- 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH-----cCCEEEE--EeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCCC--
Confidence 346799999853 33334455555554444 2566544 4444555555555666654 5787666 33222
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCC-CcchHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG-DSGKLAL 188 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~-~~~~~~~ 188 (920)
......+...++|+|..... .+ ....+ .+.+++...+..+++++...|.++++++..+..... ...-...
T Consensus 128 -~~~~~~l~~~~iPvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 128 -EKLREEFSRSPVPVVLAGTV--DK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred -hHHHHHHHhcCCCEEEEecC--CC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 22334556679999987544 11 12223 356788888888999998889999999975432110 0445678
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
+.+++++.| +.+.......... +..+....+.++.+..+++|+. .+...+..+++++++.|+. +.+...++-
T Consensus 199 f~~~l~~~g-~~~~~~~~~~~~~----~~~~~~~~~~~ll~~~p~ai~~--~~d~~A~g~~~al~~~g~~vP~dvsvvgf 271 (329)
T TIGR01481 199 YKEALNKAG-IQFGEDLVCEGKY----SYDAGYKAFAELKGSLPTAVFV--ASDEMAAGILNAAMDAGIKVPEDLEVITS 271 (329)
T ss_pred HHHHHHHcC-CCCCcceEEecCC----ChHHHHHHHHHHhCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEee
Confidence 889999888 7654322221111 1123344556665556887765 6667888999999999984 334444443
No 159
>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=97.70 E-value=0.0025 Score=67.09 Aligned_cols=209 Identities=11% Similarity=0.083 Sum_probs=126.5
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~va 114 (920)
||++.|.. .....+...+++.+.++. |+++ .+.++..++..-.+..+.++. +++.++| .+.... . ...
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~-~-~~~ 71 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAA-----GYDV--VLSESGRRTSPERQWVERLSA-RRTDGVILVTPELT-S-AQR 71 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCchHHHHHHHHHHHH-cCCCEEEEecCCCC-h-HHH
Confidence 78898864 445566677777666652 4554 444555555545555666665 5788665 333322 2 234
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+...++|+|...... .. ....+ .+.+++...+..+++.+...|.++++++..+..........+.+.+.++
T Consensus 72 ~~~~~~~ipvV~i~~~~--~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (270)
T cd06296 72 AALRRTGIPFVVVDPAG--DP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAALA 144 (270)
T ss_pred HHHhcCCCCEEEEeccc--CC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHH
Confidence 55677899999886551 11 12223 3678888889999999988899999999764332111455678888888
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEecc
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTNT 269 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t~~ 269 (920)
+.+ ..+....... .. ...+.....+.++.+. ++++|+. .+...+..+++.+++.|.. +.+...++-+.
T Consensus 145 ~~~-~~~~~~~~~~-~~---~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d~ 215 (270)
T cd06296 145 EAG-IPVDPALVRE-GD---FSTESGFRAAAELLALPERPTAIFA--GNDLMALGVYEAARERGLRIPEDLSVVGFDD 215 (270)
T ss_pred HcC-CCCChHHhee-CC---CCHHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHhCCCCCCceEEEEECC
Confidence 877 5543211111 11 0112333445554332 5676665 6777788899999999985 34454554433
No 160
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=97.69 E-value=0.0049 Score=64.60 Aligned_cols=198 Identities=13% Similarity=0.138 Sum_probs=117.3
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
||+++|.. ...-.....+++.+.++ .|+.+. +.++..++....+....++. .++.++|-.........+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~-----~g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~- 72 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARE-----RGYQLL--IACSDDDPETERETVETLIA-RQVDALIVAGSLPPDDPYY- 72 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHH-----CCCEEE--EEeCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCCchHHHH-
Confidence 89999864 22223333444433332 355554 44555677666667777765 5788666432222222233
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (920)
.+...++|+|...... + ....++ +..++...+..+++++.+.|.++++++..+........-.+.+++.+++
T Consensus 73 ~~~~~~ipvV~~~~~~--~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 144 (264)
T cd06274 73 LCQKAGLPVVALDRPG--D---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALAD 144 (264)
T ss_pred HHHhcCCCEEEecCcc--C---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHH
Confidence 4566889999886551 1 122333 5567777788899999888999999997654321114456788889988
Q ss_pred cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
.| ..+.......... +.......+.++... .+++|+. ++...+..+++++++.|+.
T Consensus 145 ~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~ 203 (264)
T cd06274 145 AG-LPVQPDWIYAEGY----SPESGYQLMAELLARLGRLPRALFT--TSYTLLEGVLRFLRERPGL 203 (264)
T ss_pred cC-CCCCcceeecCCC----ChHHHHHHHHHHHccCCCCCcEEEE--cChHHHHHHHHHHHHcCCC
Confidence 87 5432221111111 112333445554332 4677665 6777888999999999985
No 161
>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=97.69 E-value=0.0024 Score=67.27 Aligned_cols=209 Identities=11% Similarity=0.146 Sum_probs=122.3
Q ss_pred EEEEEEeCC------CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHH
Q 002454 36 KIGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (920)
Q Consensus 36 ~IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~ 109 (920)
.||+++|.. .........+++.+.++. |+++.+. +... +..-.+...+++...++.++|-......
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~~~~ 72 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-----GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYSRED 72 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-----CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecCcCC
Confidence 378999852 233445566666666553 5666543 3332 3334556666665556776554322112
Q ss_pred HHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
......+.+.++|+|...... + .....+ .+..++...++.+++.+...|.++++++.....+.......+.+
T Consensus 73 -~~~~~~~~~~~ipvV~~~~~~--~--~~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf 144 (270)
T cd06294 73 -DPIIDYLKEEKFPFVVIGKPE--D--DKENIT---YVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGY 144 (270)
T ss_pred -cHHHHHHHhcCCCEEEECCCC--C--CCCCCC---eEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHH
Confidence 233445677899999886541 1 112223 35567888888899999888999999997544321113446788
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEE
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (920)
.+.+++.| ..+.......... ...+..+.+.++.+. ++++|+. .+...+..+++.+++.|+.- ++..+++
T Consensus 145 ~~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~iP~dv~vig 217 (270)
T cd06294 145 KQALEDHG-IPDRNEVIISLDF----SEEGGYKALKKLLEQHPRPTAIVA--TDDLLALGVLKVLNELGLKVPEDLSIIG 217 (270)
T ss_pred HHHHHHcC-CCCCcceEEecCC----chHHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 89998887 5332211111111 112334555555433 4676665 67788899999999999853 3344444
Q ss_pred e
Q 002454 267 T 267 (920)
Q Consensus 267 t 267 (920)
-
T Consensus 218 ~ 218 (270)
T cd06294 218 F 218 (270)
T ss_pred e
Confidence 3
No 162
>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=97.68 E-value=0.0033 Score=65.98 Aligned_cols=199 Identities=17% Similarity=0.180 Sum_probs=119.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+++|.. ...-.+...+++.+.++. |+. +.+.++..++..-....+.++. .+|.+||-........ ..
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~--~~~~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~-~~ 71 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA-----GYS--TIIGNSDENPETENRYLDNLLS-QRVDGIIVVPHEQSAE-QL 71 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc-----CCE--EEEEeCCCCHHHHHHHHHHHHh-cCCCEEEEcCCCCChH-HH
Confidence 489999864 444556777777777654 344 4444555676655666666664 5788666432222222 34
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+.+.++|+|...... + ....++ ...++...+..+++.+...|-++++++...........-...+.++++
T Consensus 72 ~~l~~~~ipvV~~~~~~--~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 72 EDLLKRGIPVVFVDREI--T---GSPIPF---VTSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred HHHHhCCCCEEEEeccc--C---CCCCCE---EEECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 55567899999876551 1 122344 344555556667788877899999999654431111344577888898
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.| .++........ . ....+....+.++.+.++++|+. ++...+..+++.+++.|+.
T Consensus 144 ~~~-~~~~~~~~~~~-~---~~~~~~~~~~~~~l~~~~~av~~--~~d~~a~gv~~al~~~g~~ 200 (265)
T cd06299 144 SLG-LEVNEDLVVLG-G---YSQESGYAGATKLLDQGATAIIA--GDSMMTIGAIRAIHDAGLV 200 (265)
T ss_pred HCC-CCCChHhEEec-C---cchHHHHHHHHHHHcCCCCEEEE--cCcHHHHHHHHHHHHhCCC
Confidence 887 55322211111 1 01123344555655445887665 6677788999999999985
No 163
>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=97.63 E-value=0.0078 Score=63.26 Aligned_cols=204 Identities=10% Similarity=-0.025 Sum_probs=122.6
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCC--CCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAG-METWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~--~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~ 111 (920)
+||+++|.. .........+++.+.++. |+.+.+ .+.. .+...-.+..+.++. .++.+||- |.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~~~~~--~~~~~~~~~~~~~~~i~~~~~-~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL-----GVSLKL--LEAGGYPNLAKQIAQLEDCAA-WGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc-----CCEEEE--ecCCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChhhHH
Confidence 589999864 334455666777666654 444444 4433 345555566777775 47886653 33322222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCC-----eEEEEEEEeCCCCCCcchH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW-----RRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w-----~~v~ii~~~~~~g~~~~~~ 186 (920)
....+...++|+|...... . .. ...-.+..++...++.+++++.+.+- ++++++...........-.
T Consensus 73 -~~~~~~~~giPvV~~~~~~--~--~~---~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~ 144 (268)
T cd06306 73 -EILQQVAASIPVIALVNDI--N--SP---DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVE 144 (268)
T ss_pred -HHHHHHHCCCCEEEeccCC--C--Cc---ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHH
Confidence 2344667899999875431 1 11 12234678888888999999977665 8999997644321114446
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEE
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~ 264 (920)
+.+++++++.+ +++.... ... .+.+...+.+.++.+. ++++|+. ....+..+++.+++.|+ +++...
T Consensus 145 ~g~~~~~~~~~-~~~~~~~-~~~-----~~~~~~~~~~~~~l~~~~~~~~i~~---~d~~a~~~~~~l~~~g~-p~di~v 213 (268)
T cd06306 145 KGFRDALAGSA-IEISAIK-YGD-----TGKEVQRKLVEEALEAHPDIDYIVG---SAVAAEAAVGILRQRGL-TDQIKI 213 (268)
T ss_pred HHHHHHHhhcC-cEEeeec-cCC-----ccHHHHHHHHHHHHHhCCCcCEEee---cchhhhHHHHHHHhcCC-CCCeEE
Confidence 77888998888 7764411 111 1223334555655433 4676653 37778889999999997 444444
Q ss_pred EE
Q 002454 265 IV 266 (920)
Q Consensus 265 i~ 266 (920)
++
T Consensus 214 ig 215 (268)
T cd06306 214 VS 215 (268)
T ss_pred Ee
Confidence 43
No 164
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.62 E-value=0.0042 Score=65.13 Aligned_cols=193 Identities=17% Similarity=0.151 Sum_probs=116.4
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
||+++|.. .........+++.+.++ .|+.+.+...++ +. ...+..++++. .+|.++|--.+.... ....
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~-----~g~~~~~~~~~~--~~-~~~~~i~~~~~-~~vdgiii~~~~~~~-~~~~ 71 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA-----RGYQPLLINTDD--DE-DLDAALRQLLQ-YRVDGVIVTSGTLSS-ELAE 71 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH-----CCCeEEEEcCCC--CH-HHHHHHHHHHH-cCCCEEEEecCCCCH-HHHH
Confidence 78898864 33444555565544443 266766554443 33 33445556664 578876653222222 2355
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (920)
.+...++|+|...... + . +.+..+.+++...+..+++++...|.++++++..+............+.+.+++
T Consensus 72 ~~~~~~ipvV~~~~~~--~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 72 ECRRNGIPVVLINRYV--D---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHhhcCCCEEEECCcc--C---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 5677899999886541 1 1 223457788999999999999888999999998654422114456788888988
Q ss_pred cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcC
Q 002454 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMG 256 (920)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g 256 (920)
.| .++... ..... ......+.+.++.+. ++++|+. .+...+..+++.+++.+
T Consensus 144 ~~-~~~~~~-~~~~~-----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 144 AG-VPVVVE-EAGDY-----SYEGGYEAARRLLASRPRPDAIFC--ANDLLAIGVMDAARQEG 197 (266)
T ss_pred cC-CChhhh-ccCCC-----CHHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHhc
Confidence 88 664221 11111 112334445554433 4676665 56667778888888753
No 165
>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=97.62 E-value=0.0094 Score=63.42 Aligned_cols=202 Identities=12% Similarity=0.122 Sum_probs=121.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||+++|.. .........+++.+.++. |+. +.+.++..++....+..++++. .+|.+|| .+..+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~ 72 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL-----GAE--VIVQNANGDPAKQISQIENMIA-KGVDVLVIAPVDGEALASA 72 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc-----CCE--EEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecCChhhHHHH
Confidence 489999854 334455666666666553 444 4456677788777777888876 4788666 34333333344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc------CCeEEEEEEEeCCCCCCcchHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~------~w~~v~ii~~~~~~g~~~~~~~ 187 (920)
...+...++|+|...... +. ....+ .+..++...++.+++.+... |-++++++..+..........+
T Consensus 73 l~~l~~~~ipvV~~~~~~--~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 73 VEKAADAGIPVIAYDRLI--LN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHCCCCEEEECCCC--CC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 455667899999886551 11 11122 35567777788888887665 8889999976543221134456
Q ss_pred HHHHHHhccCC---ceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 188 LLAEALQNVSS---SEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 188 ~l~~~l~~~g~---~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
.+++.+++.+. +++.... ... . .........+.++.++ ++++|+. .+...+..+++.+++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~-~---~~~~~~~~~~~~~l~~~~~~~~~I~~--~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATP-D---WDPETAQKRMENALTANYNKVDGVLA--ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccC-C---CCHHHHHHHHHHHHHhCCCCccEEEe--CCcHHHHHHHHHHHHcCCCC
Confidence 77888887640 2222111 111 1 0112223445554333 4576654 67888889999999999865
No 166
>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=97.61 E-value=0.0097 Score=63.34 Aligned_cols=216 Identities=13% Similarity=0.078 Sum_probs=123.6
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
+||+++|.. .........+++.+.++. |+++ .+.+.. ++....+...+++. .++.+||= +..+.....+
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~-~~~~~~~~i~~~~~-~~~dgiii~~~~~~~~~~~ 71 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-----GFTV--VKIDVP-DGEKVLSAIDNLGA-QGAKGFVICVPDVKLGPAI 71 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-----CCEE--EEccCC-CHHHHHHHHHHHHH-cCCCEEEEccCchhhhHHH
Confidence 488888854 334456666777666653 4554 445555 66666666777765 57876664 3333334455
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHH----HcCC--eEEEEEEE-eC--CCCCCcc
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR----KYNW--RRVAAIYE-DN--VYGGDSG 184 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~----~~~w--~~v~ii~~-~~--~~g~~~~ 184 (920)
...+...++|+|...... ........+.+-.+..+....+..+++++. ..|+ ++++++.. .. ... ..
T Consensus 72 ~~~~~~~~iPvV~~~~~~--~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~--~~ 147 (289)
T cd01540 72 VAKAKAYNMKVVAVDDRL--VDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTA--KP 147 (289)
T ss_pred HHHHHhCCCeEEEecCCC--cccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcch--hh
Confidence 566778999999875441 111100112223456677777777666654 3566 68888753 22 222 45
Q ss_pred hHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceE-EEEEecCHhHHHHHHHHHHHcCCCCCC
Q 002454 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRV-FIVLQASLDMTIHLFTEANRMGLVGKD 261 (920)
Q Consensus 185 ~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~v-ii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (920)
-.+.+++.+++.| ............. .+. ......+.++..+ +++. .|+ +.+...+..+++.+++.|..+.+
T Consensus 148 R~~G~~~~l~~~~-~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~~~~~~i~-~~~d~~a~g~~~al~~~g~~~~d 222 (289)
T cd01540 148 RTDGALEALKAPG-FPEANIFQAPQKT--TDT-EGAFDAAASTLTKNPNVKNWIIY-GLNDETVLGAVRATEQSGIAAAD 222 (289)
T ss_pred HHHHHHHHHhcCC-CCcceEecccccC--cch-hhHHHHHHHHHHhCCCcCeeEEE-eCCcHHHHHHHHHHHHcCCCCcc
Confidence 5778888998877 6532211111111 011 2223344554433 3453 344 67778899999999999987545
Q ss_pred eEEEEecc
Q 002454 262 SVWIVTNT 269 (920)
Q Consensus 262 ~~~i~t~~ 269 (920)
...++-+.
T Consensus 223 i~vig~d~ 230 (289)
T cd01540 223 VIGVGING 230 (289)
T ss_pred eEEEecCC
Confidence 55554433
No 167
>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=97.60 E-value=0.0026 Score=66.91 Aligned_cols=207 Identities=13% Similarity=0.114 Sum_probs=126.7
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
.||+++|.. ...-.+...+++.+.++. |+. +.+.++..++....+....++. .+|.++|--.+......+.
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-----g~~--~~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~ 72 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-----GYS--LLIANSLNDPERELEILRSFEQ-RRMDGIIIAPGDERDPELV 72 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-----CCE--EEEEeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCcHHHH
Confidence 389999854 445566777777766663 444 4555777777766676767665 5788777432222223455
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+.+.++|+|..... .+ ...+ .+..++...+..+++.+...|-++++++...............+.+.++
T Consensus 73 ~~~~~~~ipvV~i~~~--~~----~~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 73 DALASLDLPIVLLDRD--MG----GGAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHhCCCCEEEEecc--cC----CCCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 5667789999988655 12 1223 3566777777778888888899999999764332211344577888998
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEEe
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIVT 267 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~t 267 (920)
+.| .++........ +....-.+.+.++.+ ..+++|+. .+...+..+++.+++.|+.- ++...++-
T Consensus 144 ~~~-~~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ip~dv~iig~ 211 (269)
T cd06281 144 AAG-LPPDPALVRLS-----TPAASGFDATRALLALPDRPTAIIA--GGTQVLVGVLRALREAGLRIPRDLSVISI 211 (269)
T ss_pred HcC-CCCCHHHeecC-----cHHHHHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEEEe
Confidence 888 65421111111 001222344555432 35787765 56667778999999999853 33444443
No 168
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.59 E-value=0.035 Score=60.23 Aligned_cols=201 Identities=9% Similarity=0.025 Sum_probs=113.4
Q ss_pred EEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHH
Q 002454 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (920)
Q Consensus 35 i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~ 112 (920)
.+|+++.... .........|++.+.++. |+++.+. ..+..|+..-.+..++++. ++|.+|+- |..+....+
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~-----G~~v~~~-~~~~~d~~~q~~~i~~li~-~~vdgIiv~~~d~~al~~ 96 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL-----GVDVTYD-GPTEPSVSGQVQLINNFVN-QGYNAIIVSAVSPDGLCP 96 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh-----CCEEEEE-CCCCCCHHHHHHHHHHHHH-cCCCEEEEecCCHHHHHH
Confidence 4799888654 333445555666555543 5666542 3345566666777888886 57876654 555554456
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEecc-CchHHHHHHHHHHHHc---CCeEEEEEEEeCCCCCCcchHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLARKY---NWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p-~~~~~~~aia~~l~~~---~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
....+.+.+||+|...+.. +. ... .+-+.. ++...++.+++++.+. +-.+++++.............+.
T Consensus 97 ~l~~a~~~gIpVV~~d~~~--~~--~~~---~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 97 ALKRAMQRGVKVLTWDSDT--KP--ECR---SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHCCCeEEEeCCCC--CC--ccc---eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 6667888899999987652 11 111 122222 2345676667777542 45688888754322111344566
Q ss_pred HHHHHhcc--CCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC--ceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 189 LAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 189 l~~~l~~~--g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.+.+.+. + ++++... .. . .+...-.+..+++..+. .++|+. .+...+...++++++.|..
T Consensus 170 ~~~~l~~~~p~-~~vv~~~-~~--~---~d~~~a~~~~~~lL~~~pdi~aI~~--~~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPG-WEIVTTQ-FG--Y---NDATKSLQTAEGILKAYPDLDAIIA--PDANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCC-CEEEeec-CC--C---CcHHHHHHHHHHHHHHCCCCcEEEE--CCCccHHHHHHHHHhCCCC
Confidence 77777543 4 5554321 11 1 12223334556655554 455554 4555555688888888864
No 169
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.59 E-value=0.0061 Score=64.12 Aligned_cols=199 Identities=15% Similarity=0.116 Sum_probs=120.5
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||++.|.. .........|++.+.++. |+.+.+. ++..++..-.+..+.+. ..++.++|--.+......+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----gy~v~~~--~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~ 72 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR-----GLSLVLC--ATRNRPERELTYLRWLD-TNHVDGLIFVTNRPDDGALA 72 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC-----CCEEEEE--eCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCCHHHHH
Confidence 489999854 334456666666655543 5666444 44456665555565655 45788777533221222233
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
.+. ..++|+|...... + ....+ .+.+++...+..+++.+...|-++++++..+........-.+.++++++
T Consensus 73 ~~~-~~~~pvV~i~~~~--~---~~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 73 KLI-NSYGNIVLVDEDV--P---GAKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHH-hcCCCEEEECCCC--C---CCCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 333 3479999876541 1 11122 4668899999999999988899999999754432211344678999999
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.| ............. ......+.+.++.+. .+++|+. ++...+..+++.+++.|..
T Consensus 144 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~ 202 (269)
T cd06293 144 EAH-IPEVPEYVCFGDY----TREFGRAAAAQLLARGDPPTAIFA--ASDEIAIGLLEVLRERGLS 202 (269)
T ss_pred HcC-CCCChheEEecCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 888 5532211111111 112334455555432 4787665 6778888999999999975
No 170
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.58 E-value=0.0054 Score=67.15 Aligned_cols=203 Identities=11% Similarity=0.101 Sum_probs=122.8
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~ 110 (920)
..-.||+++|.. .........+++.+.++ . |+.+- +.++..++....+....++. +++.+||= |.. ...
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~--g~~~~--~~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~-~~~ 133 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q--GRMVF--LLQGGKDGEQLAQRFSTLLN-QGVDGVVIAGAA-GSS 133 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c--CCEEE--EEeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCC-CCc
Confidence 345799999854 33444555566655543 2 45543 34455566655566666664 57776663 322 222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
......+...++|+|..... . .....++ +..++...+..+++++...|.++++++..+........-...+.
T Consensus 134 ~~~~~~l~~~~iPvV~~~~~---~--~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~ 205 (342)
T PRK10014 134 DDLREMAEEKGIPVVFASRA---S--YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYC 205 (342)
T ss_pred HHHHHHHhhcCCCEEEEecC---C--CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHH
Confidence 34455667789999987543 1 1122233 66788888889999999999999999975433211133456788
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+++++.| +.+.....+.... ........+.++.+. .+++|+ +.+...+..+++.+.+.|+.-
T Consensus 206 ~al~~~g-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~nd~~A~g~~~~l~~~g~~v 269 (342)
T PRK10014 206 ATLLKFG-LPFHSEWVLECTS----SQKQAAEAITALLRHNPTISAVV--CYNETIAMGAWFGLLRAGRQS 269 (342)
T ss_pred HHHHHcC-CCCCcceEecCCC----ChHHHHHHHHHHHcCCCCCCEEE--ECCcHHHHHHHHHHHHcCCCC
Confidence 9999888 6643222221111 112233445554433 467665 477888889999999999853
No 171
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.57 E-value=0.0095 Score=64.80 Aligned_cols=206 Identities=12% Similarity=0.092 Sum_probs=122.0
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETA 111 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~ 111 (920)
.-.||+++|.. .........+++.+.++ .|+.+.+ .++..++....+....++. .++.++|- +.......
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~-----~g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~~ 132 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQ-----RGYQLLI--ACSDDQPDNEMRCAEHLLQ-RQVDALIVSTSLPPEHP 132 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHH-----cCCEEEE--EeCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCCCChH
Confidence 45799999853 33334455566555544 2566654 3444566555555666654 57887664 32222222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
.+ ..+.+.++|+|...... + ....+ .+.+++...+..+++++...|.++++++...........-...+.+
T Consensus 133 ~~-~~l~~~~iPvV~v~~~~--~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~~ 203 (328)
T PRK11303 133 FY-QRLQNDGLPIIALDRAL--D---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFRQ 203 (328)
T ss_pred HH-HHHHhcCCCEEEECCCC--C---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHHH
Confidence 23 33456799999875441 1 12223 3457788888889999988899999999765432111445678889
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEE
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWI 265 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i 265 (920)
++++.| ..+... ..... ...+-...+.++.+. .+++|+. ++...+..+++++.+.|+. +.+...+
T Consensus 204 al~~~g-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~disv~ 271 (328)
T PRK11303 204 ALKDDP-REVHYL--YANSF----EREAGAQLFEKWLETHPMPDALFT--TSYTLLQGVLDVLLERPGELPSDLAIA 271 (328)
T ss_pred HHHHcC-CCceEE--EeCCC----ChHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999888 654221 11111 112233445555433 5787765 6677788899999999984 3344333
No 172
>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=97.57 E-value=0.012 Score=62.70 Aligned_cols=213 Identities=11% Similarity=0.038 Sum_probs=119.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
|||++.|.. ...-.....+++-+.++ .|+.+.++ .++..++....+....++. .++.+|| .|.........
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~-----~g~~~~~~-~~~~~~~~~~~~~l~~~~~-~~~dgiii~~~~~~~~~~~ 73 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAK-----LGIEVVAT-TDAQFDPAKQVADIETTIS-QKPDIIISIPVDPVSTAAA 73 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHH-----cCCEEEEe-cCCCCCHHHHHHHHHHHHH-hCCCEEEEcCCCchhhhHH
Confidence 588888743 22222333344333332 25565432 3566777766777777776 4677554 34333222344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+...++|+|...... +... ...+++..+..++...++.+++++... +-++++++..+.+......-...+.+
T Consensus 74 i~~~~~~~iPvV~~~~~~--~~~~-~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 74 YKKVAEAGIKLVFMDNVP--SGLE-HGKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHcCCcEEEecCCC--cccc-cCcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 455667899999876541 1111 111233446678888888899999776 78899999765433211334577778
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
.+++.+ ..+........ . +. ....+.++++... ++++|+. ++...+..+++.+++.|+ .+...++-+
T Consensus 151 ~l~~~~-~~~~~~~~~~~-~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 151 TIKKNY-PDITIVAEKGI-D---GP-SKAEDIANAMLTQNPDLKGIYA--VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHHhC-CCcEEEeecCC-c---ch-hHHHHHHHHHHHhCCCeeEEEe--CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 887655 33211111111 0 01 2223445554333 4566554 667788999999999997 234445444
No 173
>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=97.55 E-value=0.0097 Score=63.93 Aligned_cols=213 Identities=15% Similarity=0.114 Sum_probs=124.5
Q ss_pred EEEEEeCC--CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcC--CeEEEEc-CCchHHHH
Q 002454 37 IGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAG-METWEETA 111 (920)
Q Consensus 37 IG~i~p~s--~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~--~v~aiiG-p~~s~~~~ 111 (920)
||+++|.. .........+++.+.++. |+.+.+ .++..++.......+.++. . +|.+||= +... ...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-----g~~v~~--~~~~~~~~~~~~~i~~~~~-~~~~vdgiIi~~~~~-~~~ 72 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-----GIELEV--LYAERDRFLMLQQARTILQ-RPDKPDALIFTNEKS-VAP 72 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-----CCeEEE--EeCCCCHHHHHHHHHHHHH-hccCCCEEEEcCCcc-chH
Confidence 78888764 223345555666665542 555544 4556677767777777775 5 7876553 3322 233
Q ss_pred HHHHhhccCCccEEeecCCCCCCCcc-------CC-CCceeEEeccCchHHHHHHHHHHHHcCCeE--------EEEEEE
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSM-------SR-RWPYLIRMASNDSEQMKCIADLARKYNWRR--------VAAIYE 175 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~-------~~-~~~~~~r~~p~~~~~~~aia~~l~~~~w~~--------v~ii~~ 175 (920)
.....+...++|+|...... +... .. ..+++-...+++...++.+++.+...+.++ ++++..
T Consensus 73 ~~~~~~~~~giPvV~~~~~~--~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~ 150 (305)
T cd06324 73 ELLRLAEGAGVKLFLVNSGL--TEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISG 150 (305)
T ss_pred HHHHHHHhCCCeEEEEecCC--CcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeC
Confidence 34456778899999887552 1111 01 113345677888899999999997776664 676664
Q ss_pred eCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHH
Q 002454 176 DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEAN 253 (920)
Q Consensus 176 ~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~ 253 (920)
.........-...+++.+++.|..++.. . ..... ........+.++.+. ++++|+ +.+...+..++++++
T Consensus 151 ~~~~~~~~~R~~Gf~~~~~~~g~~~~~~-~-~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~A~g~~~al~ 222 (305)
T cd06324 151 DPTTPAAILREAGLRRALAEHPDVRLRQ-V-VYAGW----SEDEAYEQAENLLKRYPDVRLIW--AANDQMAFGALRAAK 222 (305)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCceEee-e-ecCCC----CHHHHHHHHHHHHHHCCCccEEE--ECCchHHHHHHHHHH
Confidence 3221111344667888888775123221 1 11111 123334456665433 466655 467788889999999
Q ss_pred HcCCC-CCCeEEEEec
Q 002454 254 RMGLV-GKDSVWIVTN 268 (920)
Q Consensus 254 ~~g~~-~~~~~~i~t~ 268 (920)
+.|+. +++...++-+
T Consensus 223 ~~g~~vp~di~vig~D 238 (305)
T cd06324 223 EAGRKPGRDVLFGGVN 238 (305)
T ss_pred HcCCCcCCCEEEEecC
Confidence 99985 3344444443
No 174
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.55 E-value=0.006 Score=66.78 Aligned_cols=202 Identities=11% Similarity=0.106 Sum_probs=120.0
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
.-+||+++|.. .........|++.+.++. |+.+ .+.++..++..-.+....++. .++.+||--........
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~ 130 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK-----GYTL--ILCNAWNNLEKQRAYLSMLAQ-KRVDGLLVMCSEYPEPL 130 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCCCHHH
Confidence 34799999875 334455666666665543 4444 444556677766666666665 57776653211111222
Q ss_pred HHHhhcc-CCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 113 VAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 113 va~~~~~-~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
+ ..+.. .++|+|...... + ....+. .+.++....+..+++.+...|-+++++|...........-...+.+
T Consensus 131 ~-~~l~~~~~iPvV~~d~~~--~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 131 L-AMLEEYRHIPMVVMDWGE--A---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred H-HHHHhcCCCCEEEEeccc--C---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 3 33444 799999876441 1 111111 2456666677888899888899999999653321111445678888
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
.+++.| +++.......... ...+....+.++.++ ++++|+. ++...+..+++.+++.|..
T Consensus 203 ~l~~~g-i~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~~ 264 (341)
T PRK10703 203 AMEEAN-IKVPEEWIVQGDF----EPESGYEAMQQILSQKHRPTAVFC--GGDIMAMGAICAADEMGLR 264 (341)
T ss_pred HHHHcC-CCCChHHeEeCCC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCC
Confidence 999888 7654321111110 113334455555433 4677665 6777788999999999974
No 175
>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=97.54 E-value=0.0053 Score=64.37 Aligned_cols=205 Identities=14% Similarity=0.122 Sum_probs=125.2
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
.||+++|.. ...-.....+++.+.++. |+.+ .+.++..|+..-.+....++. .++.++| .+... ....
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-----~~~~--~~~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~-~~~~- 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-----GYST--FVANTGDNPDAQRRAIEMLLD-RRVDGLILGDARS-DDHF- 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCC-ChHH-
Confidence 389999864 334445556666555553 5555 445556677666666666655 5788655 44332 2233
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
...+...++|++..... .+ ..++ +..++...+..+++++...|-++++++..+........-.+.+.+.+
T Consensus 71 ~~~~~~~~iPvv~~~~~--~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 71 LDELTRRGVPFVLVLRH--AG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred HHHHHHcCCCEEEEccC--CC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 34456689999987644 11 2333 56778888888999998889999999986543211145567788888
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
++.| .++.......... +.......+.++.+. .+++|+. .+...+..+++.+++.|+. +++...++-
T Consensus 141 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig~ 210 (265)
T cd06285 141 AEAG-IEVPPERIVYSGF----DIEGGEAAAEKLLRSDSPPTAIFA--VNDFAAIGVMGAARDRGLRVPDDVALVGY 210 (265)
T ss_pred HHcC-CCCChhhEEeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 8888 6643221111111 112233455555433 4676654 6778888999999999984 444444443
No 176
>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=97.54 E-value=0.0087 Score=63.06 Aligned_cols=200 Identities=16% Similarity=0.138 Sum_probs=121.7
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-C-CchH--HHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-M-ETWE--ETA 111 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p-~~s~--~~~ 111 (920)
||+++|.. .........+++.+.++ .|+.+. +.++..|+..-.+..+.++. .+|+++|= | .... ...
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~~~~~ 73 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ-----YGYTVL--LCNTYRGGVSEADYVEDLLA-RGVRGVVFISSLHADTHADH 73 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH-----CCCEEE--EEeCCCChHHHHHHHHHHHH-cCCCEEEEeCCCCCcccchh
Confidence 78999864 33445566666666665 256654 45555666666677777776 57886663 2 2121 112
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
.....+...++|+|...... +. ....+ .+..++...+..+++.+...|-++++++....+......-.+.+++
T Consensus 74 ~~i~~~~~~~ipvV~i~~~~--~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 74 SHYERLAERGLPVVLVNGRA--PP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred HHHHHHHhCCCCEEEEcCCC--CC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 22334567899999886541 11 11223 3667888889999999988899999998754332111445677888
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
.+++.| ++........... +.......+.++...++++|+. ++...+..+++.+++.|+.
T Consensus 147 ~~~~~~-~~~~~~~i~~~~~----~~~~~~~~~~~~l~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ 206 (273)
T cd06292 147 ALEEAG-LEPPEALVARGMF----SVEGGQAAAVELLGSGPTAIVA--ASDLMALGAIRAARRRGLR 206 (273)
T ss_pred HHHHcC-CCCChhheEeCCC----CHHHHHHHHHHHhcCCCCEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 888887 5432111111111 1122334445544344787665 6777788899999999984
No 177
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.50 E-value=0.0084 Score=63.00 Aligned_cols=207 Identities=11% Similarity=0.108 Sum_probs=119.6
Q ss_pred EEEEEEeC---C-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDA---N-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~---s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
.||+++|. . .........+++.+.++. |+++.+...|. +...-......++ +.+|.+||-......
T Consensus 1 ~vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~--~~~~~~~~~~~l~-~~~vdgiii~~~~~~-- 70 (268)
T cd06277 1 NIGLIASKRILNSPAFYSEIYRAIEEEAKKY-----GYNLILKFVSD--EDEEEFELPSFLE-DGKVDGIILLGGIST-- 70 (268)
T ss_pred CeEEEEeccccccCCcHHHHHHHHHHHHHHc-----CCEEEEEeCCC--ChHHHHHHHHHHH-HCCCCEEEEeCCCCh--
Confidence 38999987 2 333445555665555542 67776665543 3322223333344 457887775322222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
.....+...++|+|...... + ....++ +..++...+..+++++...|.++++++..+........-...+.+
T Consensus 71 ~~~~~l~~~~ipvV~~~~~~--~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 EYIKEIKELGIPFVLVDHYI--P---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred HHHHHHhhcCCCEEEEccCC--C---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 22455667899999875441 1 112233 556777777878888888899999999765542211344577888
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
.+++.| .++.......... .....+...+..+. ..+++|+. ++...+..+++.+++.|+. +++...++-
T Consensus 143 ~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~l~~~~-~~~~ai~~--~~d~~a~g~~~a~~~~g~~~p~di~vig~ 212 (268)
T cd06277 143 ALLDHG-IPFNEDYDITEKE---EDEEDIGKFIDELK-PLPTAFFC--SNDGVAFLLIKVLKEMGIRVPEDVSVIGF 212 (268)
T ss_pred HHHHcC-CCCCcceEEEcch---hHHHHHHHHHhcCC-CCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCcceEEee
Confidence 998888 6653322221111 11233444444332 24777655 6777778889999999985 333334433
No 178
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.48 E-value=0.014 Score=63.18 Aligned_cols=201 Identities=13% Similarity=0.153 Sum_probs=131.5
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
..-.||+++|.- ...-.+...|++.+.++. |+. +.+..+..++..-.+....+.. ++|+++|=-. .....
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~-----gy~--~~l~~~~~~~~~e~~~~~~l~~-~~vdGiIi~~-~~~~~ 127 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREA-----GYS--LLLANTDDDPEKEREYLETLLQ-KRVDGLILLG-ERPND 127 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCE--EEEECCCCCHHHHHHHHHHHHH-cCCCEEEEec-CCCCH
Confidence 346699999943 333445566666555553 444 4445555577766666666654 6888776433 22333
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeC--CCCCCcchHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--VYGGDSGKLALL 189 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~--~~g~~~~~~~~l 189 (920)
.....+...++|+|..... .+ ... +-.+..++...++.+++++.+.|.+++++|.... ..+ +.-...+
T Consensus 128 ~~~~~l~~~~~P~V~i~~~--~~---~~~---~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~Gf 197 (333)
T COG1609 128 SLLELLAAAGIPVVVIDRS--PP---GLG---VPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSAS--RERLEGY 197 (333)
T ss_pred HHHHHHHhcCCCEEEEeCC--Cc---cCC---CCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccH--hHHHHHH
Confidence 3455666779999987665 12 222 3356788999999999999999999999999874 233 5557889
Q ss_pred HHHHhccCCceE-eEEeecCCCCCCCCChHHHHHHHHhhccC--C-ceEEEEEecCHhHHHHHHHHHHHcCCCCC
Q 002454 190 AEALQNVSSSEI-QSRLVLPPISSISDPKEAVRGELKKVQDK--Q-SRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (920)
Q Consensus 190 ~~~l~~~g~~~i-~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~-~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (920)
.+++++.| +.. ......... ...+-...+.++... . +++|++ ++...+..+++++.+.|...+
T Consensus 198 ~~al~~~~-~~~~~~~i~~~~~-----~~~~g~~~~~~ll~~~~~~ptAif~--~nD~~Alg~l~~~~~~g~~vP 264 (333)
T COG1609 198 RAALREAG-LPINPEWIVEGDF-----SEESGYEAAERLLARGEPRPTAIFC--ANDLMALGALRALRELGLRVP 264 (333)
T ss_pred HHHHHHCC-CCCCcceEEecCC-----ChHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 99999999 765 222211111 113344455554433 2 788765 889999999999999998644
No 179
>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=97.48 E-value=0.019 Score=60.41 Aligned_cols=196 Identities=11% Similarity=0.006 Sum_probs=118.7
Q ss_pred HHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHHHHhhccCCccEEee
Q 002454 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVAEIASRVQVPILSF 127 (920)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~va~~~~~~~iP~is~ 127 (920)
.....+++.+.++ .|+.+ .+.+...++..-.+...+++. ++|.+||= |..+.........+.+.++|+|..
T Consensus 15 ~~~~~gi~~~~~~-----~G~~~--~~~~~~~d~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~ 86 (272)
T cd06313 15 AQGKQAADEAGKL-----LGVDV--TWYGGALDAVKQVAAIENMAS-QGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDM 86 (272)
T ss_pred HHHHHHHHHHHHH-----cCCEE--EEecCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEe
Confidence 3444455554444 24444 445666788888888888886 57775554 444333344444566679999988
Q ss_pred cCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEe
Q 002454 128 AAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL 205 (920)
Q Consensus 128 ~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~ 205 (920)
.... + ....+....+.+++...+..+++++... |.++++++..+........-.+.+++.+++.+..++...
T Consensus 87 ~~~~--~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~- 160 (272)
T cd06313 87 GTLI--A---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE- 160 (272)
T ss_pred CCCC--C---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec-
Confidence 6541 1 1111223446788888899999999776 889999997653322113456778888887631444321
Q ss_pred ecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 206 VLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 206 ~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
... . .+.....+.+.++.+. ++++|+ +.+...+..+++.+++.|+ .+...++-
T Consensus 161 -~~~-~---~~~~~~~~~~~~~l~~~~~~~ai~--~~nd~~a~g~~~al~~~g~--~di~vvgf 215 (272)
T cd06313 161 -QPA-N---WDVSKAARIWETWLTKYPQLDGAF--CHNDSMALAAYQIMKAAGR--TKIVIGGV 215 (272)
T ss_pred -cCC-C---CCHHHHHHHHHHHHHhCCCCCEEE--ECCCcHHHHHHHHHHHcCC--CceEEEee
Confidence 111 1 1223344556665433 356655 4777888899999999998 44444433
No 180
>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=97.46 E-value=0.01 Score=64.44 Aligned_cols=210 Identities=10% Similarity=0.076 Sum_probs=123.1
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~ 110 (920)
..-.||+++|.. .........+++-+.++ .|+.+.+. +...++..-.+....++. .+|.++| .|......
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~-----~gy~~~i~--~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~ 130 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE-----AGYQLLIA--CSDDNPDQEKVVIENLLA-RQVDALIVASCMPPED 130 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH-----CCCEEEEE--eCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCCCCh
Confidence 346799999853 33334455555554443 36666543 444466555555666654 5788665 34332122
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
. ....+...++|++...... + ....+ .+.+++...+..+++++...|.++++++...........-...++
T Consensus 131 ~-~~~~l~~~~iPvV~~~~~~--~---~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 131 A-YYQKLQNEGLPVVALDRSL--D---DEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred H-HHHHHHhcCCCEEEEcccc--C---CCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 2 2334556799999876541 1 11223 356777777888889998889999999976543211134567788
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEe
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t 267 (920)
+++++.| +...... .... ...+-.+.+.++.+. .+++|+. ++...+..+++.+++.|-.+++...++-
T Consensus 202 ~al~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~ll~~~~~~~~Ai~~--~~D~~A~g~~~al~~~g~vP~dvsvigf 272 (327)
T TIGR02417 202 QALKQAT-LEVEWVY-GGNY-----SRESGYQMFAKLCARLGRLPQALFT--TSYTLLEGVLDYMLERPLLDSQLHLATF 272 (327)
T ss_pred HHHHHcC-CChHhEE-eCCC-----ChHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 8998888 6532111 1111 112233455555433 3677665 6677788999999999943445555544
Q ss_pred c
Q 002454 268 N 268 (920)
Q Consensus 268 ~ 268 (920)
|
T Consensus 273 d 273 (327)
T TIGR02417 273 G 273 (327)
T ss_pred C
Confidence 3
No 181
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=97.44 E-value=0.0098 Score=62.36 Aligned_cols=201 Identities=17% Similarity=0.168 Sum_probs=119.5
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
+||++.|.. ...-.+...+++.+.++. |+.+. +.++..++....+....++. .++.++|- +.... .
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~----~ 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK-----GYKLI--LCNSDNDPEKEREYLEMLRQ-NQVDGIIAGTHNLG----I 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC-----CCeEE--EecCCccHHHHHHHHHHHHH-cCCCEEEEecCCcC----H
Confidence 378888743 334455555665555543 45544 45555666666666666654 57776663 33222 1
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~ 192 (920)
..+...++|+|..... .+ ...+ .+.+++...+..+++++...|.++++++..... +.....-.+.+.+.
T Consensus 69 -~~~~~~gipvv~~~~~--~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 69 -EEYENIDLPIVSFDRY--LS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -HHHhcCCCCEEEEeCC--CC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 2445679999988765 12 2223 356777788888999998889999999975443 21114456788899
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEE
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIV 266 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~ 266 (920)
+++.| ..+.... ..... +. .+..+.+.++.+. .+++|+. ++...+..+++.+++.|.. +++...++
T Consensus 139 l~~~~-~~~~~~~-~~~~~---~~-~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~~vp~di~v~g 207 (265)
T cd06291 139 LKENG-LEVRIIE-IQENF---DD-AEKKEEIKELLEEYPDIDGIFA--SNDLTAILVLKEAQQRGIRVPEDLQIIG 207 (265)
T ss_pred HHHcC-CCCChhe-eeccc---cc-hHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCCCcceEEec
Confidence 98888 6542211 11111 11 1223445554433 4566554 5667788999999999985 33344343
No 182
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=97.39 E-value=0.037 Score=58.19 Aligned_cols=209 Identities=11% Similarity=0.082 Sum_probs=118.0
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~va 114 (920)
+||++...+...-.....+++.+.++. |+.+.+.. ++..++..-.+....++. .+|.++| .|..........
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~-~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~~~~~l 73 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-----GVDVEFVV-PQQGTVNAQLRMLEDLIA-EGVDGIAISPIDPKAVIPAL 73 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-----CCeEEEeC-CCCCCHHHHHHHHHHHHh-cCCCEEEEecCChhHhHHHH
Confidence 478887555444455555666555553 45544431 344566666666667665 5788665 444333222333
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
..+.+ ++|+|...... +. ... +-.+..++...+..+++++... +..+++++...........-.+.++++
T Consensus 74 ~~~~~-~ipvV~~~~~~--~~--~~~---~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~ 145 (271)
T cd06314 74 NKAAA-GIKLITTDSDA--PD--SGR---YVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDA 145 (271)
T ss_pred HHHhc-CCCEEEecCCC--Cc--cce---eEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHH
Confidence 33445 99999886441 11 111 2235677888888899988664 345666666543211114556788999
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
+++.| +++.... .... ...+....+.++.+. ++++|+. .+...+..+++.+++.|.. ++...++-+.
T Consensus 146 ~~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~al~~~g~~-~di~vig~d~ 214 (271)
T cd06314 146 IKDSK-IEIVDTR-GDEE-----DFAKAKSNAEDALNAHPDLKCMFG--LYAYNGPAIAEAVKAAGKL-GKVKIVGFDE 214 (271)
T ss_pred HhcCC-cEEEEEe-cCcc-----CHHHHHHHHHHHHHhCCCccEEEe--cCCccHHHHHHHHHHcCCC-CceEEEEeCC
Confidence 99988 7764321 1111 112334455555433 4566654 4556666788899999986 4444444433
No 183
>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=97.36 E-value=0.031 Score=59.20 Aligned_cols=207 Identities=12% Similarity=0.061 Sum_probs=121.1
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||++.|.. .........+++.+.++. |+.+ .+.+...++..-.+....++. .++++|| .+..+......
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-----g~~v--~~~~~~~~~~~~~~~i~~~~~-~~~Dgiii~~~~~~~~~~~ 72 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-----GYEL--ISTDAQGDLTKQIADVEDLLT-RGVNVLIINPVDPEGLVPA 72 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-----CCEE--EEEcCCCCHHHHHHHHHHHHH-cCCCEEEEecCCccchHHH
Confidence 589999864 223344555565555542 4544 455666777766777777775 5777555 34333322334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH-cCCe--EEEEEEEeCC--CCCCcchHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWR--RVAAIYEDNV--YGGDSGKLAL 188 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~-~~w~--~v~ii~~~~~--~g~~~~~~~~ 188 (920)
...+...++|+|...... + ...+.+-.+..+....+..+++++.. .|-+ +++++..+.. .+ ..-...
T Consensus 73 i~~~~~~~iPvV~~~~~~--~----~~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~--~~R~~g 144 (282)
T cd06318 73 VAAAKAAGVPVVVVDSSI--N----LEAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVG--QARRDG 144 (282)
T ss_pred HHHHHHCCCCEEEecCCC--C----CCcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchH--hHHHHh
Confidence 455667899999886541 1 10123445778888889999998866 5754 8888875432 23 455677
Q ss_pred HHHHHhccCCceE----eEE-eecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCC
Q 002454 189 LAEALQNVSSSEI----QSR-LVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (920)
Q Consensus 189 l~~~l~~~g~~~i----~~~-~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~ 261 (920)
+++.+++.| ... ... ....... .+..+....+.++... ++++|+. .+...+..+++.+++.|+. .+
T Consensus 145 f~~~l~~~~-~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~-~d 217 (282)
T cd06318 145 FLLGVSEAQ-LRKYGKTNFTIVAQGYGD---WTREGGLKAMEDLLVAHPDINVVYS--ENDDMALGAMRVLAEAGKT-DD 217 (282)
T ss_pred HHHHHhhCc-ccccccCCeEEEecCCCC---CCHHHHHHHHHHHHHhCCCcCEEEE--CCcchHHHHHHHHHHcCCC-CC
Confidence 888888876 421 001 1001111 1112223444444322 4676665 6677788899999999985 33
Q ss_pred eEEE
Q 002454 262 SVWI 265 (920)
Q Consensus 262 ~~~i 265 (920)
...+
T Consensus 218 v~vv 221 (282)
T cd06318 218 VKVA 221 (282)
T ss_pred eEEE
Confidence 4333
No 184
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.35 E-value=0.013 Score=61.35 Aligned_cols=206 Identities=14% Similarity=0.114 Sum_probs=118.6
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||+++|.. .....+...+++.+.++ .|+.+.+ .++..|+..-.+....++. +++.++| .|... ....+
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~-----~gy~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~-~~~~~ 71 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG-----SGYSPII--ATGHWNQSRELEALELLKS-RRVDALILLGGDL-PEEEI 71 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH-----CCCEEEE--EeCCCCHHHHHHHHHHHHH-CCCCEEEEeCCCC-ChHHH
Confidence 388998854 23334444555444433 2555544 4455676655555666654 5787665 33221 11222
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
..+ ..++|+|...... + ....+ .+..++...+..+++.+...|-++++++..+............+.+.+
T Consensus 72 ~~~--~~~iPvV~i~~~~--~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 141 (265)
T cd06290 72 LAL--AEEIPVLAVGRRV--P---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKAL 141 (265)
T ss_pred HHH--hcCCCEEEECCCc--C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHH
Confidence 222 2489999886541 1 11223 355788888888999998889999999976533221134567788888
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
.+.| ..+.....+.... ........+.++.+. .+++|+. ++...+..+++.+++.|+. +.+...++-
T Consensus 142 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~aii~--~~~~~a~~~~~~l~~~g~~ip~di~vi~~ 211 (265)
T cd06290 142 EEAG-LEVQPDLIVQGDF----EEESGLEAVEELLQRGPDFTAIFA--ANDQTAYGARLALYRRGLRVPEDVSLIGF 211 (265)
T ss_pred HHcC-CCCCHHHEEecCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEeee
Confidence 8877 6543211111111 112233445555433 4677665 6778888999999999985 333444433
No 185
>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=97.35 E-value=0.014 Score=60.88 Aligned_cols=196 Identities=12% Similarity=0.086 Sum_probs=120.4
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
+||+++|.. .....+...+++.+.++. |+.+. +.++..++....+....++. .+|.++|= |... ....+
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~-~~~~~ 71 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH-----GYKVV--LLQTNYDKEKELEYLELLKT-KQVDGLILCSREN-DWEVI 71 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCEEE--EEeCCCChHHHHHHHHHHHH-cCCCEEEEeCCCC-CHHHH
Confidence 378899864 445567777777776653 55554 44556677666666767665 57776553 3322 22334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
..+.+ .+ |++..... .. ...+ .+.++....+..+++++...|-++++++..+...-....-.+.+.+.+
T Consensus 72 ~~~~~-~~-pvv~~~~~--~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l 140 (260)
T cd06286 72 EPYTK-YG-PIVLCEEY--DS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDAL 140 (260)
T ss_pred HHHhc-CC-CEEEEecc--cC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHH
Confidence 44333 34 88876533 11 2223 467788888999999999889999999976532111144567888899
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
++.| .++.....+.... ...+-.+.+.++.+ ..+++|+ +++...+..+++.+++.|+.
T Consensus 141 ~~~~-~~~~~~~i~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~~ 200 (260)
T cd06286 141 EEYG-LTPDEEWIFEGCF----TIEDGERIGHQLLKMKDRPDAIF--TGSDEVAAGIITEAKKQGIR 200 (260)
T ss_pred HHcC-CCCChHheEeCCC----CHHHHHHHHHHHHcCCCCCCEEE--EcchHHHHHHHHHHHHcCCC
Confidence 8888 6543211111111 11222344444443 3567665 47778888999999999984
No 186
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.30 E-value=0.026 Score=61.31 Aligned_cols=209 Identities=13% Similarity=0.119 Sum_probs=120.9
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~ 110 (920)
..-.||+++|.. .........+++.+.++ .|+.+.+ .++..++....+....+.. .+|.++|= |.....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdGiI~~~~~~~~- 125 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE-----RGYSLVL--CNTEGDEQRMNRNLETLMQ-KRVDGLLLLCTETHQ- 125 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH-----cCCEEEE--EeCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCcch-
Confidence 345799999864 33444566666655554 2566544 4555666666666666655 57776553 322111
Q ss_pred HHHHHhhcc-CCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHH
Q 002454 111 AVVAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 111 ~~va~~~~~-~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
. ....... .++|++..... +. ....+ .+..+....+..+++++...|-+++++|..+........-...+
T Consensus 126 ~-~~~~l~~~~~iPvV~i~~~---~~--~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 196 (327)
T PRK10423 126 P-SREIMQRYPSVPTVMMDWA---PF--DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGY 196 (327)
T ss_pred h-hHHHHHhcCCCCEEEECCc---cC--CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHH
Confidence 1 1112223 48999987543 11 11112 24556666788889999889999999996543221114456788
Q ss_pred HHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEE
Q 002454 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (920)
Q Consensus 190 ~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (920)
.+++++.| +.+.....+.... ........+.++.+. .+++|+. ++...+..+++.+++.|+.- ++...++
T Consensus 197 ~~al~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 197 RAAMKRAG-LNIPDGYEVTGDF----EFNGGFDAMQQLLALPLRPQAVFT--GNDAMAVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred HHHHHHcC-CCCCcceEEeCCC----ChHHHHHHHHHHhcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 99999988 7643322221111 112223445554433 4677665 67788889999999999853 3343343
No 187
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=97.28 E-value=0.059 Score=57.60 Aligned_cols=210 Identities=8% Similarity=-0.070 Sum_probs=120.3
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
+||++.|.. ...-.....+++.+.++. |+.+.+. .+...|+....+....++. .++.+||- +.........
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~-----g~~v~~~-~~~~~d~~~~~~~i~~~~~-~~~DgiIi~~~~~~~~~~~ 73 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL-----GVDAIYV-GPTTADAAGQVQIIEDLIA-QGVDAIAVVPNDPDALEPV 73 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh-----CCeEEEE-CCCCCCHHHHHHHHHHHHh-cCCCEEEEecCCHHHHHHH
Confidence 488888753 333445556666666552 4554432 2444677777777777775 47776664 3333323344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-CC-eEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~w-~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+...++|+|...... +. . ...+....+++...+..+++++.+. +- ++++++..+........-...+++
T Consensus 74 ~~~~~~~~iPvV~v~~~~--~~-~---~~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 74 LKKAREAGIKVVTHDSDV--QP-D---NRDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHCCCeEEEEcCCC--CC-C---cceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 445677899999876541 11 0 1112345678888888899998776 43 589998764432211334577888
Q ss_pred HHhccCCce-EeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEE
Q 002454 192 ALQNVSSSE-IQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (920)
Q Consensus 192 ~l~~~g~~~-i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~ 266 (920)
++++.| .. +.......... +...-...++++.+. ++++|+. .+...+..+++.+++.|+. .+...++
T Consensus 148 ~l~~~g-~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al~~~g~~-~dv~vvG 217 (298)
T cd06302 148 YQKEKY-YPMLELVDRQYGDD----DADKSYQTAQELLKAYPDLKGIIG--PTSVGIPGAARAVEEAGLK-GKVAVTG 217 (298)
T ss_pred HHhhcC-CCCeEEeCcccCCC----CHHHHHHHHHHHHHhCCCceEEEE--CCCcchhHHHHHHHhcCCC-CCEEEEE
Confidence 888875 22 21111111111 112223445554333 4565554 6678888999999999986 3343333
No 188
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=97.28 E-value=0.05 Score=58.05 Aligned_cols=204 Identities=12% Similarity=0.013 Sum_probs=114.6
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHH-HHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEE-TAV 112 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~-~~~ 112 (920)
+||+++|.. .........+++.+.++ .|+.+.+...+...++....+....++. .+|.+||= |..... ...
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~-----~g~~v~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~~~~~ 74 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH-----LGVELKVLEAGGYPNLDKQLAQIEQCKS-WGADAILLGTVSPEALNHD 74 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH-----hCCEEEEEcCCCCCCHHHHHHHHHHHHH-cCCCEEEEecCChhhhhHH
Confidence 589999854 22223344445444443 2566655443433465555666666665 58887663 432222 233
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC-----CeEEEEEEEeCCCCCCcchHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-----WRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~-----w~~v~ii~~~~~~g~~~~~~~ 187 (920)
+.. +. .++|+|...... . .. ..+-.+..++...+..+++++.... -+++++++..........-.+
T Consensus 75 l~~-~~-~~iPvV~~~~~~--~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 75 LAQ-LT-KSIPVFALVNQI--D--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHH-Hh-cCCCEEEEecCC--C--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 333 33 489998764331 1 11 1233466788888888888886621 346999986543221245567
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEE
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i 265 (920)
.+++.+++.| +++... ..... ....-...++++.+. ++++| +++...+..+++.+++.|.. ++...+
T Consensus 146 Gf~~al~~~g-~~~~~~--~~~~~----~~~~~~~~~~~~L~~~~~~d~i---~~~d~~a~g~l~al~~~g~~-~dv~vv 214 (295)
T TIGR02955 146 GFRAALEGSD-VEISAI--LWADN----DKELQRNLLQDLLKKHPDIDYL---VGSAVAAEAAISELRSLHMT-QQIKLV 214 (295)
T ss_pred HHHHHHhcCC-cEEEEE--ecCCC----cHHHHHHHHHHHHHhCCCcCEE---EeccHHHHHHHHHHHhhCcc-CCeEEE
Confidence 8999999888 776532 11111 123334455555433 45653 35667788899999988863 334333
No 189
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=97.25 E-value=0.015 Score=60.72 Aligned_cols=203 Identities=12% Similarity=0.148 Sum_probs=116.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||+++|.. .........|++.+.++ .|+.+.+...+ ++.. ....+. ..++.++|-.........+
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~~~~~~---~~~~---~~~~l~-~~~vdgii~~~~~~~~~~~- 67 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK-----NGYNMNVSITP---SLAE---AEDLFK-ENRFDGVIIFGESASDVEY- 67 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH-----cCCEEEEEecc---cHHH---HHHHHH-HcCcCEEEEeCCCCChHHH-
Confidence 388999864 23334455555555543 25666665443 3322 233344 4577766532222222222
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (920)
..+...++|+|..... .+ ...+ .+..++...+..+++++...|.++++++...........-...+++.++
T Consensus 68 ~~~~~~~ipvV~~~~~--~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 68 LYKIKLAIPVVSYGVD--YD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHcCCCEEEEccc--CC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 4455789999987544 11 2223 3667888888999999988899999999765432111344677888998
Q ss_pred ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEe
Q 002454 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 195 ~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t 267 (920)
+.| ..+.......... ........+.++.+. .+++|+. ++...+..+++.+++.|+. +++...++-
T Consensus 139 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~dv~vvg~ 207 (261)
T cd06272 139 ENG-ISISDSHIDVDGL----SAEGGDNAAKKLLKESDLPTAIIC--GSYDIALGVLSALNKQGISIPEDIEIISY 207 (261)
T ss_pred HcC-CCCCHHHeeeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCCCceEEEee
Confidence 888 5432221111111 112334455555433 3676554 7777888899999999985 334444433
No 190
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.20 E-value=0.023 Score=60.26 Aligned_cols=203 Identities=12% Similarity=0.135 Sum_probs=118.4
Q ss_pred EEEEEeCC------CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH
Q 002454 37 IGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (920)
Q Consensus 37 IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~ 110 (920)
||++.|.. .........+++.+.++ .|+.+.+...+. . .+....++ ..++.++|-.......
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~-----~g~~~~~~~~~~---~---~~~~~~~~-~~~~dgiii~~~~~~~ 69 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA-----AGVNLLLLPASS---E---DSDSALVV-SALVDGFIVYGVPRDD 69 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH-----CCCEEEEecCcc---H---HHHHHHHH-hcCCCEEEEeCCCCCh
Confidence 88999862 23334555566555554 266666554332 1 12233444 4688877764332222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC------------
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV------------ 178 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~------------ 178 (920)
.....+...++|+|..... .. .. +-.+..++...+..+++++...|-++++++..+..
T Consensus 70 -~~~~~~~~~~ipvV~~~~~--~~----~~---~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 70 -PLVAALLRRGLPVVVVDQP--LP----PG---VPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred -HHHHHHHHcCCCEEEEecC--CC----CC---CCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 3344566789999987554 11 12 23467888888999999999899999999975421
Q ss_pred -----CCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHH
Q 002454 179 -----YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTE 251 (920)
Q Consensus 179 -----~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~ 251 (920)
..........+.+++++.| .+......+.... .........+.++.++ ++++|+. ++...+..+++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~~a 213 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAG-IDISDVPIWEIPE---NDRASGEEAARELLDASPRPTAILC--MSDVLALGALQV 213 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcC-CCCChheEEecCC---CchHHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHHHH
Confidence 1101344577888888877 5532211111111 1113344555565433 4566554 777888899999
Q ss_pred HHHcCCC-CCCeEEEEe
Q 002454 252 ANRMGLV-GKDSVWIVT 267 (920)
Q Consensus 252 a~~~g~~-~~~~~~i~t 267 (920)
+++.|+. +++...++-
T Consensus 214 l~~~g~~ip~di~vig~ 230 (283)
T cd06279 214 ARELGLRVPEDLSVVGF 230 (283)
T ss_pred HHHcCCCCCCceEEeee
Confidence 9999985 334444443
No 191
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.19 E-value=0.0034 Score=67.70 Aligned_cols=69 Identities=20% Similarity=0.276 Sum_probs=45.1
Q ss_pred CCChHHhhhCCcccccccchHHHHHHHHh---cCCCCCcee-ecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhh
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEV---LGFRSGNIV-PFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~~~l~~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~ 744 (920)
|++++||. |.++++..++.....+... .+.....+. .+.+ ..+...++.+|++|+++...++......+
T Consensus 121 i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~-~~~~~~al~~G~vDa~~~~ep~~~~~~~~ 193 (314)
T PRK11553 121 IKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLT-PADARAAFQQGNVDAWAIWDPYYSAALLQ 193 (314)
T ss_pred CCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecC-hHHHHHHHHcCCCCEEEEcCcHHHHHHhc
Confidence 78999997 6788887665544443332 223222332 2334 67788999999999999877776654443
No 192
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=97.17 E-value=0.023 Score=59.86 Aligned_cols=199 Identities=10% Similarity=0.148 Sum_probs=122.6
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchH---HHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWE---ETA 111 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~---~~~ 111 (920)
||+++|.. ...-.....|++.+.++. |+.+ .+.++..++....+..++++. .+|.++| .|..+. ...
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~~ 73 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEK-----GYSL--LLASTNNDPERERKCLENMLS-QGIDGLIIEPTKSALPNPNI 73 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHc-----CCEE--EEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeccccccccccH
Confidence 78888754 333345555555444442 4555 456667788777888888876 5888776 333221 111
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC-CCCCcchHHHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLA 190 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (920)
.....+...++|+|...... + ... +..+..++...+..+++++...|.++++++...+. .+ ......+.
T Consensus 74 ~~~~~~~~~~ipvV~~~~~~--~---~~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~--~~r~~g~~ 143 (273)
T cd01541 74 DLYLKLEKLGIPYVFINASY--E---ELN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQG--VKRMKGFI 143 (273)
T ss_pred HHHHHHHHCCCCEEEEecCC--C---CCC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccH--HHHHHHHH
Confidence 23344567799999886541 1 111 23477888888899999998889999998875433 22 34457788
Q ss_pred HHHhccCCceEeEEe--ecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCCC
Q 002454 191 EALQNVSSSEIQSRL--VLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~--~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~~ 260 (920)
+.+++.| ..+.... ...... ......+.+.++.+. ++++|+ +.+...+..+++.+++.|+..+
T Consensus 144 ~~l~~~~-~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~av~--~~~d~~a~g~~~al~~~g~~~p 210 (273)
T cd01541 144 KAYREHG-IPFNPSNVITYTTEE----KEEKLFEKIKEILKRPERPTAIV--CYNDEIALRVIDLLKELGLKIP 210 (273)
T ss_pred HHHHHcC-CCCChHHEEeccccc----hhhHHHHHHHHHHcCCCCCCEEE--EcCcHHHHHHHHHHHHcCCCCC
Confidence 8888887 5432111 111111 112334555555433 567765 4777888889999999998543
No 193
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.17 E-value=0.042 Score=60.16 Aligned_cols=209 Identities=12% Similarity=0.097 Sum_probs=118.7
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
..-.||+++|.- .........+++.+.++. |+.+ .+.+...++..-.+....++. ++|.++|--.......
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~ 129 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYHT-----GNFL--LIGNGYHNEQKERQAIEQLIR-HRCAALVVHAKMIPDA 129 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEE--EEEeCCCCHHHHHHHHHHHHh-cCCCEEEEecCCCChH
Confidence 356799999743 333344455555544442 4544 445555666665666666664 5787666321111112
Q ss_pred HHHHhhccCCcc-EEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 112 ~va~~~~~~~iP-~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.+..+.+ ++| ++...... + ....++ +.+++...+..+++.+...|.+++++|...........-...++
T Consensus 130 ~~~~~~~--~~p~vV~i~~~~--~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 130 ELASLMK--QIPGMVLINRIL--P---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred HHHHHHh--cCCCEEEEecCC--C---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 2333332 677 66654331 1 111222 56777778888889998889999999975443221144567889
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEE
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIV 266 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~ 266 (920)
+++++.| +.+.......... +...-...+.++.+. .+++|+. .+...+..+++.+++.|+. +++...++
T Consensus 200 ~al~~~g-i~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~G~~vP~disVig 271 (343)
T PRK10727 200 DALAESG-IPANDRLVTFGEP----DESGGEQAMTELLGRGRNFTAVAC--YNDSMAAGAMGVLNDNGIDVPGEISLIG 271 (343)
T ss_pred HHHHHCC-CCCChhhEEeCCC----ChhHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceeEEe
Confidence 9999988 7543221111111 112223345554433 4676654 6778888999999999984 33443343
No 194
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=97.16 E-value=0.1 Score=55.01 Aligned_cols=212 Identities=12% Similarity=0.129 Sum_probs=116.7
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~~~~~v 113 (920)
+||++.|.. .........+++.+.++.+-. ...+.... ....++..-.+....+. . +++++| .+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~--~~~~~~~~-~~~~~~~~~~~~i~~~~-~-~vdgiii~~~~~~~~~~~ 75 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA--RIRVRIHF-VESFDPAALAAALLRLG-A-RSDGVALVAPDHPQVRAA 75 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc--CceEEEEE-ccCCCHHHHHHHHHHHH-h-cCCEEEEeCCCcHHHHHH
Confidence 588888764 333445556666666554221 12222222 33456655555555554 4 777654 34443332334
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-C--CeEEEEEEEeCCCCCCcchHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N--WRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~--w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
...+.+.++|+|...... + .... +..+..++...+..+++++.+. | -++++++...........-.+.++
T Consensus 76 i~~~~~~~ipvV~~~~~~--~--~~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 76 VARLAAAGVPVVTLVSDL--P--GSPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHCCCcEEEEeCCC--C--CCce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 455566899999876441 1 1111 2335667777777788877664 4 469999876433221134457788
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhcc--CCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
+++++.+ ..+.......... +..+....+.++.+ .++++|+. ..+ .. ..+++.+++.|+. .+...++-+
T Consensus 149 ~a~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d-~~-~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEF-PGLRVLETLEGLD----DPARAYEATRKLLARHPDLVGIYN-AGG-GN-RGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhC-CCcEEEeeccCCC----ChHHHHHHHHHHHHhCCCceEEEE-CCC-Ch-HHHHHHHHHcCCC-CCcEEEEec
Confidence 8888776 5443322221111 11233445555433 25778776 443 33 6899999999986 344444443
No 195
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.12 E-value=0.01 Score=61.29 Aligned_cols=120 Identities=15% Similarity=0.182 Sum_probs=69.6
Q ss_pred CCCChHHhhhCCcccccccc-----hHHHHHHH-HhcCCCC---CceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHH
Q 002454 672 NVTDIQSLKSGNLKVGCVDD-----SFVKKYLE-EVLGFRS---GNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~~~-----~~~~~~l~-~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~ 742 (920)
+|++++||+ |.++++... .....+.. +..+... -+.+...+ ....+..|.+|++|+.+......+.+.
T Consensus 96 ~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~-~~~~~~~l~~G~~Da~~~~~~~~~~~~ 172 (243)
T PF12974_consen 96 PITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGS-HDAVLEALLNGKADAAAIPSDAFERLE 172 (243)
T ss_dssp S--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE--HHHHHHHHHTTSSSEEEEEHHHHHHHH
T ss_pred CCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCC-HHHHHHHHHcCCccEEEEechhHHHHH
Confidence 389999997 678877322 22233322 2222221 12334556 889999999999999999877766655
Q ss_pred hhc---CCceEEee-eeeecceeeEecCCCc--chHHHHHHHHhhhccchHHHHHHHH
Q 002454 743 DKY---CKKYTAIN-TYRFGGLGFAFQRGSP--IALDISRAILDLSEDGRLKTLEEEW 794 (920)
Q Consensus 743 ~~~---~~~~~~~~-~~~~~~~~~~~~k~sp--~~~~~n~~i~~l~e~G~~~~~~~~~ 794 (920)
... .+.+++.. .-......++..++-| .+..+-.+++.+..+-.-..+.+.+
T Consensus 173 ~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 173 AEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 432 33334333 2222344577777755 8999999999999864444455444
No 196
>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=97.04 E-value=0.0048 Score=66.06 Aligned_cols=69 Identities=13% Similarity=0.135 Sum_probs=45.3
Q ss_pred CCChHHhhhCCcccccccchHHH----HHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhh
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVK----KYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~----~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~ 744 (920)
|++++||+ |++||+..++... .+|.. .+.....+..+.-+..+...++.+|++|+++...+......+.
T Consensus 92 I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~-~Gl~~~dv~~v~~~~~~~~~al~~G~vDa~~~~~p~~~~~~~~ 164 (300)
T TIGR01729 92 IEKPEDLK--GKNVAVPFVSTTHYSLLAALKH-WKTDPREVNILNLKPPQIVAAWQRGDIDAAYVWPPALSELLKS 164 (300)
T ss_pred CCChhHcC--CCEEEeCCCCcHHHHHHHHHHH-cCCChhheEEEecCcHHHHHHHHcCCcCEEEEecHHHHHHHhc
Confidence 89999997 7889986554333 33432 2333333433322257889999999999999987776554443
No 197
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=97.03 E-value=0.069 Score=58.49 Aligned_cols=209 Identities=11% Similarity=0.089 Sum_probs=118.7
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
..-.||+++|.. .........|++.+.++. |+.+ .+.+...++..-.+....+.. +++.++|-........
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~-----gy~~--~~~~~~~~~~~~~~~i~~l~~-~~vdGiIi~~~~~~~~ 129 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH-----QKYV--LIGNSYHEAEKERHAIEVLIR-QRCNALIVHSKALSDD 129 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEE--EEEcCCCChHHHHHHHHHHHh-cCCCEEEEeCCCCChH
Confidence 345799999854 333445555666555543 4554 344555566555555666654 5777665321111112
Q ss_pred HHHHhhccCCcc-EEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 112 ~va~~~~~~~iP-~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.+..+.. ++| ++...... + ....+ .+..++...+..+++++...|.+++++|...........-.+.++
T Consensus 130 ~~~~~~~--~~p~vV~i~~~~--~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 130 ELAQFMD--QIPGMVLINRVV--P---GYAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred HHHHHHh--cCCCEEEEeccc--C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 2333333 355 66554331 1 11223 355677777888889998889999999975443211145567899
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEE
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (920)
+++++.| +.+.......... ....-.+.+.++.+. .+++|+. ++...+..+++.+++.|+.. ++...++
T Consensus 200 ~al~~~g-i~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~al~~~G~~vP~disvig 271 (346)
T PRK10401 200 SALKEQG-IIPPESWIGTGTP----DMQGGEAAMVELLGRNLQLTAVFA--YNDNMAAGALTALKDNGIAIPLHLSIIG 271 (346)
T ss_pred HHHHHcC-CCCChhheecCCC----ChHHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 9999988 6543221111111 112223445554433 4677665 67888889999999999853 3343343
No 198
>PRK09526 lacI lac repressor; Reviewed
Probab=97.02 E-value=0.073 Score=58.23 Aligned_cols=206 Identities=13% Similarity=0.069 Sum_probs=119.1
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc--CCchHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--METWEET 110 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG--p~~s~~~ 110 (920)
.-.||+++|.. ...-.....+++.+.++ .|+.+.+...+. .++....+....++. ++|+++|- +..+...
T Consensus 63 ~~~Igvv~~~~~~~~~~~~~~gi~~~a~~-----~g~~~~i~~~~~-~~~~~~~~~l~~l~~-~~vdGiii~~~~~~~~~ 135 (342)
T PRK09526 63 SLTIGLATTSLALHAPSQIAAAIKSRADQ-----LGYSVVISMVER-SGVEACQAAVNELLA-QRVSGVIINVPLEDADA 135 (342)
T ss_pred CceEEEEeCCCCcccHHHHHHHHHHHHHH-----CCCEEEEEeCCC-ChHHHHHHHHHHHHh-cCCCEEEEecCCCcchH
Confidence 45699999854 22234455566555543 267766543332 233333445556654 57887663 4433222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
..+. ....++|++..... + ... +-.+.+++...+..+++++...|.++++++...........-...++
T Consensus 136 ~~~~--~~~~~iPvV~~d~~---~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf~ 204 (342)
T PRK09526 136 EKIV--ADCADVPCLFLDVS---P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGWL 204 (342)
T ss_pred HHHH--hhcCCCCEEEEecc---C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHHH
Confidence 2221 22358999877532 1 111 22466788888888999998899999999976433211134467788
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEE
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (920)
+++++.| +.+.... .... ...+-...+.++... .+++|+. ++...+..+++.+++.|+.. .+...++
T Consensus 205 ~al~~~g-i~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~disvig 274 (342)
T PRK09526 205 EYLTDYQ-LQPIAVR-EGDW-----SAMSGYQQTLQMLREGPVPSAILV--ANDQMALGVLRALHESGLRVPGQISVIG 274 (342)
T ss_pred HHHHHcC-CCcceEE-eCCC-----chHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 9999888 7643221 1111 112223344554332 4676664 77788889999999999853 3344443
No 199
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.02 E-value=0.041 Score=57.60 Aligned_cols=204 Identities=11% Similarity=0.103 Sum_probs=119.1
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
+||++.|.+.....+...+++.+.++. .|+.+-+. +. +. .+..+.|. ..+|.++|-...+.. ...
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~----~g~~~~~~--~~--~~---~~~~~~l~-~~~vdGiI~~~~~~~---~~~ 65 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH----GPWSIYLE--PR--GL---QEPLRWLK-DWQGDGIIARIDDPE---MAE 65 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc----CCeEEEEe--cc--cc---hhhhhhcc-ccccceEEEECCCHH---HHH
Confidence 489999965445556666666665553 25555432 22 11 33334443 467887775322222 223
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (920)
.+...++|+|...... +. +.+-.+..++...+..+++++...|.++++++..... .....-...+++++++
T Consensus 66 ~l~~~~~PvV~~~~~~--~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~-~~~~~R~~gf~~~~~~ 136 (265)
T cd01543 66 ALQKLGIPVVDVSGSR--EK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGA-RWSDEREEAFRQLVAE 136 (265)
T ss_pred HHhhCCCCEEEEeCcc--CC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCC-HHHHHHHHHHHHHHHH
Confidence 4556799999886541 11 1233577888888888999998889999999865433 1112335778889998
Q ss_pred cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEEec
Q 002454 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (920)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t~ 268 (920)
.| ..+.......... ......-...+.++.+. ++++|+. ++...+..+++.+++.|+. +++...++-+
T Consensus 137 ~~-~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 137 AG-YECSFFYRGLSTD--AQSWEEEQEELAQWLQSLPKPVGIFA--CTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred cC-CccccccCccccc--cccHHHHHHHHHHHHhcCCCCcEEEe--cChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 88 6642111100000 00112223445554333 4676554 7788888999999999984 4455555444
No 200
>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=97.01 E-value=0.042 Score=57.37 Aligned_cols=200 Identities=12% Similarity=0.060 Sum_probs=108.6
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
|||+++|.. .........+..++++.-++ .|+.+.+ .++. ++....+...+++. .+|.+||=.... ....+..
T Consensus 1 ~Igvi~~~~-~~~~~f~~~l~~gi~~~~~~-~gy~~~~--~~~~-~~~~~~~~~~~l~~-~~vdgiii~~~~-~~~~~~~ 73 (260)
T cd06304 1 KVALVYDGG-GGDKSFNQSAYEGLEKAEKE-LGVEVKY--VESV-EDADYEPNLRQLAA-QGYDLIFGVGFG-FMDAVEK 73 (260)
T ss_pred CEEEEecCC-CCcchHHHHHHHHHHHHHHh-cCceEEE--EecC-CHHHHHHHHHHHHH-cCCCEEEECCcc-hhHHHHH
Confidence 589999851 11233344444444443222 3555444 4444 55555566666654 578866543222 1233434
Q ss_pred hhcc-CCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-CCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 116 IASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 116 ~~~~-~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
..++ .++|++...... +. ... +-....++..-++.++.++... |-+++++|..+... ....-...+.+.+
T Consensus 74 ~~~~~~~ipvv~~~~~~--~~--~~~---~~~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~-~~~~R~~Gf~~~~ 145 (260)
T cd06304 74 VAKEYPDVKFAIIDGVV--DA--PPN---VASYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIP-EVNRFINGFAAGA 145 (260)
T ss_pred HHHHCCCCEEEEecCcc--CC--CCC---eeeeecchHHHHHHHHHHHHHhccCCceEEEeccccH-HHHHHHHHHHHHH
Confidence 4443 478988775541 11 011 1234455555566666666554 88999999764321 1133467788899
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcC
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (920)
++.| ............. ++. ..-...++++.+.++++|+ +.+...+..+++++++.|
T Consensus 146 ~~~~-~~~~~~~~~~~~~--~~~-~~~~~~~~~~l~~~~~ai~--~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 146 KSVN-PDITVLVIYTGSF--FDP-AKGKEAALALIDQGADVIF--AAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHhC-CCcEEEEEEecCc--cCc-HHHHHHHHHHHhCCCCEEE--EcCCCCchHHHHHHHHcC
Confidence 8887 5433222211110 011 2233456665555678764 577788888999999999
No 201
>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=96.99 E-value=0.049 Score=56.98 Aligned_cols=201 Identities=13% Similarity=0.163 Sum_probs=120.2
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
.||+++|.. ...-.....+++.++++. |+++. +.+...++..-.+..+.+.. .++.++|= |...... .
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~~~--~ 70 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYRA-----GLRVI--LCNTDEDPEKEAMYLELMEE-ERVTGVIFAPTRATLR--R 70 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHHC-----CCEEE--EEeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCCCch--H
Confidence 389999876 234455666776666652 56664 44555666555555555554 56775443 4322222 2
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
.. ....++|+|..... .+ ....++ +..++...+..+++.+...|-++++++..+... ........+++.+
T Consensus 71 ~~-~~~~~iPvV~~~~~--~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~-~~~~R~~gf~~~~ 140 (263)
T cd06280 71 LA-ELRLSFPVVLIDRA--GP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNAST-TGAERRAGYEDAM 140 (263)
T ss_pred HH-HHhcCCCEEEECCC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCC-CHHHHHHHHHHHH
Confidence 22 34668999988654 11 223344 346788888889999988899999998764321 1134467788888
Q ss_pred hccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC-CCCeEEEE
Q 002454 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIV 266 (920)
Q Consensus 194 ~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~ 266 (920)
++.| ....... ... ...+..+.+.++... .+++|+ +++...+..+++.+++.|+. +++...++
T Consensus 141 ~~~~-~~~~~~~-~~~------~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 141 RRHG-LAPDARF-VAP------TAEAAEAALAAWLAAPERPEALV--ASNGLLLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred HHcC-CCCChhh-ccc------CHHHHHHHHHHHhcCCCCCcEEE--ECCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 8888 6542211 111 112333445554433 567655 47778888999999999984 34444443
No 202
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=96.98 E-value=0.082 Score=56.58 Aligned_cols=199 Identities=9% Similarity=0.002 Sum_probs=114.9
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~va 114 (920)
||++.|.- .........+++.+.++. |+.+ .+.++..++..-.+....++. ++|.+||= |..........
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~-----g~~v--~~~~~~~~~~~q~~~i~~l~~-~~vDgIIi~~~~~~~~~~~l 72 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL-----GAKV--FVQSANGNEAKQISQIENLIA-RGVDVLVIIPQNGQVLSNAV 72 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc-----CCEE--EEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChhHHHHHH
Confidence 56666543 333344445555544443 4544 456777788777777777776 47775553 43333334455
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCe-EEEEEEEeCCCCCCcchHHHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYGGDSGKLALLAEAL 193 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~-~v~ii~~~~~~g~~~~~~~~l~~~l 193 (920)
..+.+.++|+|...... + . .+....+..+....++.+++++...+.+ +++++..+............+++.+
T Consensus 73 ~~~~~~~iPvV~~d~~~--~---~--~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 73 QEAKDEGIKVVAYDRLI--N---D--ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHCCCeEEEecCcC--C---C--CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 55677899999876541 1 1 1122346678888888899999777655 7887765422110022345666677
Q ss_pred hcc----CCceEeEEeecCCCCCCCCChHHHHHHHHhhcc---CCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 194 QNV----SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 194 ~~~----g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
++. + +++.... +. .. ....+....+.++.. .++++|+. ++...+..+++.+++.|+.
T Consensus 146 ~~~~~~~~-~~~~~~~-~~-~~---~~~~~~~~~~~~ll~~~~~~~~aI~~--~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGD-IKIVGDQ-WV-DG---WLPENALRIMENALTANDNKVDAVVA--SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCC-eEEecCc-CC-CC---CCHHHHHHHHHHHHHhCCCCccEEEE--CCCchHHHHHHHHHHCCCC
Confidence 653 3 3332111 11 10 012333455666542 24676654 6777788999999999985
No 203
>PRK09492 treR trehalose repressor; Provisional
Probab=96.96 E-value=0.082 Score=57.03 Aligned_cols=190 Identities=14% Similarity=0.084 Sum_probs=115.2
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCC-chHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGME-TWEETA 111 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~-~s~~~~ 111 (920)
.-+||+++|.. .........+++.+ +++. |+.+ .+.++..|+....+....+. +.+|.++|-.. +.....
T Consensus 62 ~~~Ig~i~~~~~~~~~~~~~~~i~~~---~~~~--gy~~--~~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~~~~~~~ 133 (315)
T PRK09492 62 DKVVGIIVSRLDSLSENQAVRTMLPA---FYEQ--GYDP--IIMESQFSPEKVNEHLGVLK-RRNVDGVILFGFTGITEE 133 (315)
T ss_pred CCeEEEEecCCcCcccHHHHHHHHHH---HHHc--CCeE--EEEecCCChHHHHHHHHHHH-hcCCCEEEEeCCCcccHH
Confidence 45799999853 22334444455433 3443 5554 45566667766666665555 45788777532 222222
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEe-CC--CCCCcchHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-NV--YGGDSGKLAL 188 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~-~~--~g~~~~~~~~ 188 (920)
.....++|++..... . .. +-.+.+++...+..+++++...|.++++++... .. .+ ..-...
T Consensus 134 ----~l~~~~~pvv~i~~~---~----~~---~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~--~~R~~G 197 (315)
T PRK09492 134 ----MLAPWQDKLVLLARD---A----KG---FSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTG--KRRHQA 197 (315)
T ss_pred ----HHHhcCCCEEEEecc---C----CC---CcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhH--HHHHHH
Confidence 223446677765432 1 11 224567888888888999988999999999632 22 22 455678
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
+++++++.| +..... .... +. ..-...+.++.+.++++|+. ++...+..+++.+++.|+
T Consensus 198 f~~al~~~g-~~~~~~--~~~~----~~-~~~~~~~~~~l~~~~~ai~~--~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 198 YLAFCKQHK-LTPVAA--LGGL----SM-QSGYELVAKVLTPETTALVC--ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHHcC-CCceee--cCCC----Cc-hHHHHHHHHHhhcCCCEEEE--cCcHHHHHHHHHHHHcCC
Confidence 999999999 764321 1111 11 22233455554457888765 667888899999999998
No 204
>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=96.95 E-value=0.042 Score=58.49 Aligned_cols=186 Identities=13% Similarity=0.241 Sum_probs=108.0
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
+||++...+.+.-.+...|++-++++..-. . ..+++.+.+..+|+..+.+.++++.. +++++|+.-.+. .+..++.
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~-~-~~~~~~~~~a~~d~~~~~~~~~~l~~-~~~DlIi~~gt~-aa~~~~~ 76 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYD-E-KNVEIEYKNAEGDPEKLRQIARKLKA-QKPDLIIAIGTP-AAQALAK 76 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT---C-CCEEEEEEE-TT-HHHHHHHHHHHCC-TS-SEEEEESHH-HHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCc-c-ccEEEEEecCCCCHHHHHHHHHHHhc-CCCCEEEEeCcH-HHHHHHH
Confidence 588888877554566777887776665332 2 46788899999999999999988765 578877755443 3444544
Q ss_pred hhccCCccEEeecCCCCCCCc----cCCCC--ceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHH
Q 002454 116 IASRVQVPILSFAAPAVTPLS----MSRRW--PYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~----~~~~~--~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~ 187 (920)
..... +|++-.+.. +|.. ..... .++.-+. .........+++++. +-++++++|+++.-. .....+
T Consensus 77 ~~~~~-iPVVf~~V~--dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~-~~~~~~ 150 (294)
T PF04392_consen 77 HLKDD-IPVVFCGVS--DPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPN-SVAQIE 150 (294)
T ss_dssp H-SS--S-EEEECES---TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HH-HHHHHH
T ss_pred hcCCC-cEEEEEecc--ChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCcc-HHHHHH
Confidence 44433 999877775 2322 11222 3444443 334455566666664 568999999876521 145667
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~ 242 (920)
.+++.+++.| +++.... ++. ..++...+..+. .+.|++++ ..+.
T Consensus 151 ~~~~~a~~~g-~~l~~~~-v~~-------~~~~~~~~~~l~-~~~da~~~-~~~~ 194 (294)
T PF04392_consen 151 QLRKAAKKLG-IELVEIP-VPS-------SEDLEQALEALA-EKVDALYL-LPDN 194 (294)
T ss_dssp HHHHHHHHTT--EEEEEE-ESS-------GGGHHHHHHHHC-TT-SEEEE--S-H
T ss_pred HHHHHHHHcC-CEEEEEe-cCc-------HhHHHHHHHHhh-ccCCEEEE-ECCc
Confidence 8888888899 8876433 332 357788888875 46788888 5544
No 205
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.91 E-value=0.057 Score=56.70 Aligned_cols=202 Identities=12% Similarity=0.049 Sum_probs=118.1
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
||++.|.. .........+++.+.++. |+.+.+...+ .+ ....+...+++...+|.++|=-..... .....
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~-----gy~~~~~~~~--~~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~ 72 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQ-----RYDLALFPLL--SL-ARLKRYLESTTLAYLTDGLLLASYDLT-ERLAE 72 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHC-----CCEEEEEeCC--Cc-HHHHHHHHHHHHhcCCCEEEEecCccC-hHHHH
Confidence 78898864 333455556666655553 5666665444 22 222344444343456775553222222 23444
Q ss_pred hhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC--------CCCCcchHH
Q 002454 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--------YGGDSGKLA 187 (920)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~--------~g~~~~~~~ 187 (920)
.+...++|+|..... . ...++ +.+++...+..+++.+... .++++++..... .. ..-.+
T Consensus 73 ~l~~~~iPvv~~~~~---~----~~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~--~~R~~ 139 (269)
T cd06297 73 RRLPTERPVVLVDAE---N----PRFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVF--AERRA 139 (269)
T ss_pred HHhhcCCCEEEEccC---C----CCCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccH--HHHHH
Confidence 566789999988543 1 11233 4578888888888988777 799998864321 22 34478
Q ss_pred HHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEE
Q 002454 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVW 264 (920)
Q Consensus 188 ~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~ 264 (920)
.+++.+++.| .++.....+.... ...+..+.+.++.+. ++++|+. ++...+..+++.+++.|..- .+...
T Consensus 140 gf~~~~~~~g-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vP~di~v 212 (269)
T cd06297 140 GFQQALKDAG-RPFSPDLLAITDH----SEEGGRLAMRHLLEKASPPLAVFA--SADQQALGALQEAVELGLTVGEDVRV 212 (269)
T ss_pred HHHHHHHHcC-CCCChhhEEeCCC----ChhhHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 8899999888 7643322111111 112334556665433 4677665 67778889999999999743 34444
Q ss_pred EEe
Q 002454 265 IVT 267 (920)
Q Consensus 265 i~t 267 (920)
++-
T Consensus 213 vg~ 215 (269)
T cd06297 213 VGF 215 (269)
T ss_pred EEE
Confidence 433
No 206
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.90 E-value=0.093 Score=56.38 Aligned_cols=201 Identities=16% Similarity=0.117 Sum_probs=118.3
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~ 110 (920)
..-+||++.|.. .........+++.+.++. |+.+. +.+...+...-.+..+.++. .+|++||= +.....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~- 104 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH-----GYLVL--IGDCAHQNQQEKTFVNLIIT-KQIDGMLLLGSRLPF- 104 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC-----CCEEE--EEeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCh-
Confidence 346899999854 444566667777666664 45544 34555566555566666654 57886663 222111
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
.... .......|++...... + ....+ .+..++...+..+++.+...|-+++++|...........-...++
T Consensus 105 ~~~~-~~~~~~~pvv~~~~~~--~---~~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 105 DASK-EEQRNLPPMVMANEFA--P---ELELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred HHHH-HHHhcCCCEEEEcccc--C---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 1111 1222234666654431 1 11233 356788888888999998889999999975433211134567888
Q ss_pred HHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 191 ~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
+.+++.| +++.......... +.......+.++.+. .+++|+. ++...+..+++.+++.|+.
T Consensus 176 ~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~~al~~~g~~ 238 (309)
T PRK11041 176 QALRRCG-ITVDPQYIARGDF----TFEAGAKALKQLLDLPQPPTAVFC--HSDVMALGALSQAKRMGLR 238 (309)
T ss_pred HHHHHcC-CCCCHHHeEeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 9998888 7653221111111 122334555565433 4677665 6777777899999999984
No 207
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.83 E-value=0.1 Score=56.71 Aligned_cols=200 Identities=10% Similarity=0.076 Sum_probs=117.6
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
.-.||+++|.- .....+...+++.+.++ .|+.+.+ .+...++....+....++. .+|.++|-...... ..
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~~--~~~~~~~~~~~~~~~~~~~-~~vdgiI~~~~~~~-~~ 133 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA-----HGYQTML--AHYGYKPEMEQERLESMLS-WNIDGLILTERTHT-PR 133 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH-----CCCEEEE--ecCCCCHHHHHHHHHHHHh-cCCCEEEEcCCCCC-HH
Confidence 35799999853 33334555566555544 2555544 4555566555555555554 57887664221111 22
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
....+...++|+|...... . .. .. ..+.+++...+..+++++...|.++++++....... ...-...++++
T Consensus 134 ~~~~l~~~~iPvV~~~~~~--~---~~-~~--~~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~-~~~R~~Gf~~a 204 (331)
T PRK14987 134 TLKMIEVAGIPVVELMDSQ--S---PC-LD--IAVGFDNFEAARQMTTAIIARGHRHIAYLGARLDER-TIIKQKGYEQA 204 (331)
T ss_pred HHHHHHhCCCCEEEEecCC--C---CC-CC--ceEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCccc-HHHHHHHHHHH
Confidence 3344567899999763221 1 01 11 136788888888899999999999999996543211 13345778899
Q ss_pred HhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 193 l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+++.| +... ........ ....-...++++.+. ++++|+. ++...+..+++++++.|+.-
T Consensus 205 l~~~g-~~~~-~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~g~~v 265 (331)
T PRK14987 205 MLDAG-LVPY-SVMVEQSS----SYSSGIELIRQARREYPQLDGVFC--TNDDLAVGAAFECQRLGLKV 265 (331)
T ss_pred HHHcC-CCcc-ceeecCCC----ChhhHHHHHHHHHhcCCCCCEEEE--CCcHHHHHHHHHHHHcCCCC
Confidence 99888 5321 11111111 111223345554433 4677665 77888899999999999854
No 208
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=96.62 E-value=0.45 Score=50.87 Aligned_cols=201 Identities=10% Similarity=0.076 Sum_probs=106.8
Q ss_pred EEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEE-ecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHHHH
Q 002454 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (920)
Q Consensus 37 IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~-~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~~v 113 (920)
||++.|.. ...-.....+++.+.++. |+ ..+++ .++..++....+....++. +++.+||= |..+......
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~-~~~i~~~~~~~d~~~q~~~i~~l~~-~~vdgiIi~~~~~~~~~~~ 73 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL-----GS-VYIIYTGPTGTTAEGQIEVVNSLIA-QKVDAIAISANDPDALVPA 73 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh-----CC-eeEEEECCCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChHHHHHH
Confidence 56777653 223344555666555554 32 22233 2455677777777777776 47775443 4443333344
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEecc-CchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLA 190 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p-~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (920)
...+.+.+||+|...... +. . +....+.. +....++..++.+.++ +-.+++++..+..........+.++
T Consensus 74 l~~~~~~giPvV~~~~~~--~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 74 LKKAMKRGIKVVTWDSGV--AP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHCCCEEEEeCCCC--CC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 455677899999876541 11 1 11233433 4444555555555332 3368999986543211123456677
Q ss_pred HHHhccC--CceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 191 EALQNVS--SSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 191 ~~l~~~g--~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
+.+++.| ..++.... .... ....-.+.+.++.+. ++++|+. .+...+..+++.+++.|..+
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~~----~~~~~~~~~~~~L~~~~~~~ai~~--~~d~~a~ga~~al~~~g~~~ 211 (302)
T TIGR02637 147 KELKDPKYPKVKLVATV--YGDD----DAQKSYQEAQGLLKSYPNLKGIIA--PTTVGIKAAAQAVSDAKLIG 211 (302)
T ss_pred HHHhhccCCCCEEEeee--cCCc----hHHHHHHHHHHHHHhCCCccEEEe--CCCchHHHHHHHHHhcCCCC
Confidence 7776643 03332111 1111 112334455555444 3555554 55677788888899988754
No 209
>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=96.62 E-value=0.17 Score=52.94 Aligned_cols=196 Identities=13% Similarity=0.093 Sum_probs=107.2
Q ss_pred EEEEEEeCC----CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH
Q 002454 36 KIGAIVDAN----SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s----~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~ 111 (920)
|||++.|.. .........|++.+.++ .|+.+.+. +.. ++..-.+....++. .+|.+||--... ...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~-----~gy~~~i~--~~~-~~~~~~~~i~~l~~-~~vdgiI~~~~~-~~~ 70 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE-----LGIEYKYV--ESK-SDADYEPNLEQLAD-AGYDLIVGVGFL-LAD 70 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH-----cCCeEEEE--ecC-CHHHHHHHHHHHHh-CCCCEEEEcCcc-hHH
Confidence 589999852 22334555555555554 35665554 333 34444455556654 688888853222 122
Q ss_pred HHHHhhccC-CccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc-CCeEEEEEEEeCCCCCCcchHHHH
Q 002454 112 VVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NWRRVAAIYEDNVYGGDSGKLALL 189 (920)
Q Consensus 112 ~va~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~-~w~~v~ii~~~~~~g~~~~~~~~l 189 (920)
.......+. ++|++...... + . .+.+-.+..+....+..++.++... |.++++++..+.... .....+.+
T Consensus 71 ~~~~~~~~~~~~PiV~i~~~~--~---~--~~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~-~~~r~~gf 142 (265)
T cd06354 71 ALKEVAKQYPDQKFAIIDAVV--D---D--PPNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPL-IRRFEAGF 142 (265)
T ss_pred HHHHHHHHCCCCEEEEEeccc--C---C--CCcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChH-HHHHHHHH
Confidence 344455554 89999875431 1 1 0112234555655566666666543 889999997543211 12223577
Q ss_pred HHHHhccC---C-ceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcC
Q 002454 190 AEALQNVS---S-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (920)
Q Consensus 190 ~~~l~~~g---~-~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g 256 (920)
++.+++.| . .+.... ..... ++..+-.+.+.++.+.++++|+. .+...+..+++.+++.|
T Consensus 143 ~~~~~~~g~~~~~~~~~~~--~~~~~---~~~~~~~~~~~~ll~~~pdaI~~--~nd~~A~gv~~al~~~g 206 (265)
T cd06354 143 EAGVKYVNPGVPDIEVLVQ--YAGSF---NDPAKGKEIAQAMYDQGADVIFA--AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHHhccCCCceEEEE--EcCcc---cCHHHHHHHHHHHHHCCCcEEEE--CCCCCchHHHHHHHhcC
Confidence 77777654 1 222111 11110 01122334556665556887665 67778889999999998
No 210
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.44 E-value=0.3 Score=51.61 Aligned_cols=206 Identities=12% Similarity=0.002 Sum_probs=111.0
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCch-HHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s-~~~~~v 113 (920)
+||++.|.. ...-.....+++.+.++. |+. +.+.+...++..-.+....++. ++|.+||=.... ......
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~-----gy~--~~~~~~~~~~~~~~~~i~~l~~-~~vdgiil~~~~~~~~~~~ 73 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI-----GWN--LRILDGRGSEAGQAAALNQAIA-LKPDGIVLGGVDAAELQAE 73 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc-----CcE--EEEECCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCHHHHHHH
Confidence 588888753 223334555555555443 444 4445666677766666767665 578766643222 211222
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
...+...++|+|...... ..........+-.+..++...+..+++++... |-++++++....... ...-...++.
T Consensus 74 ~~~~~~~~iPvV~~d~~~--~~~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~-~~~r~~~~~~ 150 (280)
T cd06315 74 LELAQKAGIPVVGWHAGP--EPGPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSI-AKAKANAMKE 150 (280)
T ss_pred HHHHHHCCCCEEEecCCC--CCCcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCcc-HHHHHHHHHH
Confidence 334556899999876531 11100000113457788888889999999776 889999886432210 0101234554
Q ss_pred HHhcc-CCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 192 ~l~~~-g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
.++.. + ..+........ . .........++++.+. .+++|+ +++...+..+++.+++.|+..
T Consensus 151 ~~~a~~~-~~~~~~~~~~~-~---~~~~~~~~~~~~~l~~~~~~~~ai~--~~~D~~A~g~~~~l~~~g~~~ 215 (280)
T cd06315 151 IIEACKG-CTVLSIEDVPI-S---RTATRMPALTARLLQRYGDKWTHSL--AINDLYFDYMAPPLASAGRKA 215 (280)
T ss_pred HHHhCCC-CEEEEecccCc-c---hhhhhhHHHHHHHHHhcCcccceec--ccchhhhHHhHHHHHHhcccC
Confidence 44443 2 23311111111 1 0111112334444322 367655 578888899999999999853
No 211
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=96.38 E-value=0.021 Score=61.21 Aligned_cols=70 Identities=16% Similarity=0.234 Sum_probs=48.0
Q ss_pred CCChHHhhhCCcccccccchHHHHHHHHh---cCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhh
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEV---LGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~~~l~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~ 744 (920)
|++++||+ |++|++..++..+.++... .+.....+..++-+..+...++.+|++||++.-.++......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~~d~~aAl~~G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSDADIVAAFITKDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCChHHHHHHHhcCCCcEEEEcCchHHHHHhC
Confidence 79999998 7999997776544333322 2333334444333357888999999999999877876654443
No 212
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=96.36 E-value=0.17 Score=53.18 Aligned_cols=198 Identities=14% Similarity=0.068 Sum_probs=109.9
Q ss_pred EEEEEEeCC------CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE-cCCchH
Q 002454 36 KIGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWE 108 (920)
Q Consensus 36 ~IG~i~p~s------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii-Gp~~s~ 108 (920)
+||++.+.+ .........+++.+.++ .|+.+.+...+ .+.. +. .++|.++| .+..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~~~~~~--~~~~--------~~-~~~vdgii~~~~~~~ 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE-----LGIELTKFFRD--DDLL--------EI-LEDVDGIIAIGKFSQ 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH-----cCCEEEEEecc--chhH--------Hh-ccCcCEEEEecCCCH
Confidence 588998855 12233444444444444 35666554332 2211 12 24666554 222222
Q ss_pred HHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCC-----CCc
Q 002454 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG-----GDS 183 (920)
Q Consensus 109 ~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g-----~~~ 183 (920)
.....+...++|++..... . .....+ .+..++...+..+++.+.+.|.++++++....... ...
T Consensus 65 ---~~~~~~~~~~~pvV~~~~~---~--~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~ 133 (270)
T cd01544 65 ---EQLAKLAKLNPNLVFVDSN---P--APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIED 133 (270)
T ss_pred ---HHHHHHHhhCCCEEEECCC---C--CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhh
Confidence 3334455678999987544 1 112233 36678888888899999889999999998654210 013
Q ss_pred chHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC----CceEEEEEecCHhHHHHHHHHHHHcCCC-
Q 002454 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEANRMGLV- 258 (920)
Q Consensus 184 ~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~----~~~vii~~~~~~~~~~~~l~~a~~~g~~- 258 (920)
.-...+++++.+.| .. .....+. ... ........++++.+. .+++|+ +++...+..+++.+++.|+.
T Consensus 134 ~R~~gf~~~~~~~~-~~-~~~~~~~-~~~---~~~~~~~~~~~~l~~~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~v 205 (270)
T cd01544 134 PRETAFREYMKEKG-LY-DPELIYI-GDF---TVESGYQLMKEALKSLGDNLPTAFF--IASDPMAIGALRALQEAGIKV 205 (270)
T ss_pred HHHHHHHHHHHHcC-CC-ChheEee-CCC---CHHHHHHHHHHHHhccCCCCCCEEE--EcCcHHHHHHHHHHHHcCCCC
Confidence 34677888888887 42 1111111 110 112223344443322 367655 47788899999999999985
Q ss_pred CCCeEEEEec
Q 002454 259 GKDSVWIVTN 268 (920)
Q Consensus 259 ~~~~~~i~t~ 268 (920)
+++...++-+
T Consensus 206 p~di~v~g~d 215 (270)
T cd01544 206 PEDVSVISFN 215 (270)
T ss_pred CCceEEEEEC
Confidence 3444444443
No 213
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=96.31 E-value=0.38 Score=51.70 Aligned_cols=190 Identities=12% Similarity=0.020 Sum_probs=111.7
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc-CCchHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETA 111 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG-p~~s~~~~ 111 (920)
.-.||+++|.- .........+++-+.++ . |+.+ .+.++..++....+....+. ..+|.++|- |.......
T Consensus 59 ~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~---~--gy~~--~i~~~~~~~~~~~~~~~~l~-~~~vdGvIi~~~~~~~~~ 130 (311)
T TIGR02405 59 DKVVAVIVSRLDSPSENLAVSGMLPVFYT---A--GYDP--IIMESQFSPQLTNEHLSVLQ-KRNVDGVILFGFTGCDEE 130 (311)
T ss_pred CCEEEEEeCCcccccHHHHHHHHHHHHHH---C--CCeE--EEecCCCChHHHHHHHHHHH-hcCCCEEEEeCCCCCCHH
Confidence 34699999753 22223334444433333 2 5554 44455566655555555554 457886663 32211111
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEe-CC--CCCCcchHHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-NV--YGGDSGKLAL 188 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~-~~--~g~~~~~~~~ 188 (920)
.....++|++..... .+ ..+ .+.+++...+..+++++...|.+++++|..+ .+ .+ ..-...
T Consensus 131 ----~l~~~~~p~V~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~--~~R~~g 194 (311)
T TIGR02405 131 ----ILESWNHKAVVIARD--TG-----GFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTG--LMRHNA 194 (311)
T ss_pred ----HHHhcCCCEEEEecC--CC-----Ccc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhH--HHHHHH
Confidence 223457788876532 11 122 3667888888889999999999999999732 22 23 445678
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
+++++++.| ++... . .... ........+.++.+.++++|+. ++...+..+++.+.+.|.
T Consensus 195 f~~a~~~~g-i~~~~-~-~~~~-----~~~~~~~~~~~~l~~~~tAi~~--~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 195 YLAYCESAN-LEPIY-Q-TGQL-----SHESGYVLTDKVLKPETTALVC--ATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHHcC-CCcee-e-eCCC-----CHHHHHHHHHHHHhcCCCEEEE--CCcHHHHHHHHHHHHcCC
Confidence 999999999 75211 1 1111 1122334455543346787764 788888999999999996
No 214
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=96.22 E-value=0.018 Score=59.75 Aligned_cols=73 Identities=15% Similarity=0.213 Sum_probs=45.9
Q ss_pred CCChHHhhh-----CCccccc-ccchHHHH---HHHHhcCCCC-CceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHH
Q 002454 673 VTDIQSLKS-----GNLKVGC-VDDSFVKK---YLEEVLGFRS-GNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFL 742 (920)
Q Consensus 673 i~s~~dL~~-----s~~~vg~-~~~~~~~~---~l~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~ 742 (920)
+++++||.. .|.+|++ ..++...- ++.+..+... ..+....-+..+..+++++|++|+++...++.....
T Consensus 106 ~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~~~~~~al~~g~iDa~~~~eP~~~~~~ 185 (252)
T PF13379_consen 106 IKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPPPEMVAALRAGEIDAAVLWEPFASQAE 185 (252)
T ss_dssp TCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--GHHHHHHHHTTS-SEEEEETTHHHHHH
T ss_pred ccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCHHHHHHHHhCCCcCEEEecCCHHHHHH
Confidence 899999932 4789988 45543332 2223334444 333332222589999999999999999989887766
Q ss_pred hhc
Q 002454 743 DKY 745 (920)
Q Consensus 743 ~~~ 745 (920)
.+.
T Consensus 186 ~~g 188 (252)
T PF13379_consen 186 AKG 188 (252)
T ss_dssp HTT
T ss_pred hcc
Confidence 554
No 215
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=95.81 E-value=1.4 Score=45.08 Aligned_cols=205 Identities=10% Similarity=0.072 Sum_probs=119.0
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeE-EEEcCCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~-aiiGp~~s~~~ 110 (920)
....||+..|.- ......-..+|.-+.+.+ |.+..+ .+-.+|...-....++++.+ ++. .||++..+...
T Consensus 24 ~d~~IGis~~d~~~eRW~~D~~~~~~~~e~~-----g~k~~~--q~A~~~~~~Q~~qien~i~q-g~~vlvi~a~d~~~l 95 (341)
T COG4213 24 KDGVIGISMPDLRSERWIKDRDAFVKKAEAL-----GAKVDV--QSADGDEEKQLAQIENMINQ-GVKVLVIGAIDGGVL 95 (341)
T ss_pred cCCeEEEEcCChhHhhhhhhhHHHHHHHHhc-----cchhhh--hhhccChhHHHHHHHHHHhc-CCCEEEEEeccchhH
Confidence 567899998865 222233334444444443 444444 34445666677778899986 655 67899999999
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHH----HHHHHHHHcC---CeEEEEEEE-eCCCCC-
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMK----CIADLARKYN---WRRVAAIYE-DNVYGG- 181 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~----aia~~l~~~~---w~~v~ii~~-~~~~g~- 181 (920)
..+...+...+||+|++. .+.......| -..-+....++ ++..-++... -..+.++.. .++-.+
T Consensus 96 ~~~i~~A~~~gikViaYD-----RlI~n~dvd~--YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA~ 168 (341)
T COG4213 96 SNAVEKAKSEGIKVIAYD-----RLINNADVDF--YVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNAK 168 (341)
T ss_pred HHHHHHHHHcCCeEEEee-----cccccCCccE--EEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcchH
Confidence 999999999999999883 4444444444 34445544444 4444443332 334555543 222100
Q ss_pred --CcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC---CceEEEEEecCHhHHHHHHHHHHHcC
Q 002454 182 --DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMG 256 (920)
Q Consensus 182 --~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vii~~~~~~~~~~~~l~~a~~~g 256 (920)
..+..+.|+..+..-. ++++.....+.-. .+...+.+..+..+ +.|.|+ ..+...+...+..++..|
T Consensus 169 lf~~G~m~VLkp~idsGk-ik~~Ge~~~d~W~-----ps~Aq~~men~lta~~~~vdaVv--A~nDgtagGaI~aL~a~G 240 (341)
T COG4213 169 LFFAGAMKVLKPLIDSGK-IKVVGEQWTDGWL-----PSNAQQIMENLLTANYNDIDAVV--APNDGTAGGAIAALKAQG 240 (341)
T ss_pred HHHhcHHHHHHHHhhCCc-eEEeeeccccccC-----HHHHHHHHHHHHhcccCceeEEE--cCCCchhHHHHHHHHhcc
Confidence 0233455555555544 6665554444322 13334444444432 455554 456688889999999999
Q ss_pred CCCC
Q 002454 257 LVGK 260 (920)
Q Consensus 257 ~~~~ 260 (920)
+-++
T Consensus 241 l~g~ 244 (341)
T COG4213 241 LAGK 244 (341)
T ss_pred cCCC
Confidence 9865
No 216
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=95.41 E-value=2.5 Score=45.72 Aligned_cols=207 Identities=14% Similarity=0.142 Sum_probs=103.2
Q ss_pred ccEEEEEEEeCC---CcccHHHHHHHHHHHHHHhcCCCCceEEEEEec--CCCCHHHHHHHHHHHhhcCCeEEEEcCCch
Q 002454 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAGMETW 107 (920)
Q Consensus 33 ~~i~IG~i~p~s---~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D--~~~d~~~a~~~a~~li~~~~v~aiiGp~~s 107 (920)
...+++++.+-. ....+....|.+.+-++. |.+++....+ ...+.....+..+++.+ ++...|+|....
T Consensus 34 ~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~-~g~~lI~~~gf~ 107 (345)
T COG1744 34 KKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL-----GLKVETYYWEYVQSDSEADYERALRALAE-DGYDLIFGTGFA 107 (345)
T ss_pred cceEEEEEecCCCCccchhHHHHHHHHHHHHHh-----CCceEeeeeeecCCcchhHHHHHHHHHHh-cCCCEEEEeccc
Confidence 445566555543 223455566666555544 3344443332 22335556666666764 477777776553
Q ss_pred HHHHHHHHhhccC-CccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchH
Q 002454 108 EETAVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (920)
Q Consensus 108 ~~~~~va~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (920)
- ..++..++.++ ++.++-..+. .........+.||..-..- ++..+|..+.+ -.+++.|..-+.. .-..+.
T Consensus 108 ~-~d~~~~va~~~Pd~~F~iid~~---~~~~~Nv~s~~f~~~egay-L~G~~AA~~sk--~~~vG~vgg~~~p-~v~~f~ 179 (345)
T COG1744 108 F-SDALEKVAAEYPDVKFVIIDGV---VKKEDNVASYVFREYEGAY-LAGVAAAKMSK--SGKVGFVGGMDIP-EVNRFI 179 (345)
T ss_pred h-hhHHHHHHHHCCCCEEEEecCc---cCCCCceEEEEeccccHHH-HHHHHHHHhhc--CCceeEEecccch-hhHHHH
Confidence 2 33344445444 3444433322 1111133345555443322 33333333332 3455555543321 114556
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
..+..-++..+ -.+.....+.. ...|+... .+....|.++++|||+- .+.+. ....+.+|++.|...
T Consensus 180 ~gF~~Gak~~n-p~i~v~v~~~g--sf~D~~k~-k~~a~~li~~GaDVI~~-~ag~~-~~gv~~~A~~~~~~~ 246 (345)
T COG1744 180 NGFLAGAKSVN-PDIKVKVVYVG--SFSDPAKG-KEAANALIDQGADVIYP-AAGGT-GVGVFQAAKELGAYA 246 (345)
T ss_pred HHHHHHHHhhC-CCccEEEEEec--CccChHHH-HHHHHHHHhcCCCEEEe-cCCCC-cchHHHHHHHhCCCe
Confidence 67777777666 33333333322 22234333 44777788899999887 54433 344444788888754
No 217
>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=95.31 E-value=1.7 Score=45.52 Aligned_cols=180 Identities=13% Similarity=0.077 Sum_probs=102.9
Q ss_pred HHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeec
Q 002454 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFA 128 (920)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~ 128 (920)
.+...+++.++++ .|+.+.+...+. + . +.+...+|.++|-.........+. .+...++|+|...
T Consensus 23 ~~~~~~i~~~~~~-----~gy~~~~~~~~~--~-~-------~~l~~~~vdgiIi~~~~~~~~~~~-~l~~~~iPvV~i~ 86 (269)
T cd06287 23 MEVAAAAAESALE-----RGLALCLVPPHE--A-D-------SPLDALDIDGAILVEPMADDPQVA-RLRQRGIPVVSIG 86 (269)
T ss_pred HHHHHHHHHHHHH-----CCCEEEEEeCCC--c-h-------hhhhccCcCeEEEecCCCCCHHHH-HHHHcCCCEEEeC
Confidence 4555555554444 256666554431 1 1 123345787655321111122233 3456699999886
Q ss_pred CCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecC
Q 002454 129 APAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLP 208 (920)
Q Consensus 129 ~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~ 208 (920)
... .. ....++ +..++...+..+++.+...|.+++++|...........-...+++++++.| ..... ....
T Consensus 87 ~~~--~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g-~~~~~-~~~~ 157 (269)
T cd06287 87 RPP--GD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVGSARRNSYLEAEAAYRAFAAEHG-MPPVV-LRVD 157 (269)
T ss_pred CCC--CC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeCCcccccHHHHHHHHHHHHHHcC-CCcce-eEec
Confidence 541 10 122333 446777778888999998999999999754321111445677889999888 65321 1111
Q ss_pred CCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHHHHcCCCC
Q 002454 209 PISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 209 ~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
... ..++-.+.++++.+. ++++|+. ++...+..+++.+++.|+.-
T Consensus 158 ~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~gvl~al~~~gl~v 204 (269)
T cd06287 158 EAG----GEEAGYAACAQLLAQHPDLDALCV--PVDAFAVGAVRAATELGRAV 204 (269)
T ss_pred CCC----ChHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 111 112333455555433 5677665 78888999999999999853
No 218
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=95.28 E-value=0.055 Score=53.54 Aligned_cols=188 Identities=16% Similarity=0.233 Sum_probs=94.8
Q ss_pred ceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEecee-----e--ecCceeeeeeccccccccEE
Q 002454 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLT-----I--LGNRTEYVEFTQPYAESGFS 558 (920)
Q Consensus 486 ~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~-----~--t~~r~~~~~fs~p~~~~~~~ 558 (920)
+|+|+.--|.+.+.+ .++++.+-+. .|+ ..-++.|.+|++|+++.+-. + ..+..-.++|..--+.++-+
T Consensus 25 ~YEGLATGl~~~f~~-~~ip~~~aym--RGa-~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~~~fG~~sYvs~Hv 100 (232)
T PF14503_consen 25 RYEGLATGLYEQFEE-SGIPLNFAYM--RGA-ENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIVLEFGPGSYVSEHV 100 (232)
T ss_dssp HHHHHHHHHHCTTT---TS-EEEEE---S-H-HHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEEEE--TTSSS--EE
T ss_pred hhHHHHHHHHHHhcc-CCCceEEEee--ccc-hHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEEEeeCCCCcccceE
Confidence 889999888888877 7777444444 465 56789999999999987521 1 12223355665544455555
Q ss_pred EEEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccch
Q 002454 559 MIVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLT 638 (920)
Q Consensus 559 ~iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~ 638 (920)
++.+.+..
T Consensus 101 li~~~~~~------------------------------------------------------------------------ 108 (232)
T PF14503_consen 101 LIFRDGEK------------------------------------------------------------------------ 108 (232)
T ss_dssp EEEETT-G------------------------------------------------------------------------
T ss_pred EEEecCCc------------------------------------------------------------------------
Confidence 55554432
Q ss_pred hhHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHH
Q 002454 639 RVVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEAN 718 (920)
Q Consensus 639 Ri~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 718 (920)
+.++| |.+||+...|.-+..+.+.. +...++..++-+..+
T Consensus 109 -----------------------------------~~i~d----GmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Vei~Y~q 148 (232)
T PF14503_consen 109 -----------------------------------KEIED----GMRVGIDPSSIDQKILTEAE-FEGKNVEFVEIPYNQ 148 (232)
T ss_dssp -----------------------------------GG---------EEEE-TT-HHHHHHHHHH-HTTS--EEEE--HHH
T ss_pred -----------------------------------cceee----eeEeecCCCCccHHHHHHHH-hCCCceEEEEecHHH
Confidence 22322 79999999998777776543 344555555544789
Q ss_pred HHHHHhcCCeeEEEeechhHHHHHhhcCCc--eEEee---eeeecceeeEecCCCc-chHHHHHHHHhhhccchHHHHHH
Q 002454 719 YIQKFENNTIDSLFLERPYEKVFLDKYCKK--YTAIN---TYRFGGLGFAFQRGSP-IALDISRAILDLSEDGRLKTLEE 792 (920)
Q Consensus 719 ~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~---~~~~~~~~~~~~k~sp-~~~~~n~~i~~l~e~G~~~~~~~ 792 (920)
.++.+.+|.+||++....... ...-++ ..... ......-.++++|+.+ +...+++.| +...+..+.+
T Consensus 149 ~~~~l~~g~IDA~IWN~d~i~---~~~~~l~~~~l~~~~~~~~~seAVivi~~~~~~i~~ll~~~i----d~~~vl~iQ~ 221 (232)
T PF14503_consen 149 LLELLRSGEIDAAIWNYDEIE---DKNFGLKYVPLKDDPMSKDASEAVIVIRKDNEPIKALLRKLI----DVEKVLEIQK 221 (232)
T ss_dssp HHHHHHHTS--EEEEE--HHC---CHHCTEEEEE--SSCHHHHTT-EEEEEETT-HHHHHHHHHH------HHHHHHHHH
T ss_pred HHHHHHCCCccEEEECCcccc---cccCCeeEEeCCchHHHHhcCeeEEEEeCCCHHHHHHHHHhc----CHHHHHHHHH
Confidence 999999999999998755111 111222 11111 1112345788899886 444444333 3334444555
Q ss_pred HHcC
Q 002454 793 EWFK 796 (920)
Q Consensus 793 ~~~~ 796 (920)
+-..
T Consensus 222 ~V~~ 225 (232)
T PF14503_consen 222 KVLE 225 (232)
T ss_dssp HHHT
T ss_pred HHHc
Confidence 5443
No 219
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=95.10 E-value=0.2 Score=50.49 Aligned_cols=59 Identities=17% Similarity=0.225 Sum_probs=38.2
Q ss_pred CCChHHhhhCCcccccccchHHHHH---HHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEe
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVKKY---LEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFL 733 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~~~---l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~ 733 (920)
|+++.||+ |++||+..++..... +.+..+...+++..++.+..+...++.+|++|+++.
T Consensus 85 i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~vDa~~~ 146 (216)
T PF09084_consen 85 IKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQVDAAIL 146 (216)
T ss_dssp -SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTSSSEEEE
T ss_pred CCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCCCCEEEE
Confidence 89999998 789999776433322 233344544555544432566667999999999984
No 220
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=95.00 E-value=1.7 Score=45.01 Aligned_cols=197 Identities=10% Similarity=0.026 Sum_probs=103.0
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
|||+++|-. .....+..+...+++++.++ .|.+ +.+.+...++....+..++++. +++.+||+... ....++..
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~-~gv~--~~~~e~~~~~~~~~~~i~~~~~-~g~dlIi~~g~-~~~~~~~~ 74 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKA-LGVE--VTYVENVPEGADAERVLRELAA-QGYDLIFGTSF-GFMDAALK 74 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHh-cCCe--EEEEecCCchHhHHHHHHHHHH-cCCCEEEECch-hhhHHHHH
Confidence 588888743 22233333334444444433 2444 5555555577788888888886 58999998543 33344555
Q ss_pred hhccC-CccEEeecCCCCCCCccCCCCceeEEeccCch---HHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHH
Q 002454 116 IASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDS---EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (920)
Q Consensus 116 ~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~---~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (920)
++.++ ++.++..... . ..|++........ .++..+|..+. +-.+|++|...... ........|.+
T Consensus 75 vA~~~p~~~F~~~d~~---~-----~~~Nv~~~~~~~~e~~ylaG~~Aa~~t--~t~kVG~I~g~~~~-~~~~~~~gF~~ 143 (258)
T cd06353 75 VAKEYPDVKFEHCSGY---K-----TAPNVGSYFARIYEGRYLAGVVAGKMT--KTNKVGYVAAFPIP-EVVRGINAFAL 143 (258)
T ss_pred HHHHCCCCEEEECCCC---C-----CCCCeeeEechhhHHHHHHHHHHHHhh--cCCcEEEEcCcccH-HHHHHHHHHHH
Confidence 55444 3444433222 1 1144443333222 23333444443 33589999765431 11344556666
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
-++..+ -.+.....+... ..|+ ..-......+.+.++|+|+- .+ ....++++|++.|.
T Consensus 144 G~~~~~-p~~~v~~~~~g~--~~D~-~~a~~~a~~l~~~G~DvI~~-~~---~~~g~~~aa~~~g~ 201 (258)
T cd06353 144 GARSVN-PDATVKVIWTGS--WFDP-AKEKEAALALIDQGADVIYQ-HT---DSPGVIQAAEEKGV 201 (258)
T ss_pred HHHHHC-CCcEEEEEEecC--CCCc-HHHHHHHHHHHHCCCcEEEe-cC---CChHHHHHHHHhCC
Confidence 665444 333322222211 1122 22244556677789998877 55 23467889998874
No 221
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=94.62 E-value=0.87 Score=47.82 Aligned_cols=112 Identities=15% Similarity=0.178 Sum_probs=69.0
Q ss_pred CCCCCChHHhhhCCcccccc-----cchH-HHHHHHHhcCCCCC---ceeecCCCHHHHHHHHhcCCeeEEEeechhHHH
Q 002454 670 EPNVTDIQSLKSGNLKVGCV-----DDSF-VKKYLEEVLGFRSG---NIVPFGNTEANYIQKFENNTIDSLFLERPYEKV 740 (920)
Q Consensus 670 ~~~i~s~~dL~~s~~~vg~~-----~~~~-~~~~l~~~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~ 740 (920)
.++|++++||+ |++++.. .|+. ...+|.+....... .-+.+...-+..+..|.+|++|+..........
T Consensus 133 ds~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~ 210 (299)
T COG3221 133 DSPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSARGL 210 (299)
T ss_pred CCCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCCceEEeccHHHHhh
Confidence 34489999998 6788762 2222 23445444322111 112233337788899999999999887666665
Q ss_pred HHhhcCC----ceEEee-eeeecceeeEecCCCc--chHHHHHHHHhhhc
Q 002454 741 FLDKYCK----KYTAIN-TYRFGGLGFAFQRGSP--IALDISRAILDLSE 783 (920)
Q Consensus 741 ~~~~~~~----~~~~~~-~~~~~~~~~~~~k~sp--~~~~~n~~i~~l~e 783 (920)
....... .+++.. .-...+..++++++-| +++.+..+++.+.+
T Consensus 211 ~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 211 LKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred hhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 5544332 223322 1122234578888866 99999999999986
No 222
>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=94.17 E-value=0.61 Score=49.34 Aligned_cols=68 Identities=10% Similarity=0.254 Sum_probs=44.2
Q ss_pred CCChHHhhhCCcccccccchHHH----HHHHHhcCCCCCceeec-CCCHHHHHHHHhcCCeeEEEeechhHHHHHhh
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVK----KYLEEVLGFRSGNIVPF-GNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~----~~l~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~ 744 (920)
|++++||. |.+|++..++... .++.. .+.....+..+ .+ ..+..+++.+|++|+++...++......+
T Consensus 93 i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~-~G~~~~~v~~~~~~-~~~~~~al~~g~vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 93 IRTVADLK--GKRIAVPKGGSGHDLLLRALLK-AGLSGDDVTILYLG-PSDARAAFAAGQVDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCHHHcC--CCEEEecCCccHHHHHHHHHHH-cCCCccceeEEecC-cHHHHHHHHCCCCCEEEeccchHhHHhhc
Confidence 89999997 5788886554333 33332 23333333322 34 67888999999999999977776655443
No 223
>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=93.79 E-value=0.27 Score=53.18 Aligned_cols=41 Identities=12% Similarity=0.020 Sum_probs=30.3
Q ss_pred HHHHHHHHHHCC-CccceEEEecCCChhHHHHHHHcCcccEEEec
Q 002454 492 IELFRLVVDHLN-YDLPYEFVPHDGVYDDLINGVYDKTYDAAVGD 535 (920)
Q Consensus 492 ~dl~~~la~~ln-~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~ 535 (920)
..+.+.+.+.++ ++ +++++. +.....+..|.+|++|+++..
T Consensus 48 ~~la~~~~~~~~~i~--v~~~~~-~~~~~~~~~l~~G~~D~~~~~ 89 (320)
T TIGR02122 48 GAIAQLINKKSGKLR--VRVQST-GGSVENVNLLEAGEADLAIVQ 89 (320)
T ss_pred HHHHHHHhccCCCee--EEEEeC-cchHHHHHHHhCCCCcEEEEc
Confidence 466777777776 66 666653 244678899999999998764
No 224
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=93.78 E-value=0.26 Score=53.11 Aligned_cols=65 Identities=14% Similarity=0.195 Sum_probs=43.9
Q ss_pred CCCChHHhhhCCcccccccchH----HHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHH
Q 002454 672 NVTDIQSLKSGNLKVGCVDDSF----VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK 739 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~ 739 (920)
+|++++||+ |++||+..++. +..+++ ..+....++..++....+...++.+|++|+++.-.+...
T Consensus 113 ~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~-~~Gl~~~dv~~v~~~~~~~~~Al~~G~VDAa~~~~p~~~ 181 (320)
T PRK11480 113 TISKPEDLI--GKRIAVPFISTTHYSLLAALK-HWGIKPGQVEIVNLQPPAIIAAWQRGDIDGAYVWAPAVN 181 (320)
T ss_pred CCCChHHcC--CCEEecCCCCchHHHHHHHHH-HcCCCHhheEEEECCcHHHHHHHHcCCcCEEEEcchHHH
Confidence 389999997 78999865542 223343 334444455544433577889999999999887666654
No 225
>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=93.52 E-value=1.4 Score=43.61 Aligned_cols=181 Identities=13% Similarity=0.133 Sum_probs=108.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~ 567 (920)
.+..+++..+.+.. +.+ +.+.. ++..++++.|.+|++|++++.... ....+. ..|+....+++++++..+.
T Consensus 19 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~pl 90 (209)
T PF03466_consen 19 SLLPPLLAEFRERHPNIR--IEIRE--GDSDELIEALRSGELDLAITFGPP---PPPGLE-SEPLGEEPLVLVVSPDHPL 90 (209)
T ss_dssp HTHHHHHHHHHHHSTTEE--EEEEE--ESHHHHHHHHHTTSSSEEEESSSS---SSTTEE-EEEEEEEEEEEEEETTSGG
T ss_pred HHHHHHHHHHHHHCCCcE--EEEEe--ccchhhhHHHhcccccEEEEEeec---cccccc-cccccceeeeeeeeccccc
Confidence 45567888887777 444 44444 356899999999999999874443 223333 4677888999999877532
Q ss_pred CceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHH
Q 002454 568 STWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLF 647 (920)
Q Consensus 568 ~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~ 647 (920)
.
T Consensus 91 ~------------------------------------------------------------------------------- 91 (209)
T PF03466_consen 91 A------------------------------------------------------------------------------- 91 (209)
T ss_dssp G-------------------------------------------------------------------------------
T ss_pred c-------------------------------------------------------------------------------
Confidence 1
Q ss_pred HHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccc-ccchHHHH----HHHHhcCCCCCceeecCCCHHHHHHH
Q 002454 648 VVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGC-VDDSFVKK----YLEEVLGFRSGNIVPFGNTEANYIQK 722 (920)
Q Consensus 648 ~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~-~~~~~~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~ 722 (920)
. .. --+++||.+ .++.. ..+..... ++.+. +.........++ .......
T Consensus 92 --------------------~-~~-~i~~~dL~~--~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~ 145 (209)
T PF03466_consen 92 --------------------Q-KK-PITLEDLAD--YPLILLSPGSPYRDQLDRWLREH-GFSPNIVIEVDS-FESILSL 145 (209)
T ss_dssp --------------------T-TS-SSSGGGGTT--SEEEEESTTTSHHHHHHHHHHHT-TEEEEEEEEESS-HHHHHHH
T ss_pred --------------------c-cc-cchhhhhhh--ccccccccccccccccccccccc-cccccccccccc-hhhhccc
Confidence 0 11 238888874 55544 22222333 33332 232333456777 9999999
Q ss_pred HhcCCeeEEEeechhHHHHHhhcCCceEEee-eeeecceeeEecCCCcchHHHHHHHHhhhc
Q 002454 723 FENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGGLGFAFQRGSPIALDISRAILDLSE 783 (920)
Q Consensus 723 l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e 783 (920)
+.+|..-+++-+.....+..........+.+ .+. ..++++.+++.+....+...+..+.+
T Consensus 146 v~~g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 146 VASGDGIAILPDSLAQDELESGELVFLPLPDPPLP-RPIYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp HHTTSEBEEEEHHHHHHHHHCTTEEEEEESSSTEE-EEEEEEEETTGTTHHHHHHHHHHHHH
T ss_pred cccccceeecCcccccccccCCCEEEEECCCCCCc-eEEEEEEECCCCCCHHHHHHHHHHHH
Confidence 9999866666554433333221111122333 333 77888999887766666666655543
No 226
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.60 E-value=7.3 Score=42.08 Aligned_cols=154 Identities=16% Similarity=0.059 Sum_probs=88.2
Q ss_pred CCeEEEEc-CCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEE
Q 002454 96 EKVKVIAG-METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIY 174 (920)
Q Consensus 96 ~~v~aiiG-p~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~ 174 (920)
.+|+++|- |..+. .....+...++|++...... + ....+ .+..++...+..+++++...|.++++++.
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~--~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~ 181 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHE--P---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIG 181 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCC--C---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeC
Confidence 46665553 32222 23344556789998775431 1 12223 36677777888899999889999999996
Q ss_pred EeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC--CceEEEEEecCHhHHHHHHHHH
Q 002454 175 EDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEA 252 (920)
Q Consensus 175 ~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vii~~~~~~~~~~~~l~~a 252 (920)
.+........-...+.++++..| +. .....+. .. .........+.++.+. .+++|+. ++...+..+++++
T Consensus 182 ~~~~~~~~~~R~~gf~~~~~~~g-~~-~~~~~~~-~~---~~~~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al 253 (327)
T PRK10339 182 GEDEPGKADIREVAFAEYGRLKQ-VV-REEDIWR-GG---FSSSSGYELAKQMLAREDYPKALFV--ASDSIAIGVLRAI 253 (327)
T ss_pred CccccchhhHHHHHHHHHHHHcC-CC-Chhheee-cC---cChhHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHH
Confidence 54332111334566777777777 51 1111111 11 0112223445554432 4676654 6778889999999
Q ss_pred HHcCCC-CCCeEEEEec
Q 002454 253 NRMGLV-GKDSVWIVTN 268 (920)
Q Consensus 253 ~~~g~~-~~~~~~i~t~ 268 (920)
++.|+. +.+...++-|
T Consensus 254 ~~~g~~vP~di~vigfD 270 (327)
T PRK10339 254 HERGLNIPQDISLISVN 270 (327)
T ss_pred HHcCCCCCCceEEEeeC
Confidence 999984 3444444443
No 227
>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=92.46 E-value=0.42 Score=39.07 Aligned_cols=54 Identities=22% Similarity=0.354 Sum_probs=46.0
Q ss_pred hhhhhHHHHHHHHHhccC-cc-cccccchhhHHHHHHHHHHHHHHHhhccccceee
Q 002454 612 DQISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLT 665 (920)
Q Consensus 612 ~~~~~~~~~~~~~l~~~~-~~-~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt 665 (920)
.++.+++|+++.++...| ++ .|.+...|++.+.+.+.++.+.....+.+++.++
T Consensus 23 ~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 23 WSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 458999999999999998 54 6788889999999999999999999999887764
No 228
>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=92.27 E-value=1.9 Score=42.29 Aligned_cols=103 Identities=11% Similarity=0.052 Sum_probs=66.5
Q ss_pred CCCChHHhhhCCccccc-ccchHHHHHHHHhcC---CCCCcee----ecCCCHHHHHHHHhcCCeeEEEeechhHHHHHh
Q 002454 672 NVTDIQSLKSGNLKVGC-VDDSFVKKYLEEVLG---FRSGNIV----PFGNTEANYIQKFENNTIDSLFLERPYEKVFLD 743 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~-~~~~~~~~~l~~~~~---~~~~~~~----~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~ 743 (920)
.|++++||.+.++++.- ..||-...+|..... .....+. ...+ ..+....|..|..|+-+.....+.-+
T Consensus 82 ~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~t-h~~vA~aVa~G~AD~G~g~~~~A~~~-- 158 (193)
T PF12727_consen 82 GITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANT-HLAVAAAVASGKADAGIGIRAAAEEF-- 158 (193)
T ss_pred cCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccC-hHHHHHHHHcCCCCEEeehHHHHHhh--
Confidence 49999999887888866 667766666655432 2333333 3344 77888899999999998765444311
Q ss_pred hcCCceEEeeeeeecceeeEecCCCcchHHHHHHHHhh
Q 002454 744 KYCKKYTAINTYRFGGLGFAFQRGSPIALDISRAILDL 781 (920)
Q Consensus 744 ~~~~~~~~~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l 781 (920)
-.+ .. -++....|-+++++..-..+.+.+.|.-|
T Consensus 159 --~gL-~F-vpl~~E~~dlv~~~~~~~~~~vq~ll~~l 192 (193)
T PF12727_consen 159 --YGL-DF-VPLAEERYDLVIRREDLEDPAVQALLDFL 192 (193)
T ss_pred --cCC-Cc-EEccccceEEEEEhhHcCCHHHHHHHHHh
Confidence 011 00 03444678899999877777777666543
No 229
>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=91.86 E-value=2.5 Score=43.63 Aligned_cols=121 Identities=8% Similarity=0.057 Sum_probs=67.0
Q ss_pred CCCChHHhhhCCcccccccchHHH----HHHHHhcCC------------------CCCceeecCCCHHHHHHHHhcCCee
Q 002454 672 NVTDIQSLKSGNLKVGCVDDSFVK----KYLEEVLGF------------------RSGNIVPFGNTEANYIQKFENNTID 729 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~~~~~~~----~~l~~~~~~------------------~~~~~~~~~~~~~~~~~~l~~~~~~ 729 (920)
+|++++||.+ |.+|++.++.... ..|++. +. .+.++..++-...+....+.+|++|
T Consensus 107 ~~~sl~dlk~-G~~IAip~d~~n~~raL~~L~~a-GLi~l~~~~~~~~t~~DI~~n~~~v~~vel~~~~~~~al~~g~vD 184 (258)
T TIGR00363 107 KIKNVNELQD-GAKVAVPNDPTNLGRALLLLQKQ-GLIKLKDGNGLLPTVLDIVENPKKLNITELETSQLPRALDDPKVD 184 (258)
T ss_pred CCCCHHHcCC-CCEEEEeCCcchHHHHHHHHHHc-CCceecCCCCCcCChhhhhcCCCCCEEEEcCHHHHHHHhhccccc
Confidence 4899999964 7899886553222 234432 11 1333443333357778899999999
Q ss_pred EEEeechhHHHHHhhcCCceEEee-eeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHH
Q 002454 730 SLFLERPYEKVFLDKYCKKYTAIN-TYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEW 794 (920)
Q Consensus 730 a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~ 794 (920)
+++...++..-.--..-+.-...+ .-.+.-..++++....=.+.+...+..++....-+.+.++|
T Consensus 185 aa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 185 LAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred EEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 999877665432111101101111 11112234666665445667777777777665555555553
No 230
>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=91.69 E-value=7.2 Score=37.36 Aligned_cols=70 Identities=16% Similarity=0.264 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..++++.+.++. +.+ +++... ...+++..|.+|++|++++.... ..+.++ ..++....++++++++..
T Consensus 13 ~~l~~~i~~~~~~~p~i~--i~~~~~--~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~~ 83 (197)
T cd05466 13 YLLPPLLAAFRQRYPGVE--LSLVEG--GSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPPDHP 83 (197)
T ss_pred HHhHHHHHHHHHHCCCCE--EEEEEC--ChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecCCCC
Confidence 45667777777766 344 555542 45689999999999999864432 223333 456777788888876644
No 231
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=91.46 E-value=7.3 Score=41.59 Aligned_cols=70 Identities=10% Similarity=0.104 Sum_probs=47.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
++-..++..+.+.. +++ +.+.. ++-+++++.|.+|++|+++...... ...+ .+.|+....+++++++..+
T Consensus 104 ~~~~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~l-~~~~l~~~~~~~~~~~~hp 174 (305)
T PRK11151 104 YLLPHIIPMLHQTFPKLE--MYLHE--AQTHQLLAQLDSGKLDCAILALVKE---SEAF-IEVPLFDEPMLLAVYEDHP 174 (305)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEEecCCC---CCCe-EEEEeccCcEEEEecCCCC
Confidence 45556777777765 444 55544 3458899999999999998633221 1222 3578888999999876654
No 232
>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=90.81 E-value=13 Score=35.62 Aligned_cols=71 Identities=11% Similarity=0.155 Sum_probs=47.5
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+..+++..+.++. +.+ +++.. ++..++.+.+.+|++|+++... +.....+. +.++....++++++...+
T Consensus 12 ~~~l~~~l~~~~~~~p~v~--i~i~~--~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~~~p 83 (197)
T cd08440 12 ATLLPPVLAAFRRRHPGIR--VRLRD--VSAEQVIEAVRSGEVDFGIGSE---PEADPDLE-FEPLLRDPFVLVCPKDHP 83 (197)
T ss_pred hhHHHHHHHHHHHhCCCcE--EEEEe--CChHHHHHHHHcCCccEEEEeC---CCCCCCee-EEEeecccEEEEecCCCC
Confidence 355678888888876 455 55543 3567899999999999998632 22222233 357777888888876543
No 233
>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=90.76 E-value=21 Score=36.31 Aligned_cols=209 Identities=12% Similarity=0.073 Sum_probs=119.3
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEe-cC-CCCHHHHHHHHHHHhhcCCeEEEEcCCc-hHHH
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DH-NRDPFQAATAAQELINKEKVKVIAGMET-WEET 110 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~-D~-~~d~~~a~~~a~~li~~~~v~aiiGp~~-s~~~ 110 (920)
..+||++.+..+ .+.+..+|++..+++.-.. .|.-+++ |+ ..+-.+.......|..++.+.|||-... +.++
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~----~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt~ 76 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV----MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGTA 76 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH----EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---H
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc----eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcchH
Confidence 478999987653 4678888888888876543 5655555 43 3456677777888888889998885433 3444
Q ss_pred HHHHHhhc-cCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcch----
Q 002454 111 AVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK---- 185 (920)
Q Consensus 111 ~~va~~~~-~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~---- 185 (920)
.++..+=+ +-+|.+|+..... ++..-...-.. -+.++....+..++...+..|.+.++-+...-+-+ ...
T Consensus 77 ~af~kIkekRpDIl~ia~~~~E-Dp~~i~~~aDi--~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms--~~~l~~R 151 (275)
T PF12683_consen 77 EAFRKIKEKRPDILLIAGEPHE-DPEVISSAADI--VVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMS--YELLARR 151 (275)
T ss_dssp HHHHHHHHH-TTSEEEESS--S--HHHHHHHSSE--EEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGG--SHHHHHH
T ss_pred HHHHHHHhcCCCeEEEcCCCcC-CHHHHhhccCe--EeccchhhccHHHHHHHHHcCCceEEEEechhhcc--hHHHHHH
Confidence 55555443 3577777655442 12221222223 34488888899999999999999999997765533 222
Q ss_pred HHHHHHHHhccCCceEeEEeecCCCCCCCCChH-H----HH-HHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKE-A----VR-GELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 186 ~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~-d----~~-~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
.+.+++.-++.| ++.+......+.+ +... . +. ..-+.+++.+.++-+. +++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lG-i~fv~~taPDP~s---d~gv~gaqqfIlE~vp~~i~kYGkdtaff-~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLG-IKFVEVTAPDPTS---DVGVAGAQQFILEDVPKWIKKYGKDTAFF-CTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT---EEEEEE---SS---TCHHHHHHHHHHHHHHHHHHHH-S--EEE-ESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcC-CeEEEEeCCCCCC---CCCcHHHHHHHHHHHHHHHHHhCCceeEE-ecCccccHHHHHHHHHcCC
Confidence 244666677889 8877655444333 2111 1 11 1223345558888888 9999999999999999875
No 234
>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=90.75 E-value=16 Score=37.56 Aligned_cols=189 Identities=13% Similarity=0.096 Sum_probs=105.2
Q ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE--cCCchHHHHHHH
Q 002454 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEETAVVA 114 (920)
Q Consensus 37 IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii--Gp~~s~~~~~va 114 (920)
|.+++|.-...-.+...+++.+.++- |+ +.+.+.++..+.. +.+.+.. ..+|.++| ++..+. ....
T Consensus 2 ~~~~~~~~~~~~~~~~~~i~~~l~~~-----g~-~~l~~~~~~~~~~---~~~~~~~-~~~vdGvIi~~~~~~~--~~~~ 69 (247)
T cd06276 2 ILLLLNKLSSFKEIIYNSFVNTLGKN-----AQ-VDLYFHHYNEDLF---KNIISNT-KGKYSGYVVMPHFKNE--IQYF 69 (247)
T ss_pred EEEEEecCchHHHHHHHHHHHHHHhc-----Cc-EEEEEEcCchHHH---HHHHHHH-hcCCCEEEEecCCCCc--HHHH
Confidence 55666543222233444444443332 41 3444443333222 2233333 35666555 332121 2134
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH--cCCeEEEEEEEeCC-CCCCcchHHHHHH
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNV-YGGDSGKLALLAE 191 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~--~~w~~v~ii~~~~~-~g~~~~~~~~l~~ 191 (920)
..++..++|++...-. .+. ....+ .+..++...+..+++.+.. .|.+++++|..... .+ ..-...+++
T Consensus 70 ~~~~~~~~PvV~i~~~--~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~--~~R~~gf~~ 140 (247)
T cd06276 70 LLKKIPKEKLLILDHS--IPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIP--KEIKRGFER 140 (247)
T ss_pred HHhccCCCCEEEEcCc--CCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhH--HHHHHHHHH
Confidence 4555578999987644 111 11223 3667888888889999988 89999999976432 23 456788899
Q ss_pred HHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCCC-CCeEEEE
Q 002454 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (920)
Q Consensus 192 ~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~-~~~~~i~ 266 (920)
.+++.| ..... ... . .+ .. + .++++|+ +.+...+..+++.+++.|+.- ++...++
T Consensus 141 ~l~~~g-~~~~~---~~~-~------~~--~~---~--~~~~ai~--~~~d~~A~g~~~~l~~~g~~iP~disvig 196 (247)
T cd06276 141 FCKDYN-IETEI---IND-Y------EN--RE---I--EKGDLYI--ILSDTDLVFLIKKARESGLLLGKDIGIIS 196 (247)
T ss_pred HHHHcC-CCccc---ccc-c------ch--hh---c--cCCcEEE--EeCHHHHHHHHHHHHHcCCcCCceeEEEE
Confidence 999998 65321 100 0 11 00 1 1346655 478889999999999999843 3333343
No 235
>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=90.51 E-value=2 Score=43.68 Aligned_cols=97 Identities=10% Similarity=0.052 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCC---CCCChHHHHHHHHhhccC
Q 002454 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISS---ISDPKEAVRGELKKVQDK 230 (920)
Q Consensus 154 ~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~---~~~~~~d~~~~l~~l~~~ 230 (920)
-+.++.+-++++|.+|++++.. |- ....+.+.+.+++.| ++|+....+..... ..-+...+.+.+.++...
T Consensus 107 ~~~A~~~AL~alg~~RIalvTP---Y~--~~v~~~~~~~l~~~G-~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~ 180 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLTP---YT--PETSRPMAQYFAVRG-FEIVNFTCLGLTDDREMARISPDCIVEAALAAFDP 180 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEECC---Cc--HHHHHHHHHHHHhCC-cEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCC
Confidence 3678889999999999999975 55 667889999999999 99987655444221 112345566677777677
Q ss_pred CceEEEEEecCHhHHHHHHHHHHH-cCC
Q 002454 231 QSRVFIVLQASLDMTIHLFTEANR-MGL 257 (920)
Q Consensus 231 ~~~vii~~~~~~~~~~~~l~~a~~-~g~ 257 (920)
++|+|++ .|..-....++.++.+ +|.
T Consensus 181 ~aDAifi-sCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 181 DADALFL-SCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred CCCEEEE-eCCCchhHHHHHHHHHHHCC
Confidence 9999999 8999999999999976 454
No 236
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=90.45 E-value=12 Score=40.17 Aligned_cols=193 Identities=10% Similarity=-0.009 Sum_probs=111.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQEE 567 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~~ 567 (920)
.+-.+++..+.++. +.+ +.+.. ++...+++.|.+|++|+++..-.... ...+. +.|+....++++++...+.
T Consensus 106 ~~l~~~l~~~~~~~p~i~--l~~~~--~~~~~~~~~L~~g~~D~~i~~~~~~~--~~~l~-~~~l~~~~~~~v~~~~~pl 178 (313)
T PRK12684 106 YALPAAIKEFKKRYPKVR--LSILQ--GSPTQIAEMVLHGQADLAIATEAIAD--YKELV-SLPCYQWNHCVVVPPDHPL 178 (313)
T ss_pred HHhHHHHHHHHHHCCCce--EEEEe--CChHHHHHHHHCCCcCEEEeecCCCC--CCCce-EEEeccceEEEEeCCCCcc
Confidence 45567888887766 455 45543 35688999999999999975311111 12232 4677778888888766432
Q ss_pred CceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHHH
Q 002454 568 STWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWLF 647 (920)
Q Consensus 568 ~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~~ 647 (920)
.
T Consensus 179 ~------------------------------------------------------------------------------- 179 (313)
T PRK12684 179 L------------------------------------------------------------------------------- 179 (313)
T ss_pred c-------------------------------------------------------------------------------
Confidence 0
Q ss_pred HHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccc-ccchH----HHHHHHHhcCCCCCceeecCCCHHHHHHH
Q 002454 648 VVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGC-VDDSF----VKKYLEEVLGFRSGNIVPFGNTEANYIQK 722 (920)
Q Consensus 648 ~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~-~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 722 (920)
...--+++||.+ .++.. ..++. ...++.. .+.........++ .....+.
T Consensus 180 ----------------------~~~~i~~~dL~~--~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~ 233 (313)
T PRK12684 180 ----------------------ERKPLTLEDLAQ--YPLITYDFAFAGRSKINKAFAL-RGLKPDIVLEAID-ADVIKTY 233 (313)
T ss_pred ----------------------cCCCcCHHHHhc--CCcEecCCCCcHHHHHHHHHHH-cCCCCCeEEEeCC-HHHHHHH
Confidence 000247788864 44433 23332 2333332 2333333455667 8889999
Q ss_pred HhcCCeeEEEeechhHHHHHhhcCCceEE--eeeeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 723 FENNTIDSLFLERPYEKVFLDKYCKKYTA--INTYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 723 l~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
+..|...+++... ...... ...+..+ ........++++.+|+.+....+...+..+.+. +..++.++.+..
T Consensus 234 v~~g~Gv~~lp~~-~~~~~~--~~~l~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~f~~~l~~~-~~~~~~~~~~~~ 306 (313)
T PRK12684 234 VELGLGVGIVADM-AFDPER--DRNLRAIDAGHLFGSSTTRLGLRRGAYLRGYVYTFIELFAPT-LNRKLVEQALKG 306 (313)
T ss_pred HHhCCceEEeehh-hccccc--cCCeEEEECCCCCcceeEEEEEECCCcCCHHHHHHHHHHHHH-hCHHHHHHHhcc
Confidence 9998765665543 222211 1222221 112234568899999988777777777666553 556666665543
No 237
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=90.41 E-value=4.8 Score=41.97 Aligned_cols=121 Identities=9% Similarity=0.024 Sum_probs=63.6
Q ss_pred CCCChHHhhhCCcccccccch-HH---HHHHHHhcC-----------------CCCCceeecCCCHHHHHHHHhcCCeeE
Q 002454 672 NVTDIQSLKSGNLKVGCVDDS-FV---KKYLEEVLG-----------------FRSGNIVPFGNTEANYIQKFENNTIDS 730 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~~~~-~~---~~~l~~~~~-----------------~~~~~~~~~~~~~~~~~~~l~~~~~~a 730 (920)
.|+|++||.+ |.+|++..+. .. -..|++..- ..+.++..++-...+....+.+|++|+
T Consensus 120 ~i~si~DL~~-Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~~~~~~~~al~~g~vDa 198 (271)
T PRK11063 120 KIKSLDELQD-GSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVELEAPQLPRSLDDAQIAL 198 (271)
T ss_pred CCCCHHHhcC-CCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEECcHHHHHHhcccccccE
Confidence 4899999964 7899886422 11 123333100 023344433333678888999999999
Q ss_pred EEeechhHHHHHhhcCCceEEeeeee-ecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHH
Q 002454 731 LFLERPYEKVFLDKYCKKYTAINTYR-FGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEE 793 (920)
Q Consensus 731 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~ 793 (920)
++...++....-...-+.....+... ..-..+++++...-.+.+...+.-++....-+.+.++
T Consensus 199 a~i~~~~a~~a~~~~~~~~l~~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~ 262 (271)
T PRK11063 199 AVINTTYASQIGLTPAKDGIFVEDKDSPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKV 262 (271)
T ss_pred EEEChHHHHHcCCCCCCCeeEECCCCCCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHH
Confidence 99987776532211111111212111 1123466666544445555555555555444555454
No 238
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=90.06 E-value=14 Score=39.50 Aligned_cols=73 Identities=14% Similarity=0.170 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.+.. +.. +.+.. +....+++.|.+|++|+++..-....+..+.+ ...++....++++++...+
T Consensus 108 ~~~~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~~p 181 (305)
T CHL00180 108 YLMPRLIGLFRQRYPQIN--VQLQV--HSTRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELALIIPKSHP 181 (305)
T ss_pred hHHHHHHHHHHHHCCCce--EEEEe--CCHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEEEEECCCCc
Confidence 45567777877765 444 44443 34688999999999999986322111111222 3577888889988887654
No 239
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=90.00 E-value=1.8 Score=42.02 Aligned_cols=108 Identities=15% Similarity=0.150 Sum_probs=66.8
Q ss_pred CCChHHhhhCCccccc-ccchHHHHHHHHh---cCCCCCceeecCC---CHHHHHHHHhcCCeeEEEeechhHHHHHhhc
Q 002454 673 VTDIQSLKSGNLKVGC-VDDSFVKKYLEEV---LGFRSGNIVPFGN---TEANYIQKFENNTIDSLFLERPYEKVFLDKY 745 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~-~~~~~~~~~l~~~---~~~~~~~~~~~~~---~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~ 745 (920)
|++++||.+.++++.= .+||-....+... .+..+..+.-|.. +-.....++.+|++|+-+.-...++ ++
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 ISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLRHAAE----KY 164 (223)
T ss_pred cccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCCCCccccHHHHHH----Hc
Confidence 8999999876666644 5666555444433 2333444443333 2556678899999999988554443 22
Q ss_pred CCceEEeeeeeecceeeEecCCCcchHHHHHHHHhhhccchH
Q 002454 746 CKKYTAINTYRFGGLGFAFQRGSPIALDISRAILDLSEDGRL 787 (920)
Q Consensus 746 ~~~~~~~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~ 787 (920)
.-.|. ++....|-|+.+|..--.+.+...+..|...++-
T Consensus 165 gL~Fi---pl~~E~YD~virke~~~~~~vr~fi~~L~s~~~~ 203 (223)
T COG1910 165 GLDFI---PLGDEEYDFVIRKERLDKPVVRAFIKALKSEGFA 203 (223)
T ss_pred CCceE---EcccceEEEEEehhHccCHHHHHHHHHhcccccc
Confidence 10011 4556678899999876666666666666655443
No 240
>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=89.37 E-value=9.7 Score=37.08 Aligned_cols=70 Identities=17% Similarity=0.075 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +.+ +.+.. ++.+++.+.|.+|++|+++..... ....+. +.|+....++++++...+
T Consensus 13 ~~l~~~l~~~~~~~P~v~--v~i~~--~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~~~ 83 (201)
T cd08459 13 YFLPRLLAALREVAPGVR--IETVR--LPVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLVRKDHP 83 (201)
T ss_pred HHHHHHHHHHHHHCCCCe--EEEEe--cCccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEEcCCCc
Confidence 45567888888876 455 44443 345688999999999999863221 122333 468888888888876643
No 241
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=89.27 E-value=12 Score=39.80 Aligned_cols=72 Identities=10% Similarity=0.103 Sum_probs=47.6
Q ss_pred eeeHHHHHHHHHHCC-CccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHLN-YDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~ln-~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+... .+ +.+.. ++..++.+.|.+|++|+++...... .....+.+ .|+....++++++++..
T Consensus 108 ~~l~~~l~~~~~~~p~i~--~~~~~--~~~~~~~~~l~~g~~Di~i~~~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~~ 180 (302)
T PRK09791 108 SLMPAVISRFHQQHPQVK--VRIME--GQLVSMINELRQGELDFTINTYYQG-PYDHEFTF-EKLLEKQFAVFCRPGHP 180 (302)
T ss_pred hhhHHHHHHHHHHCCCeE--EEEEe--CChHHHHHHHHCCCccEEEEecCCc-ccccceeE-EEeccceEEEEEcCCCC
Confidence 456677888877763 44 44443 3568899999999999987622111 11233443 68888899998887654
No 242
>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=89.13 E-value=22 Score=34.30 Aligned_cols=73 Identities=15% Similarity=0.218 Sum_probs=47.4
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-..++..+.++. +.+ +.+.. ++..++.+.|.+|++|++++..... .....+. +.++....++++++.+..
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~~~~ 85 (201)
T cd08418 12 HTLMPAVINRFKEQFPDVQ--ISIYE--GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARKDHP 85 (201)
T ss_pred HhhhHHHHHHHHHHCCCce--EEEEe--CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCCCCc
Confidence 355667788888776 455 55543 4567899999999999998632111 1122333 366777888888876543
No 243
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=89.11 E-value=19 Score=37.91 Aligned_cols=70 Identities=14% Similarity=0.157 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.+.. +.+ +.+.. +...+++..+.+|++|+++.... .....+. ..|+....++++++++.+
T Consensus 102 ~~~~~~l~~~~~~~P~i~--i~v~~--~~~~~~~~~l~~g~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~hp 172 (290)
T PRK10837 102 YILPAMIARYRRDYPQLP--LELSV--GNSQDVINAVLDFRVDIGLIEGP---CHSPELI-SEPWLEDELVVFAAPDSP 172 (290)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEE--CCHHHHHHHHHhCCceEEEecCC---CCCCcee-EEEeecceEEEEEcCCCh
Confidence 45567778888776 555 44443 34578999999999999986322 1122232 356677788888876543
No 244
>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=89.06 E-value=11 Score=36.61 Aligned_cols=70 Identities=11% Similarity=0.085 Sum_probs=47.8
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+++ +.+ +++.. ++...+.++|.+|++|+++.. .+.....+. +.++....++++++....
T Consensus 13 ~~l~~~l~~f~~~~P~v~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~~~~~ 83 (200)
T cd08466 13 LLLPRLLARLKQLAPNIS--LRESP--SSEEDLFEDLRLQEVDLVIDY---VPFRDPSFK-SELLFEDELVCVARKDHP 83 (200)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEec--CchHhHHHHHHcCCccEEEec---ccCCCCCce-eeeecccceEEEEeCCCC
Confidence 55667888888776 455 55543 456789999999999999862 222222332 467788889988887643
No 245
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=88.89 E-value=21 Score=38.27 Aligned_cols=195 Identities=8% Similarity=0.055 Sum_probs=117.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.+.. +.+ +.+.. ++.+++++.|.+|++|+++..... .. ...+. +.++....+++++++..+
T Consensus 105 ~~~l~~~l~~f~~~~P~i~--l~l~~--~~~~~~~~~L~~g~~Dl~i~~~~~-~~-~~~l~-~~~l~~~~~~~v~~~~hp 177 (316)
T PRK12679 105 RYSLPEVIKAFRELFPEVR--LELIQ--GTPQEIATLLQNGEADIGIASERL-SN-DPQLV-AFPWFRWHHSLLVPHDHP 177 (316)
T ss_pred hcchHHHHHHHHHHCCCeE--EEEec--CCHHHHHHHHHcCCCCEEEecccC-CC-CCCce-EEEccCCcEEEEecCCCc
Confidence 356677888888776 344 44443 456789999999999999863211 11 22333 357888888888876654
Q ss_pred CCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHH
Q 002454 567 ESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWL 646 (920)
Q Consensus 567 ~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~ 646 (920)
..
T Consensus 178 l~------------------------------------------------------------------------------ 179 (316)
T PRK12679 178 LT------------------------------------------------------------------------------ 179 (316)
T ss_pred cc------------------------------------------------------------------------------
Confidence 21
Q ss_pred HHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccc-ccch----HHHHHHHHhcCCCCCceeecCCCHHHHHH
Q 002454 647 FVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGC-VDDS----FVKKYLEEVLGFRSGNIVPFGNTEANYIQ 721 (920)
Q Consensus 647 ~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~-~~~~----~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 721 (920)
....-+++||.+ .++.. ..+. .+..++... +..+......++ .....+
T Consensus 180 -----------------------~~~~i~~~~L~~--~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~s-~~~~~~ 232 (316)
T PRK12679 180 -----------------------QITPLTLESIAK--WPLITYRQGITGRSRIDDAFARK-GLLADIVLSAQD-SDVIKT 232 (316)
T ss_pred -----------------------cCCCCCHHHHhC--CCeEEecCCCcHHHHHHHHHHHc-CCCceEEEEecc-HHHHHH
Confidence 000247788864 33322 2222 234444432 233333445666 888889
Q ss_pred HHhcCCeeEEEeechhHHHHHhhcCCceEEee--eeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHHcCC
Q 002454 722 KFENNTIDSLFLERPYEKVFLDKYCKKYTAIN--TYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEWFKP 797 (920)
Q Consensus 722 ~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~~~~ 797 (920)
.+..|..-+++-... ... . +...+..+.. ......++++.+|+.+....+...+..+.+.--.+.++++.+..
T Consensus 233 ~v~~g~Gi~~lp~~~-~~~-~-~~~~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 307 (316)
T PRK12679 233 YVALGLGIGLVAEQS-SGE-Q-EESNLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMEN 307 (316)
T ss_pred HHHcCCcEEEecccc-ccc-c-cCCcEEEEECcccCCCceEEEEEeCCchhhHHHHHHHHHHhcccCHHHHHHHHhhc
Confidence 999987655554432 221 1 2223322221 23345788999999988888888888777776678888876654
No 246
>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=88.84 E-value=17 Score=35.13 Aligned_cols=70 Identities=16% Similarity=0.224 Sum_probs=47.7
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +.+ +++.. ++..++++.+.+|++|+++... +.....+. ..++....++++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~~p 83 (198)
T cd08421 13 EFLPEDLASFLAAHPDVR--IDLEE--RLSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVVVPRDHP 83 (198)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEe--cCcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEEeCCCCC
Confidence 45567888888876 555 55543 3467899999999999988632 22233343 467788888888876643
No 247
>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=88.81 E-value=13 Score=36.38 Aligned_cols=74 Identities=12% Similarity=0.116 Sum_probs=49.0
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+..+++..+.++. +.+ +.+.. ++.+++++.|.+|++|++++.......-...+. +.++....++++++.+.+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~hp 86 (202)
T cd08468 12 LAVMPRLMARLEELAPSVR--LNLVH--AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVIASRDHP 86 (202)
T ss_pred HHHhHHHHHHHHhhCCCCE--EEEEE--CChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEEEeCCCC
Confidence 356678888888877 555 55553 456889999999999998863322100012343 357777788888877654
No 248
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=88.53 E-value=5 Score=41.63 Aligned_cols=88 Identities=18% Similarity=0.187 Sum_probs=68.3
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~ 115 (920)
+||++.+...........|+...++..| |+.++......+-.|+..+.+.+..|+. +++.+|++.... ..+..
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~---p~~~v~~~~~g~~~D~~~a~~~a~~l~~-~G~DvI~~~~~~---~g~~~ 194 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN---PDATVKVIWTGSWFDPAKEKEAALALID-QGADVIYQHTDS---PGVIQ 194 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC---CCcEEEEEEecCCCCcHHHHHHHHHHHH-CCCcEEEecCCC---hHHHH
Confidence 6999988875555677789999998888 4577777777788899999999999996 599999987632 23555
Q ss_pred hhccCCccEEeecCC
Q 002454 116 IASRVQVPILSFAAP 130 (920)
Q Consensus 116 ~~~~~~iP~is~~~~ 130 (920)
.+++.++..|.....
T Consensus 195 aa~~~g~~~IG~d~d 209 (258)
T cd06353 195 AAEEKGVYAIGYVSD 209 (258)
T ss_pred HHHHhCCEEEeeccc
Confidence 667788999987643
No 249
>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=88.45 E-value=20 Score=34.49 Aligned_cols=71 Identities=18% Similarity=0.174 Sum_probs=48.2
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.+.. +.+ +++.. ++..++++.|.+|++|+++... +.....+. +.|+....++++++....
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~~~~ 83 (198)
T cd08412 12 PYYLPGLLRRFREAYPGVE--VRVVE--GNQEELEEGLRSGELDLALTYD---LDLPEDIA-FEPLARLPPYVWLPADHP 83 (198)
T ss_pred hhhhHHHHHHHHHHCCCcE--EEEEE--CCHHHHHHHHHcCCCcEEEEcC---CCCCcccc-eeeeeccceEEEecCCCC
Confidence 356678888888877 556 55544 3467889999999999988632 22223332 477888888888776543
No 250
>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=88.37 E-value=2.5 Score=39.94 Aligned_cols=102 Identities=15% Similarity=0.153 Sum_probs=64.8
Q ss_pred HHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHH-hhccCCceEEEE
Q 002454 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELK-KVQDKQSRVFIV 237 (920)
Q Consensus 159 a~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~-~l~~~~~~vii~ 237 (920)
++++.+.|.+++++|...............+++++++.| ............. ..+...... .+++..+++||+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~-~~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~pdaii~ 74 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHG-IEFEELIFFSDDD-----SEDAREAQLLWLRRLRPDAIIC 74 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTT-SEEEGEEEEESSS-----HHHHHHHHHHHHHTCSSSEEEE
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCC-CCCCeeEeecCCc-----chhHHHHHHHHHhcCCCcEEEE
Confidence 567888899999999944332212555677889999999 7754444333322 222222222 233337787765
Q ss_pred EecCHhHHHHHHHHHHHcCCC-CCCeEEEEec
Q 002454 238 LQASLDMTIHLFTEANRMGLV-GKDSVWIVTN 268 (920)
Q Consensus 238 ~~~~~~~~~~~l~~a~~~g~~-~~~~~~i~t~ 268 (920)
++...+..+++.+.+.|+. +.+...++-+
T Consensus 75 --~~~~~a~~~~~~l~~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 75 --SNDRLALGVLRALRELGIRVPQDISVVSFD 104 (160)
T ss_dssp --SSHHHHHHHHHHHHHTTSCTTTTSEEEEES
T ss_pred --cCHHHHHHHHHHHHHcCCcccccccEEEec
Confidence 8899999999999999994 4455444433
No 251
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=88.25 E-value=34 Score=36.49 Aligned_cols=204 Identities=12% Similarity=0.107 Sum_probs=105.2
Q ss_pred EEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHH
Q 002454 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (920)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~-d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~v 113 (920)
.+|+++.|-. .....+..++..+++++.++. ..+++...+... ++....+..+++.+ ++...||++... -..++
T Consensus 2 ~~v~~~~~g~-~~D~g~n~~~~~G~~~~~~~~--~~i~~~~~e~~~~~~~~~~~~~~~~~~-~g~dlIi~~g~~-~~~~~ 76 (306)
T PF02608_consen 2 KKVALLDPGG-INDKGFNQSAYEGLKRAEKEL--DGIEIIYVENVPETDADYEEAIRQLAD-QGYDLIIGHGFE-YSDAL 76 (306)
T ss_dssp EEEEEESSS--CCCSSHHHHHHHHHHHHHHHC--TTEEEEEEES-S-TCHHHHHHHHHHHH-TT-SEEEEESGG-GHHHH
T ss_pred eEEEEEECCC-CCCccHHHHHHHHHHHHHHHc--CCceEEEEecCCccHHHHHHHHHHHHH-cCCCEEEEccHH-HHHHH
Confidence 4677777665 112233333334444444432 245566665555 45566777777765 588888876543 33456
Q ss_pred HHhhccC-CccEEeecCCCCCCCccCCCCceeEEeccCchH---HHHHHHHHHHHcCCeEEEEEE---EeCCCCCCcchH
Q 002454 114 AEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE---QMKCIADLARKYNWRRVAAIY---EDNVYGGDSGKL 186 (920)
Q Consensus 114 a~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~---~~~aia~~l~~~~w~~v~ii~---~~~~~g~~~~~~ 186 (920)
..++.++ ++-++...+.. .. ..|++........+ ++..+|..+.+- .+++++. ..+.. ....+.
T Consensus 77 ~~vA~~yPd~~F~~~d~~~--~~----~~~Nv~~~~f~~~e~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p-~~~~~~ 147 (306)
T PF02608_consen 77 QEVAKEYPDTKFIIIDGYI--DA----PEPNVISITFREEEASFLAGYLAALMTKT--GKVGFIGDIGGMDIP-PVNRFI 147 (306)
T ss_dssp HHHHTC-TTSEEEEESS-----S----T-TTEEEEEE-HHHHHHHHHHHHHHHHSS--TEEEEEEEEES--SC-TTHHHH
T ss_pred HHHHHHCCCCEEEEEecCc--CC----CCCcEEEEEccccchhHHHHHHHHHHhcc--CcccccccccCCCcH-hHHHHH
Confidence 6667665 55555554441 11 11455555543332 334444444433 4778777 43321 225566
Q ss_pred HHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHHHHHHHHHcCCC
Q 002454 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (920)
Q Consensus 187 ~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~~l~~a~~~g~~ 258 (920)
..+..-++..+ -.+.....+... ..|+ ..-.+.-..|.+.++|+|+- .+ ......++++|++.|..
T Consensus 148 ~gF~~Ga~~~n-p~i~v~~~~~gs--~~D~-~~~~~~a~~li~~GaDvI~~-~a-g~~~~gv~~aa~e~g~~ 213 (306)
T PF02608_consen 148 NGFIAGAKYVN-PDIKVNVSYTGS--FNDP-AKAKEAAEALIDQGADVIFP-VA-GGSGQGVIQAAKEAGVY 213 (306)
T ss_dssp HHHHHHHHHTT-TT-EEEEEE-SS--SS-H-HHHHHHHHHHHHTT-SEEEE-E--CCCHHHHHHHHHHHTHE
T ss_pred HHHHHHHHHhC-cCceEEEEEcCC--cCch-HHHHHHHHHHhhcCCeEEEE-CC-CCCchHHHHHHHHcCCc
Confidence 77777777665 444433333321 1222 33345556677789998876 33 45567788999998864
No 252
>TIGR00035 asp_race aspartate racemase.
Probab=88.23 E-value=4.5 Score=41.05 Aligned_cols=45 Identities=11% Similarity=0.123 Sum_probs=26.8
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEe
Q 002454 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (920)
Q Consensus 81 d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is 126 (920)
++......+.+.+.+.++.+++=+.++.... +..+-+..++|+|+
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~ 103 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLIS 103 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEec
Confidence 3555555444555567888877676654443 44455556788775
No 253
>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=88.23 E-value=10 Score=37.07 Aligned_cols=69 Identities=13% Similarity=0.092 Sum_probs=45.5
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-..++..+.++. +.+ +.+.. ++. ++++.|.+|++|++++.-.. ....+. ..|+....++++++.+.+
T Consensus 13 ~~l~~~i~~~~~~~P~i~--l~i~~--~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~hp 82 (200)
T cd08462 13 VLLPPVIERVAREAPGVR--FELLP--PDD-QPHELLERGEVDLLIAPERF---MSDGHP-SEPLFEEEFVCVVWADNP 82 (200)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEec--CCh-hHHHHHhcCCeeEEEecCCC---CCCCce-eeeeeccceEEEEcCCCC
Confidence 45566777777776 455 55554 344 89999999999999863211 112233 357777888888876654
No 254
>cd08426 PBP2_LTTR_like_5 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=87.83 E-value=25 Score=33.87 Aligned_cols=70 Identities=9% Similarity=0.055 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.++. +.+ +.+.. +...++.+.+.+|++|+++..... ....+. +.++....++++++...+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~hp 83 (199)
T cd08426 13 ELLPSLIARFRQRYPGVF--FTVDV--ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPPGHP 83 (199)
T ss_pred HHHHHHHHHHHHhCCCeE--EEEEe--CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecCCCC
Confidence 45567778887776 455 44443 345789999999999999863221 122333 467788888888876543
No 255
>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=87.62 E-value=11 Score=38.96 Aligned_cols=102 Identities=12% Similarity=0.087 Sum_probs=61.4
Q ss_pred CCCCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHH-HHhhcCCce
Q 002454 671 PNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKYCKKY 749 (920)
Q Consensus 671 ~~i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~-~~~~~~~~~ 749 (920)
.+|++++||+ |+++.+..++...+.++.. + ...+ ... ..+...++++|.+|+++........ -+.+..+.+
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~~~-G---a~~v-~~~-~~e~~~aL~~G~vDg~~~~~~~~~~~~~~ev~~y~ 197 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFKAL-G---ANPE-PMA-FSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYL 197 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHHHc-C---Cccc-ccC-HHHHHHHHHcCCcccccCCHHHHhhcchhhhcchh
Confidence 4599999997 7888887776666676654 2 2323 334 7899999999999998865333221 112223322
Q ss_pred EEeeeeeecceeeEecCCC--cchHHHHHHHHhh
Q 002454 750 TAINTYRFGGLGFAFQRGS--PIALDISRAILDL 781 (920)
Q Consensus 750 ~~~~~~~~~~~~~~~~k~s--p~~~~~n~~i~~l 781 (920)
.... .......+.+.+.. .|-+....+|...
T Consensus 198 ~~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 198 SMTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred eecC-CcccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 2222 22345567777762 2555555555444
No 256
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=87.52 E-value=15 Score=39.50 Aligned_cols=71 Identities=10% Similarity=0.060 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.+ +++ +.+.. ++.+++++.|.+|++|++++... ......+. ..|+....++++++...+
T Consensus 106 ~~l~~~l~~f~~~~P~i~--i~i~~--~~~~~~~~~L~~g~iDl~i~~~~--~~~~~~l~-~~~l~~~~~~~v~~~~hp 177 (324)
T PRK12681 106 YALPPVIKGFIERYPRVS--LHMHQ--GSPTQIAEAAAKGNADFAIATEA--LHLYDDLI-MLPCYHWNRSVVVPPDHP 177 (324)
T ss_pred HhhHHHHHHHHHHCCCcE--EEEEe--CCHHHHHHHHHcCCCCEEEecCc--ccCCCCeE-EEEeccceeEEEeCCCCh
Confidence 45567777787776 444 44443 46789999999999999986311 11122333 356777778878776543
No 257
>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=87.43 E-value=3 Score=42.39 Aligned_cols=189 Identities=13% Similarity=0.033 Sum_probs=111.5
Q ss_pred ceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcC-cccEEEeceeeecCce---eeee--eccccccccEEE
Q 002454 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK-TYDAAVGDLTILGNRT---EYVE--FTQPYAESGFSM 559 (920)
Q Consensus 486 ~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~-~~D~~~~~~~~t~~r~---~~~~--fs~p~~~~~~~~ 559 (920)
.+.+..-++.+.+.++-|+++++.+.+ -..+...|.+| ++|+.+.+-....++. ..+. -..|+....+++
T Consensus 8 ~~~~~~~~l~~~f~~~~g~~v~v~~~~----s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~vl 83 (230)
T PF13531_consen 8 GLAPALEELAEAFEKQPGIKVEVSFGG----SGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSPLVL 83 (230)
T ss_dssp GGHHHHHHHHHHHHHHHCEEEEEEEEC----HHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEEEEE
T ss_pred cHHHHHHHHHHHHHhccCCeEEEEECC----hHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCceEE
Confidence 455667788899988889885444443 36677787765 8898876432221211 2233 567888889999
Q ss_pred EEecCCCCCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchh
Q 002454 560 IVPAKQEESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTR 639 (920)
Q Consensus 560 iv~~~~~~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~R 639 (920)
+++++....
T Consensus 84 ~~~~~~~~~----------------------------------------------------------------------- 92 (230)
T PF13531_consen 84 AVPKGNPKG----------------------------------------------------------------------- 92 (230)
T ss_dssp EEETTSTTS-----------------------------------------------------------------------
T ss_pred EeccCcccc-----------------------------------------------------------------------
Confidence 998876432
Q ss_pred hHHHHHHHHHHHHHHHhhccccceeeeeccCCCCCChHHhhhCCccccccc---c---hHHHHHHHHhc-----CCCCCc
Q 002454 640 VVVVLWLFVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKSGNLKVGCVD---D---SFVKKYLEEVL-----GFRSGN 708 (920)
Q Consensus 640 i~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~s~~~vg~~~---~---~~~~~~l~~~~-----~~~~~~ 708 (920)
+.+++||.+.++++++.. . ......+.+.. ..-..+
T Consensus 93 ---------------------------------~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~~g~~~~~~~l~~~ 139 (230)
T PF13531_consen 93 ---------------------------------IRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAAAGGQELLDALQKN 139 (230)
T ss_dssp ---------------------------------TTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHHHTHCHHHHHHHHT
T ss_pred ---------------------------------cCCHHHHhhccCEEEecCcccChhhHHHHHHHHHcccHHHHHHHHHh
Confidence 789999987778887732 1 12222333221 011224
Q ss_pred ee-ecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCc--eEEeeeee--ecceeeEecCCCcchHHHHHHHHhhhc
Q 002454 709 IV-PFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKK--YTAINTYR--FGGLGFAFQRGSPIALDISRAILDLSE 783 (920)
Q Consensus 709 ~~-~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~--~~~~~~~~--~~~~~~~~~k~sp~~~~~n~~i~~l~e 783 (920)
+. ..++ ..+....+.+|++|+.+.......+. ...-.+ +...+... ...+.+++.++++-.+.-..++.-|..
T Consensus 140 ~~~~~~~-~~~~~~~v~~g~~d~~~~~~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s 217 (230)
T PF13531_consen 140 IVQYVPS-TSQVLSAVASGEADAGIVYESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFLLS 217 (230)
T ss_dssp EEEEESS-HHHHHHHHHTTSSSEEEEEHHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHHTS
T ss_pred Ccccccc-hHHHHHHHHcCCCcceeeHHHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHHCC
Confidence 44 4455 88899999999999988754444221 122222 11222222 356778888888766666666665554
Q ss_pred c
Q 002454 784 D 784 (920)
Q Consensus 784 ~ 784 (920)
.
T Consensus 218 ~ 218 (230)
T PF13531_consen 218 P 218 (230)
T ss_dssp H
T ss_pred H
Confidence 4
No 258
>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=87.33 E-value=17 Score=34.82 Aligned_cols=70 Identities=16% Similarity=0.158 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.++. +.+ +.+.. +...++.+.+.+|++|+++.. .+.....+. ..++....++++++....
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (193)
T cd08442 13 VRLPPLLAAYHARYPKVD--LSLST--GTTGALIQAVLEGRLDGAFVA---GPVEHPRLE-QEPVFQEELVLVSPKGHP 83 (193)
T ss_pred hhhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCccEEEEe---CCCCCCCcE-EEEeecCcEEEEecCCCc
Confidence 55678888888877 566 55543 356789999999999998753 222222332 456777788888876543
No 259
>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=87.30 E-value=20 Score=35.13 Aligned_cols=72 Identities=17% Similarity=0.142 Sum_probs=48.8
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.+.. +.+ +++... ++.+++.+.|.+|++|+++..... ..+.++ ..++....+++++++...
T Consensus 12 ~~~~~~~l~~~~~~~P~~~--v~~~~~-~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~-~~~l~~~~~~lv~~~~h~ 84 (203)
T cd08463 12 ALFLPELVARFRREAPGAR--LEIHPL-GPDFDYERALASGELDLVIGNWPE---PPEHLH-LSPLFSDEIVCLMRADHP 84 (203)
T ss_pred HHHhHHHHHHHHHHCCCCE--EEEEeC-CcchhHHHHHhcCCeeEEEecccc---CCCCcE-EeEeecCceEEEEeCCCC
Confidence 456778888888877 455 555432 245789999999999999863221 112233 367778888888887654
No 260
>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=86.63 E-value=26 Score=33.77 Aligned_cols=70 Identities=19% Similarity=0.208 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +.+ +.+.. +.-.++.+.|.+|++|+++... +.....+ -+.++....++++++....
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~~~~ 83 (198)
T cd08433 13 VLAVPLLRAVRRRYPGIR--LRIVE--GLSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVGPADAP 83 (198)
T ss_pred hcchHHHHHHHHHCCCcE--EEEEe--cCcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEecCCCc
Confidence 45567888888876 455 55543 2346889999999999988622 2222223 3467788888888876543
No 261
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=86.61 E-value=14 Score=39.29 Aligned_cols=68 Identities=12% Similarity=0.099 Sum_probs=44.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
.+...++..+.++. +.. +.+.. +....+...|.+|++|+++.... .....++ ..|+....++++++.+
T Consensus 105 ~~~~~~l~~~~~~~p~i~--l~~~~--~~~~~~~~~l~~g~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 105 SLTMPLLQAVRAEFPGIV--LYLHE--NSGATLNEKLMNGQLDMAVIYEH---SPVAGLS-SQPLLKEDLFLVGTQD 173 (305)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEEE--CCcHHHHHHHHCCCCCEEEEcCC---cCCCCcE-EEEEeeeeEEEEEcCc
Confidence 44556788888876 555 44443 24568889999999999985321 1112232 4577788888887755
No 262
>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=86.41 E-value=32 Score=33.01 Aligned_cols=69 Identities=13% Similarity=0.209 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+..+++..+.++. +.+ +++.. +....+.+++.+|++|+++...... ...+ .+.++....++++++...
T Consensus 12 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~~~ 81 (197)
T cd08419 12 YFAPRLLGAFCRRHPGVE--VSLRV--GNREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAPPDH 81 (197)
T ss_pred hHhhHHHHHHHHHCCCce--EEEEE--CCHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEecCCC
Confidence 35567778887776 555 55544 3467889999999999998532211 1122 246778888888887654
No 263
>PRK10200 putative racemase; Provisional
Probab=86.20 E-value=19 Score=36.43 Aligned_cols=88 Identities=14% Similarity=0.054 Sum_probs=54.1
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHH
Q 002454 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (920)
Q Consensus 80 ~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia 159 (920)
.+|........+.+.+.|+.+++=|.++..+. .-.+-+..++|+|.. .++++
T Consensus 58 ~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i---------------------------i~~~~ 109 (230)
T PRK10200 58 DKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI---------------------------ADATG 109 (230)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh---------------------------HHHHH
Confidence 46777777777777778999888777765554 444555567777741 12333
Q ss_pred HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc-CCceE
Q 002454 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV-SSSEI 201 (920)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~-g~~~i 201 (920)
+.++..+-++|+++.....-- ...+++.+.+. | .++
T Consensus 110 ~~~~~~~~~~VglLaT~~Ti~-----s~~Y~~~l~~~~g-~~~ 146 (230)
T PRK10200 110 RAITGAGMTRVALLGTRYTME-----QDFYRGRLTEQFS-INC 146 (230)
T ss_pred HHHHHcCCCeEEEeccHHHHH-----HhHHHHHHHHhcC-CeE
Confidence 334445667888888765422 34556665544 6 554
No 264
>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=86.09 E-value=26 Score=33.63 Aligned_cols=71 Identities=14% Similarity=0.243 Sum_probs=47.3
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.++. +.+ +.+.. +.-..+.++|.+|++|+++..... ..+.+. +.++....++++++....
T Consensus 12 ~~~l~~~l~~~~~~~P~~~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (201)
T cd08420 12 EYLLPRLLARFRKRYPEVR--VSLTI--GNTEEIAERVLDGEIDLGLVEGPV---DHPDLI-VEPFAEDELVLVVPPDHP 83 (201)
T ss_pred hhhhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCccEEEecCCC---CCcceE-EEeecCccEEEEecCCCC
Confidence 356678888888876 455 45543 245678999999999998863322 222333 367778888888876543
No 265
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=86.02 E-value=25 Score=37.06 Aligned_cols=89 Identities=15% Similarity=0.193 Sum_probs=57.1
Q ss_pred CCCCCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHH-HHhhcCCc
Q 002454 670 EPNVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKV-FLDKYCKK 748 (920)
Q Consensus 670 ~~~i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~-~~~~~~~~ 748 (920)
..+|++++||+ |+++.+..+......++.. ...-+.++ ..+...+|++|.+|++......... -..+.++.
T Consensus 125 ~~pi~s~~Dlk--G~kiR~~~~~~~~~~~~~l----Ga~pv~ip--~~evy~aLq~G~vDg~~~~~~~~~~~~~~ev~~y 196 (286)
T PF03480_consen 125 KKPIRSPEDLK--GLKIRVPGSPVMSDFFEAL----GASPVPIP--WSEVYQALQQGVVDGAENSASSIYSLGLYEVAKY 196 (286)
T ss_dssp SS--SSGGGGT--TEEEEETSSHHHHHHHHHC----TSEEEE-T--GGGHHHHHHTTSSSEEEEEHHHHHHTTGGGTSSE
T ss_pred ccCCccHhhHh--hCeEEecCCHHHHHHHHHc----CCeeecCc--HHHHHHHHhcCCcCeEecCHHHHHhcChhhhCCe
Confidence 35699999998 6888887666666666653 22333333 5789999999999999987555422 12334555
Q ss_pred eEEeeeeeecceeeEecCC
Q 002454 749 YTAINTYRFGGLGFAFQRG 767 (920)
Q Consensus 749 ~~~~~~~~~~~~~~~~~k~ 767 (920)
+...+ ....++.+++.+.
T Consensus 197 ~~~~~-~~~~~~~~~~n~~ 214 (286)
T PF03480_consen 197 FTDTN-HGWSPYAVIMNKD 214 (286)
T ss_dssp EEEEE-EEEEEEEEEEEHH
T ss_pred eEeec-ccCcceEEEEcHH
Confidence 44444 4446667777765
No 266
>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=85.60 E-value=35 Score=32.73 Aligned_cols=70 Identities=9% Similarity=0.051 Sum_probs=48.3
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
..+..+++..+.+.. +.+ +.+.. +...++.+.+.+|++|+++.... .....+ .+.|+....+++++++..
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~~~ 82 (196)
T cd08415 12 LSLLPRAIARFRARHPDVR--ISLHT--LSSSTVVEAVLSGQADLGLASLP---LDHPGL-ESEPLASGRAVCVLPPGH 82 (196)
T ss_pred ccccHHHHHHHHHHCCCcE--EEEEe--cchHHHHHHHHcCCccEEEEeCC---CCCCcc-eeeeecccceEEEEcCCC
Confidence 356678888988876 555 55544 34678999999999999986322 112223 357788888888887654
No 267
>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=85.58 E-value=33 Score=32.89 Aligned_cols=71 Identities=15% Similarity=0.213 Sum_probs=47.6
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+..++++.+.+.. +.. +.+.. ++..++.+.|.+|++|+++..... ....+. ..++....++++++....
T Consensus 12 ~~~l~~~l~~~~~~~p~v~--i~i~~--~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (197)
T cd08438 12 SLLFAPLLAAFRQRYPNIE--LELVE--YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPRGHP 83 (197)
T ss_pred hhhcHHHHHHHHHHCcCeE--EEEEE--cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecCCCC
Confidence 356678888888876 444 45543 345788999999999999863222 122233 356777888888876643
No 268
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=85.38 E-value=26 Score=37.41 Aligned_cols=72 Identities=14% Similarity=0.260 Sum_probs=47.1
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +.+ +.+.. +...++++.|.+|++|+++...... ...+.+ ...|+....++++++...+
T Consensus 110 ~~l~~~l~~~~~~~p~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~lv~~~~~p 182 (312)
T PRK10341 110 TFMSDMINKFKEVFPKAQ--VSMYE--AQLSSFLPAIRDGRLDFAIGTLSNE-MKLQDL-HVEPLFESEFVLVASKSRT 182 (312)
T ss_pred hhHHHHHHHHHHhCCCCE--EEEEe--CCHHHHHHHHHcCCCcEEEecCCcc-cccCCe-eEEEEecccEEEEEcCCCc
Confidence 34557778887765 344 55554 3468899999999999998632211 111223 3468888889988877543
No 269
>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=85.22 E-value=20 Score=34.70 Aligned_cols=70 Identities=20% Similarity=0.211 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.++. +.+ +.+.. ++...+.+.|.+|++|+++... +.....+. ..++....++++++....
T Consensus 13 ~~~~~~i~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (200)
T cd08417 13 LLLPPLLARLRQEAPGVR--LRFVP--LDRDDLEEALESGEIDLAIGVF---PELPPGLR-SQPLFEDRFVCVARKDHP 83 (200)
T ss_pred HHHHHHHHHHHhhCCCeE--EEecc--CCHHHHHHHHHcCCCCEEEeec---ccCCCccc-hhhhhcCceEEEecCCCc
Confidence 45567777777776 444 44443 4567899999999999998632 22223332 467888899988876543
No 270
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=85.20 E-value=29 Score=36.69 Aligned_cols=71 Identities=10% Similarity=0.055 Sum_probs=48.1
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+..+++..+.++. +.. +.+.. +....+++.|.+|++|+++... +.+.+.+. +.++....++++++++.+
T Consensus 103 ~~~l~~~l~~~~~~~p~~~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~~~~~~~p 174 (296)
T PRK11242 103 AYLIGPLIDAFHARYPGIT--LTIRE--MSQERIEALLADDELDVGIAFA---PVHSPEIE-AQPLFTETLALVVGRHHP 174 (296)
T ss_pred hhhhHHHHHHHHHHCCCCE--EEEEe--CCHHHHHHHHHCCCCcEEEEec---CCCCccee-EEEeeeccEEEEEcCCCc
Confidence 355677888888875 333 55543 3467889999999999998532 22233333 477788888888887654
No 271
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=84.66 E-value=14 Score=38.68 Aligned_cols=120 Identities=18% Similarity=0.220 Sum_probs=71.8
Q ss_pred CCCChHHhh----h--CCcccccc-cch---HHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHH
Q 002454 672 NVTDIQSLK----S--GNLKVGCV-DDS---FVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVF 741 (920)
Q Consensus 672 ~i~s~~dL~----~--s~~~vg~~-~~~---~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~ 741 (920)
+++|++||. + .++++|+. .|+ .....+.+..+.+ .+.+.|+. ..+.+.++..|++|+.+.......-+
T Consensus 89 p~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G-~~~~~~allgG~vd~~~~~~~~~~~~ 166 (274)
T PF03401_consen 89 PYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDG-GAEALTALLGGHVDAAFGSPGEALPY 166 (274)
T ss_dssp S-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SS-HHHHHHHHHTTSSSEEEEEHHHHHHH
T ss_pred ccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCC-ccHHHHHHhCCeeeEEeecHHHHHHH
Confidence 379999984 2 34777774 232 2334455554443 45678999 89999999999999998875544433
Q ss_pred Hhh-c---------------CCceEEee-----eeeecceeeEecCCCc--chHHHHHHHHhhhccchHHHHHHH
Q 002454 742 LDK-Y---------------CKKYTAIN-----TYRFGGLGFAFQRGSP--IALDISRAILDLSEDGRLKTLEEE 793 (920)
Q Consensus 742 ~~~-~---------------~~~~~~~~-----~~~~~~~~~~~~k~sp--~~~~~n~~i~~l~e~G~~~~~~~~ 793 (920)
++. . .+.-...+ .-.....++++|||-| ..+.+..++.+..++-.+.+..++
T Consensus 167 ~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 167 VEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp HHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred HhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 321 0 01111111 1123456899999988 999999999999988766555544
No 272
>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=84.61 E-value=23 Score=34.24 Aligned_cols=70 Identities=10% Similarity=0.054 Sum_probs=46.6
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
..+-.+++..+.+.+ +.+ +.+.. +..+.+.+.+.+|++|+++... +.....+. +.++....++++++...
T Consensus 12 ~~~l~~~l~~f~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~~~ 82 (198)
T cd08461 12 KAILPPLLAALRQEAPGVR--VAIRD--LESDNLEAQLERGEVDLALTTP---EYAPDGLR-SRPLFEERYVCVTRRGH 82 (198)
T ss_pred HHHhHHHHHHHHHHCCCcE--EEEee--CCcccHHHHHhcCCCcEEEecC---ccCCccce-eeeeecCcEEEEEcCCC
Confidence 356678888888876 556 44443 2346789999999999988532 11222333 56778888888887654
No 273
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=84.40 E-value=4.4 Score=42.65 Aligned_cols=46 Identities=17% Similarity=0.138 Sum_probs=31.1
Q ss_pred ceeeeeHHHHHHHHH-HCCCccceEEEecCCChhHHHHHHHcCcccEEEe
Q 002454 486 RYDGFSIELFRLVVD-HLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (920)
Q Consensus 486 ~~~G~~~dl~~~la~-~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~ 534 (920)
.|.=+...|.+.+.+ .-|++ ...++.+|| ..-++.+.+|++|+++.
T Consensus 38 ~YY~ig~~ia~~~~~~~~~i~--~~v~~tggS-v~Nl~~i~~Ge~d~alv 84 (321)
T COG2358 38 VYYPIGGGLAQLLNKDEKGIE--CSVVPTGGS-VENLKLLASGEADLALV 84 (321)
T ss_pred eeeehHHHHHHHHhccCCCeE--EEEeeccch-HHHHHhHhcCccchhhh
Confidence 455555666666666 45655 667776676 44566899999999865
No 274
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=84.36 E-value=25 Score=36.30 Aligned_cols=177 Identities=13% Similarity=0.089 Sum_probs=107.6
Q ss_pred HHHHHHHHHCCCccceEEEecCCChhHHHHHHHcC-cccEEEeceeeecC---cee--eeeeccccccccEEEEEecCCC
Q 002454 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDK-TYDAAVGDLTILGN---RTE--YVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 493 dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~-~~D~~~~~~~~t~~---r~~--~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
++..++.+..|.++++++- || ..+.+++.+| ++|+.+..=..+.. ... .-+...+|....+++++|+...
T Consensus 46 ~i~~~F~~~~~~~V~~~f~---gS-~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~~~~~~ 121 (258)
T COG0725 46 EIAKQFEKETGVKVEVEFG---GS-GALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAVPKGSK 121 (258)
T ss_pred HHHHHHHHHHCCeEEEEec---ch-HHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEEeCCCc
Confidence 7788888877888555553 23 5677777764 67877653221211 111 2335678888899999988765
Q ss_pred CCceeeeccCcHhHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccCcccccccchhhHHHHHH
Q 002454 567 ESTWMFTKPFTWEMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSHRANIQSNLTRVVVVLWL 646 (920)
Q Consensus 567 ~~~~~~l~pF~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~s~Ri~~~~w~ 646 (920)
..
T Consensus 122 ~~------------------------------------------------------------------------------ 123 (258)
T COG0725 122 KK------------------------------------------------------------------------------ 123 (258)
T ss_pred cC------------------------------------------------------------------------------
Confidence 42
Q ss_pred HHHHHHHHHhhccccceeeeeccCCCCCChHHhhh-CCccccc------ccchHHHHHHHHhcC--CCCCceeecCCCHH
Q 002454 647 FVVFILTSSYTASLSSLLTVRRLEPNVTDIQSLKS-GNLKVGC------VDDSFVKKYLEEVLG--FRSGNIVPFGNTEA 717 (920)
Q Consensus 647 ~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-s~~~vg~------~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~ 717 (920)
+.++++|.. .+.++++ ..|.+..+.|+...- ....+++...+ ..
T Consensus 124 --------------------------~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~~~g~~~~~~~k~v~~~~-v~ 176 (258)
T COG0725 124 --------------------------IESLEDLLERPDVRLAIGDPKTVPAGKYAKEALELLGLWYTLKDKLVLATN-VR 176 (258)
T ss_pred --------------------------cccHHHHhcCcCcEEEecCCCCCCchHHHHHHHHHhchhhhccccEEecCc-HH
Confidence 445777754 4667765 345666666665321 23446677777 88
Q ss_pred HHHHHHhcCCeeEEEeechhHHHHHhhcCCce-EEee-eeeecceeeEecCCCcc---hHHHHHHHHh
Q 002454 718 NYIQKFENNTIDSLFLERPYEKVFLDKYCKKY-TAIN-TYRFGGLGFAFQRGSPI---ALDISRAILD 780 (920)
Q Consensus 718 ~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~k~sp~---~~~~n~~i~~ 780 (920)
+.+..|.+|+.|+.+.-.......- .-..+ .+.. ...+..|.+++.+++.- ...|-..+..
T Consensus 177 ~~l~~V~~G~ad~g~vy~sd~~~~~--~~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~s 242 (258)
T COG0725 177 QALAYVETGEADAGFVYVSDALLSK--KVKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLLS 242 (258)
T ss_pred HHHHHHHcCCCCeEEEEEEhhhccC--CceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHhC
Confidence 9999999999998887544332211 11111 1222 23346678888888764 5555555543
No 275
>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=84.20 E-value=11 Score=37.69 Aligned_cols=73 Identities=12% Similarity=-0.083 Sum_probs=40.5
Q ss_pred ceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEee-eeeecceeeEecCCCcchHHHHHHHHhhh
Q 002454 708 NIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN-TYRFGGLGFAFQRGSPIALDISRAILDLS 782 (920)
Q Consensus 708 ~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~k~sp~~~~~n~~i~~l~ 782 (920)
++....+ ..+..+.+.+|++++.+......... ......+.+.. ......+++++.|+++-.+.-.++|..|.
T Consensus 131 n~~~~~~-~~~~~~~~~~Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~ 204 (216)
T TIGR01256 131 KLVYGED-VRQALQFVETGNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLK 204 (216)
T ss_pred heeecCc-HHHHHHHHHcCCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHc
Confidence 3333344 77888899999999988654332111 11222222222 22234568999999875554444444443
No 276
>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=83.98 E-value=28 Score=36.94 Aligned_cols=72 Identities=13% Similarity=0.134 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.++. +.+ +.+.. ++...++.++.+|++|++++.... +.....+. ..|+....+++++++..+
T Consensus 106 ~~~~~~l~~~~~~~P~~~--i~~~~--~~~~~~~~~l~~g~~D~~i~~~~~-~~~~~~~~-~~~l~~~~~~~~~~~~hp 178 (300)
T TIGR02424 106 RLMPEVVKRFLARAPRLR--VRIMT--GPNAYLLDQLRVGALDLVVGRLGA-PETMQGLS-FEHLYNEPVVFVVRAGHP 178 (300)
T ss_pred hhhHHHHHHHHHhCCCcE--EEEEe--CchHHHHHHHHCCCCCEEEEecCC-ccccccee-eeeecCCceEEEEcCCCc
Confidence 34556777777776 333 45544 346789999999999999863322 22223333 457888888888876543
No 277
>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=83.43 E-value=41 Score=32.30 Aligned_cols=70 Identities=11% Similarity=0.111 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+...++..+.++. +.+ +.+.. +...++.+.|.+|++|+++... +.....+. +.++....++++++++..
T Consensus 14 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~~p 84 (197)
T cd08425 14 YLIGPLIDRFHARYPGIA--LSLRE--MPQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVVGATHP 84 (197)
T ss_pred hhhHHHHHHHHHHCCCcE--EEEEE--CcHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEecCCCc
Confidence 44567888888776 444 55544 3457889999999999998532 22222333 467777888888876643
No 278
>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=82.99 E-value=46 Score=31.99 Aligned_cols=72 Identities=14% Similarity=0.225 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +.. +.+.. ++..++.+.+.+|++|+++.... ...+...+. ..|+....++++++++.+
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~~~~ 85 (201)
T cd08435 13 VLLPPAIARLLARHPRLT--VRVVE--GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARPGHP 85 (201)
T ss_pred HHHHHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeCCCc
Confidence 44567777777776 344 45543 35678899999999999886321 111122333 467788888988887643
No 279
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=82.70 E-value=4.9 Score=43.58 Aligned_cols=72 Identities=14% Similarity=0.225 Sum_probs=47.8
Q ss_pred CCCChHHhhhCCcccccccchH----HHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhc
Q 002454 672 NVTDIQSLKSGNLKVGCVDDSF----VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY 745 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~ 745 (920)
+|++++||+ |+++|+..++. .-.+.....+...+++..+.-+..+...++..|++|++..-.++......+.
T Consensus 127 ~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~~~~~ 202 (335)
T COG0715 127 GIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAAEGEG 202 (335)
T ss_pred CcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCCcceEEecCCchhhhhccC
Confidence 388999996 79999965542 2233334445555555433322568889999999999888777776555544
No 280
>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=82.11 E-value=49 Score=32.01 Aligned_cols=72 Identities=11% Similarity=0.145 Sum_probs=48.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.++..+++..+.++. +.+ +.+.. ++...+++.|.+|++|+++..-.. .....+. +.++....++++++....
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~~hp 84 (198)
T cd08444 12 RYALPWVVQAFKEQFPNVH--LVLHQ--GSPEEIASMLANGQADIGIATEAL--ENHPELV-SFPYYDWHHHIIVPVGHP 84 (198)
T ss_pred hhhhhHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHCCCccEEEecccc--CCCcCcE-EeeccccceeEEecCCCc
Confidence 466778888888886 555 55543 456789999999999998862111 1122232 467778888888876644
No 281
>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=82.07 E-value=43 Score=32.31 Aligned_cols=69 Identities=16% Similarity=0.177 Sum_probs=45.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+..+++..+.++. +.+ +.+.. ++..++++.|.+|++|+++.... .....+. ..++....++++++...
T Consensus 14 ~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~~ 83 (200)
T cd08411 14 YLLPRLLPALRQAYPKLR--LYLRE--DQTERLLEKLRSGELDAALLALP---VDEPGLE-EEPLFDEPFLLAVPKDH 83 (200)
T ss_pred hhhHHHHHHHHHHCCCcE--EEEEe--CcHHHHHHHHHcCCccEEEEecc---CCCCCce-EEEeeccceEEEecCCC
Confidence 45667788888776 445 55543 45678999999999999985321 1122232 35677778888877654
No 282
>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=82.05 E-value=46 Score=32.18 Aligned_cols=72 Identities=13% Similarity=0.115 Sum_probs=47.9
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+..+++..+.+.. +.+ +.+.. +....+.+.|.+|++|+++..... .....+. +.++....++++++...+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--v~~~~--~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~hp 84 (198)
T cd08413 12 RYVLPPVIAAFRKRYPKVK--LSLHQ--GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPPGHP 84 (198)
T ss_pred hhhccHHHHHHHHhCCceE--EEEEe--CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecCCCc
Confidence 345677888888876 344 55543 456789999999999999852211 1122233 467778888888877654
No 283
>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=81.72 E-value=49 Score=31.50 Aligned_cols=70 Identities=19% Similarity=0.295 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+...++..+.++. +.+ +.+.. +....+++++.+|++|+++... +.....+. +.++....+++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~~~~ 83 (195)
T cd08434 13 SLVPDLIRAFRKEYPNVT--FELHQ--GSTDELLDDLKNGELDLALCSP---VPDEPDIE-WIPLFTEELVLVVPKDHP 83 (195)
T ss_pred hhhHHHHHHHHHhCCCeE--EEEec--CcHHHHHHHHHcCCccEEEEcc---CCCCCCee-EEEeecceEEEEecCCCc
Confidence 45667778888776 555 45543 3457889999999999987632 22233343 357777888888876543
No 284
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=81.31 E-value=80 Score=34.02 Aligned_cols=71 Identities=7% Similarity=-0.066 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.++++.+.+++ +.+ +.+.. +..++++++|.+|++|+++..... ....... ..|+....++++++.+..
T Consensus 106 ~~l~~~l~~f~~~~P~v~--i~l~~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~l~~~~~hp 177 (327)
T PRK12680 106 FVLPPAVAQIKQAYPQVS--VHLQQ--AAESAALDLLGQGDADIAIVSTAG--GEPSAGI-AVPLYRWRRLVVVPRGHA 177 (327)
T ss_pred HhhHHHHHHHHHHCCCcE--EEEEe--CChHHHHHHHHCCCCcEEEEecCC--CCCCcce-EEEeeccceEEEEeCCCh
Confidence 45678888888877 445 55544 346889999999999998853211 1111222 467888888888876543
No 285
>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=81.07 E-value=41 Score=32.60 Aligned_cols=71 Identities=18% Similarity=0.180 Sum_probs=47.0
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.++. +.+ +.+.. +....+.+.|.+|++|+++... +.....+. ..++....+++++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~h~ 83 (200)
T cd08467 12 VALLPRLAPRLRERAPGLD--LRLCP--IGDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLVRHGHP 83 (200)
T ss_pred HHHHHHHHHHHHhhCCCCE--EEEec--CCcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEEcCCCc
Confidence 355677888888776 455 55543 3456889999999999988532 11122333 367788888888876543
No 286
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=80.81 E-value=48 Score=35.34 Aligned_cols=72 Identities=13% Similarity=0.150 Sum_probs=47.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.+.. +.+ +.+.. ++.+.+++.|.+|++|++++.... .....++ +.|+....++++++...+
T Consensus 105 ~~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~l~-~~~l~~~~~~~~~~~~~p 177 (309)
T PRK12682 105 RYVLPRVVAAFRKRYPKVN--LSLHQ--GSPDEIARMVISGEADIGIATESL--ADDPDLA-TLPCYDWQHAVIVPPDHP 177 (309)
T ss_pred HHHHHHHHHHHHHhCCCeE--EEEec--CCHHHHHHHHHcCCccEEEecCcc--cCCCcce-EEEeeeeeEEEEecCCCc
Confidence 356677888888776 455 44443 345789999999999999863221 1122333 357888888888877653
No 287
>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=80.60 E-value=18 Score=35.13 Aligned_cols=70 Identities=19% Similarity=0.228 Sum_probs=47.3
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.++. +.+ +++.. ++. .+++.|.+|++|++++.... ....+. ..|+....++++++....
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--v~l~~--~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~hp 82 (200)
T cd08460 12 AAFGPALLAAVAAEAPGVR--LRFVP--ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVRAGHP 82 (200)
T ss_pred HHHHHHHHHHHHHHCCCCE--EEEec--Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEeCCCC
Confidence 466778888888876 445 55543 344 78899999999999863211 122333 477788888888877654
No 288
>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=79.45 E-value=61 Score=31.15 Aligned_cols=69 Identities=7% Similarity=0.147 Sum_probs=44.8
Q ss_pred eeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 490 ~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
+-..++..+.++. +.+ +.+.. +....+.+.|.+|++|+++..-. .....+. ..++....++++++.+.+
T Consensus 14 ~~~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~~~ 83 (198)
T cd08441 14 WLMPVLDQFRERWPDVE--LDLSS--GFHFDPLPALLRGELDLVITSDP---LPLPGIA-YEPLFDYEVVLVVAPDHP 83 (198)
T ss_pred hhHHHHHHHHHhCCCeE--EEEEe--CCchhHHHHHHcCCceEEEecCC---cCCCCcE-EEEccCCcEEEEEcCCCC
Confidence 4467778888776 455 44443 34578999999999999985321 1122332 356777788888776543
No 289
>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=79.34 E-value=39 Score=32.54 Aligned_cols=69 Identities=10% Similarity=0.088 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
++-..++..+.++. +.+ +.+.. +....+.+.|.+|++|+++.... .....+. +.++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~~ 82 (200)
T cd08464 13 WLAPPLLAALRAEAPGVR--LVFRQ--VDPFNVGDMLDRGEIDLAIGVFG---ELPAWLK-REVLYTEGYACLFDPQQ 82 (200)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEec--CCcccHHHHHhcCcccEEEecCC---CCcccce-eeeecccceEEEEeCCC
Confidence 55667788888776 555 55543 34567889999999999985321 1122332 46777888887776654
No 290
>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=78.66 E-value=58 Score=31.07 Aligned_cols=73 Identities=18% Similarity=0.194 Sum_probs=47.8
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.+.. +.+ +.+.. ++.+.+.+.+.+|++|+++..-.. ......+. +.++....+++++++..+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~~-~~~l~~~~~~~v~~~~~p 85 (195)
T cd08427 12 TGLLPRALARLRRRHPDLE--VHIVP--GLSAELLARVDAGELDAAIVVEPP-FPLPKDLV-WTPLVREPLVLIAPAELA 85 (195)
T ss_pred HHHhHHHHHHHHHHCCCce--EEEEe--CCcHHHHHHHHCCCCCEEEEcCCC-CccccCce-EEEcccCcEEEEECCCCC
Confidence 356677888888777 555 55543 356889999999999999863211 11012232 466777888888876543
No 291
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=77.67 E-value=10 Score=38.54 Aligned_cols=75 Identities=19% Similarity=0.240 Sum_probs=44.5
Q ss_pred CcchhHHHHHHHHHHHHhccccccCccCcCCCccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCC
Q 002454 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (920)
Q Consensus 1 m~r~~~~~~~~~~~lll~~~~~~~~~~~~~~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~ 80 (920)
|+.+..+.+++.+++++++|+.+.+.. ..+|+||+.--.+ +.-++..++-+.++ .|.+|+++.+.+..
T Consensus 1 m~~~~~~~~~~~~~l~~~~~~~~~~~~----~~~I~vg~~~~p~---a~ile~~~k~~~~k-----~Gi~l~i~~FtDY~ 68 (268)
T COG1464 1 MKKLKKLALALVALLALAACGAAAAKA----TKTIKVGATPGPH---AEILEVVVKPALKK-----KGLDLKIVEFTDYV 68 (268)
T ss_pred CchHHHHHHHHHHHHHHHhhhhhcccc----CCcEEEeecCCch---HHHHHHHHHHHHHh-----cCceEEEEEecCCc
Confidence 454444444444344444444333221 1579999874332 23333355555554 48999999999999
Q ss_pred CHHHHHH
Q 002454 81 DPFQAAT 87 (920)
Q Consensus 81 d~~~a~~ 87 (920)
.|..|..
T Consensus 69 ~PN~AL~ 75 (268)
T COG1464 69 QPNEALA 75 (268)
T ss_pred chhHHHh
Confidence 9988874
No 292
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=77.30 E-value=51 Score=35.46 Aligned_cols=102 Identities=14% Similarity=0.176 Sum_probs=61.8
Q ss_pred CCCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHH----HHHhhcCC
Q 002454 672 NVTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEK----VFLDKYCK 747 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~----~~~~~~~~ 747 (920)
||.+++||+ |+++-+........+++.. + .+-.... ..+...+|++|-+|+.-....... |-.++++.
T Consensus 158 PI~~peDlk--GlkiRv~~s~~~~~~~~a~-G---A~P~pm~--f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky~t 229 (332)
T COG1638 158 PIKTPEDLK--GLKIRVPQSPLLLAMFKAL-G---ANPTPMP--FAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKYLT 229 (332)
T ss_pred CCCChHHhC--CCeeecCCCHHHHHHHHHc-C---CCCCCCC--HHHHHHHHHcCCcccccCCHHHHhhccHHHHhHHhh
Confidence 699999998 7888887777777776653 2 2222222 688999999999998766533322 22344432
Q ss_pred ceEEeeeeeecceeeEecCCC--cchHHHHHHHHhhhccc
Q 002454 748 KYTAINTYRFGGLGFAFQRGS--PIALDISRAILDLSEDG 785 (920)
Q Consensus 748 ~~~~~~~~~~~~~~~~~~k~s--p~~~~~n~~i~~l~e~G 785 (920)
. .+ -...++.+.+.+.. .|-+...++|++..+..
T Consensus 230 ~---tn-H~~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 230 L---TN-HIYLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred h---cc-ccccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 2 22 12234455665552 26666666666655443
No 293
>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=77.30 E-value=9.5 Score=40.73 Aligned_cols=90 Identities=20% Similarity=0.221 Sum_probs=64.0
Q ss_pred EEEEEE---eCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 36 KIGAIV---DANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 36 ~IG~i~---p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
+||++. ....+.-.....|+...++.+| |..++......+-.||..+.+.+..|+. +++++|+.-.. .....
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n---p~i~v~~~~~gs~~D~~~~~~~a~~li~-~GaDvI~~~ag-~~~~g 202 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN---PDIKVNVSYTGSFNDPAKAKEAAEALID-QGADVIFPVAG-GSGQG 202 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT---TT-EEEEEE-SSSS-HHHHHHHHHHHHH-TT-SEEEEE-C-CCHHH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC---cCceEEEEEcCCcCchHHHHHHHHHHhh-cCCeEEEECCC-CCchH
Confidence 466666 6665556788999999999999 5678888888888999999999999998 69999997322 34445
Q ss_pred HHHhhccCCcc--EEeecCC
Q 002454 113 VAEIASRVQVP--ILSFAAP 130 (920)
Q Consensus 113 va~~~~~~~iP--~is~~~~ 130 (920)
+...|++.+.. .|.....
T Consensus 203 v~~aa~e~g~~~~~IG~d~d 222 (306)
T PF02608_consen 203 VIQAAKEAGVYGYVIGVDSD 222 (306)
T ss_dssp HHHHHHHHTHETEEEEEES-
T ss_pred HHHHHHHcCCceEEEEeccc
Confidence 66677788877 7765544
No 294
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=77.17 E-value=37 Score=35.40 Aligned_cols=122 Identities=9% Similarity=0.074 Sum_probs=64.8
Q ss_pred CCCCChHHhhhCCccccccc--chHHHH--HHHHh--------cCC---------CCCceeecCCCHHHHHHHHhcCCee
Q 002454 671 PNVTDIQSLKSGNLKVGCVD--DSFVKK--YLEEV--------LGF---------RSGNIVPFGNTEANYIQKFENNTID 729 (920)
Q Consensus 671 ~~i~s~~dL~~s~~~vg~~~--~~~~~~--~l~~~--------~~~---------~~~~~~~~~~~~~~~~~~l~~~~~~ 729 (920)
.+|+|++||.+ |.+|++.+ +...+. .++.. .+. .+.+++.+.-...+....+.+|++|
T Consensus 120 ~~iksl~DL~~-Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve~~~~q~~~al~dg~vD 198 (272)
T PRK09861 120 KKIKTVAQIKE-GATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMELEGAQLPRVLDDPKVD 198 (272)
T ss_pred cCCCCHHHcCC-CCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEcCHHHhHhhccCcccC
Confidence 45999999964 78898865 222222 22221 111 1233433333357788889999999
Q ss_pred EEEeechhHHHHHhhcC-CceEEee-eeeecceeeEecCCCcchHHHHHHHHhhhccchHHHHHHHH
Q 002454 730 SLFLERPYEKVFLDKYC-KKYTAIN-TYRFGGLGFAFQRGSPIALDISRAILDLSEDGRLKTLEEEW 794 (920)
Q Consensus 730 a~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~G~~~~~~~~~ 794 (920)
+++....+..- ..... +.-...+ .-.+.-..++++.+..-.+.+.+.+..++....-+.+.++|
T Consensus 199 ~a~i~~~~~~~-ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 199 VAIISTTYIQQ-TGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred EEEEchhHHHH-cCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 99987666542 01011 0001111 10112234666655445666777777777665555555554
No 295
>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=77.07 E-value=47 Score=31.99 Aligned_cols=130 Identities=18% Similarity=0.276 Sum_probs=76.7
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHH
Q 002454 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (920)
Q Consensus 80 ~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia 159 (920)
.+-..+.+.+.+++.++++.+||.-.. ++.. +-+..++|+|....+ .....+++.
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG~--ta~~---lr~~~~iPVV~I~~s--------------------~~Dil~al~ 71 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRGG--TAEL---LRKHVSIPVVEIPIS--------------------GFDILRALA 71 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEHH--HHHH---HHCC-SS-EEEE-----------------------HHHHHHHHH
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECCH--HHHH---HHHhCCCCEEEECCC--------------------HhHHHHHHH
Confidence 345578888999855579999997533 2222 344558888865333 333445554
Q ss_pred HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEe
Q 002454 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQ 239 (920)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~ 239 (920)
..- . ..++++++...+... ....+.+.+ | .++..... . +..++...+.+++..+.++||- .
T Consensus 72 ~a~-~-~~~~Iavv~~~~~~~----~~~~~~~ll---~-~~i~~~~~-~-------~~~e~~~~i~~~~~~G~~viVG-g 132 (176)
T PF06506_consen 72 KAK-K-YGPKIAVVGYPNIIP----GLESIEELL---G-VDIKIYPY-D-------SEEEIEAAIKQAKAEGVDVIVG-G 132 (176)
T ss_dssp HCC-C-CTSEEEEEEESS-SC----CHHHHHHHH---T--EEEEEEE-S-------SHHHHHHHHHHHHHTT--EEEE-S
T ss_pred HHH-h-cCCcEEEEecccccH----HHHHHHHHh---C-CceEEEEE-C-------CHHHHHHHHHHHHHcCCcEEEC-C
Confidence 432 3 338899998876532 256666666 4 55543332 1 3478999999999999998877 3
Q ss_pred cCHhHHHHHHHHHHHcCCCC
Q 002454 240 ASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 240 ~~~~~~~~~l~~a~~~g~~~ 259 (920)
. ...+.|++.|+.+
T Consensus 133 ~------~~~~~A~~~gl~~ 146 (176)
T PF06506_consen 133 G------VVCRLARKLGLPG 146 (176)
T ss_dssp H------HHHHHHHHTTSEE
T ss_pred H------HHHHHHHHcCCcE
Confidence 2 2367788999854
No 296
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=77.03 E-value=16 Score=40.47 Aligned_cols=89 Identities=15% Similarity=0.115 Sum_probs=59.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.++.+|.+++.++++..-.. .+..+.+.+.|++.| +++.....+.+.. +.+++.+.+...++.++|+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~--~g~~~~v~~~L~~~~-i~~~~f~~v~~np----~~~~v~~~~~~~~~~~~D~ 91 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTK--LGMAGDVQKALEERN-IFSVIYDGTQPNP----TTENVAAGLKLLKENNCDS 91 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHHcCCCE
Confidence 34577888889999999998754332 457889999999998 7654333333322 3466788888888889999
Q ss_pred EEEEec-CHhHHHHHHH
Q 002454 235 FIVLQA-SLDMTIHLFT 250 (920)
Q Consensus 235 ii~~~~-~~~~~~~~l~ 250 (920)
||-+.+ +.-++...+.
T Consensus 92 IiaiGGGS~iD~AK~ia 108 (383)
T PRK09860 92 VISLGGGSPHDCAKGIA 108 (383)
T ss_pred EEEeCCchHHHHHHHHH
Confidence 985222 3344444443
No 297
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=77.02 E-value=36 Score=32.64 Aligned_cols=100 Identities=12% Similarity=0.016 Sum_probs=65.1
Q ss_pred hHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc--CCceEeEEeecCCCCCCCCChHHHHHHHHhhcc
Q 002454 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (920)
Q Consensus 152 ~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~--g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~ 229 (920)
.+....+.+.+...++ ++.++..+. +.++.+.+.+++. | +.|+....-+. +..+..+.++.+.+
T Consensus 34 ~dl~~~l~~~~~~~~~-~ifllG~~~------~~~~~~~~~l~~~yP~-l~ivg~~~g~f------~~~~~~~i~~~I~~ 99 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRGK-RIFLLGGSE------EVLEKAAANLRRRYPG-LRIVGYHHGYF------DEEEEEAIINRINA 99 (172)
T ss_pred HHHHHHHHHHHHHcCC-eEEEEeCCH------HHHHHHHHHHHHHCCC-eEEEEecCCCC------ChhhHHHHHHHHHH
Confidence 3355666666666554 677777654 3456666677665 5 66665443222 23566788889999
Q ss_pred CCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 230 KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 230 ~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
+++|+|++ ....+.-..++.+.++..-.+ +++..+.
T Consensus 100 ~~pdiv~v-glG~PkQE~~~~~~~~~l~~~---v~i~vG~ 135 (172)
T PF03808_consen 100 SGPDIVFV-GLGAPKQERWIARHRQRLPAG---VIIGVGG 135 (172)
T ss_pred cCCCEEEE-ECCCCHHHHHHHHHHHHCCCC---EEEEECc
Confidence 99999999 777777777777777644333 5666555
No 298
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=76.98 E-value=66 Score=34.45 Aligned_cols=68 Identities=6% Similarity=0.042 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-..++..+.+.+ +++ +... ..+++++.|.+|++|++++... ...+.+. +.|+....++++++...+
T Consensus 130 ~~l~~~l~~f~~~~P~i~--i~~~----~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~hp 198 (317)
T PRK11482 130 LVMPVIYQAIKTHYPQLL--LRNI----PISDAENQLSQFQTDLIIDTHS---CSNRTIQ-HHVLFTDNVVLVCRQGHP 198 (317)
T ss_pred HHHHHHHHHHHHHCCCCE--EEEe----cchhHHHHHHCCCcCEEEeccC---CCCCceE-EEEEecCcEEEEEeCCCC
Confidence 45667778887776 444 4332 3467899999999999986432 2223344 367888889988887654
No 299
>cd08423 PBP2_LTTR_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=76.85 E-value=69 Score=30.64 Aligned_cols=73 Identities=8% Similarity=0.051 Sum_probs=47.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeee--cCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTIL--GNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t--~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+-.+++..+.+.. +++ +.+.. ++...+.+.+.+|++|+++...... ....+.+ .+.++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~ 87 (200)
T cd08423 13 ALLPPALAALRARHPGLE--VRLRE--AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVLPADH 87 (200)
T ss_pred HhhhHHHHHHHHhCCCCe--EEEEe--CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEecCCC
Confidence 45667888888876 455 55544 3457889999999999988632110 1122333 356778888888887654
Q ss_pred C
Q 002454 566 E 566 (920)
Q Consensus 566 ~ 566 (920)
.
T Consensus 88 p 88 (200)
T cd08423 88 P 88 (200)
T ss_pred C
Confidence 3
No 300
>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=76.55 E-value=39 Score=32.83 Aligned_cols=70 Identities=17% Similarity=0.164 Sum_probs=46.9
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.++-.+++..+.++. +.+ ++... ++..++++.|.+|++|++++..... ...+.+ .++....++++++++.
T Consensus 12 ~~~l~~~l~~f~~~~P~i~--l~i~~--~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~~h 82 (200)
T cd08465 12 RLVLPALMRQLRAEAPGID--LAVSQ--ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADRAT 82 (200)
T ss_pred HHhhhHHHHHHHHHCCCcE--EEEec--CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeCCC
Confidence 356667888887765 455 45543 4678999999999999988632211 233433 4677778888887664
No 301
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=76.37 E-value=92 Score=33.17 Aligned_cols=71 Identities=11% Similarity=0.149 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-..++..+.++. +.+ +.+.. +.++++++.|.+|++|+++..... .....+.+ .|+....++++++...+
T Consensus 106 ~~l~~~i~~f~~~~P~i~--l~~~~--~~~~~~~~~L~~~~~D~~i~~~~~--~~~~~l~~-~~l~~~~~~~v~~~~hp 177 (309)
T PRK12683 106 YALPKVVRQFKEVFPKVH--LALRQ--GSPQEIAEMLLNGEADIGIATEAL--DREPDLVS-FPYYSWHHVVVVPKGHP 177 (309)
T ss_pred HHHHHHHHHHHHHCCCce--EEEEe--CCHHHHHHHHHcCCccEEEecCCC--CCCCCceE-EEcccCeEEEEecCCCC
Confidence 34556777777776 455 45544 467899999999999998752211 11223443 46777788888876544
No 302
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=75.36 E-value=41 Score=35.69 Aligned_cols=72 Identities=11% Similarity=0.132 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.++. +.+ +.+.. ++..++++.|.+|++|++++... .......+. ..++....+++++++..+
T Consensus 105 ~~l~~~l~~~~~~~p~i~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~v~~~~hp 177 (300)
T PRK11074 105 DRTRQLIVDFYRHFDDVE--LIIRQ--EVFNGVWDALADGRVDIAIGATR-AIPVGGRFA-FRDMGMLSWACVVSSDHP 177 (300)
T ss_pred hHHHHHHHHHHHhCCCce--EEEEe--hhhhHHHHHHHCCCCCEEEecCc-cCCcccccc-eeecccceEEEEEcCCCc
Confidence 34457777777776 344 44443 34578899999999999986321 111112232 356777788888876654
No 303
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=75.23 E-value=15 Score=39.99 Aligned_cols=93 Identities=13% Similarity=0.132 Sum_probs=67.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.+..+|++|+.+|.+..-.. .++.+.+.+.|++.| +++.....+.+.. +.+...+.+..+++.++|.
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~--~g~~~~v~~~L~~~~-i~~~if~~v~p~P----~~~~v~~~~~~~~~~~~D~ 89 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAK--LGLLDKVLDSLDAAG-IEYEVFDEVEPEP----TIETVEAGAEVAREFGPDT 89 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCcccc--chhHHHHHHHHHhcC-CeEEEecCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35677788889999999999987655 778999999999999 8876655555544 4567788888899999999
Q ss_pred EEEEec-CHhHHHHHHHHHHH
Q 002454 235 FIVLQA-SLDMTIHLFTEANR 254 (920)
Q Consensus 235 ii~~~~-~~~~~~~~l~~a~~ 254 (920)
||-+.+ +.-++...+.-...
T Consensus 90 iIalGGGS~~D~AK~i~~~~~ 110 (377)
T COG1454 90 IIALGGGSVIDAAKAIALLAE 110 (377)
T ss_pred EEEeCCccHHHHHHHHHHHhh
Confidence 988332 33344444433333
No 304
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=74.81 E-value=32 Score=36.83 Aligned_cols=70 Identities=4% Similarity=0.079 Sum_probs=48.5
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
++-.+++..+.++. +.+ +.+.. ++...+++.|.+|++|+++.... .....+.+ .++....++++++.+.+
T Consensus 125 ~~l~~~l~~f~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~~-~~l~~~~~~lv~~~~hp 195 (314)
T PRK09508 125 RLTSQIYNRIEQIAPNIH--VVFKS--SLNQNIEHQLRYQETEFVISYEE---FDRPEFTS-VPLFKDELVLVASKNHP 195 (314)
T ss_pred HHHHHHHHHHHHhCCCcE--EEEEe--CcchhHHHHHhcCCccEEEecCC---CCccccce-eeeecCceEEEEcCCCC
Confidence 56778888888887 566 55544 34578899999999999986432 12233433 46777888888877643
No 305
>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=74.68 E-value=21 Score=35.66 Aligned_cols=123 Identities=14% Similarity=0.188 Sum_probs=69.9
Q ss_pred hcCCeEEEEcCCchHHHHHHHHhh-ccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEE
Q 002454 94 NKEKVKVIAGMETWEETAVVAEIA-SRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA 172 (920)
Q Consensus 94 ~~~~v~aiiGp~~s~~~~~va~~~-~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~i 172 (920)
.+.++.+++-+.++.. ..+...- +..++|+++... +.++-+.. +.+++++
T Consensus 62 ~~~g~d~i~i~C~s~~-~~~~~~~~~~~~iPv~~~~~---------------------------a~~~~~~~-~~~ri~v 112 (216)
T PF01177_consen 62 EKAGVDAIVIACNSAH-PFVDELRKERVGIPVVGIVE---------------------------AALEAAKA-GGKRIGV 112 (216)
T ss_dssp HHTTESEEEESSHHHH-HHHHHHHHHHHSSEEEESHH---------------------------HHHHHHHH-TSSEEEE
T ss_pred HhCCCCEEEEcCCchh-hhHHHHhhhcCceEEEeccH---------------------------HHHHHHHh-cCCEEEE
Confidence 4478998887655442 2233333 556888775322 22444444 8899999
Q ss_pred EEEeCCCCCCcchHHHHHHHHhcc-CCc--eEeEEee--cC----CCCCCCCCh---HHHHHHHHhh-ccCCceEEEEEe
Q 002454 173 IYEDNVYGGDSGKLALLAEALQNV-SSS--EIQSRLV--LP----PISSISDPK---EAVRGELKKV-QDKQSRVFIVLQ 239 (920)
Q Consensus 173 i~~~~~~g~~~~~~~~l~~~l~~~-g~~--~i~~~~~--~~----~~~~~~~~~---~d~~~~l~~l-~~~~~~vii~~~ 239 (920)
+.... ......+.+.+++. | + ++...+. .. ... .+. ..+.+.+.++ +..++|+|++ .
T Consensus 113 l~t~~-----~~~~~~~~~~~~~~~g-i~~~~~~~i~~~~~~~~e~~~---~~~~~~~~~~~~~~~l~~~~~~d~iiL-g 182 (216)
T PF01177_consen 113 LTTYT-----TEKSPLYEEFIEEAAG-IDDEVVAGIHNAIYDVIELGD---IPPEQIEILAEAARELIKEDGADAIIL-G 182 (216)
T ss_dssp EESHH-----HHHHTHHHHHHHHCTT-EECEEEEEEEEEHTHHHHTTC---TTHHHHHHHHHHHHHHHHCTTSSEEEE-E
T ss_pred EecCc-----ccchHHHHHHHHHhcC-CcHHHHHHHHhhcHHHHhhhc---CCHHHHHHHHHHHHHHhccCCCCEEEE-C
Confidence 98633 23345667777776 7 6 4544221 11 111 122 2455555555 3679999999 6
Q ss_pred cCHhH-HHHHHHHHHHc
Q 002454 240 ASLDM-TIHLFTEANRM 255 (920)
Q Consensus 240 ~~~~~-~~~~l~~a~~~ 255 (920)
|..-. +...++.+.+.
T Consensus 183 Ct~l~~~~~~~~~l~~~ 199 (216)
T PF01177_consen 183 CTHLPLLLGAIEALEEE 199 (216)
T ss_dssp STTGGGGHHHHHHHHHT
T ss_pred CCchHHHHHHHHhhccc
Confidence 65544 33666666653
No 306
>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=73.89 E-value=62 Score=31.91 Aligned_cols=70 Identities=11% Similarity=0.054 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.++. +.+ +.+.. ++..++.+.|.+|++|++++.. +...+.+. ..|+....++++++....
T Consensus 13 ~~l~~~l~~f~~~~P~v~--l~i~~--~~~~~~~~~l~~g~~Di~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~~~p 83 (221)
T cd08469 13 VLLPALVRRLETEAPGID--LRIRP--VTRLDLAEQLDLGRIDLVIGIF---EQIPPRFR-RRTLFDEDEVWVMRKDHP 83 (221)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEee--CChhhHHHHHHCCCccEEEecC---CCCCccce-eeeeeccceEEEEeCCCc
Confidence 45667888887776 445 55543 3567899999999999998632 22223343 467888888888876643
No 307
>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=73.71 E-value=8.7 Score=39.64 Aligned_cols=92 Identities=11% Similarity=0.078 Sum_probs=47.5
Q ss_pred CcchhHHHHHHHHHHHHhccccccCccCcCCCccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCC
Q 002454 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (920)
Q Consensus 1 m~r~~~~~~~~~~~lll~~~~~~~~~~~~~~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~ 80 (920)
|+|..++++++++++++++|++.++.. ...+.+++||+....+...-......+.-+++ +. .|++++++...+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~vg~~~~~~~~~~~~~~~~l~~~l~---~~-~g~~v~~~~~~~-- 73 (254)
T TIGR01098 1 MKRLLALLAALLGASLAAACSKKAAEA-AAVPKELNFGILPGENASNLTRRWEPLADYLE---KK-LGIKVQLFVATD-- 73 (254)
T ss_pred ChhHHHHHHHHHHHHHHhhcCCchhhh-ccCCCceEEEECCCCCHHHHHHHHHHHHHHHH---HH-hCCcEEEEeCCC--
Confidence 888888777766666666665433221 13467899999865542111111112222222 22 367777765433
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcC
Q 002454 81 DPFQAATAAQELINKEKVKVIAGM 104 (920)
Q Consensus 81 d~~~a~~~a~~li~~~~v~aiiGp 104 (920)
..... +.+...++++++.+
T Consensus 74 -~~~~~----~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 74 -YSAVI----EAMRFGRVDIAWFG 92 (254)
T ss_pred -HHHHH----HHHHcCCccEEEEC
Confidence 21122 23334578877744
No 308
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=73.55 E-value=39 Score=40.36 Aligned_cols=104 Identities=10% Similarity=-0.026 Sum_probs=59.5
Q ss_pred CCChHHhhhCCccccc-ccchHHHHHHHHhc---CCCCCc----eeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhh
Q 002454 673 VTDIQSLKSGNLKVGC-VDDSFVKKYLEEVL---GFRSGN----IVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDK 744 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~-~~~~~~~~~l~~~~---~~~~~~----~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~ 744 (920)
..+++||.+.++++.. ..++.....+.+.. +..... ....++ .+.....+..|.+|+.+.-.+...
T Consensus 513 ~isl~dL~~~~~plI~~~~gs~~r~~le~~l~~~Gi~~~~i~~~~~e~~s-~~~i~~~V~~G~~d~Gi~i~~~~~----- 586 (633)
T PRK14498 513 IEGIEDLVRKDVRFVNRQRGSGTRILLDYHLKELAIDPERINGYDREEKT-HMAVAAAVAQGRADAGLGIRAAAK----- 586 (633)
T ss_pred CCCHHHhccCCcEEEecCCCchHHHHHHHHHHHcCCCHHHCCCcccccCC-HHHHHHHHHcCCCcchHhHHHHHH-----
Confidence 3589999865447766 45555555544432 222222 234566 889999999998777664333211
Q ss_pred cCCceEEeeeeeecceeeEecCCCcchHHHHHHHHhhhcc
Q 002454 745 YCKKYTAINTYRFGGLGFAFQRGSPIALDISRAILDLSED 784 (920)
Q Consensus 745 ~~~~~~~~~~~~~~~~~~~~~k~sp~~~~~n~~i~~l~e~ 784 (920)
...+ ... .+....++++.+++.........++..+.+.
T Consensus 587 ~~~l-~~i-~l~~~~~~l~~~~~~~~s~a~~aFl~~l~~~ 624 (633)
T PRK14498 587 ALGL-DFI-PLAEEEYDLLIPKERLEKPAVRAFLEALKSP 624 (633)
T ss_pred HcCC-CCe-eeeeEEEEEEEEhhHccCHHHHHHHHHHcCH
Confidence 1121 111 1112246788888876666666666666554
No 309
>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=73.16 E-value=1.5e+02 Score=32.60 Aligned_cols=90 Identities=14% Similarity=0.165 Sum_probs=59.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
.+.+.+.++.++-+++.++++..... .+..+.+.+.|++.| +++.....+.+.. +.+.+.+.+..+++.++|+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 86 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVK--LGLLDKVLEALEGAG-IEYAVYDGVPPDP----TIENVEAGLALYRENGCDA 86 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhh--cccHHHHHHHHHhcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 34567788888889999998765433 456788999999988 7654332333322 3456778888888889999
Q ss_pred EEEEe-cCHhHHHHHHHH
Q 002454 235 FIVLQ-ASLDMTIHLFTE 251 (920)
Q Consensus 235 ii~~~-~~~~~~~~~l~~ 251 (920)
||-+. ++.-++..++..
T Consensus 87 IIaiGGGS~~D~aK~ia~ 104 (374)
T cd08189 87 ILAVGGGSVIDCAKAIAA 104 (374)
T ss_pred EEEeCCccHHHHHHHHHH
Confidence 98522 244444444433
No 310
>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=72.61 E-value=52 Score=31.54 Aligned_cols=101 Identities=16% Similarity=0.029 Sum_probs=63.4
Q ss_pred chHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc--CCceEeEEeecCCCCCCCCChHHHHHHHHhhc
Q 002454 151 DSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQ 228 (920)
Q Consensus 151 ~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~--g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~ 228 (920)
..+....+.+.+...+ .++.++.... +.++.+.+.+++. | ++++....-+.. ..+-.+.++++.
T Consensus 31 g~dl~~~ll~~~~~~~-~~v~llG~~~------~~~~~~~~~l~~~yp~-l~i~g~~~g~~~------~~~~~~i~~~I~ 96 (171)
T cd06533 31 GSDLMPALLELAAQKG-LRVFLLGAKP------EVLEKAAERLRARYPG-LKIVGYHHGYFG------PEEEEEIIERIN 96 (171)
T ss_pred cHHHHHHHHHHHHHcC-CeEEEECCCH------HHHHHHHHHHHHHCCC-cEEEEecCCCCC------hhhHHHHHHHHH
Confidence 3445666666666655 5677776553 3455655556553 5 777664322221 133344788899
Q ss_pred cCCceEEEEEecCHhHHHHHHHHHHHcCCCCCCeEEEEecc
Q 002454 229 DKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 229 ~~~~~vii~~~~~~~~~~~~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
++++|+|++ ....+.-..++...++..-.+ ++++.+.
T Consensus 97 ~~~pdiv~v-glG~PkQE~~~~~~~~~l~~~---v~~~vG~ 133 (171)
T cd06533 97 ASGADILFV-GLGAPKQELWIARHKDRLPVP---VAIGVGG 133 (171)
T ss_pred HcCCCEEEE-ECCCCHHHHHHHHHHHHCCCC---EEEEece
Confidence 999999999 888888888888777765222 4555443
No 311
>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=72.59 E-value=90 Score=29.71 Aligned_cols=70 Identities=11% Similarity=0.169 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.+.. +.+ +.+.. +...++...+.+|++|+++.... .....+. ..++....++++++.+..
T Consensus 13 ~~l~~~l~~~~~~~p~i~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~~~ 83 (197)
T cd08414 13 GLLPRLLRRFRARYPDVE--LELRE--MTTAEQLEALRAGRLDVGFVRPP---PDPPGLA-SRPLLREPLVVALPADHP 83 (197)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEec--CChHHHHHHHHcCCccEEEEcCC---CCCCCee-EEEEeeccEEEEecCCCc
Confidence 45567777777776 344 55543 34678999999999999986322 2222333 367778888888876543
No 312
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=72.41 E-value=1.2e+02 Score=32.46 Aligned_cols=69 Identities=9% Similarity=0.108 Sum_probs=45.8
Q ss_pred eeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 490 ~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
+-.+++..+.++. +.. +++.. +.-.++...|.+|++|+++..- +...+.+.+ .++....++++++...+
T Consensus 103 ~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~L~~g~~Dl~i~~~---~~~~~~~~~-~~l~~~~~~lv~~~~hp 172 (317)
T PRK15421 103 WLTPALENFHKNWPQVE--MDFKS--GVTFDPQPALQQGELDLVMTSD---ILPRSGLHY-SPMFDYEVRLVLAPDHP 172 (317)
T ss_pred HHHHHHHHHHHHCCCce--EEEEe--CccHHHHHHHHCCCcCEEEecC---cccCCCceE-EEeccceEEEEEcCCCC
Confidence 4466777777775 455 55543 2346788999999999998632 222233443 77788888888877653
No 313
>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=72.41 E-value=25 Score=38.73 Aligned_cols=91 Identities=13% Similarity=0.080 Sum_probs=60.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.++++.++.+++.++++..... .+..+.+.+.|++.| +++.....+.+.. +.+.+.+.+...+..++|+
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~--~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 84 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAA--LGLVARVLALLEDAG-LAAALFDEVPPNP----TEAAVEAGLAAYRAGGCDG 84 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 34577788888989999998765433 446788999999988 7764332233322 3456778888888889999
Q ss_pred EEEE-ecCHhHHHHHHHHH
Q 002454 235 FIVL-QASLDMTIHLFTEA 252 (920)
Q Consensus 235 ii~~-~~~~~~~~~~l~~a 252 (920)
||-+ .++.-++..++...
T Consensus 85 IIaiGGGSviD~aK~ia~~ 103 (370)
T cd08192 85 VIAFGGGSALDLAKAVALM 103 (370)
T ss_pred EEEeCCchHHHHHHHHHHH
Confidence 9852 22444455444433
No 314
>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=72.06 E-value=94 Score=29.69 Aligned_cols=71 Identities=17% Similarity=0.149 Sum_probs=47.2
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
..+-.+++..+.++. +.+ +++.. ++...+.+++.+|++|+++...... ....+. +.++....++++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~v~--l~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~~~ 83 (199)
T cd08430 12 YSFLPPILERFRAQHPQVE--IKLHT--GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPNIA 83 (199)
T ss_pred eeeccHHHHHHHHHCCCce--EEEEe--CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeCCc
Confidence 356677888999888 566 55543 4578899999999999988632111 112233 35667777887777654
No 315
>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=70.34 E-value=1.1e+02 Score=29.82 Aligned_cols=71 Identities=13% Similarity=0.179 Sum_probs=44.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEec
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPA 563 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~ 563 (920)
..+-.+++..+.+.+ +.+ ++... +...++++.|.+|++|+++......+.-...+ ...|+....++++++.
T Consensus 12 ~~~l~~~l~~f~~~~P~v~--l~i~~--~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 12 KSIAYRLLEPAMDLHEPIR--LVCRE--GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHHhCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 355677788887776 444 45543 56789999999999999885322111100112 2457777777776654
No 316
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=69.78 E-value=94 Score=33.08 Aligned_cols=71 Identities=10% Similarity=0.193 Sum_probs=45.6
Q ss_pred eeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 490 ~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
+-.+++..+.+++ +.+ +.+.. +...++.+.|.+|++|++++- .-.......+. ..++....++++++...+
T Consensus 107 ~l~~~l~~~~~~~P~i~--l~l~~--~~~~~~~~~l~~g~~D~~i~~-~~~~~~~~~l~-~~~l~~~~~~~v~~~~hp 178 (308)
T PRK10094 107 AVAQLLAWLNERYPFTQ--FHISR--QIYMGVWDSLLYEGFSLAIGV-TGTEALANTFS-LDPLGSVQWRFVMAADHP 178 (308)
T ss_pred HHHHHHHHHHHhCCCcE--EEEEe--ehhhhHHHHHhCCCccEEEec-ccCccccCCee-EEEecceeEEEEECCCCC
Confidence 3457788888776 444 55543 345788999999999998862 11111123343 457888888888876543
No 317
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=69.40 E-value=9 Score=42.49 Aligned_cols=88 Identities=17% Similarity=0.268 Sum_probs=70.5
Q ss_pred hHHHHHHHHHHHHHHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccC-c-ccccccchhhHHHHHHHHHHHHHHHh
Q 002454 579 EMWMVTAASFIYTMFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSH-R-ANIQSNLTRVVVVLWLFVVFILTSSY 656 (920)
Q Consensus 579 ~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~-~~~~s~s~Ri~~~~w~~~~lil~~~Y 656 (920)
..|..-++.+++.++++|+.|+....+-.+.-...+..++|+..-++...| + ..|..+.+|++....-++++-+.+.=
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 468888888999999999999985444333334468999999999999888 4 46899999999999988888877777
Q ss_pred hccccceeee
Q 002454 657 TASLSSLLTV 666 (920)
Q Consensus 657 ta~L~s~Lt~ 666 (920)
.+.|-|-++.
T Consensus 315 AGILGSGfAL 324 (654)
T KOG1419|consen 315 AGILGSGFAL 324 (654)
T ss_pred cccccchhhh
Confidence 7777776654
No 318
>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=68.55 E-value=1.1e+02 Score=29.20 Aligned_cols=72 Identities=11% Similarity=0.098 Sum_probs=47.5
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.++. +.+ +++.. +....+++.|.+|++|+++... ........++ ..++....++++++....
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~-~~~l~~~~~~~~~~~~hp 85 (198)
T cd08437 13 YYFPKLAKDLIKTGLMIQ--IDTYE--GGSAELLEQLLQGDLDIALLGS-LTPLENSALH-SKIIKTQHFMIIVSKDHP 85 (198)
T ss_pred HHhHHHHHHHHHhCCceE--EEEEE--cCHHHHHHHHHcCCCCEEEecC-CCCCCcccce-EEEeecceEEEEecCCCc
Confidence 45567888888876 444 55544 3568899999999999998632 1111223343 467788888888876543
No 319
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=67.95 E-value=23 Score=39.37 Aligned_cols=76 Identities=9% Similarity=0.025 Sum_probs=53.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
.+.+.+.++.+|.+++.++++..-.. .+..+.+.+.|++.| +++.....+.+.. +.+.+.+.+...++.++|+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~P----~~~~v~~~~~~~r~~~~D~ 109 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQ--AGMTAGLTRSLAVKG-IAMTLWPCPVGEP----CITDVCAAVAQLRESGCDG 109 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCcCE
Confidence 35567788888988888887654433 567888999999999 7764332233222 2355778888888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 110 Iia 112 (395)
T PRK15454 110 VIA 112 (395)
T ss_pred EEE
Confidence 987
No 320
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=67.82 E-value=26 Score=35.86 Aligned_cols=91 Identities=13% Similarity=0.205 Sum_probs=54.6
Q ss_pred HHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEE
Q 002454 157 CIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (920)
Q Consensus 157 aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii 236 (920)
.+.+++++++.+++.+|++.+.| ....+.+.+.++..| +++.......... +..+..+...+++..+.|+||
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~---~~~g~~v~~~l~~~g-~~v~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~ii 80 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY---KAAGEKVEESLKSAG-IEVAVIEEFVGDA----DEDEVEKLVEALRPKDADLII 80 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH---HHHHHHHHHHHHTTT--EEEEEE-EE-------BHHHHHHHHTTS--TT--EEE
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH---HHHHHHHHHHHHHcC-CeEEEEecCCCCC----CHHHHHHHHHHhcccCCCEEE
Confidence 45678888888999999998875 455688999999999 8876332122211 335566677777777888877
Q ss_pred EEecCHhHHHHHHHH-HHHcCC
Q 002454 237 VLQASLDMTIHLFTE-ANRMGL 257 (920)
Q Consensus 237 ~~~~~~~~~~~~l~~-a~~~g~ 257 (920)
- .+.+ ....+.|. |.+.|.
T Consensus 81 ~-vGgG-~i~D~~K~~A~~~~~ 100 (250)
T PF13685_consen 81 G-VGGG-TIIDIAKYAAFELGI 100 (250)
T ss_dssp E-EESH-HHHHHHHHHHHHHT-
T ss_pred E-eCCc-HHHHHHHHHHHhcCC
Confidence 6 5544 34444443 445554
No 321
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=67.35 E-value=1.4e+02 Score=29.75 Aligned_cols=132 Identities=13% Similarity=0.172 Sum_probs=80.0
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhh-ccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHH
Q 002454 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIA-SRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCI 158 (920)
Q Consensus 80 ~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~-~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~ai 158 (920)
.++......+..-+++-|+..++=|.+ ++..+++-. +..+||+|+ ..++.
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~N--T~H~~~d~iq~~~~iPllh---------------------------IidaT 108 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPTN--TMHKVADDIQKAVGIPLLH---------------------------IIDAT 108 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeCC--cHHHHHHHHHHhcCCCeeh---------------------------HHHHH
Confidence 355555444444445668888887755 455555544 467888773 24667
Q ss_pred HHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC-CceEEEE
Q 002454 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIV 237 (920)
Q Consensus 159 a~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vii~ 237 (920)
++-+++.|.++++++.....-- ....++.|.+.| ++++. |. ++-+..+.++.-. =.+-.+.
T Consensus 109 a~~ik~~g~kkvgLLgT~~Tm~-----~~fY~~~l~~~g-ievvv----Pd--------d~~q~~v~~iIy~El~~G~~~ 170 (230)
T COG1794 109 AKAIKAAGAKKVGLLGTRFTME-----QGFYRKRLEEKG-IEVVV----PD--------DDEQAEVNRIIYEELCQGIVK 170 (230)
T ss_pred HHHHHhcCCceeEEeeccchHH-----hHHHHHHHHHCC-ceEec----CC--------HHHHHHHHHHHHHHHhcccch
Confidence 7778888999999998764321 345678888888 77642 32 2223333332211 1222344
Q ss_pred EecCHhHHHHHHHHHHHcCCCC
Q 002454 238 LQASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 238 ~~~~~~~~~~~l~~a~~~g~~~ 259 (920)
..+-+....+++.+.+.|..+
T Consensus 171 -~~sr~~~~~ii~~l~~~Gae~ 191 (230)
T COG1794 171 -DASRELYLAVIERLAERGAEG 191 (230)
T ss_pred -HHHHHHHHHHHHHHHHcCCCE
Confidence 566777778888888877654
No 322
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=67.33 E-value=16 Score=38.17 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=26.7
Q ss_pred ccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHH
Q 002454 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAA 86 (920)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~ 86 (920)
++|+||..-. + +.. -.+++.+.+-+. .|++++++..++...+..|.
T Consensus 31 ~~I~IG~~~~-~---~~~---~~~~~~~~l~~~-~G~~Vel~~f~~~~~~~~AL 76 (271)
T PRK11063 31 NHIKVGVIVG-A---EQQ---VAEVAQKVAKEK-YGLDVELVTFNDYVLPNEAL 76 (271)
T ss_pred CcEEEEeCCC-C---hHH---HHHHHHHHHHHh-cCCeEEEEEecCcHHHHHHH
Confidence 4699999842 1 111 133333333222 48999999998766655444
No 323
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=67.28 E-value=1.4e+02 Score=31.49 Aligned_cols=72 Identities=13% Similarity=0.189 Sum_probs=43.5
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
.++-.+++..+.+.. +++ +.... ++.+.+...|.+|++|+++............+ ...|+....++++++.+
T Consensus 105 ~~~l~~~l~~f~~~~P~i~--l~~~~--~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~~~~~~~~ 177 (296)
T PRK11062 105 KRLVSRVLLTAVPEDESIH--LRCFE--STHEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGVSFFCTNP 177 (296)
T ss_pred HhhHHHHHHHHHhcCCceE--EEEEe--CCHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCcceEecCC
Confidence 356677777877655 333 44432 45788999999999999875321111111222 23566677777666554
No 324
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=67.00 E-value=75 Score=34.47 Aligned_cols=75 Identities=20% Similarity=0.200 Sum_probs=61.5
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
.-+||++.-...+.-.....|+.+.++.+|.+ .++...+..+-.||..+.+++..|++ +||++|+....+.....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~---i~v~v~~~gsf~D~~k~k~~a~~li~-~GaDVI~~~ag~~~~gv 235 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD---IKVKVVYVGSFSDPAKGKEAANALID-QGADVIYPAAGGTGVGV 235 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC---ccEEEEEecCccChHHHHHHHHHHHh-cCCCEEEecCCCCcchH
Confidence 35688888877666778888999999999975 78888888899999999999999986 59999998766554443
No 325
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=66.99 E-value=26 Score=38.81 Aligned_cols=76 Identities=11% Similarity=0.214 Sum_probs=54.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.++.++.+++.++++..-.. .+..+.+.+.+++.| +++.....+.+.. +.+++.+.+..+++.++|+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 90 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVK--CGVVAKVTDVLDAAG-LAYEIYDGVKPNP----TIEVVKEGVEVFKASGADY 90 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhh--CcchHHHHHHHHHCC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 45577888888999999998765443 457888999999988 7654322232222 2456777888888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 91 IIa 93 (382)
T PRK10624 91 LIA 93 (382)
T ss_pred EEE
Confidence 885
No 326
>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=66.69 E-value=1.2e+02 Score=28.81 Aligned_cols=70 Identities=9% Similarity=0.013 Sum_probs=47.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
..+-.+++..+.++. +.+ +++.. +...++.+.+.+|++|+++... +.....+. +.++....++++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--i~i~~--~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~~h 82 (197)
T cd08448 12 YRGLPRILRAFRAEYPGIE--VALHE--MSSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCLPAGH 82 (197)
T ss_pred HHHHHHHHHHHHHHCCCCe--EEEEe--CCHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEeeCCC
Confidence 356678888888877 555 55544 4568899999999999987522 22223333 46777888888877654
No 327
>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=66.63 E-value=1.2e+02 Score=28.74 Aligned_cols=71 Identities=18% Similarity=0.134 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.++. +.. +++.. ++..++.+.+.+|++|+++..... .....+. ..++....++++++.+.+
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~~~~ 84 (194)
T cd08436 13 VDLPELLARFHRRHPGVD--IRLRQ--AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAPDHP 84 (194)
T ss_pred HHHHHHHHHHHHHCCCcE--EEEec--CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecCCCc
Confidence 55677778887776 455 55543 345788999999999999863322 1223333 366777788888776543
No 328
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=66.39 E-value=2e+02 Score=31.37 Aligned_cols=149 Identities=14% Similarity=0.104 Sum_probs=92.0
Q ss_pred EEEEEEEeCCCcccHH-HHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchH-HHHH
Q 002454 35 TKIGAIVDANSQMGKQ-AITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE-ETAV 112 (920)
Q Consensus 35 i~IG~i~p~s~~~g~~-~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~-~~~~ 112 (920)
.+|-.+.|.++..-+. ...-++...+.......+ ++.+.....-+++...+++..+-+.+.+|.+.+=-.++. ....
T Consensus 213 l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~~~-~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI 291 (388)
T COG0426 213 LKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQPKG-KVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPSEI 291 (388)
T ss_pred cCccEEEcCCCceeeCCHHHHHHHHHHHHccCCcc-eEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHHHH
Confidence 6799999998554443 333444444444444334 777777777788888888777777778888766544443 3444
Q ss_pred HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHH
Q 002454 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (920)
Q Consensus 113 va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (920)
+..+....++. |. + |..... ..|. ...++..+.....-++.+.+.....|+ .+....+++.
T Consensus 292 ~~~i~~a~~~v-vG--s----PT~~~~-------~~p~---i~~~l~~v~~~~~~~k~~~vfgS~GW~--g~av~~i~~~ 352 (388)
T COG0426 292 VEEILDAKGLV-VG--S----PTINGG-------AHPP---IQTALGYVLALAPKNKLAGVFGSYGWS--GEAVDLIEEK 352 (388)
T ss_pred HHHHhhcceEE-Ee--c----CcccCC-------CCch---HHHHHHHHHhccCcCceEEEEeccCCC--CcchHHHHHH
Confidence 44455444443 32 1 211111 1122 234444444444556778888887777 8889999999
Q ss_pred HhccCCceEeEE
Q 002454 193 LQNVSSSEIQSR 204 (920)
Q Consensus 193 l~~~g~~~i~~~ 204 (920)
++..| .++...
T Consensus 353 l~~~g-~~~~~~ 363 (388)
T COG0426 353 LKDLG-FEFGFD 363 (388)
T ss_pred HHhcC-cEEecc
Confidence 99999 887655
No 329
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=66.15 E-value=85 Score=36.32 Aligned_cols=129 Identities=18% Similarity=0.281 Sum_probs=80.3
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHH
Q 002454 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (920)
Q Consensus 81 d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~ 160 (920)
.-..+++.+.+.+..+++++||.-..+ +..+ -+...||+|....+. ....+++.
T Consensus 48 ~~~~~v~~~~~~~~~~~~dviIsrG~t--a~~i---~~~~~iPVv~i~~s~--------------------~Dil~al~- 101 (538)
T PRK15424 48 GFEKAVTYIRKRLATERCDAIIAAGSN--GAYL---KSRLSVPVILIKPSG--------------------FDVMQALA- 101 (538)
T ss_pred hHHHHHHHHHHHHhhCCCcEEEECchH--HHHH---HhhCCCCEEEecCCH--------------------hHHHHHHH-
Confidence 344677777554545689999976553 3333 335689999765442 12344543
Q ss_pred HHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEec
Q 002454 161 LARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (920)
Q Consensus 161 ~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~ 240 (920)
.++.++ .++++|...+.. ..+..+.+.+. .++...... ..+|....+.++++.+.++||. ..
T Consensus 102 ~a~~~~-~~iavv~~~~~~----~~~~~~~~~l~----~~i~~~~~~--------~~~e~~~~v~~lk~~G~~~vvG-~~ 163 (538)
T PRK15424 102 RARKLT-SSIGVVTYQETI----PALVAFQKTFN----LRIEQRSYV--------TEEDARGQINELKANGIEAVVG-AG 163 (538)
T ss_pred HHHhcC-CcEEEEecCccc----HHHHHHHHHhC----CceEEEEec--------CHHHHHHHHHHHHHCCCCEEEc-Cc
Confidence 335554 467777655442 23566666553 444433222 2378999999999999998876 42
Q ss_pred CHhHHHHHHHHHHHcCCCC
Q 002454 241 SLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 241 ~~~~~~~~l~~a~~~g~~~ 259 (920)
.....|.+.|+.+
T Consensus 164 ------~~~~~A~~~g~~g 176 (538)
T PRK15424 164 ------LITDLAEEAGMTG 176 (538)
T ss_pred ------hHHHHHHHhCCce
Confidence 3356799999987
No 330
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=65.95 E-value=26 Score=39.20 Aligned_cols=76 Identities=11% Similarity=0.115 Sum_probs=54.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
.+.+.++++.++.+++.++++...+. .+..+.+.+.|++.| +++.....+.+.. +.+.+.+.++..++.++|+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~ 83 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQ--LPPVKVVLDSLEAAG-INFEVYDDVRVEP----TDESFKDAIAFAKKGQFDA 83 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhh--cchHHHHHHHHHHcC-CcEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 35567788889999999999876543 556788999999888 7764332222222 3356777788888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 84 IIa 86 (414)
T cd08190 84 FVA 86 (414)
T ss_pred EEE
Confidence 887
No 331
>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=65.89 E-value=91 Score=36.05 Aligned_cols=130 Identities=15% Similarity=0.244 Sum_probs=81.2
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHH
Q 002454 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (920)
Q Consensus 80 ~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia 159 (920)
++-..+++.+.+.+..+++++||.-.. ++..+. +...+|+|....+. ....+++
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~--ta~~i~---~~~~iPVv~i~~s~--------------------~Dil~al- 90 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGS--NGAYLK---SRLSLPVIVIKPTG--------------------FDVMQAL- 90 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECch--HHHHHH---HhCCCCEEEecCCh--------------------hhHHHHH-
Confidence 455678887866555568999997655 333333 35579998765442 1234444
Q ss_pred HHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEe
Q 002454 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQ 239 (920)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~ 239 (920)
..++.++ .++++|...+. -..+..+.+.+. .++.... +. ...+....+.++++.+.++||. .
T Consensus 91 ~~a~~~~-~~ia~vg~~~~----~~~~~~~~~ll~----~~i~~~~-~~-------~~~e~~~~~~~l~~~G~~~viG-~ 152 (526)
T TIGR02329 91 ARARRIA-SSIGVVTHQDT----PPALRRFQAAFN----LDIVQRS-YV-------TEEDARSCVNDLRARGIGAVVG-A 152 (526)
T ss_pred HHHHhcC-CcEEEEecCcc----cHHHHHHHHHhC----CceEEEE-ec-------CHHHHHHHHHHHHHCCCCEEEC-C
Confidence 2335555 46777766544 223566666653 4444332 22 2378999999999999998876 3
Q ss_pred cCHhHHHHHHHHHHHcCCCC
Q 002454 240 ASLDMTIHLFTEANRMGLVG 259 (920)
Q Consensus 240 ~~~~~~~~~l~~a~~~g~~~ 259 (920)
. .....|++.|+.+
T Consensus 153 ~------~~~~~A~~~gl~~ 166 (526)
T TIGR02329 153 G------LITDLAEQAGLHG 166 (526)
T ss_pred h------HHHHHHHHcCCce
Confidence 2 3357799999976
No 332
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=65.88 E-value=90 Score=35.65 Aligned_cols=143 Identities=15% Similarity=0.134 Sum_probs=81.8
Q ss_pred EEcCCchHHHHHHHHhhc-cCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 002454 101 IAGMETWEETAVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (920)
Q Consensus 101 iiGp~~s~~~~~va~~~~-~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~ 179 (920)
|++|.+.....++..+.+ ...+=+|.++.. | ++| .+.....+...+++....-+++.|+|... |
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~HG-----------~-i~r--~~~~~~l~~Y~~~~~~~~~~kv~IvY~S~-~ 262 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSHG-----------V-VWR--DNPTQIVELYLKWAADYQEDRITIFYDTM-S 262 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCCC-----------c-eEe--CCHHHHHHHHHHHhhccCcCcEEEEEECC-c
Confidence 778887765556666554 234455554432 2 234 23333344445555554557899988765 3
Q ss_pred CCCcchHHHHHHHHhcc--CCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH------hHHHHHHHH
Q 002454 180 GGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL------DMTIHLFTE 251 (920)
Q Consensus 180 g~~~~~~~~l~~~l~~~--g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~------~~~~~~l~~ 251 (920)
|..+.+++.+.+.+++. | +++... .+.. .+....+..+. +++.|++ .++. +....++..
T Consensus 263 GnTe~mA~~ia~gl~~~g~g-v~v~~~-~v~~--------~~~~~i~~~~~--~ad~vil-GspT~~~~~~p~~~~fl~~ 329 (479)
T PRK05452 263 NNTRMMADAIAQGIAEVDPR-VAVKIF-NVAR--------SDKNEILTNVF--RSKGVLV-GSSTMNNVMMPKIAGLLEE 329 (479)
T ss_pred cHHHHHHHHHHHHHHhhCCC-ceEEEE-ECCC--------CCHHHHHhHHh--hCCEEEE-ECCccCCcchHHHHHHHHH
Confidence 43377888899999876 4 443321 1221 23333444443 5677777 5432 346667777
Q ss_pred HHHcCCCCCCeEEEEecccc
Q 002454 252 ANRMGLVGKDSVWIVTNTVA 271 (920)
Q Consensus 252 a~~~g~~~~~~~~i~t~~~~ 271 (920)
.....+.++....+++..|.
T Consensus 330 l~~~~l~gK~~~vFGSygw~ 349 (479)
T PRK05452 330 ITGLRFRNKRASAFGSHGWS 349 (479)
T ss_pred hhccCcCCCEEEEEECCCcC
Confidence 77777777766666666663
No 333
>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=65.48 E-value=1.3e+02 Score=28.67 Aligned_cols=71 Identities=10% Similarity=0.009 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+...++..+.++. +.+ +.+.. +...++++.|.+|++|++++..... .+...+. ..++....++++++.+.
T Consensus 13 ~~l~~~l~~~~~~~P~i~--i~~~~--~~~~~~~~~l~~~~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~~~ 84 (197)
T cd08449 13 GGLGPALRRFKRQYPNVT--VRFHE--LSPEAQKAALLSKRIDLGFVRFADT-LNDPPLA-SELLWREPMVVALPEEH 84 (197)
T ss_pred hhHHHHHHHHHHHCCCeE--EEEEE--CCHHHHHHHHhCCCccEEEeccccc-CCCCCce-EEEEEEeeEEEEecCCC
Confidence 45677888888776 455 55543 3568889999999999998632211 0122232 35677778888877654
No 334
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=64.85 E-value=13 Score=45.87 Aligned_cols=54 Identities=7% Similarity=0.265 Sum_probs=47.0
Q ss_pred hhhhHHHHHHHHHhccC-cc-cccccchhhHHHHHHHHHHHHHHHhhccccceeee
Q 002454 613 QISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLTV 666 (920)
Q Consensus 613 ~~~~~~~~~~~~l~~~~-~~-~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt~ 666 (920)
+...++|+++.++...| ++ .|.+...|++.++|.++++++.++..+++++++..
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45668999999999888 54 57999999999999999999999999999997643
No 335
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=63.98 E-value=2e+02 Score=30.58 Aligned_cols=70 Identities=11% Similarity=0.061 Sum_probs=44.2
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +.+ +++... +-..+.+.|.+|++|+++..... ....+. ..++.....+++++...+
T Consensus 107 ~~l~~~l~~~~~~~P~v~--i~i~~~--~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~~p 177 (309)
T PRK11013 107 SLLPGLCQPFLARYPDVS--LNIVPQ--ESPLLEEWLSAQRHDLGLTETLH---TPAGTE-RTELLTLDEVCVLPAGHP 177 (309)
T ss_pred hhHHHHHHHHHHHCCCCe--EEEEeC--CHHHHHHHHHcCCCCEEEEcCCC---CCCCce-eeeecceeEEEEEcCCCc
Confidence 45677888888876 555 555542 34678899999999998863211 112222 345666667777776543
No 336
>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=63.96 E-value=33 Score=37.78 Aligned_cols=89 Identities=11% Similarity=0.140 Sum_probs=59.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.++++.++.+++.++++...+. ....+.+.+.+++.| .++.....+.... +.+++.+.+..++..++|+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~ 83 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVK--TGVLDKVIDSLKEAG-IEVVIFDGVEPNP----TLSNVDAAVAAYREEGCDG 83 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35677778888889999998766542 467788999999888 7654322233222 3467888888888889999
Q ss_pred EEEEec-CHhHHHHHHH
Q 002454 235 FIVLQA-SLDMTIHLFT 250 (920)
Q Consensus 235 ii~~~~-~~~~~~~~l~ 250 (920)
||-+.+ +.-++..++.
T Consensus 84 IiaiGGGs~~D~AK~va 100 (370)
T cd08551 84 VIAVGGGSVLDTAKAIA 100 (370)
T ss_pred EEEeCCchHHHHHHHHH
Confidence 886222 3344444443
No 337
>TIGR00212 hemC porphobilinogen deaminase. Biosynthesis of cofactors, prosthetic groups, and carriers: Heme and porphyrin
Probab=63.92 E-value=1.1e+02 Score=32.12 Aligned_cols=58 Identities=19% Similarity=0.310 Sum_probs=39.6
Q ss_pred CChHHhhhCCcccccccchHHHH--HHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechh
Q 002454 674 TDIQSLKSGNLKVGCVDDSFVKK--YLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPY 737 (920)
Q Consensus 674 ~s~~dL~~s~~~vg~~~~~~~~~--~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~ 737 (920)
.+++||-. |.+||+. .... .+... .+.-+++.+..+.++-++++.+|++|+.+.-..-
T Consensus 109 ~~l~~Lp~-ga~VGTs---S~RR~aql~~~--rPdl~i~~iRGNV~TRL~KL~~g~~DaiiLA~AG 168 (292)
T TIGR00212 109 LSLDSLPQ-GAKVGTS---SLRRKAQLKAI--RPDLKIEPLRGNIDTRLRKLDEGEYDAIILAEAG 168 (292)
T ss_pred CChhHCCC-CCEeccC---CHHHHHHHHHH--CCCCEEEECcCCHHHHHHHhcCCCCCEeehHhhH
Confidence 57788854 6677762 2222 22222 5566778777779999999999999999975433
No 338
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=63.48 E-value=31 Score=38.02 Aligned_cols=75 Identities=13% Similarity=0.175 Sum_probs=53.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.++++.++.+++.++++..-.. .+..+.+.+.+++.| +++.....+.+.. +.+++.+.+..+++.++|+|
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 87 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILK--AGLIDPLLASLEAAG-IEVTVFDDVEADP----PEAVVEAAVEAARAAGADGV 87 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 4567778888889999998765333 446788999999988 7664322232322 34567888888888899988
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 88 Ia 89 (376)
T cd08193 88 IG 89 (376)
T ss_pred EE
Confidence 87
No 339
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=63.37 E-value=41 Score=35.30 Aligned_cols=92 Identities=13% Similarity=0.164 Sum_probs=69.3
Q ss_pred CCCceeEEeccCchHHHHH----HHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCC
Q 002454 139 RRWPYLIRMASNDSEQMKC----IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSIS 214 (920)
Q Consensus 139 ~~~~~~~r~~p~~~~~~~a----ia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~ 214 (920)
..-++.|-+.|+....+.. +++.++..|.+++.++.+.+--- -...+..++.|+++| +.+.....+.+..
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~--~~~~~~a~~~L~~~~-I~~~vyD~v~~eP--- 111 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAK--LGLVKVAQDSLEENG-INVEVYDKVQPEP--- 111 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhh--cccHHHHHHHHHHcC-CceEEecCccCCC---
Confidence 4557888888988877665 44556889999999999887643 566788899999999 8876544443332
Q ss_pred CChHHHHHHHHhhccCCceEEEE
Q 002454 215 DPKEAVRGELKKVQDKQSRVFIV 237 (920)
Q Consensus 215 ~~~~d~~~~l~~l~~~~~~vii~ 237 (920)
...++...++=.++.+.|.+|-
T Consensus 112 -tv~s~~~alefak~~~fDs~va 133 (465)
T KOG3857|consen 112 -TVGSVTAALEFAKKKNFDSFVA 133 (465)
T ss_pred -chhhHHHHHHHHHhcccceEEE
Confidence 3467888888888889998876
No 340
>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=63.35 E-value=33 Score=37.79 Aligned_cols=76 Identities=13% Similarity=0.102 Sum_probs=54.4
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.++++.++.+++.+|++...+. .+..+.+.+.|++.| +++.....+.+.. +.+++.+.+..++..++|+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 83 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVK--LGLVDKLTDSLKKEG-IESAIFDDVVSEP----TDESVEEGVKLAKEGGCDV 83 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--cchHHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 34566777777889999999765543 457788999999988 7764333333332 3456788888888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 84 IIa 86 (375)
T cd08194 84 IIA 86 (375)
T ss_pred EEE
Confidence 886
No 341
>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=63.28 E-value=16 Score=37.67 Aligned_cols=79 Identities=11% Similarity=0.116 Sum_probs=56.9
Q ss_pred EEEEEEeC--CCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|++|..+. .|. ..+...+++++++.| .++... .+... +.....+.++++.+.++|.||+...++..+..
T Consensus 1 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~--~~~~~----d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFW--QQVIKGAKAAAKELG-YEVEIV--FDAQN----DPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHH--HHHHHHHHHHHHHHT-CEEEEE--EESTT----THHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEe--CCCCC----CHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 34555432 354 667788889999999 776554 22221 23556778888888899999985677778889
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
+++++.+.|+
T Consensus 72 ~l~~~~~~gI 81 (257)
T PF13407_consen 72 FLEKAKAAGI 81 (257)
T ss_dssp HHHHHHHTTS
T ss_pred HHHHHhhcCc
Confidence 9999999988
No 342
>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=63.12 E-value=31 Score=38.04 Aligned_cols=76 Identities=9% Similarity=0.174 Sum_probs=53.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.++.++.+++.++++..-.- .+..+.+.+.|++.| +++.....+.+.. +.+.+.+.+..+++.++|+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~--~g~~~~v~~~L~~~~-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 89 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIK--FGVADKVTDLLDEAG-IAYELFDEVKPNP----TITVVKAGVAAFKASGADY 89 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhh--ccchHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 34567788888989999998765432 447788999999988 7654322222222 3456777888888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 90 Iia 92 (379)
T TIGR02638 90 LIA 92 (379)
T ss_pred EEE
Confidence 986
No 343
>PRK10537 voltage-gated potassium channel; Provisional
Probab=63.05 E-value=19 Score=39.67 Aligned_cols=54 Identities=9% Similarity=0.132 Sum_probs=42.3
Q ss_pred chhhhhHHHHHHHHHhccC--cccccccchhhHHHHHHHHHHHHHHHhhcccccee
Q 002454 611 KDQISNILWFAFSTIFFSH--RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLL 664 (920)
Q Consensus 611 ~~~~~~~~~~~~~~l~~~~--~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~L 664 (920)
..++..++|+++.++...| ...|.+..+|++.+++.++++.+..+..+.++..+
T Consensus 166 ~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 166 IESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred CCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3468999999999888777 34578889999999999999877766666555533
No 344
>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=62.47 E-value=1.5e+02 Score=28.48 Aligned_cols=72 Identities=10% Similarity=0.041 Sum_probs=47.1
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
..+-.+++..+.+.. +.+ +.+.. ++...+.+.+.+|++|+++.... ......+. +.++....++++++.+.+
T Consensus 12 ~~~l~~~l~~f~~~~P~~~--i~i~~--~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~l~~~~~~~v~~~~hp 84 (198)
T cd08443 12 RYVLPPVIKGFIERYPRVS--LQMHQ--GSPTQIAEMVSKGLVDFAIATEA--LHDYDDLI-TLPCYHWNRCVVVKRDHP 84 (198)
T ss_pred eeECcHHHHHHHHHCCCeE--EEEEe--CCHHHHHHHHHCCCccEEEEecc--ccccCCce-EeeeeeceEEEEEcCCCc
Confidence 356678888888876 444 44443 45678999999999999985211 11122333 467777888888776543
No 345
>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=62.39 E-value=46 Score=36.75 Aligned_cols=88 Identities=13% Similarity=0.048 Sum_probs=57.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCC-CCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVY-GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~-g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
..+.++++.++ +++.+|++.... . .+..+.+.+.|++.| +++.....+.+.. +.+++.+.+..+++.++|+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~--~g~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 86 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKK--TGYLDRVIELLKQAG-VEVVVFDKVEPNP----TTTTVMEGAALAREEGCDF 86 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhh--ccHHHHHHHHHHHcC-CeEEEeCCccCCC----CHHHHHHHHHHHHHcCCCE
Confidence 45667777777 899999976542 3 567889999999988 7764332333322 3456777778888889999
Q ss_pred EEE-EecCHhHHHHHHHH
Q 002454 235 FIV-LQASLDMTIHLFTE 251 (920)
Q Consensus 235 ii~-~~~~~~~~~~~l~~ 251 (920)
||- ..++.-++...+..
T Consensus 87 IiavGGGS~iD~aK~ia~ 104 (380)
T cd08185 87 VVGLGGGSSMDTAKAIAF 104 (380)
T ss_pred EEEeCCccHHHHHHHHHH
Confidence 985 22244444444433
No 346
>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=62.11 E-value=1.4e+02 Score=30.74 Aligned_cols=124 Identities=15% Similarity=0.083 Sum_probs=67.3
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHH
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~v 113 (920)
.=+||++.+...........|++.++++.|.................+...+.+.+.+++.. ++.||+...+ ..+..+
T Consensus 121 ~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~pdaI~~~nd-~~A~gv 198 (265)
T cd06354 121 TGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQ-GADVIFAAAG-GTGNGV 198 (265)
T ss_pred CCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHC-CCcEEEECCC-CCchHH
Confidence 35688776433222223336888888877622112222222222223355667778888864 5788887644 344445
Q ss_pred HHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHH
Q 002454 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (920)
Q Consensus 114 a~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~ 163 (920)
...+.+.++.++++... + ......|.+..+...-..++.-++.-+.
T Consensus 199 ~~al~~~gisIvGfD~~---~-~~~~~~p~lttv~~~~~~~~~~~~~~~~ 244 (265)
T cd06354 199 FQAAKEAGVYAIGVDSD---Q-YYLAPGVVLTSMVKRVDVAVYDAIKSAA 244 (265)
T ss_pred HHHHHhcCCeEEEecCc---c-cccCCCcEEEEEeehhHHHHHHHHHHHH
Confidence 55566777777777554 2 2333456666665554444444444433
No 347
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=61.10 E-value=1.1e+02 Score=31.58 Aligned_cols=74 Identities=9% Similarity=0.073 Sum_probs=43.3
Q ss_pred eeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCc-ccEEEeceeeecCce---eeee-ec-cccccccEEEEEe
Q 002454 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKT-YDAAVGDLTILGNRT---EYVE-FT-QPYAESGFSMIVP 562 (920)
Q Consensus 489 G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~-~D~~~~~~~~t~~r~---~~~~-fs-~p~~~~~~~~iv~ 562 (920)
...-++.+.+.++.|.++.+.+- |+ ..+..++.+|. +|+.+.+-.-..++. ..+. .+ .+|....++++++
T Consensus 39 ~~~~~l~~~Fe~~~g~~v~~~~~---~S-g~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl~~~ 114 (257)
T PRK10677 39 NALQDIAAQYKKEKGVDVVSSFA---SS-STLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVVVAP 114 (257)
T ss_pred HHHHHHHHHHHhhhCCeEEEEec---cc-HHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEEEEE
Confidence 34456677777777888444433 23 36777777766 999876432212221 1221 11 3577788898888
Q ss_pred cCCC
Q 002454 563 AKQE 566 (920)
Q Consensus 563 ~~~~ 566 (920)
++..
T Consensus 115 ~~~~ 118 (257)
T PRK10677 115 KASE 118 (257)
T ss_pred CCCc
Confidence 7643
No 348
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=60.81 E-value=1.3e+02 Score=31.70 Aligned_cols=135 Identities=16% Similarity=0.148 Sum_probs=69.7
Q ss_pred CcchhHHHHHHHHHHHHhccccccCccCcCCCccEEEEEEEeCCCcc--cHHHHHHHHHHHHHHhcCCCCceEEEEEecC
Q 002454 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQM--GKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (920)
Q Consensus 1 m~r~~~~~~~~~~~lll~~~~~~~~~~~~~~~~~i~IG~i~p~s~~~--g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~ 78 (920)
|+| .+..++++.+++++|.++.+.. .+++|+.-=.+.+.. |.....+++ .-+ +.+++++...+
T Consensus 1 m~~--~l~~~~~~all~~~~~~a~~~t-----~~LtVytydSF~~ewg~Gp~vk~~FE----~~~----~~~v~fV~~~d 65 (336)
T COG4143 1 MRR--LLRALIGLALLVSAALGAQAAT-----PTLTVYTYDSFASEWGPGPKVKKAFE----AEY----GCKVNFVALGD 65 (336)
T ss_pred Chh--hHHHHHHHHHHHHHhhHHhhcC-----ceEEEEEEeeeecccCCcHHHHHHHH----HHh----CceEEEEEcCc
Confidence 666 2333333334444444333322 468888877655333 445555554 333 56888888754
Q ss_pred CCCHHHHHHHHHHHhh---cCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHH
Q 002454 79 NRDPFQAATAAQELIN---KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQM 155 (920)
Q Consensus 79 ~~d~~~a~~~a~~li~---~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~ 155 (920)
+.+...+|+. +.+.++++|-.+...+.+. ...++.+.... .........|-..+.
T Consensus 66 ------~v~llnRl~leg~~~~ADvvvGldn~~l~~A~-------~~glf~~~~~d--~~~~~vp~~~~~d~f------- 123 (336)
T COG4143 66 ------GVELLNRLILEGKNPKADVVVGLDNNLLARAR-------ETGLFAPYGVD--ASDVPVPEGWKIDTF------- 123 (336)
T ss_pred ------HHHHHHHHHHcCCCCCCcEEEecChHHHHHHH-------hcCCcccCCCC--cccCCCCcccccCcc-------
Confidence 3334444442 3468899998776544432 23344444331 111111111111100
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCC
Q 002454 156 KCIADLARKYNWRRVAAIYEDNV 178 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~ 178 (920)
+.-+++-.|+++|+.+-
T Consensus 124 ------~~P~DyGy~a~vYd~~~ 140 (336)
T COG4143 124 ------ALPYDYGYFAFVYDKTK 140 (336)
T ss_pred ------ccccccceEEEEEchHH
Confidence 44578889999998765
No 349
>PRK01066 porphobilinogen deaminase; Provisional
Probab=60.72 E-value=1.5e+02 Score=29.76 Aligned_cols=57 Identities=21% Similarity=0.341 Sum_probs=38.0
Q ss_pred CChHHhhhCCcccccccchHHHH--HHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeech
Q 002454 674 TDIQSLKSGNLKVGCVDDSFVKK--YLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERP 736 (920)
Q Consensus 674 ~s~~dL~~s~~~vg~~~~~~~~~--~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~ 736 (920)
.++++|. .|.+||+ |.... .+... .+.-+++.+..+.++-+.++.+|+.||.+.-..
T Consensus 124 ~~l~~Lp-~ga~IGT---SS~RR~aql~~~--rPdl~v~~iRGNV~TRL~KL~~ge~DaiiLA~A 182 (231)
T PRK01066 124 YLSQPLP-RRPRIGS---SSLRREELLKLL--FPSGIILDIRGTIEERLKLLEEKKYDAIVVAKA 182 (231)
T ss_pred CchhhCC-CCCEEeC---ChHHHHHHHHHH--CCCCEEEeCcCCHHHHHHHhcCCCCCchhhHHH
Confidence 3566664 3667776 22222 22222 556677887777999999999999999887533
No 350
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=60.66 E-value=2e+02 Score=29.48 Aligned_cols=69 Identities=16% Similarity=0.129 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
.+..+++..+.+.. +.+ +.+.. +.-.++...|.+|++|+++..... .....+. ..++....++++++..
T Consensus 80 ~~~~~~l~~~~~~~p~i~--l~i~~--~~~~~~~~~l~~~~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~~ 149 (269)
T PRK11716 80 SHLPPILDRFRAEHPLVE--IKLTT--GDAADAVEKVQSGEADLAIAAKPE--TLPASVA-FSPIDEIPLVLIAPAL 149 (269)
T ss_pred HHHHHHHHHHHHHCCCeE--EEEEE--CCHHHHHHHHHCCCccEEEEecCC--CCCcceE-EEEcccceEEEEEcCC
Confidence 45667788888876 455 45543 345789999999999999853211 1112233 3567777888877665
No 351
>cd00494 HMBS Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of porphobilinogen (PBG) into hydroxymethylbilane (HMB). HMBS consists of three domains, and is believed to bind substrate through a hinge-bending motion of domains I and II. HMBS is found in all organisms except viruses.
Probab=59.43 E-value=1.3e+02 Score=31.47 Aligned_cols=59 Identities=15% Similarity=0.246 Sum_probs=39.8
Q ss_pred CChHHhhhCCcccccccchHHH-HHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechh
Q 002454 674 TDIQSLKSGNLKVGCVDDSFVK-KYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPY 737 (920)
Q Consensus 674 ~s~~dL~~s~~~vg~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~ 737 (920)
.+++||.. |.+||+. |.-. ..+++. .+.-+++.+..|.++-++++.+|+.|+.+.-..-
T Consensus 109 ~~l~~Lp~-ga~IGTs--S~RR~aql~~~--rpdl~~~~iRGNV~TRL~KL~~ge~DaiiLA~AG 168 (292)
T cd00494 109 SSLEDLPA-GSVVGTS--SLRRQAQLKRK--RPDLKFEPLRGNVDTRLRKLDEGEYDAIILAAAG 168 (292)
T ss_pred CChhHCCC-CCEEecC--CHHHHHHHHHH--CCCCEEEEcCCCHHHHHHHhcCCCCCEeehHhhH
Confidence 46788854 6677762 1111 223333 5566788888779999999999999999975433
No 352
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=58.41 E-value=1.8e+02 Score=31.75 Aligned_cols=144 Identities=12% Similarity=0.092 Sum_probs=88.8
Q ss_pred EEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 002454 100 VIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (920)
Q Consensus 100 aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~ 179 (920)
-++||.......++-. ....+|=+|.++.. + ++|- +......+..+|.+...-++|.++|.+. |
T Consensus 194 ~lm~p~~~~v~~~l~~-~~~l~i~~IaP~HG---~---------i~~~--~~~~i~~~Y~~W~~~~~~~~V~l~Y~sm-y 257 (388)
T COG0426 194 NLMAPNARLVLWALKK-IKLLKIEMIAPSHG---P---------IWRG--NPKEIVEAYRDWAEGQPKGKVDLIYDSM-Y 257 (388)
T ss_pred HhhcccHHHHHHHHhh-hcccCccEEEcCCC---c---------eeeC--CHHHHHHHHHHHHccCCcceEEEEEecc-c
Confidence 4667766544444333 33367777877655 2 2332 2344567777888776555899999864 4
Q ss_pred CCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH------hHHHHHHHHHH
Q 002454 180 GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL------DMTIHLFTEAN 253 (920)
Q Consensus 180 g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~------~~~~~~l~~a~ 253 (920)
|.-+.+++++.+.+.+.| +.+.... +.. .+...++..+. +++.+++ .++. .....++....
T Consensus 258 g~T~~ma~aiaegl~~~g-v~v~~~~-~~~--------~~~~eI~~~i~--~a~~~vv-GsPT~~~~~~p~i~~~l~~v~ 324 (388)
T COG0426 258 GNTEKMAQAIAEGLMKEG-VDVEVIN-LED--------ADPSEIVEEIL--DAKGLVV-GSPTINGGAHPPIQTALGYVL 324 (388)
T ss_pred CCHHHHHHHHHHHhhhcC-CceEEEE-ccc--------CCHHHHHHHHh--hcceEEE-ecCcccCCCCchHHHHHHHHH
Confidence 534778889999999999 7765432 111 24555666665 5666777 4443 34555666666
Q ss_pred HcCCCCCCeEEEEeccccc
Q 002454 254 RMGLVGKDSVWIVTNTVAN 272 (920)
Q Consensus 254 ~~g~~~~~~~~i~t~~~~~ 272 (920)
......+.-..+++-+|.+
T Consensus 325 ~~~~~~k~~~vfgS~GW~g 343 (388)
T COG0426 325 ALAPKNKLAGVFGSYGWSG 343 (388)
T ss_pred hccCcCceEEEEeccCCCC
Confidence 6665555556677777765
No 353
>TIGR03298 argP transcriptional regulator, ArgP family. ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (PubMed:10589831). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity (PubMed: 15150242).
Probab=56.50 E-value=2.6e+02 Score=29.28 Aligned_cols=65 Identities=9% Similarity=0.031 Sum_probs=41.7
Q ss_pred HHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 492 IELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 492 ~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
..++..+.++.+.. +.... ++-..+++.|.+|++|+++.... .....+. +.++....++++++++
T Consensus 106 ~~~l~~~~~~~~i~--i~l~~--~~~~~~~~~l~~g~~d~~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 106 LPALAPVLAQEGVL--LDLVV--EDQDHTAELLRSGEVLGAVTTQA---KPVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHHhCCCce--EEEEe--CcchhHHHHHhCCCceEEEecCC---CCCCCce-EEecCCceEEEEECch
Confidence 34566676664444 55543 33467889999999999886322 2223344 4688888888887654
No 354
>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=56.44 E-value=51 Score=36.36 Aligned_cols=76 Identities=18% Similarity=0.206 Sum_probs=53.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.++++.++.+++.++++..... .+..+.+.+.+++.| +++.....+.+.. +..++.+.+..++..++|+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 88 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIK--AGWVDRVIESLEEAG-LEYVVFSDVSPNP----RDEEVMAGAELYLENGCDV 88 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35577778888889999998765432 446788999999888 7654322222221 2356777788888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 89 IIa 91 (377)
T cd08188 89 IIA 91 (377)
T ss_pred EEE
Confidence 886
No 355
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=55.91 E-value=37 Score=36.80 Aligned_cols=83 Identities=14% Similarity=0.029 Sum_probs=57.8
Q ss_pred CCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHh
Q 002454 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (920)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~ 243 (920)
.-.+++++... ++|. ..+...+++++++.| .++... .+... +...-...++.+.+.++|.|++...+++
T Consensus 22 ~~~~i~~v~k~~~~pf~--~~~~~Gi~~aa~~~G-~~v~~~--~~~~~----d~~~q~~~i~~li~~~vdgIiv~~~d~~ 92 (336)
T PRK15408 22 AAERIAFIPKLVGVGFF--TSGGNGAKEAGKELG-VDVTYD--GPTEP----SVSGQVQLINNFVNQGYNAIIVSAVSPD 92 (336)
T ss_pred CCcEEEEEECCCCCHHH--HHHHHHHHHHHHHhC-CEEEEE--CCCCC----CHHHHHHHHHHHHHcCCCEEEEecCCHH
Confidence 44678888753 3455 667778888899999 877542 22211 1223346778888889999999555666
Q ss_pred HHHHHHHHHHHcCC
Q 002454 244 MTIHLFTEANRMGL 257 (920)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (920)
.....+++|.+.|.
T Consensus 93 al~~~l~~a~~~gI 106 (336)
T PRK15408 93 GLCPALKRAMQRGV 106 (336)
T ss_pred HHHHHHHHHHHCCC
Confidence 67889999999886
No 356
>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=55.80 E-value=71 Score=33.78 Aligned_cols=114 Identities=18% Similarity=0.165 Sum_probs=57.9
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHH---
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET--- 110 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~--- 110 (920)
.=+||++++.+...+......++.+.++ .|.++.....++..+...+ ...+. +++.+++-+.+....
T Consensus 131 ~k~igvl~~~~~~~~~~~~~~~~~~a~~-----~g~~l~~~~v~~~~~~~~~---~~~l~--~~~da~~~~~~~~~~~~~ 200 (294)
T PF04392_consen 131 AKRIGVLYDPSEPNSVAQIEQLRKAAKK-----LGIELVEIPVPSSEDLEQA---LEALA--EKVDALYLLPDNLVDSNF 200 (294)
T ss_dssp --EEEEEEETT-HHHHHHHHHHHHHHHH-----TT-EEEEEEESSGGGHHHH---HHHHC--TT-SEEEE-S-HHHHHTH
T ss_pred CCEEEEEecCCCccHHHHHHHHHHHHHH-----cCCEEEEEecCcHhHHHHH---HHHhh--ccCCEEEEECCcchHhHH
Confidence 3569999887632223333333333332 2566665555555554433 33342 244544444333222
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 111 ~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
..+...+.+.++|+++.... .... --+....++...+++..++++.+
T Consensus 201 ~~i~~~~~~~~iPv~~~~~~-----~v~~--Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 201 EAILQLANEAKIPVFGSSDF-----YVKA--GALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp HHHHHHCCCTT--EEESSHH-----HHCT--T-SEEEE--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCEEECCHH-----HhcC--CcEEEEccCHHHHHHHHHHHHHH
Confidence 34677889999999975422 1222 34577889999999888888855
No 357
>PRK00865 glutamate racemase; Provisional
Probab=55.57 E-value=1.2e+02 Score=31.32 Aligned_cols=38 Identities=13% Similarity=0.213 Sum_probs=25.7
Q ss_pred HHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEe
Q 002454 88 AAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (920)
Q Consensus 88 ~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is 126 (920)
.+..| .+.++.+++=+.++..+..+..+-+..++|+|.
T Consensus 59 ~~~~L-~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 59 IVEFL-LEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHH-HhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 33344 357888888777766655556666677899997
No 358
>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=55.47 E-value=1.8e+02 Score=27.50 Aligned_cols=70 Identities=13% Similarity=0.190 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.++++.+.+.. +.+ +++.. +...++.+.|.+|++|+++.... .....+. +.++....++++++....
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~~~p 83 (196)
T cd08450 13 QWLPEVLPILREEHPDLD--VELSS--LFSPQLAEALMRGKLDVAFMRPE---IQSDGID-YQLLLKEPLIVVLPADHR 83 (196)
T ss_pred hhHHHHHHHHHhhCCCcE--EEEEe--cChHHHHHHHhcCCccEEEEeCC---CCCCCcE-EEEEEccceEEEecCCCC
Confidence 55677888888776 555 55544 34578899999999999885321 1122233 466777888888876543
No 359
>PRK00072 hemC porphobilinogen deaminase; Reviewed
Probab=55.18 E-value=1.8e+02 Score=30.56 Aligned_cols=59 Identities=17% Similarity=0.258 Sum_probs=39.7
Q ss_pred CChHHhhhCCcccccccchHHHH-HHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechh
Q 002454 674 TDIQSLKSGNLKVGCVDDSFVKK-YLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPY 737 (920)
Q Consensus 674 ~s~~dL~~s~~~vg~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~ 737 (920)
.+++||.. |.+||+. |.-.. .+.+. .+.-+++.+..+.++-++++.+|+.|+.++-..-
T Consensus 113 ~~l~~Lp~-ga~IGTs--S~RR~aql~~~--~Pdl~~~~iRGNV~TRL~KL~~g~~DaivLA~AG 172 (295)
T PRK00072 113 KSLDDLPE-GAVVGTS--SLRRQAQLLAL--RPDLEIKPLRGNVDTRLRKLDEGEYDAIILAAAG 172 (295)
T ss_pred CChhHCCC-CCEEecC--cHHHHHHHHHH--CcCCEEEECccCHHHHHHHhhCCCCCEeehHhhH
Confidence 57888853 6777762 21111 22332 5566777777779999999999999999875433
No 360
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=54.57 E-value=45 Score=36.84 Aligned_cols=76 Identities=12% Similarity=0.190 Sum_probs=53.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.++.++.+++.++++..... ....+.+.+.|++.| +++.....+.+.. +.+.+.+.+..+++.++|+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~ 88 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVK--IGVVEKVTDVLDEAG-IDYVIYDGVKPNP----TITNVKDGLAVFKKEGCDF 88 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhh--cCcHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 34567788888888999888765432 357888999999888 7654322232222 3456778888888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 89 IIa 91 (377)
T cd08176 89 IIS 91 (377)
T ss_pred EEE
Confidence 986
No 361
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=54.45 E-value=2.7e+02 Score=28.90 Aligned_cols=70 Identities=7% Similarity=0.068 Sum_probs=47.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
..+-.+++..+.+.. +.+ +.+.. +...++++.|.+|++|+++..... .. ..+ ...|+....++++++...
T Consensus 101 ~~~l~~~l~~f~~~~P~v~--v~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~--~~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 101 ECMLTPWLGRLYQNQEALQ--FEARI--AQRQSLVKQLHERQLDLLITTEAP--KM-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred HHHHHHHHHHHHHhCCCcE--EEEEE--CChHHHHHHHHcCCCCEEEEcCCC--cc-CCc-cEEEecceeEEEEecCch
Confidence 466677888887765 555 44443 346789999999999999864322 21 233 346888888998887654
No 362
>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=54.41 E-value=41 Score=34.81 Aligned_cols=79 Identities=8% Similarity=0.106 Sum_probs=51.6
Q ss_pred EEEEEE--eCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYE--DNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~--~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
++++.. ++.|. ......+.+++++.| .++.... .. . +.....+.+..+...++|.||+..........
T Consensus 2 Ig~i~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~--~~-~----~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd06305 2 IAVVRYGGSGDFD--QAYLAGTKAEAEALG-GDLRVYD--AG-G----DDAKQADQIDQAIAQKVDAIIIQHGRAEVLKP 71 (273)
T ss_pred eEEEeecCCCcHH--HHHHHHHHHHHHHcC-CEEEEEC--CC-C----CHHHHHHHHHHHHHcCCCEEEEecCChhhhHH
Confidence 566665 34455 677788999999999 8876532 11 1 12334566777777789999883334444567
Q ss_pred HHHHHHHcCCC
Q 002454 248 LFTEANRMGLV 258 (920)
Q Consensus 248 ~l~~a~~~g~~ 258 (920)
.++.+++.|+.
T Consensus 72 ~i~~~~~~~ip 82 (273)
T cd06305 72 WVKRALDAGIP 82 (273)
T ss_pred HHHHHHHcCCC
Confidence 78888888763
No 363
>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=54.20 E-value=62 Score=35.86 Aligned_cols=74 Identities=18% Similarity=0.213 Sum_probs=50.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.++++.++ +++.+|++...+. ....+.+.+.+++.| +++.......+. .+..+....+...++.++|+|
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~----~~~~~v~~~~~~~~~~~~D~I 83 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAG--TPVFAELVQALAAAG-VEVEVFDGVLPD----LPRSELCDAASAAARAGPDVI 83 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhh--cchHHHHHHHHHHcC-CeEEEECCCCCC----cCHHHHHHHHHHHHhcCCCEE
Confidence 45667788888 8998888654432 467788999999988 775432222211 134556677777777899998
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 84 Ia 85 (386)
T cd08191 84 IG 85 (386)
T ss_pred EE
Confidence 86
No 364
>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=54.04 E-value=2e+02 Score=27.30 Aligned_cols=73 Identities=21% Similarity=0.175 Sum_probs=47.7
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.++..+++..+.++. +.+ +.+.. +...++.+.+.+|++|+++..... +.....+. +.++....+++++++..+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~~~v~~~~hp 85 (199)
T cd08416 12 VNTVPRIIMGLKLRRPELD--IELTL--GSNKDLLKKLKDGELDAILVATPE-GLNDPDFE-VVPLFEDDIFLAVPATSP 85 (199)
T ss_pred HhhhHHHHHHHHHhCCCeE--EEEEE--cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCeE-EEEeecceEEEEECCCCc
Confidence 356678888888877 566 45543 345778999999999999863211 11122232 467777888888876543
No 365
>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=53.94 E-value=2e+02 Score=27.24 Aligned_cols=70 Identities=6% Similarity=0.010 Sum_probs=46.9
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
..+..+++..+.+.. +.+ +++.. +....+.+++.+|++|+++... +.....+. +.++....++++++...
T Consensus 12 ~~~l~~~l~~~~~~~P~i~--~~i~~--~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08456 12 QSFLPRAIKAFLQRHPDVT--ISIHT--RDSPTVEQWLSAQQCDLGLVST---LHEPPGIE-RERLLRIDGVCVLPPGH 82 (196)
T ss_pred HhhHHHHHHHHHHHCCCcE--EEEEe--CCHHHHHHHHHcCCccEEEEec---CCCCCCee-EEEeeccCeEEEecCCC
Confidence 356678888888887 455 55554 3467888999999999988522 11122232 45677788888877654
No 366
>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=53.25 E-value=33 Score=37.68 Aligned_cols=89 Identities=13% Similarity=0.099 Sum_probs=61.3
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.+.++.+| |+.+|++..-.. .+..+.+.+.|++.| +++.....+.... +..++.+.+..+++.++|+|
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~--~~~~~~v~~~L~~~~-i~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~I 82 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSK--SGLVDRVLDALEEAG-IEVQVFDGVGPNP----TLEDVDEAAEQARKFGADCI 82 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHH--HTHHHHHHHHHHHTT-CEEEEEEEESSS-----BHHHHHHHHHHHHHTTSSEE
T ss_pred HHHHHHHHhcC--CEEEEECchHHh--CccHHHHHHHHhhCc-eEEEEEecCCCCC----cHHHHHHHHHHHHhcCCCEE
Confidence 45667777777 999999873322 447899999999999 8876555455544 45788899999999999998
Q ss_pred EEEecCH--hHHHHHHHHHHH
Q 002454 236 IVLQASL--DMTIHLFTEANR 254 (920)
Q Consensus 236 i~~~~~~--~~~~~~l~~a~~ 254 (920)
|- .+.+ -++...+..+..
T Consensus 83 Ia-iGGGS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 83 IA-IGGGSVMDAAKAVALLLA 102 (366)
T ss_dssp EE-EESHHHHHHHHHHHHHHT
T ss_pred EE-cCCCCcCcHHHHHHhhcc
Confidence 87 4433 334444444333
No 367
>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=53.00 E-value=55 Score=30.96 Aligned_cols=101 Identities=12% Similarity=0.083 Sum_probs=58.4
Q ss_pred CCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEe
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAI 752 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ 752 (920)
+.+++||.. +++|++.--....+||.+.. .+.+++....+.+- +...|-.|+.++-.....-+..+.. +..
T Consensus 58 ~~~~~~l~~-~~rIATkyp~l~~~yf~~~g--~~~~ii~l~GsvE~---ap~~glAD~IvDiv~TG~TLr~NgL---~~i 128 (163)
T PF01634_consen 58 YKSVEDLKA-GLRIATKYPNLTRRYFAEKG--INVEIIKLSGSVEL---APPLGLADAIVDIVETGTTLRANGL---KEI 128 (163)
T ss_dssp GCCGGGGSS-TEEEEES-HHHHHHHHHHCT---EEEEEE-SS-TTH---HHHTTSSSEEEEEESSSHHHHHTTE---EEE
T ss_pred CCCHHHhcc-CCEEEECCHHHHHHHHHHcC--CcEEEEEccCCccc---cCCCCCCCEEEEeccCcHHHHHCCC---EEe
Confidence 578888864 68999877778889998762 33445554441222 3456777888875555544334333 333
Q ss_pred eeeeecceeeEecCCCc--chHHHHHHHHhhh
Q 002454 753 NTYRFGGLGFAFQRGSP--IALDISRAILDLS 782 (920)
Q Consensus 753 ~~~~~~~~~~~~~k~sp--~~~~~n~~i~~l~ 782 (920)
+.+......+..++.+. -.+.+++.+.+|.
T Consensus 129 ~~i~~s~a~LI~n~~~~~~k~~~i~~l~~~l~ 160 (163)
T PF01634_consen 129 ETILESSARLIANKASLKEKEEKIDELVTRLR 160 (163)
T ss_dssp EEEEEEEEEEEEEHHHHHHCHHHHHHHHHHHH
T ss_pred EEEEEEEEEEEEcCccchhhHHHHHHHHHHHH
Confidence 54444555666666654 3334666655554
No 368
>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=52.43 E-value=2.1e+02 Score=31.14 Aligned_cols=88 Identities=13% Similarity=0.115 Sum_probs=54.5
Q ss_pred eEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEecc
Q 002454 70 KLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS 149 (920)
Q Consensus 70 ~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p 149 (920)
.+.+++.|.-..-..+.....++- + ...=.-+.-......+.+.+.+.+||+|+-++...
T Consensus 23 ~~d~l~~d~LaE~tma~~~~~~~~-~--p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg~n----------------- 82 (362)
T PF07287_consen 23 DVDYLVGDYLAERTMAILARAKRK-D--PTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGGLN----------------- 82 (362)
T ss_pred CCCEEEEecHHHHHHHHHHHHHhh-C--CCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCCCC-----------------
Confidence 677888887666555555433332 1 11111222233445677778889999987654411
Q ss_pred CchHHHHHHHHHHHHcCCe-EEEEEEEeCC
Q 002454 150 NDSEQMKCIADLARKYNWR-RVAAIYEDNV 178 (920)
Q Consensus 150 ~~~~~~~aia~~l~~~~w~-~v~ii~~~~~ 178 (920)
....++.+.+++++.|.+ ||++|+.|+.
T Consensus 83 -p~~~a~~v~eia~e~Gl~lkvA~V~gDd~ 111 (362)
T PF07287_consen 83 -PAGCADIVREIARELGLSLKVAVVYGDDL 111 (362)
T ss_pred -HHHHHHHHHHHHHhcCCCeeEEEEECccc
Confidence 122678888888887665 8999998876
No 369
>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=52.22 E-value=2.1e+02 Score=29.38 Aligned_cols=129 Identities=14% Similarity=0.065 Sum_probs=76.1
Q ss_pred EEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
-+||.+.+........-..|+..++++.+. ..+..........+...+.+.+.+++.. +..+|+..... .+..+.
T Consensus 121 ~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~ai~~~~d~-~A~gv~ 195 (260)
T cd06304 121 GKVGFVGGMPIPEVNRFINGFAAGAKSVNP---DITVLVIYTGSFFDPAKGKEAALALIDQ-GADVIFAAAGG-TGPGVI 195 (260)
T ss_pred CceEEEeccccHHHHHHHHHHHHHHHHhCC---CcEEEEEEecCccCcHHHHHHHHHHHhC-CCCEEEEcCCC-CchHHH
Confidence 457777543222234446677777766432 2333233333334455677778888764 46888876554 333344
Q ss_pred HhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEE
Q 002454 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAA 172 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~i 172 (920)
..+.+.++-++++... +. .....|-+-.+..+....+..+++.+..-.|+..--
T Consensus 196 ~al~~~gv~vigfD~~---~~-~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (260)
T cd06304 196 QAAKEAGVYAIGVDSD---QS-ALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGGVY 249 (260)
T ss_pred HHHHHcCCEEEeecCc---hh-hhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCcce
Confidence 5555666666665544 22 223347777788888888888888887767654433
No 370
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=51.78 E-value=1.7e+02 Score=31.43 Aligned_cols=124 Identities=12% Similarity=0.043 Sum_probs=71.3
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEe-cCCCCHHHHHHHHHHHhhc---CCeEEEEcCCch
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINK---EKVKVIAGMETW 107 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~-D~~~d~~~a~~~a~~li~~---~~v~aiiGp~~s 107 (920)
+.++|+.+.... ......-..|++.|+++. |.++..... ....+...+.+.+.+++.+ ..+.||+...+.
T Consensus 161 g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~-----g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~~d~ 235 (330)
T PRK15395 161 GKIQYVLLKGEPGHPDAEARTTYVIKELNDK-----GIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIANNDA 235 (330)
T ss_pred CceEEEEEecCCCCchHHHHHHHHHHHHHhc-----CCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEECCch
Confidence 567777665432 223445667888887664 233333222 2344666777888888864 358999977554
Q ss_pred HHHHHHHHhhccC---CccEEeecCCCCCCCccC-CCCceeEEeccCchHHHHHHHHHHHH
Q 002454 108 EETAVVAEIASRV---QVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 108 ~~~~~va~~~~~~---~iP~is~~~~~~~~~~~~-~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
.. .-+...+.+. .+|++++.... ..... ...|.+.....+...++...++++..
T Consensus 236 ~A-~gvl~al~~~Gl~~vpVvg~D~~~--~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 236 MA-MGAVEALKAHNKSSIPVFGVDALP--EALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred HH-HHHHHHHHhcCCCCCeEEeeCCCH--HHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 33 2333333333 56888776551 11111 11244666677778888887777654
No 371
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=51.64 E-value=2.5e+02 Score=27.60 Aligned_cols=95 Identities=15% Similarity=0.101 Sum_probs=65.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCC---CChHHHHHHHHhhccCCc
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSIS---DPKEAVRGELKKVQDKQS 232 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~---~~~~d~~~~l~~l~~~~~ 232 (920)
.++++-++.++.+++.++.. |- .+..+...+.++++| ++|+...-+....... -+.....+.-+++...++
T Consensus 107 ~Avv~aL~al~a~ri~vlTP---Y~--~evn~~e~ef~~~~G-feiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~ 180 (238)
T COG3473 107 TAVVEALNALGAQRISVLTP---YI--DEVNQREIEFLEANG-FEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDA 180 (238)
T ss_pred HHHHHHHHhhCcceEEEecc---ch--hhhhhHHHHHHHhCC-eEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCC
Confidence 57788889999999999974 33 555678888999999 9988765433222111 011234445566666799
Q ss_pred eEEEEEecCHhHHHHHHHHHHH-cCC
Q 002454 233 RVFIVLQASLDMTIHLFTEANR-MGL 257 (920)
Q Consensus 233 ~vii~~~~~~~~~~~~l~~a~~-~g~ 257 (920)
|.|++ .|..-....++..+.+ .|.
T Consensus 181 DaiFi-SCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 181 DAIFI-SCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred CeEEE-EeeccccHHHHHHHHHHhCC
Confidence 99999 8888777777777765 454
No 372
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=51.02 E-value=3e+02 Score=28.90 Aligned_cols=66 Identities=9% Similarity=0.001 Sum_probs=43.5
Q ss_pred eHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 491 SIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 491 ~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
...++..+.++.+.+ +++... .-..+++.+.+|++|+++..- +.....+ .+.|+....++++++..
T Consensus 105 l~~~l~~f~~~~~i~--i~l~~~--~~~~~~~~l~~~~~d~~i~~~---~~~~~~l-~~~~l~~~~~~lv~~~~ 170 (294)
T PRK03635 105 FLPALAPVLARSGVL--LDLVVE--DQDHTAELLRRGEVVGAVTTE---PQPVQGC-RVDPLGAMRYLAVASPA 170 (294)
T ss_pred HHHHHHHHHhCCCcE--EEEEec--CcHHHHHHHhCCCceEEEecc---CCCCCCc-eeeecccceEEEEEcch
Confidence 345677777764444 555542 346789999999999987532 2222233 46788888899888765
No 373
>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=50.49 E-value=2.2e+02 Score=27.44 Aligned_cols=88 Identities=14% Similarity=0.118 Sum_probs=56.7
Q ss_pred hHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhcc--CCceEeEEeecCCCCCCCCChHHHHHHHHhhcc
Q 002454 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (920)
Q Consensus 152 ~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~--g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~ 229 (920)
.+....+.+.....+ .++.++... .+.++.+.+.+++. | ++++.. ..... .++-...++++.+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~------~~v~~~~~~~l~~~yP~-l~i~g~--~g~f~-----~~~~~~i~~~I~~ 98 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGK------PDVLQQLKVKLIKEYPK-LKIVGA--FGPLE-----PEERKAALAKIAR 98 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCC------HHHHHHHHHHHHHHCCC-CEEEEE--CCCCC-----hHHHHHHHHHHHH
Confidence 345666666666666 467777544 34556666666553 5 777664 22221 2344567888999
Q ss_pred CCceEEEEEecCHhHHHHHHHHHHHc
Q 002454 230 KQSRVFIVLQASLDMTIHLFTEANRM 255 (920)
Q Consensus 230 ~~~~vii~~~~~~~~~~~~l~~a~~~ 255 (920)
+++|++++ ....+.-..++.+.++.
T Consensus 99 s~~dil~V-glG~PkQE~~~~~~~~~ 123 (177)
T TIGR00696 99 SGAGIVFV-GLGCPKQEIWMRNHRHL 123 (177)
T ss_pred cCCCEEEE-EcCCcHhHHHHHHhHHh
Confidence 99999999 77777777777665443
No 374
>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=50.31 E-value=2.3e+02 Score=26.95 Aligned_cols=73 Identities=14% Similarity=0.121 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+.. +++ +.+.. +....+.+.|.+|++|+++............+. +.++....++++++...+
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~~v~~~~hp 86 (200)
T cd08453 13 SVLPELVRRFREAYPDVE--LQLRE--ATSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLVLAVPAAWA 86 (200)
T ss_pred HHHHHHHHHHHHhCCCce--EEEEe--CCHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceEEEEECCCc
Confidence 45567788887776 555 55543 346788999999999998763211110122232 467778888888876643
No 375
>COG3919 Predicted ATP-grasp enzyme [General function prediction only]
Probab=50.08 E-value=3.1e+02 Score=28.39 Aligned_cols=93 Identities=16% Similarity=0.079 Sum_probs=58.6
Q ss_pred EEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCC
Q 002454 99 KVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV 178 (920)
Q Consensus 99 ~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~ 178 (920)
+.|+|.... +.++|.-.....||+...++..+-|..++-..-..---.|.+.-....+-++....+-+...+|...|.
T Consensus 6 viilGgahg--tlalARSfg~~~vpv~~ls~d~plPt~Sr~vr~t~~w~gphd~gaiafLrd~Aekhglkg~LLva~GDg 83 (415)
T COG3919 6 VIILGGAHG--TLALARSFGEEFVPVLALSADGPLPTYSRIVRVTTHWNGPHDEGAIAFLRDFAEKHGLKGYLLVACGDG 83 (415)
T ss_pred eEEEcccch--hHHHHHhhccccceEEEEecCCCCcchhhhheeeeccCCCCcccHHHHHHHHHhhcCcCceEEEecCCc
Confidence 456776553 333444444445999988877432222221111222235888878888889998888888888888775
Q ss_pred CCCCcchHHHHHHHHhcc
Q 002454 179 YGGDSGKLALLAEALQNV 196 (920)
Q Consensus 179 ~g~~~~~~~~l~~~l~~~ 196 (920)
+ ..+....++.|.+.
T Consensus 84 e---v~lvSq~reeLSa~ 98 (415)
T COG3919 84 E---VLLVSQYREELSAF 98 (415)
T ss_pred e---eeehHhhHHHHHHH
Confidence 4 56677777777765
No 376
>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=50.00 E-value=72 Score=34.87 Aligned_cols=75 Identities=11% Similarity=0.073 Sum_probs=51.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.++++.++ +++.++++...+- ..+..+.+.+.+++.| +++.....+.+.. +.+++.+.+..+++.++|+|
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~-~~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 87 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAK-KNGSLDDVTKALEELG-IEYEIFDEVEENP----SLETIMEAVEIAKKFNADFV 87 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHh-hcCcHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 34567777777 8998888765421 1335688999999988 7654332233222 34567788888888899998
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 88 Ia 89 (357)
T cd08181 88 IG 89 (357)
T ss_pred EE
Confidence 87
No 377
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=49.84 E-value=91 Score=29.72 Aligned_cols=47 Identities=15% Similarity=0.242 Sum_probs=34.4
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCCchH---HHHHHHHhhccCCccEEeecCC
Q 002454 81 DPFQAATAAQELINKEKVKVIAGMETWE---ETAVVAEIASRVQVPILSFAAP 130 (920)
Q Consensus 81 d~~~a~~~a~~li~~~~v~aiiGp~~s~---~~~~va~~~~~~~iP~is~~~~ 130 (920)
.|..+++...+ -+++..++|..... ....+..++++.++|+++....
T Consensus 23 ~p~~aa~lI~~---AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~ 72 (171)
T PRK00945 23 SPKIAAMMIKK---AKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGS 72 (171)
T ss_pred CHHHHHHHHHh---CCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccc
Confidence 55555544443 46899999986643 5677899999999999977654
No 378
>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=49.65 E-value=47 Score=34.45 Aligned_cols=80 Identities=10% Similarity=0.069 Sum_probs=51.6
Q ss_pred EEEEEEEeC---CCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHH
Q 002454 169 RVAAIYEDN---VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (920)
Q Consensus 169 ~v~ii~~~~---~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (920)
+|+++..+. +|. ....+.+.+++++.| ..+.... .... ........+.++...+.|.+|+........
T Consensus 1 ~i~~i~~~~~~~~~~--~~~~~g~~~~~~~~g-~~v~~~~--~~~~----~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFW--TVVKNGAEDAAKDLG-VDVEYRG--PETF----DVADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHH--HHHHHHHHHHHHHhC-CEEEEEC--CCCC----CHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 466776543 455 677888899999999 7765432 2110 123445677777778999998834344444
Q ss_pred HHHHHHHHHcCC
Q 002454 246 IHLFTEANRMGL 257 (920)
Q Consensus 246 ~~~l~~a~~~g~ 257 (920)
...++.+.+.|.
T Consensus 72 ~~~l~~~~~~~i 83 (271)
T cd06312 72 DPAIKRAVAAGI 83 (271)
T ss_pred HHHHHHHHHCCC
Confidence 567788888775
No 379
>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=49.58 E-value=2.3e+02 Score=26.77 Aligned_cols=69 Identities=14% Similarity=0.198 Sum_probs=46.4
Q ss_pred eeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 490 ~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
+..+++..+.++. +.+ +++.. ++..++.+.+.+|++|+++...... ....+ .+.++....++++++...
T Consensus 15 ~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~~ 84 (199)
T cd08451 15 LVPGLIRRFREAYPDVE--LTLEE--ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAGH 84 (199)
T ss_pred ccHHHHHHHHHHCCCcE--EEEec--CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCCC
Confidence 5667888888876 455 55543 3567889999999999998532211 11222 346777888888887654
No 380
>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=49.04 E-value=2.5e+02 Score=26.91 Aligned_cols=70 Identities=14% Similarity=0.134 Sum_probs=47.0
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.+++ +.+ +.+.. +....+.+.|.+|++|+++... .. ....++ +.++....++++++.+..
T Consensus 14 ~~l~~~l~~f~~~~P~v~--i~i~~--~~~~~l~~~l~~g~~D~~~~~~--~~-~~~~~~-~~~l~~~~~~lv~~~~h~ 84 (198)
T cd08486 14 RSLPLLLRAFLTSTPTAT--VSLTH--MTKDEQVEGLLAGTIHVGFSRF--FP-RHPGIE-IVNIAQEDLYLAVHRSQS 84 (198)
T ss_pred HHHHHHHHHHHHhCCCeE--EEEEE--CCHHHHHHHHHcCCceEEEecC--CC-CCCceE-EEEEeeccEEEEecCCCc
Confidence 45567788887776 555 55544 4578999999999999988532 11 122233 456777888888876543
No 381
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=48.14 E-value=2.2e+02 Score=29.07 Aligned_cols=89 Identities=10% Similarity=0.074 Sum_probs=56.2
Q ss_pred hHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhc-cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC
Q 002454 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (920)
Q Consensus 152 ~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~-~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~ 230 (920)
.+....+.+.....+ .++.++..+ .+.++.+.+.+++ .| +.|++... .... .++....+.++.++
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~------~~v~~~a~~~l~~~y~-l~i~g~~~-Gyf~-----~~e~~~i~~~I~~s 156 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGK------PEVLAQTEAKLRTQWN-VNIVGSQD-GYFT-----PEQRQALFERIHAS 156 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCC------HHHHHHHHHHHHHHhC-CEEEEEeC-CCCC-----HHHHHHHHHHHHhc
Confidence 345666666666666 567777544 3445555555543 36 77765432 1111 23446688999999
Q ss_pred CceEEEEEecCHhHHHHHHHHHHHc
Q 002454 231 QSRVFIVLQASLDMTIHLFTEANRM 255 (920)
Q Consensus 231 ~~~vii~~~~~~~~~~~~l~~a~~~ 255 (920)
++|++++ ....+.-..++...++.
T Consensus 157 ~~dil~V-glG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 157 GAKIVTV-AMGSPKQEIFMRDCRLV 180 (243)
T ss_pred CCCEEEE-ECCCcHHHHHHHHHHHh
Confidence 9999999 77777777777666554
No 382
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=47.81 E-value=3.5e+02 Score=28.28 Aligned_cols=64 Identities=8% Similarity=0.007 Sum_probs=41.0
Q ss_pred HHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 493 dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
..+..+.+.-+++ +++.. +..+++.+.|.+|++|+++... +.....+. +.|+....++++++..
T Consensus 107 ~~l~~~~~~~~i~--i~~~~--~~~~~~~~~L~~~~~d~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~ 170 (294)
T PRK13348 107 PALAAVLAGERIL--LELIV--DDQDHTFALLERGEVVGCVSTQ---PKPMRGCL-AEPLGTMRYRCVASPA 170 (294)
T ss_pred HHHHHHHhCCCeE--EEEEE--cchHHHHHHHhcCCeEEEEecC---CcccCCcc-cccccccceEEEEccc
Confidence 4555554444444 55544 3467899999999999987532 21223444 5778888888887655
No 383
>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=47.50 E-value=2.6e+02 Score=26.64 Aligned_cols=69 Identities=12% Similarity=0.102 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+-.+++..+.++. +.+ +++.. ++..++.+.+.+|++|+++..... ....+. +.++....++++++...
T Consensus 13 ~~l~~~l~~f~~~~P~v~--i~~~~--~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~h 82 (196)
T cd08458 13 SFMSGVIQTFIADRPDVS--VYLDT--VPSQTVLELVSLQHYDLGISILAG---DYPGLT-TEPVPSFRAVCLLPPGH 82 (196)
T ss_pred hhhHHHHHHHHHHCCCcE--EEEec--cChHHHHHHHHcCCCCEEEEeccC---CCCCce-EEEeccCceEEEecCCC
Confidence 45567888888876 444 44443 345778999999999998863221 112232 35777788888877654
No 384
>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=47.42 E-value=3.2e+02 Score=29.03 Aligned_cols=39 Identities=13% Similarity=0.102 Sum_probs=20.1
Q ss_pred CcchhHHHHH--HHHHHHHhccccccCccCcCCCccEEEEEEEeCC
Q 002454 1 MNRFFFLVLI--IASELVFVSPGVESASTNVNIEEVTKIGAIVDAN 44 (920)
Q Consensus 1 m~r~~~~~~~--~~~~lll~~~~~~~~~~~~~~~~~i~IG~i~p~s 44 (920)
|||..+++.+ +++.+.+++|+... ...+.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDG-----GEPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCC-----CCCceEEEEeCCCCC
Confidence 6665544332 22233344444322 245789999876543
No 385
>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=47.37 E-value=51 Score=34.12 Aligned_cols=79 Identities=11% Similarity=0.107 Sum_probs=51.7
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhc-cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHH
Q 002454 169 RVAAIYED--NVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (920)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~-~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (920)
+|++|..+ ++|. ......+.+++++ .| .++..... . . ........+..+.+.+.|.+|+..+.....
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~~~-~~~~~~~~--~-~----~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 70 (272)
T cd06301 1 KIGVSMANFDDNFL--TLLRNAMKEHAKVLGG-VELQFEDA--K-N----DVATQLSQVENFIAQGVDAIIVVPVDTAAT 70 (272)
T ss_pred CeeEeecccCCHHH--HHHHHHHHHHHHHcCC-cEEEEeCC--C-C----CHHHHHHHHHHHHHcCCCEEEEecCchhhh
Confidence 36777764 3455 6677788888888 88 77665321 1 1 224455677777777899998834444445
Q ss_pred HHHHHHHHHcCC
Q 002454 246 IHLFTEANRMGL 257 (920)
Q Consensus 246 ~~~l~~a~~~g~ 257 (920)
..++.++.+.|.
T Consensus 71 ~~~~~~l~~~~i 82 (272)
T cd06301 71 APIVKAANAAGI 82 (272)
T ss_pred HHHHHHHHHCCC
Confidence 677788888776
No 386
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=47.16 E-value=3.6e+02 Score=28.16 Aligned_cols=72 Identities=14% Similarity=0.102 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+..+++..+.++. +++ +.+.. .+-++++++|.+|++|+++.... .+.....+.+ .|+....++++++...+
T Consensus 110 ~~l~~~l~~f~~~~p~i~--l~i~~--~~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~~-~~l~~~~~~~v~~~~~~ 182 (294)
T PRK09986 110 GRLRPAMRHFLKENPNVE--WLLRE--LSPSMQMAALERRELDAGIWRMA-DLEPNPGFTS-RRLHESAFAVAVPEEHP 182 (294)
T ss_pred HHHHHHHHHHHHhCCCeE--EEEEe--CCHHHHHHHHHcCCCCEEEecCC-ccCCCCCeEE-EEeecccEEEEEcCCCC
Confidence 44566777777776 444 44443 23477899999999999875211 1122234443 67778888888887654
No 387
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=47.13 E-value=1.6e+02 Score=29.58 Aligned_cols=105 Identities=11% Similarity=0.115 Sum_probs=60.2
Q ss_pred CCCChHHhhhCCcccccc--cchH--HHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCC
Q 002454 672 NVTDIQSLKSGNLKVGCV--DDSF--VKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCK 747 (920)
Q Consensus 672 ~i~s~~dL~~s~~~vg~~--~~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~ 747 (920)
.|...+||+ |++|++. ..+. +-.-|+ .++..+.++..++-...+...+-+.|.+|++..-.+.+.-..+ ..+
T Consensus 121 gI~kpeDL~--GK~iavPFvSTtHysLLaaLk-hw~idp~~V~IlNl~Pp~IaAAwqRGDIDgAyVW~PAl~el~k-sGk 196 (334)
T COG4521 121 GIEKPEDLI--GKRIAVPFVSTTHYSLLAALK-HWGIDPGQVEILNLQPPAIAAAWQRGDIDGAYVWAPALSELKK-SGK 196 (334)
T ss_pred CcCChHHhc--cCeeccceeehhHHHHHHHHH-HcCCCccceeEeccCCHHHHHHHHcCCCCceeeccHhHHHHhh-cCc
Confidence 389999998 6777763 2221 112233 3566666666666546788889999999998876666554332 222
Q ss_pred ceE----EeeeeeecceeeEecCCC----c-chHHHHHHHHh
Q 002454 748 KYT----AINTYRFGGLGFAFQRGS----P-IALDISRAILD 780 (920)
Q Consensus 748 ~~~----~~~~~~~~~~~~~~~k~s----p-~~~~~n~~i~~ 780 (920)
... ++..-.+..=+++++|+. | ....|-+..+.
T Consensus 197 VltDs~qvgqwgaPTfdvwVvrkdfAekhPe~v~aFakv~~d 238 (334)
T COG4521 197 VLTDSEQVGQWGAPTFDVWVVRKDFAEKHPEVVAAFAKVALD 238 (334)
T ss_pred EeccHHHhhccCCCceeeEEeehHhhHhChHHHHHHHHHHHH
Confidence 211 111112223357777764 3 45555554443
No 388
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=46.86 E-value=1.3e+02 Score=31.42 Aligned_cols=88 Identities=17% Similarity=0.173 Sum_probs=53.6
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHH-HHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAAT-AAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~-~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+++++.-.+ ........+.-++.+.+.+ ++..+.|+-|+...-.+ ++.+|..+-.+..|||+..|+.+..++
T Consensus 156 kv~vvsQTT--~~~~~~~~i~~~l~~~~~~-----~~~~~~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~ 228 (281)
T PF02401_consen 156 KVAVVSQTT--QSVEKFEEIVEALKKRFPE-----LEGPVFNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLA 228 (281)
T ss_dssp CEEEEE-TT--S-HHHHHHHHHHHHHHSTC-----EE-SCC-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHH
T ss_pred eEEEEEeec--ccHHHHHHHHHHHHHhCcc-----ccCCCCCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHH
Confidence 577776554 2334444444444444332 33347899888776644 566776666788999999999999999
Q ss_pred HhhccCCccEEeecCC
Q 002454 115 EIASRVQVPILSFAAP 130 (920)
Q Consensus 115 ~~~~~~~iP~is~~~~ 130 (920)
.+|+..+.|.+-....
T Consensus 229 eia~~~~~~t~~Ie~~ 244 (281)
T PF02401_consen 229 EIAKEHGKPTYHIETA 244 (281)
T ss_dssp HHHHHCTTCEEEESSG
T ss_pred HHHHHhCCCEEEeCCc
Confidence 9999988776644333
No 389
>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=46.01 E-value=1.6e+02 Score=27.32 Aligned_cols=119 Identities=14% Similarity=0.144 Sum_probs=65.8
Q ss_pred EEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va 114 (920)
+||++.+.. ......-..|++.|+++.+ .+......................+++.++.+||..... .+..+.
T Consensus 11 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~~~~-~a~~~~ 84 (160)
T PF13377_consen 11 RIAFIGGPPNSSVSRERLEGFREALKEHG-----IEFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICSNDR-LALGVL 84 (160)
T ss_dssp SEEEEESSTTSHHHHHHHHHHHHHHHHTT-----SEEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEESSHH-HHHHHH
T ss_pred eEEEEecCCCChhHHHHHHHHHHHHHHCC-----CCCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEcCHH-HHHHHH
Confidence 467776333 3445677788888887753 444433333333333333222223343367788875444 444444
Q ss_pred HhhccC------CccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 115 EIASRV------QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 115 ~~~~~~------~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
..+.+. ++.++++... +.. ....|.+-.+..+....+...++.+..
T Consensus 85 ~~l~~~g~~vP~di~vv~~~~~---~~~-~~~~p~it~i~~~~~~~g~~a~~~l~~ 136 (160)
T PF13377_consen 85 RALRELGIRVPQDISVVSFDDS---PLL-EFFSPPITTIDQDPREMGREAVELLLD 136 (160)
T ss_dssp HHHHHTTSCTTTTSEEEEESSS---GHH-HCSSSTSEEEEE-HHHHHHHHHHHHHH
T ss_pred HHHHHcCCcccccccEEEecCc---HHH-HHHcCCCceecCCHHHHHHHHHHHHHH
Confidence 555544 3456776544 322 334455666777788888888888754
No 390
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=45.49 E-value=1.3e+02 Score=31.00 Aligned_cols=131 Identities=9% Similarity=0.093 Sum_probs=68.1
Q ss_pred HHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCC
Q 002454 88 AAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW 167 (920)
Q Consensus 88 ~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w 167 (920)
.+..|.++.++.+++=+.++..+..+..+-+..++|+|...-....+........-+.=++...+......-+.+..++.
T Consensus 52 ~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~~ 131 (251)
T TIGR00067 52 LLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIAN 131 (251)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhCC
Confidence 34444426789988888777766667777777899999843111001111111112333344445555566666666665
Q ss_pred eEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH
Q 002454 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (920)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~ 242 (920)
+- .+.+... . .+.. +-+.| .. .. . .....+...+..+++.+.|.+|+ .|..
T Consensus 132 ~~--~v~~~~~----~----~lv~-~Ie~g-~~-------~~-~---~~~~~l~~~l~~l~~~~~d~lIL-GCTh 182 (251)
T TIGR00067 132 DL--LVEMLAC----P----ELVP-LAEAG-LL-------GE-D---YALECLKRYLRPLLDTLPDTVVL-GCTH 182 (251)
T ss_pred CC--EEEecCC----H----HHHH-HHHcC-Cc-------CC-H---HHHHHHHHHHHHHhcCCCCEEEE-CcCC
Confidence 42 2222111 1 1222 22233 10 00 0 01235677788887778999999 6654
No 391
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=44.86 E-value=1.7e+02 Score=27.64 Aligned_cols=47 Identities=19% Similarity=0.367 Sum_probs=35.0
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEcCCch--HHHHHHHHhhccCCccEEeecCC
Q 002454 81 DPFQAATAAQELINKEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAP 130 (920)
Q Consensus 81 d~~~a~~~a~~li~~~~v~aiiGp~~s--~~~~~va~~~~~~~iP~is~~~~ 130 (920)
+|..+++...+ -+++..++|+... .....+..+++..++|+++....
T Consensus 16 ~p~~aa~lLk~---AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~ 64 (162)
T TIGR00315 16 SPKLVAMMIKR---AKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADT 64 (162)
T ss_pred CHHHHHHHHHc---CCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcc
Confidence 56555554443 4689999998664 66778999999999999976543
No 392
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=44.65 E-value=2.3e+02 Score=31.49 Aligned_cols=142 Identities=15% Similarity=0.155 Sum_probs=79.3
Q ss_pred EEcCCchHHHHHHHHhhc-cCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCC
Q 002454 101 IAGMETWEETAVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (920)
Q Consensus 101 iiGp~~s~~~~~va~~~~-~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~ 179 (920)
+++|.+.....++..+.. ...+=+|.++.. | ++|- +.....+...++.....-+++.|+|... |
T Consensus 194 i~~p~~~~v~~~l~~l~~~~l~~~~i~p~HG-----------~-i~~~--~~~~~~~~Y~~~~~~~~~~kv~IvY~S~-~ 258 (394)
T PRK11921 194 ILTPFSPLVIKKIEEILSLNLPVDMICPSHG-----------V-IWRD--NPLQIVEKYLEWAANYQENQVTILYDTM-W 258 (394)
T ss_pred HHhhhHHHHHHHHHHHHhcCCCCCEEEcCCc-----------c-EEeC--CHHHHHHHHHHHhhcCCcCcEEEEEECC-c
Confidence 466666655555555443 123445554433 1 2342 2333444455556555567899998875 4
Q ss_pred CCCcchHHHHHHHHh--ccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH------hHHHHHHHH
Q 002454 180 GGDSGKLALLAEALQ--NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL------DMTIHLFTE 251 (920)
Q Consensus 180 g~~~~~~~~l~~~l~--~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~------~~~~~~l~~ 251 (920)
|..+.+++.+.+.+. ..| +++... .+.. .+....+..+. ++|.+++ .++. +....++..
T Consensus 259 GnTe~mA~~ia~g~~~~~~g-~~v~~~-~~~~--------~~~~~i~~~~~--~~d~ii~-GspT~~~~~~~~~~~~l~~ 325 (394)
T PRK11921 259 NSTRRMAEAIAEGIKKANKD-VTVKLY-NSAK--------SDKNDIITEVF--KSKAILV-GSSTINRGILSSTAAILEE 325 (394)
T ss_pred hHHHHHHHHHHHHHhhcCCC-CeEEEE-ECCC--------CCHHHHHHHHH--hCCEEEE-ECCCcCccccHHHHHHHHH
Confidence 534677888888887 567 665432 1221 22333444444 5778887 5543 235667777
Q ss_pred HHHcCCCCCCeEEEEeccc
Q 002454 252 ANRMGLVGKDSVWIVTNTV 270 (920)
Q Consensus 252 a~~~g~~~~~~~~i~t~~~ 270 (920)
....++.++....+++-+|
T Consensus 326 l~~~~~~~K~~a~FGsygw 344 (394)
T PRK11921 326 IKGLGFKNKKAAAFGSYGW 344 (394)
T ss_pred hhccCcCCCEEEEEecCCC
Confidence 7777777665555666555
No 393
>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=43.86 E-value=3.8e+02 Score=27.57 Aligned_cols=69 Identities=9% Similarity=0.150 Sum_probs=44.8
Q ss_pred eeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 490 ~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
+-.+++..+.++. +.+ +.+.. +...+++..|.+|++|+++..-... ...+. ..|+....++++++.+.+
T Consensus 98 ~~~~~l~~~~~~~p~v~--l~i~~--~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~~~p 167 (279)
T TIGR03339 98 YVLDLVARFRQRYPGIE--VSVRI--GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHRQHP 167 (279)
T ss_pred HHHHHHHHHHHHCCCcE--EEEEE--CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECCCCc
Confidence 3456677777766 355 45543 3467899999999999998632222 22232 367778888888876543
No 394
>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=43.65 E-value=74 Score=34.70 Aligned_cols=72 Identities=14% Similarity=0.141 Sum_probs=50.8
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.+.++.++ +++.++++...+ ....+.+.+.+++.| +.+... .+.... +.+++.+.++..++.++|+|
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~---~~~~~~v~~~L~~~~-i~~~~~-~~~~~p----~~~~v~~~~~~~~~~~~D~I 81 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL---DLVGAKIEESLAAAG-IDARFE-VFGGEC----TRAEIERLAEIARDNGADVV 81 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHHhCC-CeEEEE-EeCCcC----CHHHHHHHHHHHhhcCCCEE
Confidence 44666777775 899888855432 357788889999988 776533 344332 34677788888888899988
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 82 Ia 83 (351)
T cd08170 82 IG 83 (351)
T ss_pred EE
Confidence 77
No 395
>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=42.98 E-value=3.1e+02 Score=26.23 Aligned_cols=71 Identities=18% Similarity=0.231 Sum_probs=47.2
Q ss_pred eeeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 488 DGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 488 ~G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.++..+++..+.+.. +.+ +++.. +...+++..+.+|++|++++.... ....+. +.++....++++++++.+
T Consensus 13 ~~~l~~~l~~~~~~~P~i~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~hp 84 (203)
T cd08445 13 YGLLPELIRRFRQAAPDVE--IELIE--MTTVQQIEALKEGRIDVGFGRLRI---EDPAIR-RIVLREEPLVVALPAGHP 84 (203)
T ss_pred HhHHHHHHHHHHHHCCCeE--EEEEe--CChHHHHHHHHcCCCcEEEecCCC---CCCCce-eEEEEeccEEEEeeCCCC
Confidence 356678888888776 455 45543 346889999999999999853221 112233 456777788888876543
No 396
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=42.47 E-value=2.7e+02 Score=29.49 Aligned_cols=114 Identities=14% Similarity=0.157 Sum_probs=67.2
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH--
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA-- 111 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~-- 111 (920)
.=+||+++..+.........-++.+.+. .|.++.-....+..|-..+.+.+ . .++++|++|.+.....
T Consensus 159 ak~Igv~Y~p~E~ns~~l~eelk~~A~~-----~Gl~vve~~v~~~ndi~~a~~~l---~--g~~d~i~~p~dn~i~s~~ 228 (322)
T COG2984 159 AKSIGVLYNPGEANSVSLVEELKKEARK-----AGLEVVEAAVTSVNDIPRAVQAL---L--GKVDVIYIPTDNLIVSAI 228 (322)
T ss_pred CeeEEEEeCCCCcccHHHHHHHHHHHHH-----CCCEEEEEecCcccccHHHHHHh---c--CCCcEEEEecchHHHHHH
Confidence 3458888877643333333333322222 36777665555656655555443 2 4899999998876554
Q ss_pred -HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 112 -VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 112 -~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
.+...++..+||+|..... +.+.. -+.-.+-++.+++...+.++.+
T Consensus 229 ~~l~~~a~~~kiPli~sd~~-----~V~~G--a~aA~gvdy~~~G~qtg~~v~~ 275 (322)
T COG2984 229 ESLLQVANKAKIPLIASDTS-----SVKEG--ALAALGVDYKDLGKQTGEMVVK 275 (322)
T ss_pred HHHHHHHHHhCCCeecCCHH-----HHhcC--cceeeccCHHHHHHHHHHHHHH
Confidence 3556788899999964332 22222 2356667777766666555533
No 397
>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=42.18 E-value=93 Score=34.38 Aligned_cols=75 Identities=15% Similarity=0.255 Sum_probs=50.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.+.++.++ +|+.+|.+...+- ..+..+.+.+.|++.| +++.....+.+.. +.+++.+.+..++..++|+|
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~I 90 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIK-KNGLYDRVIASLKEAG-IEVVELGGVEPNP----RLETVREGIELCKEEKVDFI 90 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHH-hcCcHHHHHHHHHHcC-CeEEEECCccCCC----CHHHHHHHHHHHHHcCCCEE
Confidence 45666777774 8898887754321 0345788999999988 7654332233322 23567778888888899999
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 91 Ia 92 (382)
T cd08187 91 LA 92 (382)
T ss_pred EE
Confidence 86
No 398
>cd08428 PBP2_IciA_ArgP The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold. The inhibitor of chromosomal replication (iciA) protein encoded by Mycobacterium tuberculosis, which is implicated in chromosome replication initiation in vitro, has been identified as arginine permease (ArgP), a LysR-type transcriptional regulator for arginine outward transport, based on the same amino sequence and similar DNA binding targets. Arp has been shown to regulate various targets including DnaA (replication), ArgO (arginine export), dapB (lysine biosynthesis), and gdhA (glutamate biosynthesis). With abundant nutrition, ArgP activates the DnaA gene (to increase replication) and the ArgO (to export redundant molecules). However, when nutrition supply is limited, it is suggested that ArgP might function as an inhibitor of chromosome replication in order to slow replication. This substrate-
Probab=41.46 E-value=3.1e+02 Score=25.90 Aligned_cols=67 Identities=4% Similarity=0.026 Sum_probs=41.3
Q ss_pred eeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 490 ~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
+...++..+.++.+.+ +.+.. ++.+.+.+.+.+|++|+++..- +.....+ .+.++.....+++++..
T Consensus 14 ~l~~~l~~f~~~~~v~--l~l~~--~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~~ 80 (195)
T cd08428 14 WFLPALAPVLKRERIL--LDLIV--DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASPD 80 (195)
T ss_pred HhHHHHHHHHhCcCeE--EEEEe--CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECCc
Confidence 3456677777774444 55554 3457889999999999876421 1122222 24566667777776543
No 399
>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=41.43 E-value=3.7e+02 Score=27.19 Aligned_cols=122 Identities=13% Similarity=0.141 Sum_probs=65.5
Q ss_pred ccEEEEEEEeCCC-cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHH
Q 002454 33 EVTKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~ 110 (920)
+.-+|+++..... ..+.....|++.++++.+ +.++..... ...++..+...+.+++.. +++.+|+........
T Consensus 120 g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~----~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~ 194 (267)
T cd01536 120 GKGKVAIIEGPPGSSNAQERVKGFRDALKEYP----DIEIVAVQD-GNWDREKALQAMEDLLQANPDIDAIFAANDSMAL 194 (267)
T ss_pred CCceEEEEEcccccchHHHHHHHHHHHHHhCC----CcEEEEEec-CCCcHHHHHHHHHHHHHhCCCccEEEEecCCchH
Confidence 4567888876542 355667778887777653 233332221 223345556667777654 347777765543333
Q ss_pred HHHHHhhccC----CccEEeecCCCCCCCcc--CCCCceeEEeccCchHHHHHHHHHHH
Q 002454 111 AVVAEIASRV----QVPILSFAAPAVTPLSM--SRRWPYLIRMASNDSEQMKCIADLAR 163 (920)
Q Consensus 111 ~~va~~~~~~----~iP~is~~~~~~~~~~~--~~~~~~~~r~~p~~~~~~~aia~~l~ 163 (920)
. +...+.+. ++.++++... +... -...|.+..+.++...++...++.+.
T Consensus 195 ~-~~~~l~~~g~~~~i~ivg~d~~---~~~~~~~~~~~~~~tv~~~~~~~g~~a~~~l~ 249 (267)
T cd01536 195 G-AVAALKAAGRKGDVKIVGVDGS---PEALAAIKEGGILATVAQDPYTQGYLAVEAAV 249 (267)
T ss_pred H-HHHHHHhcCCCCCceEEecCCC---hhHHHHHHcCCeeEEEecCHHHHHHHHHHHHH
Confidence 3 33333333 4666665544 2221 12234455566666777777776653
No 400
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=41.34 E-value=1.3e+02 Score=33.47 Aligned_cols=91 Identities=18% Similarity=0.147 Sum_probs=60.5
Q ss_pred EEEEEEEeCCCcccHHHHHHHHHHHHH--HhcCCC-CceEEEEEecCCCCHHHHHH-HHHHHh-hcCCeEEEEcCCchHH
Q 002454 35 TKIGAIVDANSQMGKQAITAMKIAVQN--FNSDSR-NHKLSLQIRDHNRDPFQAAT-AAQELI-NKEKVKVIAGMETWEE 109 (920)
Q Consensus 35 i~IG~i~p~s~~~g~~~~~a~~~Av~~--iN~~~~-g~~l~~~~~D~~~d~~~a~~-~a~~li-~~~~v~aiiGp~~s~~ 109 (920)
-+||++.-.+ ........+--+++. .+..|+ ...-++.+.|+-|+..+-.+ ++.+|+ .+-.+.+|||+.+|+.
T Consensus 299 ~kvgvvnQTT--m~~~et~~I~~~l~~~~~~k~gp~~~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSN 376 (460)
T PLN02821 299 VKVGIANQTT--MLKGETEEIGKLLEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSN 376 (460)
T ss_pred ccEEEEECCC--CcHHHHHHHHHHHHHhhhhhcCCcccCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCcc
Confidence 6788877554 223334444444444 233332 22345677899998877755 566665 3456889999999999
Q ss_pred HHHHHHhhccCCccEEee
Q 002454 110 TAVVAEIASRVQVPILSF 127 (920)
Q Consensus 110 ~~~va~~~~~~~iP~is~ 127 (920)
+..++.+|...++|..-.
T Consensus 377 T~~L~eIa~~~g~~sy~I 394 (460)
T PLN02821 377 TSHLQEIAEHKGIPSYWI 394 (460)
T ss_pred HHHHHHHHHHhCCCEEEE
Confidence 999999999999886443
No 401
>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=41.22 E-value=97 Score=29.86 Aligned_cols=69 Identities=12% Similarity=0.028 Sum_probs=44.5
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+-.+++..+.++. +.+ +++.. ++-++++++|.+|++|+++...... ...+. +.++....++++++...
T Consensus 14 ~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~~~ 83 (198)
T cd08485 14 HTLPLLLRQLLSVAPSAT--VSLTQ--MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQKSR 83 (198)
T ss_pred HHHHHHHHHHHHhCCCcE--EEEEE--CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCCCC
Confidence 45567777777765 555 55543 3457899999999999988632111 12333 45677777777776554
No 402
>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=40.98 E-value=77 Score=33.23 Aligned_cols=78 Identities=9% Similarity=0.081 Sum_probs=52.7
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|+++..+ +.|. ..+...+.+++++.| ..+..... .. ........++++.+.++|.||+..++......
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~~---~~----~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~ 71 (288)
T cd01538 2 IGLSLPTKTEERW--IRDRPNFEAALKELG-AEVIVQNA---NG----DPAKQISQIENMIAKGVDVLVIAPVDGEALAS 71 (288)
T ss_pred eEEEEeCCCcHHH--HHHHHHHHHHHHHcC-CEEEEECC---CC----CHHHHHHHHHHHHHcCCCEEEEecCChhhHHH
Confidence 5677754 3344 677788899999999 77654321 11 22345677777887899999883445555677
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
.++++.+.|.
T Consensus 72 ~l~~l~~~~i 81 (288)
T cd01538 72 AVEKAADAGI 81 (288)
T ss_pred HHHHHHHCCC
Confidence 8888888775
No 403
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=40.68 E-value=4.6e+02 Score=27.64 Aligned_cols=150 Identities=14% Similarity=0.105 Sum_probs=88.8
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEc--C--CchHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--M--ETWEETA 111 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiG--p--~~s~~~~ 111 (920)
+++++.--+......+.+.-.-+.+++ |...++...+...+.....+..+++=.++.|.+|+= | ..-.+..
T Consensus 33 ~Laii~vg~d~as~~Yv~~k~k~~~~~-----Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id~~~ 107 (295)
T PRK14174 33 GLTVIIVGEDPASQVYVRNKAKSCKEI-----GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQIDEFA 107 (295)
T ss_pred eEEEEEeCCChHHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHH
Confidence 566665544333445555555555554 777777777777777777777777766777887774 3 3333444
Q ss_pred HHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcC----CeEEEEEEEeCCCCCCcchHH
Q 002454 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGKLA 187 (920)
Q Consensus 112 ~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~----w~~v~ii~~~~~~g~~~~~~~ 187 (920)
....+.-.+++=-+++... .........+. +.|-. +.++.+++++|+ .+++++|.-..--| +..+.
T Consensus 108 i~~~I~p~KDVDGl~~~n~--g~l~~~~~~~~---~~PcT---p~ail~ll~~y~i~l~Gk~vvViGrS~iVG--~Pla~ 177 (295)
T PRK14174 108 VTLAIDPAKDVDGFHPENL--GRLVMGHLDKC---FVSCT---PYGILELLGRYNIETKGKHCVVVGRSNIVG--KPMAN 177 (295)
T ss_pred HHhcCCccccccccChhhH--HHHhcCCCCCC---cCCCC---HHHHHHHHHHhCCCCCCCEEEEECCCCcch--HHHHH
Confidence 4445555566555544333 11111111122 23432 467889998875 68999999888888 77666
Q ss_pred HHHHHHhccCCceE
Q 002454 188 LLAEALQNVSSSEI 201 (920)
Q Consensus 188 ~l~~~l~~~g~~~i 201 (920)
.|.+.++..+ ..+
T Consensus 178 lL~~~~~~~~-atV 190 (295)
T PRK14174 178 LMLQKLKESN-CTV 190 (295)
T ss_pred HHHhccccCC-CEE
Confidence 6665555455 444
No 404
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=40.66 E-value=97 Score=34.00 Aligned_cols=73 Identities=10% Similarity=0.113 Sum_probs=50.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.++.++ +++.+|++...+ ....+.+.+.++..| +++... .++... +.+++.+.+..+++.++|+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~---~~~~~~v~~~l~~~~-~~~~~~-~~~~ep----~~~~v~~~~~~~~~~~~d~ 87 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL---GIVGDRVEASLKEAG-LTVVFE-VFNGEC----SDNEIDRLVAIAEENGCDV 87 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH---HHHHHHHHHHHHhCC-CeEEEE-EeCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 345667778888 899998865543 336788888898888 776433 233322 3456777888888889999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 88 IIa 90 (366)
T PRK09423 88 VIG 90 (366)
T ss_pred EEE
Confidence 886
No 405
>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=39.85 E-value=1e+02 Score=34.01 Aligned_cols=89 Identities=15% Similarity=0.124 Sum_probs=55.7
Q ss_pred HHHHHHHHHc---CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCc
Q 002454 156 KCIADLARKY---NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (920)
Q Consensus 156 ~aia~~l~~~---~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~ 232 (920)
+.+.++++.+ +.+++.++++..... ..+..+.+.+.+++.| +++.....+.+.. +.+++.+.+..+++.++
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~-~~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~ 85 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYK-KSGAWDKVEPALDEHG-IEYVLYNKVTPNP----TVDQVDEAAKLGREFGA 85 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHh-hcChHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHHcCC
Confidence 4456667666 778999998755321 1335688999999888 7654332222222 33567788888888899
Q ss_pred eEEEEEe-cCHhHHHHHHH
Q 002454 233 RVFIVLQ-ASLDMTIHLFT 250 (920)
Q Consensus 233 ~vii~~~-~~~~~~~~~l~ 250 (920)
|+||-+. ++.-++..++.
T Consensus 86 D~IIaiGGGS~iD~aK~ia 104 (383)
T cd08186 86 QAVIAIGGGSPIDSAKSAA 104 (383)
T ss_pred CEEEEeCCccHHHHHHHHH
Confidence 9988522 23344444443
No 406
>PLN02691 porphobilinogen deaminase
Probab=39.82 E-value=1.5e+02 Score=31.84 Aligned_cols=58 Identities=14% Similarity=0.261 Sum_probs=40.1
Q ss_pred CChHHhhhCCcccccccchHHHH--HHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechh
Q 002454 674 TDIQSLKSGNLKVGCVDDSFVKK--YLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPY 737 (920)
Q Consensus 674 ~s~~dL~~s~~~vg~~~~~~~~~--~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~ 737 (920)
.++++|.. |.+||+. .... .++.. .+..+++.+..+.+.-+.++.+|++|+.++-..-
T Consensus 156 ~~L~~Lp~-ga~IGTS---S~RR~aql~~~--rPdl~v~~iRGNVdTRL~KL~~geyDaiILA~AG 215 (351)
T PLN02691 156 KSLAELPA-GSVVGTA---SLRRQSQILHK--YPHLKVVNFRGNVQTRLRKLQEGVVDATLLALAG 215 (351)
T ss_pred CChhHCCC-CCEeccC---cHHHHHHHHHH--CCCCEEEeccCCHHHHHHHhcCCCCCeeehHHHH
Confidence 57888853 6777762 2222 22222 5666788887779999999999999999975433
No 407
>PF15179 Myc_target_1: Myc target protein 1
Probab=39.62 E-value=42 Score=31.60 Aligned_cols=37 Identities=11% Similarity=0.096 Sum_probs=27.6
Q ss_pred CccccccchhHHHHH-HHHHHHHHHHHHHHHHHHhhcc
Q 002454 811 PENLTLHSFWGLYIV-YGATSIFCFLLFVIRLLNNSWS 847 (920)
Q Consensus 811 ~~~L~l~~~~g~f~i-l~~g~~ls~~vf~~E~~~~~~~ 847 (920)
.+.++++++...|.+ +++|++|+.+|+++-.+..+||
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRR 50 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRR 50 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 356778888888866 7888889888888765555544
No 408
>PRK07475 hypothetical protein; Provisional
Probab=39.09 E-value=1.8e+02 Score=29.70 Aligned_cols=47 Identities=21% Similarity=0.267 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEe
Q 002454 79 NRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (920)
Q Consensus 79 ~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is 126 (920)
..++......+.+.+...++.+|+.+.+. .......+.+..++|+++
T Consensus 60 ~~~~~~~l~~aa~~L~~~G~d~I~~~Cgt-~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 60 DPSLLDAFVAAARELEAEGVRAITTSCGF-LALFQRELAAALGVPVAT 106 (245)
T ss_pred CccHHHHHHHHHHHHHHcCCCEEEechHH-HHHHHHHHHHHcCCCEec
Confidence 34566666655555566799999987642 333444556667888884
No 409
>PRK07377 hypothetical protein; Provisional
Probab=39.09 E-value=69 Score=30.47 Aligned_cols=45 Identities=20% Similarity=0.152 Sum_probs=35.8
Q ss_pred eeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEe
Q 002454 487 YDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (920)
Q Consensus 487 ~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~ 534 (920)
.-+-.++.++.+.++++.+ .+++++. +-+.+.+.+.+|++|++.+
T Consensus 91 ~~~~l~~~l~~~~~~y~~r--lElv~y~-~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 91 VFDQLIDQLRTILDKYHLR--LELVVYP-DLQALEQALRDKEVHAICL 135 (184)
T ss_pred cHHHHHHHHHHHHHHhCce--eeEEecC-CHHHHHHHHhcCCccEEec
Confidence 3455778889999999999 5565553 5789999999999998765
No 410
>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=39.06 E-value=1.2e+02 Score=33.10 Aligned_cols=73 Identities=19% Similarity=0.201 Sum_probs=49.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.++++.++ +|+.+|++...+ ....+.+.+.+++.| +++.....+.... +.+++.+.+...++.++|+|
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~---~~~~~~v~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~i 82 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL---AAAKDKIKAALEQSG-IEITDFIWYGGES----TYENVERLKKNPAVQEADMI 82 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH---HHHHHHHHHHHHHCC-CeEEEEEecCCCC----CHHHHHHHHHHHhhcCCCEE
Confidence 44667777777 888888876543 345677888898888 7664333343322 34566777777777799998
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 83 ia 84 (345)
T cd08171 83 FA 84 (345)
T ss_pred EE
Confidence 86
No 411
>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=39.02 E-value=5.2e+02 Score=29.29 Aligned_cols=75 Identities=16% Similarity=0.142 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHhcCCCCceEEEEEecCCC-CHHHHHHHHHHHhhcCCeEEEEcC-CchHHHHHHHHhhccCCccEEeec
Q 002454 51 AITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGM-ETWEETAVVAEIASRVQVPILSFA 128 (920)
Q Consensus 51 ~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~-d~~~a~~~a~~li~~~~v~aiiGp-~~s~~~~~va~~~~~~~iP~is~~ 128 (920)
.....+..++.+|+. .++++..+... ++..+.+++.++ +.++++++|-. .+...+..+...+...++|++-++
T Consensus 21 ~~~~~~~~~~~l~~~----~~~vv~~~~~~~~~~~~~~~~~~~-~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~Pvll~a 95 (452)
T cd00578 21 VEEYAREVADLLNEL----PVEVVDKPEVTGTPDEARKAAEEF-NEANCDGLIVWMHTFGPAKMWIAGLSELRKPVLLLA 95 (452)
T ss_pred HHHHHHHHHHHHhcC----CceEEecCcccCCHHHHHHHHHHH-hhcCCcEEEEcccccccHHHHHHHHHhcCCCEEEEe
Confidence 344445555666654 34566665544 666666655554 44577766653 333445557777788899999887
Q ss_pred CC
Q 002454 129 AP 130 (920)
Q Consensus 129 ~~ 130 (920)
..
T Consensus 96 ~~ 97 (452)
T cd00578 96 TQ 97 (452)
T ss_pred CC
Confidence 77
No 412
>PLN02245 ATP phosphoribosyl transferase
Probab=38.58 E-value=4.3e+02 Score=29.12 Aligned_cols=104 Identities=9% Similarity=0.011 Sum_probs=54.7
Q ss_pred CCChHHhhh-------CCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhc
Q 002454 673 VTDIQSLKS-------GNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKY 745 (920)
Q Consensus 673 i~s~~dL~~-------s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~ 745 (920)
+++++||.. ..++|++.--....+||.+. +....+++.... .-|. +..-|-.|+.++-.....-+..+.
T Consensus 179 ~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~~~-Gv~~v~Iv~l~G-AvE~--AP~lGlADaIvDIVsTGtTLraNg 254 (403)
T PLN02245 179 INSLKELAQMPQWTEERPLRVVTGFTYLGPKFMKDN-GFKHVTFSTADG-ALEA--APAMGIADAILDLVSSGTTLRENN 254 (403)
T ss_pred cCCHHHhcccccccccCceEEEeCCHHHHHHHHHHc-CCCeEEEEECcC-ceec--ccccCchhhhcchhccHHHHHHCC
Confidence 688899864 22788887777888898875 232234554444 1121 334455566554333333222222
Q ss_pred CCceEEe-eeeeecceeeEecCCCc-----chHHHHHHHHhhh
Q 002454 746 CKKYTAI-NTYRFGGLGFAFQRGSP-----IALDISRAILDLS 782 (920)
Q Consensus 746 ~~~~~~~-~~~~~~~~~~~~~k~sp-----~~~~~n~~i~~l~ 782 (920)
+..+. +.+....-.++..+++. -++.++..+.+|.
T Consensus 255 --Lk~i~~~~Il~S~A~LIan~~sl~~~~~~~~~i~~ll~rl~ 295 (403)
T PLN02245 255 --LKEIEGGVVLESQAVLVASRRALLERKGALEVVHEILERLE 295 (403)
T ss_pred --CEEccCceEEEEEEEEEEecchhhcchhHHHHHHHHHHHHH
Confidence 33343 34444555666677653 2234555555543
No 413
>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=38.52 E-value=3.5e+02 Score=25.59 Aligned_cols=69 Identities=12% Similarity=0.036 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+-.+++..+.++. +.+ +.+.. +.-.++.+.+.+|++|+++... +.....+. ..++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~i~--l~~~~--~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~~~ 82 (196)
T cd08457 13 GFLPRFLAAFLRLRPNLH--LSLMG--LSSSQVLEAVASGRADLGIADG---PLEERQGF-LIETRSLPAVVAVPMGH 82 (196)
T ss_pred cccHHHHHHHHHHCCCeE--EEEEe--cCcHHHHHHHHcCCccEEEecc---CCCCCCcE-EEEeccCCeEEEeeCCC
Confidence 55678888888877 444 55543 2346788899999999988632 22222232 35667777887777643
No 414
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of LysR-type regulators CbnR, ClcR and TfdR, which are involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. In soil bacterium Pseudomonas putida, the 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR for activation. TfdR is involved in the activation of tf
Probab=38.17 E-value=1e+02 Score=29.52 Aligned_cols=70 Identities=11% Similarity=0.121 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
++-.+++..+.++. +.+ +++.. +.+..+.+.|.+|++|+++.... . ....+. +.++....++++++....
T Consensus 14 ~~l~~~i~~~~~~~P~v~--l~i~~--~~~~~~~~~l~~~~~Dl~i~~~~--~-~~~~~~-~~~l~~~~~~~v~~~~~p 84 (198)
T cd08446 14 DTVPRLLRAFLTARPDVT--VSLHN--MTKDEQIEALRAGRIHIGFGRFY--P-VEPDIA-VENVAQERLYLAVPKSHP 84 (198)
T ss_pred HHHHHHHHHHHHHCCCeE--EEEee--CCHHHHHHHHHCCCccEEEEecC--C-CCCCce-eEEeeeccEEEEEeCCCC
Confidence 45567788887776 444 55543 46788999999999999985321 1 122222 456778888888877654
No 415
>cd08432 PBP2_GcdR_TrpI_HvrB_AmpR_like The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate domain of LysR-type transcriptional regulators involved in controlling the expression of glutaryl-CoA dehydrogenase (GcdH), S-adenosyl-L-homocysteine hydrolase, cell division protein FtsW, tryptophan synthase, and beta-lactamase. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex compris
Probab=38.06 E-value=1.8e+02 Score=27.44 Aligned_cols=65 Identities=6% Similarity=-0.029 Sum_probs=39.3
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~ 564 (920)
.+...++..+.+.. +.+ +++... . .+..+.+|++|+++.. .+.....+ .+.++....+++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~~~~~--~---~~~~l~~g~~D~~i~~---~~~~~~~~-~~~~l~~~~~~~v~~~~ 78 (194)
T cd08432 13 RWLIPRLARFQARHPDID--LRLSTS--D---RLVDFAREGIDLAIRY---GDGDWPGL-EAERLMDEELVPVCSPA 78 (194)
T ss_pred HHHHHHhHHHHHHCCCeE--EEEEec--C---CccccccccccEEEEe---cCCCCCCc-ceEEccCCcEEEecCHH
Confidence 34556677777766 344 555442 1 4567899999998852 22112223 24677778888777653
No 416
>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=38.02 E-value=74 Score=33.46 Aligned_cols=80 Identities=6% Similarity=0.153 Sum_probs=49.5
Q ss_pred EEEEEEEeC--CCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 169 RVAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
||++|..+- .|- ..+...+.+.+++.| ..+... ..... ......+.+..+...++|.||+..++.....
T Consensus 1 ~i~~i~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~--~~~~~----~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWS--NAQVRGAKDEFAKLG-IEVVAT--TDAQF----DPAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHH--HHHHHHHHHHHHHcC-CEEEEe--cCCCC----CHHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 356666542 343 556677888888998 776522 11111 1233456677777778998888344434456
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
..++++.+.|.
T Consensus 72 ~~i~~~~~~~i 82 (294)
T cd06316 72 AAYKKVAEAGI 82 (294)
T ss_pred HHHHHHHHcCC
Confidence 77888888876
No 417
>PF01379 Porphobil_deam: Porphobilinogen deaminase, dipyromethane cofactor binding domain; InterPro: IPR022417 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) []. Porphobilinogen deaminase (also known as hydroxymethylbilane synthase, 2.5.1.61 from EC) functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the polymerisation of four PBG molecules into the tetrapyrrole structure, preuroporphyrinogen, with the concomitant release of four molecules of ammonia. This enzyme uses a unique dipyrro-methane cofactor made from two molecules of PBG, which is covalently attached to a cysteine side chain. The tetrapyrrole product is synthesized in an ordered, sequential fashion, by initial attachment of the first pyrrole unit (ring A) to the cofactor, followed by subsequent additions of the remaining pyrrole units (rings B, C, D) to the growing pyrrole chain []. The link between the pyrrole ring and the cofactor is broken once all the pyrroles have been added. This enzyme is folded into three distinct domains that enclose a single, large active site that makes use of an aspartic acid as its one essential catalytic residue, acting as a general acid/base during catalysis [, ]. A deficiency of hydroxymethylbilane synthase is implicated in the neuropathic disease, Acute Intermittent Porphyria (AIP) []. This entry represents the N-terminal domains 1 and 2 of porphobilinogen deaminase, an enzyme involved in tetrapyrrole biosynthesis. The structure of this domain consists of a duplication of two similar intertwined domains with three layers of (a/b/a) each. Porphobilinogen deaminase has a three-domain structure. Domains 1 (N-terminal) and 2 are duplications with the same structure, resembling the transferrins and periplasmic binding proteins. The dipyrromethane cofactor is covalently linked to domain 3 (C-terminal), but is bound by extensive salt-bridges and hydrogen-bonds within the cleft between domains 1 and 2, at a position corresponding to the binding sites for small-molecule ligands in the analogous proteins []. The enzyme has a single catalytic site, and the flexibility between domains is thought to aid elongation of the polypyrrole product in the active-site cleft of the enzyme.; GO: 0033014 tetrapyrrole biosynthetic process; PDB: 1GTK_A 1AH5_A 2YPN_A 1PDA_A 1YPN_A 3EQ1_B 3ECR_A.
Probab=37.80 E-value=1.1e+02 Score=30.41 Aligned_cols=62 Identities=13% Similarity=0.220 Sum_probs=33.2
Q ss_pred CCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhH
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYE 738 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~ 738 (920)
-.+++||.. +.+||+..-.- ...+... .+.-+++.+..+.++-+.++..|+.|+.+.-..-+
T Consensus 111 ~~~l~~Lp~-ga~IGTsS~RR-~aql~~~--~pdl~~~~iRGNv~TRL~KL~~g~~daiiLA~AGL 172 (215)
T PF01379_consen 111 GKSLEDLPK-GARIGTSSLRR-RAQLKRL--RPDLEVVPIRGNVDTRLRKLDEGEYDAIILAAAGL 172 (215)
T ss_dssp TSSCCCS-T-T-EEE---HHH-HHHHHHH---TTSEEE---S-HHHHHHHHHCTS-SEEEEEHHHH
T ss_pred CCChHHCcc-ccccCCCCHHH-HHHHHHh--ccCCeEEEecCCHHHHHHHhcccCCCEEEhhhChh
Confidence 356677753 67777621110 1122332 45567777777799999999999999999865443
No 418
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=37.72 E-value=35 Score=26.62 Aligned_cols=19 Identities=21% Similarity=0.282 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 002454 824 IVYGATSIFCFLLFVIRLL 842 (920)
Q Consensus 824 ~il~~g~~ls~~vf~~E~~ 842 (920)
...++|++++.++.....+
T Consensus 26 ~~f~~G~llg~l~~~~~~~ 44 (68)
T PF06305_consen 26 IAFLLGALLGWLLSLPSRL 44 (68)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344555555555554443
No 419
>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=37.71 E-value=3.6e+02 Score=27.80 Aligned_cols=122 Identities=14% Similarity=0.046 Sum_probs=67.4
Q ss_pred EEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHHHH
Q 002454 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (920)
Q Consensus 35 i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~~~ 112 (920)
=+||.+.... .....+-..|++.|+++.+ .+..+.......+...+.+.+.+++.+ +++.|||...+ ..+..
T Consensus 119 ~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~A~g 192 (269)
T cd06287 119 RQIALIVGSARRNSYLEAEAAYRAFAAEHG-----MPPVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVPVD-AFAVG 192 (269)
T ss_pred CcEEEEeCCcccccHHHHHHHHHHHHHHcC-----CCcceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEcCc-HHHHH
Confidence 3577775432 2234556678888877632 222222223334445667778888764 35789997644 44444
Q ss_pred HHHhhccCCc--cE-EeecC-CCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 113 VAEIASRVQV--PI-LSFAA-PAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 113 va~~~~~~~i--P~-is~~~-~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
+...+.+.++ |- ++..+ . +........|-+-.+..+....++..++.+..
T Consensus 193 vl~al~~~gl~vP~dvsvig~~--d~~~~~~~~p~ltti~~~~~~~g~~A~~~l~~ 246 (269)
T cd06287 193 AVRAATELGRAVPDQLRVVTRY--DGLRARTSEPPLTAVDLHLDEVAEQAVDLLFA 246 (269)
T ss_pred HHHHHHHcCCCCCCceEEEecc--CchhhccCCCCcccccCCHHHHHHHHHHHHHH
Confidence 5555555544 41 22222 2 12223444566667778888888887777643
No 420
>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=37.69 E-value=96 Score=32.76 Aligned_cols=79 Identities=11% Similarity=0.053 Sum_probs=49.6
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|+++..+ +.|- ..+...+++++++.| .++... .+... +.....+.++.+...++|.||+..........
T Consensus 2 I~vi~~~~~~~f~--~~i~~gi~~~a~~~g-~~v~~~--~~~~~----d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~ 72 (298)
T cd06302 2 IAFVPKVTGIPYF--NRMEEGAKEAAKELG-VDAIYV--GPTTA----DAAGQVQIIEDLIAQGVDAIAVVPNDPDALEP 72 (298)
T ss_pred EEEEEcCCCChHH--HHHHHHHHHHHHHhC-CeEEEE--CCCCC----CHHHHHHHHHHHHhcCCCEEEEecCCHHHHHH
Confidence 5555543 3444 667788888888888 776532 11111 12344567777777789999883334444567
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
.++++++.|+
T Consensus 73 ~~~~~~~~~i 82 (298)
T cd06302 73 VLKKAREAGI 82 (298)
T ss_pred HHHHHHHCCC
Confidence 7888888776
No 421
>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=37.68 E-value=88 Score=32.30 Aligned_cols=81 Identities=9% Similarity=0.078 Sum_probs=48.4
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
||++|..+ ++|- ..+...+++.+++.| .++.....-... +.....+.+.++...+.|.+|+..++.....
T Consensus 1 ~Igvi~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~~~~~~-----~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFW--QAVKAGAEAAAKELG-VKVTFQGPASET-----DVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHH--HHHHHHHHHHHHHcC-CEEEEecCccCC-----CHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 46777654 3344 667788888888888 776543211011 1233455677777778998888233333335
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
..++.+.+.|.
T Consensus 73 ~~l~~~~~~~i 83 (273)
T cd06310 73 PPLKEAKDAGI 83 (273)
T ss_pred HHHHHHHHCCC
Confidence 67777777665
No 422
>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=37.64 E-value=1.3e+02 Score=31.01 Aligned_cols=81 Identities=9% Similarity=0.063 Sum_probs=48.6
Q ss_pred EEEEEEEeC--CCCCCcchHHHHHHHHhcc---CCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHh
Q 002454 169 RVAAIYEDN--VYGGDSGKLALLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (920)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~~---g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~ 243 (920)
||+++..+. .|- ......+.+.+++. | .++..... .... +.....+.++++...++|.||+...+..
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~~i~~~~~~~~~~g-~~~~l~i~-~~~~----~~~~~~~~~~~~~~~~vdgiIi~~~~~~ 72 (272)
T cd06300 1 KIGLSNSYAGNTWR--AQMLDEFKAQAKELKKAG-LISEFIVT-SADG----DVAQQIADIRNLIAQGVDAIIINPASPT 72 (272)
T ss_pred CeEEeccccCChHH--HHHHHHHHHHHHhhhccC-CeeEEEEe-cCCC----CHHHHHHHHHHHHHcCCCEEEEeCCChh
Confidence 356665432 233 56677788888888 7 64322222 2111 2344567788888789999998333334
Q ss_pred HHHHHHHHHHHcCC
Q 002454 244 MTIHLFTEANRMGL 257 (920)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (920)
.....+..+++.|.
T Consensus 73 ~~~~~l~~~~~~~i 86 (272)
T cd06300 73 ALNPVIEEACEAGI 86 (272)
T ss_pred hhHHHHHHHHHCCC
Confidence 44557778887765
No 423
>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=37.52 E-value=1.5e+02 Score=32.58 Aligned_cols=86 Identities=10% Similarity=0.083 Sum_probs=54.5
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.+.++.++.+++.+|++...+ ..+.+.+.+++.| +++.....+.+.. +.+.+.+.+..+++.++|+|
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~-----~~~~~~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~I 81 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA-----IASGLTDILKPLG-TLVVVFDDVQPNP----DLEDLAAGIRLLREFGPDAV 81 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH-----HHHHHHHHHHHcC-CeEEEEcCcCCCc----CHHHHHHHHHHHHhcCcCEE
Confidence 456777888888999999866542 3566788888887 6654332233322 23567777778888899998
Q ss_pred EEEec-CHhHHHHHHHH
Q 002454 236 IVLQA-SLDMTIHLFTE 251 (920)
Q Consensus 236 i~~~~-~~~~~~~~l~~ 251 (920)
|-+.+ +.-++..++..
T Consensus 82 IavGGGs~~D~aK~ia~ 98 (367)
T cd08182 82 LAVGGGSVLDTAKALAA 98 (367)
T ss_pred EEeCCcHHHHHHHHHHH
Confidence 86222 33444444433
No 424
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=37.48 E-value=1.7e+02 Score=29.74 Aligned_cols=88 Identities=6% Similarity=-0.071 Sum_probs=55.2
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCC
Q 002454 154 QMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (920)
Q Consensus 154 ~~~aia~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~ 231 (920)
.+..+++.+... ..+++.++..+. | .+.+.+.|.+.| ..+.....|..... ..+.......+++.+
T Consensus 103 ~~e~L~~~~~~~~~~~~~vL~~rg~~--~-----r~~l~~~L~~~G-~~v~~~~vY~~~~~----~~~~~~~~~~l~~~~ 170 (240)
T PRK09189 103 DGVRLAETVAAALAPTARLLYLAGRP--R-----APVFEDRLAAAG-IPFRVAECYDMLPV----MYSPATLSAILGGAP 170 (240)
T ss_pred CHHHHHHHHHHhcCCCCcEEEeccCc--c-----cchhHHHHHhCC-CeeEEEEEEEeecC----CCChHHHHHHHhcCC
Confidence 366777777543 556777776443 2 467888999999 88766655543221 011123344455567
Q ss_pred ceEEEEEecCHhHHHHHHHHHHHc
Q 002454 232 SRVFIVLQASLDMTIHLFTEANRM 255 (920)
Q Consensus 232 ~~vii~~~~~~~~~~~~l~~a~~~ 255 (920)
.|+|++ .++..+..|++.....
T Consensus 171 ~d~i~f--~S~~~~~~f~~~~~~~ 192 (240)
T PRK09189 171 FDAVLL--YSRVAARRFFALMRLS 192 (240)
T ss_pred CCEEEE--eCHHHHHHHHHHHhhh
Confidence 888777 5677888888877543
No 425
>cd08481 PBP2_GcdR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold. GcdR is involved in the glutaconate/glutarate-specific activation of the Pg promoter driving expression of a glutaryl-CoA dehydrogenase-encoding gene (gcdH). The GcdH protein is essential for the anaerobic catabolism of many aromatic compounds and some alicyclic and dicarboxylic acids. The structural topology of this substrate-binding domain is most similar to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplas
Probab=37.41 E-value=3e+02 Score=25.86 Aligned_cols=64 Identities=9% Similarity=-0.063 Sum_probs=35.4
Q ss_pred ecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEee--eeeecceeeEecCCCcchHHHHHH
Q 002454 711 PFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAIN--TYRFGGLGFAFQRGSPIALDISRA 777 (920)
Q Consensus 711 ~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~k~sp~~~~~n~~ 777 (920)
.+++ .....+.+..|..-+++-+...... .. ...+..... ......++++.+|+.+....+...
T Consensus 125 ~~~~-~~~~~~~v~~g~Gi~~~p~~~~~~~-~~-~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 190 (194)
T cd08481 125 RFEQ-FSMLAQAAVAGLGVALLPRFLIEEE-LA-RGRLVVPFNLPLTSDKAYYLVYPEDKAESPPVQAF 190 (194)
T ss_pred Eecc-HHHHHHHHHhCCCeEEecHHHHHHH-HH-CCCEEeecCccccCCCeEEEEeCcccccCHHHHHH
Confidence 4566 8888899999886666655333222 22 122222211 223357788888876655544443
No 426
>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=37.13 E-value=2.8e+02 Score=28.06 Aligned_cols=118 Identities=15% Similarity=0.219 Sum_probs=68.5
Q ss_pred CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCc-hHHHHHHHHhhccCCcc
Q 002454 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEETAVVAEIASRVQVP 123 (920)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~-s~~~~~va~~~~~~~iP 123 (920)
+..|+.=..++...+.++|- ..+++. .+..-++. ...+++. .+.+.||.... ...-..+...|...++|
T Consensus 60 ~diG~~Kae~~~~~l~~inP---~~~V~~--~~~~i~~~----~~~~l~~-~~~D~VvdaiD~~~~k~~L~~~c~~~~ip 129 (231)
T cd00755 60 STVGKPKVEVMAERIRDINP---ECEVDA--VEEFLTPD----NSEDLLG-GDPDFVVDAIDSIRAKVALIAYCRKRKIP 129 (231)
T ss_pred hhCCCcHHHHHHHHHHHHCC---CcEEEE--eeeecCHh----HHHHHhc-CCCCEEEEcCCCHHHHHHHHHHHHHhCCC
Confidence 34566555666767777763 344443 33333332 2344553 35667776544 44445688899999999
Q ss_pred EEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHH----HHHcCCe-EEEEEEEeCC
Q 002454 124 ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADL----ARKYNWR-RVAAIYEDNV 178 (920)
Q Consensus 124 ~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~----l~~~~w~-~v~ii~~~~~ 178 (920)
+|+..+.. . ...|.-++...-.......++.. +++.+.+ .+-++|++..
T Consensus 130 ~I~s~g~g--~----~~dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E~ 183 (231)
T cd00755 130 VISSMGAG--G----KLDPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTEP 183 (231)
T ss_pred EEEEeCCc--C----CCCCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCCC
Confidence 99876662 1 23355566654444444444444 4445664 6888887664
No 427
>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=37.00 E-value=75 Score=33.22 Aligned_cols=77 Identities=8% Similarity=0.134 Sum_probs=50.0
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|++|..+ ++|. ..+...+.+++++.| .++... .... .......++++...++|.||+..........
T Consensus 2 Ig~v~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~---~~~~-----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~ 70 (289)
T cd01540 2 IGFIVKQPEEPWF--QTEWKFAKKAAKEKG-FTVVKI---DVPD-----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPA 70 (289)
T ss_pred eeeecCCCCCcHH--HHHHHHHHHHHHHcC-CEEEEc---cCCC-----HHHHHHHHHHHHHcCCCEEEEccCchhhhHH
Confidence 5666654 3344 566778888999999 776532 1111 1334567777877889999883333344567
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
+++++++.|.
T Consensus 71 ~~~~~~~~~i 80 (289)
T cd01540 71 IVAKAKAYNM 80 (289)
T ss_pred HHHHHHhCCC
Confidence 7888888876
No 428
>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=36.83 E-value=73 Score=32.13 Aligned_cols=93 Identities=13% Similarity=0.159 Sum_probs=61.8
Q ss_pred ccCchHHHHHHHHHHHH-cCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHh
Q 002454 148 ASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (920)
Q Consensus 148 ~p~~~~~~~aia~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (920)
.|+...-+..+++.+.. ...+++.++..+.. ...+.+.|++.| .++.....|.. . ....-......
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~-------~~~l~~~L~~~g-~~v~~~~vY~~-~----~~~~~~~~~~~ 163 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEGG-------RPDLPEKLREAG-IEVTEVIVYET-P----PEELSPELKEA 163 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSSS-------CHHHHHHHHHTT-EEEEEEECEEE-E----EHHHHHHHHHH
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCc-------cHHHHHHHHHCC-CeEEEEEEeec-c----cccchHHHHHH
Confidence 45434456778887764 44478777775543 356888999999 88777666654 2 12333444555
Q ss_pred hccCCceEEEEEecCHhHHHHHHHHHHHc
Q 002454 227 VQDKQSRVFIVLQASLDMTIHLFTEANRM 255 (920)
Q Consensus 227 l~~~~~~vii~~~~~~~~~~~~l~~a~~~ 255 (920)
+...+.++|++ .++..+..+++.+.+.
T Consensus 164 l~~~~~~~v~f--tS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 164 LDRGEIDAVVF--TSPSAVRAFLELLKKN 190 (231)
T ss_dssp HHHTTTSEEEE--SSHHHHHHHHHHSSGH
T ss_pred HHcCCCCEEEE--CCHHHHHHHHHHhHhh
Confidence 66668888776 7888888888887764
No 429
>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=36.76 E-value=78 Score=32.69 Aligned_cols=55 Identities=18% Similarity=0.152 Sum_probs=31.5
Q ss_pred ccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE
Q 002454 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (920)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii 102 (920)
.+|+||+..... ... ++.+.+..-+ ..|++++++.+++...+..|.. ...+++-+
T Consensus 18 ~~l~vG~~~~~~---~~~----~~~~~~~~~~-~~G~~Ve~~~f~d~~~~~~Al~-------~G~ID~~~ 72 (258)
T TIGR00363 18 LHIKVGVISGAE---QQV----AEVAAKVAKE-KYGLDVELVEFNDYALPNEAVS-------KGDLDANA 72 (258)
T ss_pred CcEEEEeCCCCh---HHH----HHHHHHHHHH-hcCCEEEEEEeCCcHHHHHHHH-------cCCCCeEe
Confidence 479999875332 122 2223333211 1489999999987666655542 34676643
No 430
>COG0181 HemC Porphobilinogen deaminase [Coenzyme metabolism]
Probab=36.64 E-value=1.1e+02 Score=32.11 Aligned_cols=57 Identities=18% Similarity=0.247 Sum_probs=37.5
Q ss_pred ChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeec
Q 002454 675 DIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLER 735 (920)
Q Consensus 675 s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~ 735 (920)
++++|-+ |..||+ |....-.+-....+.-+++.+..+.+.-++++.+|++||.++-.
T Consensus 113 ~l~~LP~-Ga~VGT---SSlRR~aql~~~rPdl~i~~lRGNVdTRL~KL~~g~yDAIILA~ 169 (307)
T COG0181 113 DLEELPE-GAVVGT---SSLRRQAQLKALRPDLKIEPLRGNVDTRLRKLDEGEYDAIILAA 169 (307)
T ss_pred chhhCCC-CCcccc---chHHHHHHHHHhCCCCeEEeccCcHHHHHHHhhcCCccHHHHHH
Confidence 4677743 556664 33333222222256667888887799999999999999887643
No 431
>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=36.50 E-value=88 Score=32.53 Aligned_cols=78 Identities=8% Similarity=0.052 Sum_probs=49.5
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|+++..+ ++|. ..+...+.+.+++.| .++... .... ......+.+..+...++|.||+..+..+....
T Consensus 2 igv~~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~---~~~~----~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~ 71 (282)
T cd06318 2 IGFSQYTLNSPFF--AALTEAAKAHAKALG-YELIST---DAQG----DLTKQIADVEDLLTRGVNVLIINPVDPEGLVP 71 (282)
T ss_pred eeEEeccccCHHH--HHHHHHHHHHHHHcC-CEEEEE---cCCC----CHHHHHHHHHHHHHcCCCEEEEecCCccchHH
Confidence 5555543 3344 667788889999999 776532 1111 22334567778888899999883344343456
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
.++.+.+.|.
T Consensus 72 ~i~~~~~~~i 81 (282)
T cd06318 72 AVAAAKAAGV 81 (282)
T ss_pred HHHHHHHCCC
Confidence 7788888776
No 432
>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=36.49 E-value=3e+02 Score=24.41 Aligned_cols=64 Identities=9% Similarity=0.049 Sum_probs=40.6
Q ss_pred cchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH----hHHHHHHHHHHHcCCC
Q 002454 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL----DMTIHLFTEANRMGLV 258 (920)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~----~~~~~~l~~a~~~g~~ 258 (920)
.-....+...++..| .++.+--... + ..+.+....+.++++|.+ ++.. ..+..+++++++.|..
T Consensus 13 ~lG~~~~~~~l~~~G-~~vi~lG~~v-------p---~e~~~~~a~~~~~d~V~i-S~~~~~~~~~~~~~~~~L~~~~~~ 80 (122)
T cd02071 13 DRGAKVIARALRDAG-FEVIYTGLRQ-------T---PEEIVEAAIQEDVDVIGL-SSLSGGHMTLFPEVIELLRELGAG 80 (122)
T ss_pred HHHHHHHHHHHHHCC-CEEEECCCCC-------C---HHHHHHHHHHcCCCEEEE-cccchhhHHHHHHHHHHHHhcCCC
Confidence 334667777888899 8876533221 1 234455566778999988 6543 4556667777777663
No 433
>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=36.39 E-value=96 Score=31.55 Aligned_cols=78 Identities=14% Similarity=0.167 Sum_probs=49.9
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
+++++... ..+. ..+...+++++++.| +++..... .. ..+...+.++++.+.++|.+|+..+......
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~l~~~~~---~~----~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFF--AQVLKGIEEAAKAAG-YQVLLANS---QN----DAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHH--HHHHHHHHHHHHHcC-CeEEEEeC---CC----CHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 36677764 4455 777888888899988 77654321 11 1244566777777778998888444444433
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
.+..+.+.+.
T Consensus 71 -~~~~l~~~~i 80 (264)
T cd01537 71 -IVKLARKAGI 80 (264)
T ss_pred -HHHHhhhcCC
Confidence 5677777665
No 434
>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=36.37 E-value=1.1e+02 Score=31.50 Aligned_cols=78 Identities=6% Similarity=0.071 Sum_probs=49.1
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|+++..+ +.|. ..+...+.+.+++.| .++.... .. . ......+.+..+.+.++|.+|+..........
T Consensus 2 i~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~i~~--~~-~----~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFY--IELANAMKEEAKKQK-VNLIVSI--AN-Q----DLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHH--HHHHHHHHHHHHhcC-CEEEEec--CC-C----CHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 4555554 3344 677788888899998 7764421 11 1 12344566777777799999883333344456
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
.++++++.|+
T Consensus 72 ~~~~~~~~~i 81 (267)
T cd06322 72 AIAKAKKAGI 81 (267)
T ss_pred HHHHHHHCCC
Confidence 6788888775
No 435
>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=36.29 E-value=57 Score=28.87 Aligned_cols=89 Identities=16% Similarity=0.173 Sum_probs=47.6
Q ss_pred eEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|+++++...++.+ .+...+-+.+.+.| .++... -|..... +. ....+-+.++ ....|.+++ ...++....
T Consensus 1 ksiAVvGaS~~~~---~~g~~v~~~l~~~G-~~v~~V--np~~~~i-~G-~~~y~sl~e~-p~~iDlavv-~~~~~~~~~ 70 (116)
T PF13380_consen 1 KSIAVVGASDNPG---KFGYRVLRNLKAAG-YEVYPV--NPKGGEI-LG-IKCYPSLAEI-PEPIDLAVV-CVPPDKVPE 70 (116)
T ss_dssp -EEEEET--SSTT---SHHHHHHHHHHHTT--EEEEE--STTCSEE-TT-EE-BSSGGGC-SST-SEEEE--S-HHHHHH
T ss_pred CEEEEEcccCCCC---ChHHHHHHHHHhCC-CEEEEE--CCCceEE-Cc-EEeeccccCC-CCCCCEEEE-EcCHHHHHH
Confidence 5678887665533 34455666666677 665432 1221100 00 0111122222 358999999 999999999
Q ss_pred HHHHHHHcCCCCCCeEEEEecc
Q 002454 248 LFTEANRMGLVGKDSVWIVTNT 269 (920)
Q Consensus 248 ~l~~a~~~g~~~~~~~~i~t~~ 269 (920)
+++++.+.|.. .+|+.+..
T Consensus 71 ~v~~~~~~g~~---~v~~~~g~ 89 (116)
T PF13380_consen 71 IVDEAAALGVK---AVWLQPGA 89 (116)
T ss_dssp HHHHHHHHT-S---EEEE-TTS
T ss_pred HHHHHHHcCCC---EEEEEcch
Confidence 99999999854 48888763
No 436
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=36.12 E-value=79 Score=28.81 Aligned_cols=68 Identities=10% Similarity=0.167 Sum_probs=42.9
Q ss_pred HhhcCCeEEEEcCCch--HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 92 LINKEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 92 li~~~~v~aiiGp~~s--~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
|-..+++.+++|.... .....+..++++.++|+++.... ...-...+|++.-..... ......+++.+
T Consensus 8 L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~---kg~i~~~hp~~~G~~g~~--~~~~~~~~l~~ 77 (137)
T PF00205_consen 8 LSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG---KGVIPEDHPLFLGYLGLF--GSPAANEALEQ 77 (137)
T ss_dssp HHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG---TTSSTTTSTTEEEESCGG--SCHHHHHHHHH
T ss_pred HHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc---ccccCCCCchhcccCCcc--CCHHHHHHhcC
Confidence 3345789999998766 77888999999999999877655 222334457665533221 13344555544
No 437
>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=36.12 E-value=3.5e+02 Score=27.82 Aligned_cols=115 Identities=15% Similarity=0.165 Sum_probs=65.6
Q ss_pred ccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
+.-+||++.+.....+.....+++.++++. |.++..... .+.....+.+.+++. ++.+|+.+........
T Consensus 130 g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~-----g~~~~~~~~---~~~~~~~~~~~~~~~--~~dai~~~~d~~a~~~ 199 (281)
T cd06325 130 DAKTVGVLYNPSEANSVVQVKELKKAAAKL-----GIEVVEATV---SSSNDVQQAAQSLAG--KVDAIYVPTDNTVASA 199 (281)
T ss_pred CCcEEEEEeCCCCccHHHHHHHHHHHHHhC-----CCEEEEEec---CCHHHHHHHHHHhcc--cCCEEEEcCchhHHhH
Confidence 456788887654333555567777766552 444433221 122334556666654 3577887655433222
Q ss_pred ---HHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 113 ---VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 113 ---va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
+.......++|++++... +. ..|-+.....+...+++..++++.+
T Consensus 200 ~~~~~~~~~~~~ipvig~d~~---~~----~~~~l~tv~~~~~~~G~~a~~~l~~ 247 (281)
T cd06325 200 MEAVVKVANEAKIPVIASDDD---MV----KRGGLATYGIDYYELGRQTGKMAAK 247 (281)
T ss_pred HHHHHHHHHHcCCCEEEcCHH---HH----hCCceEEecCCHHHHHHHHHHHHHH
Confidence 222222247998877654 22 2355667777888888888887754
No 438
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=35.90 E-value=3.9e+02 Score=28.78 Aligned_cols=123 Identities=15% Similarity=0.061 Sum_probs=75.0
Q ss_pred EEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceE-EEEEecCCCCHHHHHHHHHHHhhcCC--eEEEEcCCchHHH
Q 002454 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKL-SLQIRDHNRDPFQAATAAQELINKEK--VKVIAGMETWEET 110 (920)
Q Consensus 35 i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l-~~~~~D~~~d~~~a~~~a~~li~~~~--v~aiiGp~~s~~~ 110 (920)
=+||++.... ...+.+-..|+.-|+++.+- .. ...+.....+...+.+++.+++.... +.|||-..+. .+
T Consensus 176 ~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~-----~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD~-~A 249 (333)
T COG1609 176 RRIAFIGGPLDSSASRERLEGYRAALREAGL-----PINPEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCANDL-MA 249 (333)
T ss_pred ceEEEEeCCCccccHhHHHHHHHHHHHHCCC-----CCCcceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEcCcH-HH
Confidence 4577777763 34456667788777777543 22 33344444477788888888886432 7899976554 44
Q ss_pred HHHHHhhccC--CccE-EeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 111 AVVAEIASRV--QVPI-LSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 111 ~~va~~~~~~--~iP~-is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
.-+...+.+. .+|- |+..+.+ +........|-+-.+..+....++..++++..
T Consensus 250 lg~l~~~~~~g~~vP~disviGfD-d~~~~~~~~P~LTTv~~~~~~~G~~A~~~Ll~ 305 (333)
T COG1609 250 LGALRALRELGLRVPEDLSVIGFD-DIELARFLTPPLTTVRQPIEELGRRAAELLLE 305 (333)
T ss_pred HHHHHHHHHcCCCCCCeeEEEEec-ChhhhhhCCCCCeeecCCHHHHHHHHHHHHHH
Confidence 3344334443 3663 4444442 12333445577778888888888888877744
No 439
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=35.58 E-value=1.1e+02 Score=31.50 Aligned_cols=80 Identities=6% Similarity=0.046 Sum_probs=48.2
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
+++|..+ +.|. ..+...+.+++++.| .++.....-.. . +.......+.++.+.++|.+|+..........
T Consensus 2 igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~~~~-~----~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 73 (275)
T cd06320 2 YGVVLKTLSNEFW--RSLKEGYENEAKKLG-VSVDIQAAPSE-G----DQQGQLSIAENMINKGYKGLLFSPISDVNLVP 73 (275)
T ss_pred eeEEEecCCCHHH--HHHHHHHHHHHHHhC-CeEEEEccCCC-C----CHHHHHHHHHHHHHhCCCEEEECCCChHHhHH
Confidence 5666653 3344 666778888898888 77654321111 1 12334456777777789988772333344455
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
.++.+.+.|.
T Consensus 74 ~~~~~~~~~i 83 (275)
T cd06320 74 AVERAKKKGI 83 (275)
T ss_pred HHHHHHHCCC
Confidence 6777777765
No 440
>PRK10852 thiosulfate transporter subunit; Provisional
Probab=35.52 E-value=5.1e+02 Score=27.99 Aligned_cols=19 Identities=16% Similarity=-0.108 Sum_probs=13.8
Q ss_pred HHHHHHHHhcCCeeEEEee
Q 002454 716 EANYIQKFENNTIDSLFLE 734 (920)
Q Consensus 716 ~~~~~~~l~~~~~~a~~~~ 734 (920)
.......+.+|+.|+.+.-
T Consensus 199 ~~a~~~~v~~Ge~Dvgi~y 217 (338)
T PRK10852 199 RGATTTFAERGLGDVLISF 217 (338)
T ss_pred cHHHHHHHHcCCccEEEEe
Confidence 4556667888998887763
No 441
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=35.52 E-value=1.4e+02 Score=32.38 Aligned_cols=82 Identities=9% Similarity=0.003 Sum_probs=52.3
Q ss_pred CeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhH
Q 002454 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (920)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~ 244 (920)
-++|+++..+ +.|. ......+++++++.| .++.....-.. .+.....+.++.+.+.++|.||+.......
T Consensus 46 t~~Igvv~p~~~~~f~--~~~~~gi~~aa~~~G-~~l~i~~~~~~-----~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 46 AWKLCALYPHLKDSYW--LSVNYGMVEEAKRLG-VDLKVLEAGGY-----YNLAKQQQQLEQCVAWGADAILLGAVTPDG 117 (343)
T ss_pred CeEEEEEecCCCchHH--HHHHHHHHHHHHHhC-CEEEEEcCCCC-----CCHHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 4788888865 3344 566778888899999 77655322111 112334567777878899999883444444
Q ss_pred HHHHHHHHHHcCC
Q 002454 245 TIHLFTEANRMGL 257 (920)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (920)
....+ ++++.|.
T Consensus 118 ~~~~l-~~~~~gi 129 (343)
T PRK10936 118 LNPDL-ELQAANI 129 (343)
T ss_pred hHHHH-HHHHCCC
Confidence 44555 7777775
No 442
>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=35.50 E-value=2.8e+02 Score=29.29 Aligned_cols=83 Identities=12% Similarity=0.065 Sum_probs=48.2
Q ss_pred ccEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHH
Q 002454 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEET 110 (920)
Q Consensus 33 ~~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~ 110 (920)
+.++|+++.... ......-..|++.|+++.. +.++.. ......+...+.+.+.+++.. ..+.+|+..... .+
T Consensus 141 g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g----~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~A 214 (305)
T cd06324 141 GRIDLLAISGDPTTPAAILREAGLRRALAEHP----DVRLRQ-VVYAGWSEDEAYEQAENLLKRYPDVRLIWAANDQ-MA 214 (305)
T ss_pred CceeEEEEeCCCCChHHHHHHHHHHHHHHHCC----CceEee-eecCCCCHHHHHHHHHHHHHHCCCccEEEECCch-HH
Confidence 456788776433 2334566778888886532 233322 233445667788888888864 358899976543 33
Q ss_pred HHHHHhhccCC
Q 002454 111 AVVAEIASRVQ 121 (920)
Q Consensus 111 ~~va~~~~~~~ 121 (920)
..+...+.+.+
T Consensus 215 ~g~~~al~~~g 225 (305)
T cd06324 215 FGALRAAKEAG 225 (305)
T ss_pred HHHHHHHHHcC
Confidence 33434444433
No 443
>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=35.49 E-value=86 Score=31.93 Aligned_cols=77 Identities=17% Similarity=0.129 Sum_probs=50.3
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
++++..+ ++|. ..+...+++++++.| +++.... .. . +.....+.++++.+.++|.|++ .........
T Consensus 2 i~~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~--~~-~----~~~~~~~~~~~~~~~~~d~iii-~~~~~~~~~ 70 (264)
T cd06267 2 IGVIVPDISNPFF--AELLRGIEEAAREAG-YSVLLCN--SD-E----DPEKEREALELLLSRRVDGIIL-APSRLDDEL 70 (264)
T ss_pred EEEEECCCCCHHH--HHHHHHHHHHHHHcC-CEEEEEc--CC-C----CHHHHHHHHHHHHHcCcCEEEE-ecCCcchHH
Confidence 5666655 4565 777788888888888 7775432 11 1 1234566777787789999988 444434444
Q ss_pred HHHHHHHcCCC
Q 002454 248 LFTEANRMGLV 258 (920)
Q Consensus 248 ~l~~a~~~g~~ 258 (920)
++.+.+.|..
T Consensus 71 -~~~~~~~~ip 80 (264)
T cd06267 71 -LEELAALGIP 80 (264)
T ss_pred -HHHHHHcCCC
Confidence 7778887763
No 444
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=35.37 E-value=1.1e+02 Score=32.27 Aligned_cols=79 Identities=8% Similarity=0.052 Sum_probs=50.3
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhc--cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhH
Q 002454 169 RVAAIYED--NVYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (920)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~--~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~ 244 (920)
+|++|..+ +.|- ..+...+.+++++ .| .++... +... ........++.+...++|.||+..++...
T Consensus 1 ~Igviv~~~~~~~~--~~~~~gi~~~a~~~~~g-~~~~~~---~~~~----~~~~q~~~i~~l~~~~vdgiii~~~~~~~ 70 (303)
T cd01539 1 KIGVFLYKFDDTFI--SLVRKNLEDIQKENGGK-VEFTFY---DAKN----NQSTQNEQIDTALAKGVDLLAVNLVDPTA 70 (303)
T ss_pred CeEEEeeCCCChHH--HHHHHHHHHHHHhhCCC-eeEEEe---cCCC----CHHHHHHHHHHHHHcCCCEEEEecCchhh
Confidence 36666654 2344 5667788888888 66 555432 2111 22334566777888899988884445555
Q ss_pred HHHHHHHHHHcCC
Q 002454 245 TIHLFTEANRMGL 257 (920)
Q Consensus 245 ~~~~l~~a~~~g~ 257 (920)
....++++++.|+
T Consensus 71 ~~~~~~~~~~~gi 83 (303)
T cd01539 71 AQTVINKAKQKNI 83 (303)
T ss_pred HHHHHHHHHHCCC
Confidence 5778888888776
No 445
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=34.95 E-value=2.4e+02 Score=27.92 Aligned_cols=87 Identities=22% Similarity=0.288 Sum_probs=53.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
-.-+++.++.+ -++|+.|=.......+..+.+..+++|++.| ..+..-....+ +..++. .++. +.|+
T Consensus 21 ~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg-~~v~~L~l~~~------~~~~Ie---~~l~--~~d~ 87 (224)
T COG3340 21 LPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLG-LEVSELHLSKP------PLAAIE---NKLM--KADI 87 (224)
T ss_pred hHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcC-CeeeeeeccCC------CHHHHH---Hhhh--hccE
Confidence 34455555554 4688887544321112447899999999999 77654322221 223332 2233 6788
Q ss_pred EEEEecCHhHHHHHHHHHHHcCC
Q 002454 235 FIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 235 ii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
|++ .+.+...+++++++-|+
T Consensus 88 IyV---gGGNTF~LL~~lke~gl 107 (224)
T COG3340 88 IYV---GGGNTFNLLQELKETGL 107 (224)
T ss_pred EEE---CCchHHHHHHHHHHhCc
Confidence 877 45677888888888887
No 446
>PF15050 SCIMP: SCIMP protein
Probab=34.46 E-value=2.4e+02 Score=24.62 Aligned_cols=10 Identities=10% Similarity=0.587 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 002454 828 ATSIFCFLLF 837 (920)
Q Consensus 828 ~g~~ls~~vf 837 (920)
++.++++++|
T Consensus 19 vS~~lglIly 28 (133)
T PF15050_consen 19 VSVVLGLILY 28 (133)
T ss_pred HHHHHHHHHH
Confidence 3344444444
No 447
>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=34.40 E-value=1.1e+02 Score=31.47 Aligned_cols=80 Identities=6% Similarity=0.017 Sum_probs=49.1
Q ss_pred EEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
+++++..+ +.|. ..+...+++.+++.| .++..... ... +........++.+.+.++|.||+ ........
T Consensus 1 ~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~~~~~~~--~~~---~~~~~~~~~i~~~~~~~vdgiI~-~~~~~~~~ 71 (268)
T cd06306 1 KLCVLYPHLKDAYW--LSVNYGMVEEAKRLG-VSLKLLEA--GGY---PNLAKQIAQLEDCAAWGADAILL-GAVSPDGL 71 (268)
T ss_pred CeEEEcCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEecC--CCC---CCHHHHHHHHHHHHHcCCCEEEE-cCCChhhH
Confidence 36677754 3455 677788888899999 77654321 110 11233456677777789999988 44332222
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
..++++.+.|+
T Consensus 72 ~~~~~~~~~gi 82 (268)
T cd06306 72 NEILQQVAASI 82 (268)
T ss_pred HHHHHHHHCCC
Confidence 25677877776
No 448
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=34.38 E-value=44 Score=37.02 Aligned_cols=59 Identities=15% Similarity=0.203 Sum_probs=46.2
Q ss_pred HHHHhhhhcccCccCcCccchhhhhHHHHHHHHHhccC-cc-cccccchhhHHHHHHHHHHHHHH
Q 002454 592 MFIVWLLEHQSNPEFRGTLKDQISNILWFAFSTIFFSH-RA-NIQSNLTRVVVVLWLFVVFILTS 654 (920)
Q Consensus 592 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~-~~~s~s~Ri~~~~w~~~~lil~~ 654 (920)
+.++++.||-.+.. ....+-.++|++..+|...| ++ .|+..++|++.....++++++++
T Consensus 360 StlvY~~Ek~~~~~----~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlA 420 (477)
T KOG3713|consen 360 STLVYFAEKDEPDT----KFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLA 420 (477)
T ss_pred HHHHHHhhhcCCCC----CCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhh
Confidence 44668888875433 13468889999999998888 55 58999999999999999887765
No 449
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=34.19 E-value=4.6e+02 Score=25.68 Aligned_cols=101 Identities=11% Similarity=0.192 Sum_probs=57.6
Q ss_pred HHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHH
Q 002454 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (920)
Q Consensus 109 ~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (920)
....+..+|+..++|++..... . +.....+.+.+.++..+-+.+-.+..-+.+. ......
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~~---~---------------~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~s--d~~~~~ 105 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEIS---G---------------EEEDEVEDLKELLRKLKEEGVDAVVFGAILS--EYQRTR 105 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeCC---C---------------CchHHHHHHHHHHHHHHHcCCCEEEECcccc--HHHHHH
Confidence 3455667888999998754332 1 1122224555555443211233344433333 445677
Q ss_pred HHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecC
Q 002454 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS 241 (920)
Q Consensus 189 l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~ 241 (920)
+.+...+.| ++..... -. .+-...++++.+.+-+++|+ ...
T Consensus 106 ~e~~~~~~g-l~~~~PL----W~------~~~~~ll~e~~~~g~~~~iv-~v~ 146 (194)
T cd01994 106 VERVCERLG-LEPLAPL----WG------RDQEELLREMIEAGFKAIII-KVA 146 (194)
T ss_pred HHHHHHHcC-CEEEecc----cC------CCHHHHHHHHHHcCCeEEEE-Eec
Confidence 778888888 7654432 22 34456788888888998887 443
No 450
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=34.01 E-value=1.9e+02 Score=30.57 Aligned_cols=55 Identities=16% Similarity=0.183 Sum_probs=42.8
Q ss_pred EEEEecCCCCHHHHHH-HHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEe
Q 002454 72 SLQIRDHNRDPFQAAT-AAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (920)
Q Consensus 72 ~~~~~D~~~d~~~a~~-~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is 126 (920)
++...|+-|+...-.+ ++.+|..+-.+..|||+..|+.+..++.+|...+.|..-
T Consensus 186 ~v~~~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~ 241 (298)
T PRK01045 186 QGPPKDDICYATQNRQEAVKELAPQADLVIVVGSKNSSNSNRLREVAEEAGAPAYL 241 (298)
T ss_pred ccCCCCCcchhhHHHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEE
Confidence 3334788888766644 566777667788999999999999999999998876543
No 451
>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=33.94 E-value=5e+02 Score=26.48 Aligned_cols=122 Identities=10% Similarity=0.076 Sum_probs=65.4
Q ss_pred cEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHHHH
Q 002454 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (920)
Q Consensus 34 ~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~~~ 112 (920)
.-+||++..........-..|++-++++. ++.+..........++..+.+.+.+++.. ..+.||++..+.....
T Consensus 121 ~~~i~~i~g~~~~~~~~R~~g~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g- 195 (271)
T cd06321 121 KGNVAILNGPPVSAVLDRVAGCKAALAKY----PGIKLLSDDQNGKGSRDGGLRVMQGLLTRFPKLDGVFAINDPTAIG- 195 (271)
T ss_pred CceEEEEeCCCCchHHHHHHHHHHHHHhC----CCcEEEeeecCCCCChhhHHHHHHHHHHhCCCCCEEEECCchhHHH-
Confidence 34677775443222345556777777642 23322112234445666677777888764 3578999875543333
Q ss_pred HHHhhccC---CccEEeecCCCCCCCccC----CCCceeEEeccCchHHHHHHHHHHH
Q 002454 113 VAEIASRV---QVPILSFAAPAVTPLSMS----RRWPYLIRMASNDSEQMKCIADLAR 163 (920)
Q Consensus 113 va~~~~~~---~iP~is~~~~~~~~~~~~----~~~~~~~r~~p~~~~~~~aia~~l~ 163 (920)
+...+.+. ++.++++... +.... ...|.+.....+...++...++.+.
T Consensus 196 ~~~al~~~g~~di~v~g~d~~---~~~~~~~~~~~~~~~tti~~~~~~~g~~a~~~l~ 250 (271)
T cd06321 196 ADLAAKQAGRNDIKITSVDGA---PDAEKAILSGNSLIIATAAQDPRAMARKAVEIGY 250 (271)
T ss_pred HHHHHHHcCCCCcEEEEecCC---HHHHHHHhccCCcEEEEecCCHHHHHHHHHHHHH
Confidence 33333343 4555555443 22211 1245555666667777777776653
No 452
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=33.94 E-value=4.8e+02 Score=26.99 Aligned_cols=41 Identities=7% Similarity=0.234 Sum_probs=30.3
Q ss_pred HHHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEeec
Q 002454 87 TAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFA 128 (920)
Q Consensus 87 ~~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~~ 128 (920)
+.+..|. ++++.+++=--++.++.++..+=+++++|+|..-
T Consensus 58 ~i~~~l~-~~~ik~lVIACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 58 EIVDFLL-ERGIKALVIACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred HHHHHHH-HcCCCEEEEecchHHHHHHHHHHHhCCCCEEEec
Confidence 3344444 4568887777777788888888888999999776
No 453
>PF14981 FAM165: FAM165 family
Probab=33.88 E-value=55 Score=22.89 Aligned_cols=32 Identities=16% Similarity=0.084 Sum_probs=24.1
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 002454 816 LHSFWGLYIVYGATSIFCFLLFVIRLLNNSWS 847 (920)
Q Consensus 816 l~~~~g~f~il~~g~~ls~~vf~~E~~~~~~~ 847 (920)
++++--++||++.--++-++.|..-.+|.+++
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~kr 34 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKR 34 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 46777788998888777778888767776654
No 454
>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=33.61 E-value=1.3e+02 Score=31.23 Aligned_cols=82 Identities=11% Similarity=0.018 Sum_probs=48.4
Q ss_pred EEEEEEEeC--CCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 169 RVAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
+++++..+. .|. ..+...+.+++++.| ..+.......... .........+..+.+ ++|.+++.........
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~---~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFY--RELAAALEAAAAAFP-DARIRVRIHFVES---FDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHH--HHHHHHHHHHHhhhh-ccCceEEEEEccC---CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 467777653 344 566777888888877 5443332221111 112334566777777 8999888343434445
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
..++++.+.|.
T Consensus 74 ~~i~~~~~~~i 84 (275)
T cd06307 74 AAVARLAAAGV 84 (275)
T ss_pred HHHHHHHHCCC
Confidence 77888888775
No 455
>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=33.60 E-value=1.2e+02 Score=31.69 Aligned_cols=81 Identities=12% Similarity=0.096 Sum_probs=48.3
Q ss_pred EEEEEEe---CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
+++|..+ ++|. ......+.+.+++.| .++.......... .+.......+..+.+.++|.||+ ........
T Consensus 2 Igvi~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vDgiIv-~~~~~~~~ 74 (280)
T cd06303 2 IAVIYPGQQISDYW--VRNIASFTARLEELN-IPYELTQFSSRPG---IDHRLQSQQLNEALQSKPDYLIF-TLDSLRHR 74 (280)
T ss_pred eeEEecCccHHHHH--HHHHHHHHHHHHHcC-CcEEEEEeccCcc---cCHHHHHHHHHHHHHcCCCEEEE-cCCchhhH
Confidence 6777765 3455 667788888898888 7765432211110 01133345667777789999988 54333334
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
..++.+.+.+.
T Consensus 75 ~~~~~l~~~~~ 85 (280)
T cd06303 75 KLIERVLASGK 85 (280)
T ss_pred HHHHHHHhCCC
Confidence 55666666654
No 456
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=33.59 E-value=5.1e+02 Score=26.09 Aligned_cols=47 Identities=9% Similarity=0.131 Sum_probs=31.2
Q ss_pred hHHHHHHHcCcccEEEeceeeecCcee------eeeeccccccccEEEEEecC
Q 002454 518 DDLINGVYDKTYDAAVGDLTILGNRTE------YVEFTQPYAESGFSMIVPAK 564 (920)
Q Consensus 518 ~~~~~~l~~~~~D~~~~~~~~t~~r~~------~~~fs~p~~~~~~~~iv~~~ 564 (920)
.++-..|..|.+|+++.+.-+-.|... +.-.-..|....+++.+|..
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 567889999999999998877766321 11122355556666667754
No 457
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=33.44 E-value=1.4e+02 Score=33.73 Aligned_cols=24 Identities=17% Similarity=0.293 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhcCCCCceEEEEEe
Q 002454 53 TAMKIAVQNFNSDSRNHKLSLQIR 76 (920)
Q Consensus 53 ~a~~~Av~~iN~~~~g~~l~~~~~ 76 (920)
..++..++++|+..++.+|++...
T Consensus 48 ~~~~~~~~~F~~~~~~i~V~~~~~ 71 (437)
T TIGR03850 48 KMWEEVVEAFEKSHEGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHCCCceEEEEeC
Confidence 467778899999888999998764
No 458
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=32.93 E-value=6.2e+02 Score=26.81 Aligned_cols=197 Identities=14% Similarity=0.062 Sum_probs=92.5
Q ss_pred CcchhH-HHHHHHHHHHHhccccccC-ccCcCCCccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecC
Q 002454 1 MNRFFF-LVLIIASELVFVSPGVESA-STNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (920)
Q Consensus 1 m~r~~~-~~~~~~~~lll~~~~~~~~-~~~~~~~~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~ 78 (920)
|++..+ +.++++...+..||+.... ......+.++++|++-..++..-......+.-.+++- -|.+++..+.
T Consensus 1 m~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~gi~p~e~~~~~~~~~~pl~~~L~~~----lG~~V~~~~a-- 74 (299)
T COG3221 1 MKKKKLLLASAAAVLALAGCCGSSESDAPAAEDPKELRVGIVPTENPTNLIPAWAPLADYLEKE----LGIPVEFFVA-- 74 (299)
T ss_pred CchHHHHHHHHHHHHHHHHhccCCccccccccCCcceEEEEcCCCChHHHHHHHHHHHHHHHHH----hCCceEEEec--
Confidence 544433 3444444444554544332 2223456789999998776433333334443333331 4777777765
Q ss_pred CCCHHHHHHHHHHHhhcCCeE-EEEcCCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHH
Q 002454 79 NRDPFQAATAAQELINKEKVK-VIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKC 157 (920)
Q Consensus 79 ~~d~~~a~~~a~~li~~~~v~-aiiGp~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~a 157 (920)
.|-...+ +.+...+++ |.+||. +...+.--.-..-|+......+ . ...|-.++=+..+.....
T Consensus 75 -~dy~~vi----eal~~g~~D~A~~~~~----a~~~a~~~~~~~e~~~~~~~~d--g---~~~Y~S~~i~~~ds~i~s-- 138 (299)
T COG3221 75 -TDYAAVI----EALRAGQVDIAWLGPS----AYVEAVDRALAGEPLAQTVQKD--G---SPGYYSVIIVRADSPIKS-- 138 (299)
T ss_pred -ccHHHHH----HHHhCCCeeEEecCch----hHHHHHhhcccccceeeeeccC--C---CcceeEEEEEeCCCCcch--
Confidence 2322233 222345777 777775 1111111111344555442221 1 113333333333332222
Q ss_pred HHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCce---EeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 158 IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSE---IQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 158 ia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~---i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
+...+.+++++--.+...| ++--+. .|.+.|.+. .-.+..+. ......+..+.+.+.|+
T Consensus 139 ----l~dlkgk~~af~d~~StSG----~l~P~~-~L~~~g~~d~~~~f~~v~~~---------G~H~~a~~aV~nG~vDv 200 (299)
T COG3221 139 ----LEDLKGKRFAFGDPDSTSG----YLFPLY-YLAKEGGIDPDKFFGEVIFS---------GGHDAAVLAVANGQVDV 200 (299)
T ss_pred ----HHHhcCCeEeccCCCcchh----hHhHHH-HHHHhcCCChhhhhceeecc---------ChHHHHHHHHHcCCceE
Confidence 2267778888776666544 333333 344443021 11111121 12455677777778887
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
-.+
T Consensus 201 a~~ 203 (299)
T COG3221 201 AAV 203 (299)
T ss_pred Eec
Confidence 665
No 459
>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=32.85 E-value=3.7e+02 Score=27.37 Aligned_cols=120 Identities=16% Similarity=0.140 Sum_probs=62.4
Q ss_pred EEEEEEEeCCC--cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHHH
Q 002454 35 TKIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETA 111 (920)
Q Consensus 35 i~IG~i~p~s~--~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~~ 111 (920)
=+|+++..... .....-..|++.++++.+ .+++.+......+...+.+.+.+++.. ..+.+|++..... +.
T Consensus 113 ~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~-a~ 186 (265)
T cd06291 113 KHIAHIGGPNNTVSPTNLRYEGFLDVLKENG-----LEVRIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDLT-AI 186 (265)
T ss_pred cEEEEEccCcccccchHHHHHHHHHHHHHcC-----CCCChheeeccccchHHHHHHHHHHhCCCCCCEEEECChHH-HH
Confidence 35777764432 334556678887776632 112111122222333356677777754 3478898865543 33
Q ss_pred HHHHhhccCC------ccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 112 VVAEIASRVQ------VPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 112 ~va~~~~~~~------iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
.+...+.+.+ +.++++... +.. ....|.+..+..+...++...++.+.+
T Consensus 187 ~~~~al~~~g~~vp~di~v~g~d~~---~~~-~~~~~~~~tv~~~~~~~g~~a~~~l~~ 241 (265)
T cd06291 187 LVLKEAQQRGIRVPEDLQIIGYDGT---KLT-RLYTPELTTIRQPIEEIAKTAVDLLIK 241 (265)
T ss_pred HHHHHHHHcCCCCCcceEEeccCCh---HHH-hhcCCCceeecCCHHHHHHHHHHHHHH
Confidence 4444444443 333443332 222 223344556667777777777776644
No 460
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=32.80 E-value=41 Score=30.46 Aligned_cols=24 Identities=8% Similarity=0.314 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Q 002454 823 YIVYGATSIFCFLLFVIRLLNNSW 846 (920)
Q Consensus 823 f~il~~g~~ls~~vf~~E~~~~~~ 846 (920)
|+++++.+++.+++|++-.++++|
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rR 25 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRR 25 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHH
Confidence 344554444444444433333333
No 461
>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=32.59 E-value=1.8e+02 Score=32.37 Aligned_cols=79 Identities=15% Similarity=0.110 Sum_probs=50.5
Q ss_pred cCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEe-cCHh
Q 002454 165 YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQ-ASLD 243 (920)
Q Consensus 165 ~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~-~~~~ 243 (920)
.+.+++.+|++..-.. .+..+.+.+.|++.| +++.....+.+.. +.+.+.+.+..+++.++|+||-+. ++.-
T Consensus 19 ~~~~k~liVtd~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 91 (398)
T cd08178 19 KGKKRAFIVTDRFMVK--LGYVDKVIDVLKRRG-VETEVFSDVEPDP----SLETVRKGLELMNSFKPDTIIALGGGSPM 91 (398)
T ss_pred cCCCeEEEEcChhHHh--CccHHHHHHHHHHCC-CeEEEecCCCCCc----CHHHHHHHHHHHHhcCCCEEEEeCCccHH
Confidence 3568999888654333 447788999999988 7764332233322 335677788888888999998522 2444
Q ss_pred HHHHHHH
Q 002454 244 MTIHLFT 250 (920)
Q Consensus 244 ~~~~~l~ 250 (920)
++..++.
T Consensus 92 D~AK~iA 98 (398)
T cd08178 92 DAAKIMW 98 (398)
T ss_pred HHHHHHH
Confidence 4444443
No 462
>COG0040 HisG ATP phosphoribosyltransferase [Amino acid transport and metabolism]
Probab=32.54 E-value=3.7e+02 Score=28.11 Aligned_cols=103 Identities=13% Similarity=0.068 Sum_probs=56.3
Q ss_pred CCChHHhhhCCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEe
Q 002454 673 VTDIQSLKSGNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAI 752 (920)
Q Consensus 673 i~s~~dL~~s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ 752 (920)
+.+.+||... .+|++.--....+||+.. ....++...+. .-+ -+-..|-.|+.++-.....-...+.++ ..
T Consensus 107 ~~~~~~l~~~-~rIATkYp~l~~~yf~~~--g~~~~Ii~l~G-svE--~aP~~GlADaIvDivsTG~TLkaNgL~---~i 177 (290)
T COG0040 107 YTSPEDLKGR-LRIATKYPNLARKYFAEK--GIDVEIIKLSG-SVE--LAPALGLADAIVDIVSTGTTLKANGLK---EI 177 (290)
T ss_pred ccChhHhcCC-ceEEEccHHHHHHHHHHc--CceEEEEEccC-cEe--eccccCccceEEEeecCCHhHHHCCCE---EE
Confidence 5788888643 688887667778888765 22334444433 111 223456678887765555544444442 23
Q ss_pred eeeeecceeeEecCCCcch---HHHHHHHHhhhcc
Q 002454 753 NTYRFGGLGFAFQRGSPIA---LDISRAILDLSED 784 (920)
Q Consensus 753 ~~~~~~~~~~~~~k~sp~~---~~~n~~i~~l~e~ 784 (920)
+.+....-.+..++...+. +.+++.+.+++..
T Consensus 178 d~i~~ssa~LI~n~~~~~~~k~~~i~~l~~rl~gv 212 (290)
T COG0040 178 EVIYDSSARLIVNAKASLKDKQELIDQLVTRLKGV 212 (290)
T ss_pred EEEEeeEEEEEeccccccchhHHHHHHHHHHHHHH
Confidence 5344444455555332322 3466666666543
No 463
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=32.36 E-value=4.3e+02 Score=24.84 Aligned_cols=70 Identities=16% Similarity=0.089 Sum_probs=45.8
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQ 565 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~ 565 (920)
.+-.+++..+.+.. +.+ +++.. +..+.++++|.+|++|+++...... ....+ .+.++....++++++...
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~h 83 (195)
T cd08431 13 QPLYPLIAEFYQLNKATR--IRLSE--EVLGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEFVFAVAPNH 83 (195)
T ss_pred HHHHHHHHHHHHHCCCCc--eEEEE--eccchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceEEEEEcCCC
Confidence 56678888888887 566 45543 2346789999999999988632111 11223 246667777887777654
No 464
>PRK09701 D-allose transporter subunit; Provisional
Probab=31.81 E-value=1.8e+02 Score=31.01 Aligned_cols=85 Identities=8% Similarity=0.063 Sum_probs=54.3
Q ss_pred cCCeEEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCH
Q 002454 165 YNWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (920)
Q Consensus 165 ~~w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~ 242 (920)
+.-..++++..+ ++|. ......+.+++++.| .++..... +. . ++.....+.+..+...++|.||+.....
T Consensus 22 ~~~~~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~v~~~~~-~~-~---~~~~~~~~~i~~l~~~~vDgiIi~~~~~ 93 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFW--VDMKKGIEDEAKTLG-VSVDIFAS-PS-E---GDFQSQLQLFEDLSNKNYKGIAFAPLSS 93 (311)
T ss_pred ccCCeEEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CeEEEecC-CC-C---CCHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 555689999865 3454 677788888899988 77654211 11 1 1223445667777777899998833344
Q ss_pred hHHHHHHHHHHHcCC
Q 002454 243 DMTIHLFTEANRMGL 257 (920)
Q Consensus 243 ~~~~~~l~~a~~~g~ 257 (920)
......+.++.+.|+
T Consensus 94 ~~~~~~l~~~~~~gi 108 (311)
T PRK09701 94 VNLVMPVARAWKKGI 108 (311)
T ss_pred HHHHHHHHHHHHCCC
Confidence 444455677777775
No 465
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.59 E-value=4.7e+02 Score=28.59 Aligned_cols=103 Identities=17% Similarity=0.290 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCce
Q 002454 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (920)
Q Consensus 154 ~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~ 233 (920)
-..-+|.++++.||+ +++++.|. |- .+..+.++.-..+.+ +.+.. .+.. .++-.-..+-+.+.++.+.|
T Consensus 117 tc~KlA~y~kkkG~K-~~LvcaDT-FR--agAfDQLkqnA~k~~-iP~yg--syte----~dpv~ia~egv~~fKke~fd 185 (483)
T KOG0780|consen 117 TCTKLAYYYKKKGYK-VALVCADT-FR--AGAFDQLKQNATKAR-VPFYG--SYTE----ADPVKIASEGVDRFKKENFD 185 (483)
T ss_pred eHHHHHHHHHhcCCc-eeEEeecc-cc--cchHHHHHHHhHhhC-CeeEe--cccc----cchHHHHHHHHHHHHhcCCc
Confidence 345588888888887 55565554 32 446677777777766 55433 2222 12333455678888888999
Q ss_pred EEEEEecCH--hHHHHHHHHHHHcC-CCCCCeEEEEec
Q 002454 234 VFIVLQASL--DMTIHLFTEANRMG-LVGKDSVWIVTN 268 (920)
Q Consensus 234 vii~~~~~~--~~~~~~l~~a~~~g-~~~~~~~~i~t~ 268 (920)
+||+ +.++ ..-..++.++++.. ...++.+.+.-|
T Consensus 186 vIIv-DTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmD 222 (483)
T KOG0780|consen 186 VIIV-DTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMD 222 (483)
T ss_pred EEEE-eCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEe
Confidence 9999 7766 34456666666632 333444444333
No 466
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=31.30 E-value=2.3e+02 Score=28.73 Aligned_cols=103 Identities=15% Similarity=0.241 Sum_probs=69.3
Q ss_pred CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHH-HHHHhhccCCcc
Q 002454 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA-VVAEIASRVQVP 123 (920)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~-~va~~~~~~~iP 123 (920)
+..|+.=...|+-.+.+||-. .++...++ +...+...+++. .+.+.||-...+-.+. .+..+|..+++|
T Consensus 79 ~~iGk~Kv~vm~eri~~InP~-----c~V~~~~~----f~t~en~~~~~~-~~~DyvIDaiD~v~~Kv~Li~~c~~~ki~ 148 (263)
T COG1179 79 GDIGKPKVEVMKERIKQINPE-----CEVTAIND----FITEENLEDLLS-KGFDYVIDAIDSVRAKVALIAYCRRNKIP 148 (263)
T ss_pred hhcccHHHHHHHHHHHhhCCC-----ceEeehHh----hhCHhHHHHHhc-CCCCEEEEchhhhHHHHHHHHHHHHcCCC
Confidence 356777788888888888743 44444444 344455667776 4899999877765554 477789999999
Q ss_pred EEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHH
Q 002454 124 ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (920)
Q Consensus 124 ~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~ 163 (920)
+|+..+.+ ....|.-+++.--.....+.+++.++
T Consensus 149 vIss~Gag------~k~DPTri~v~DiskT~~DPLa~~vR 182 (263)
T COG1179 149 VISSMGAG------GKLDPTRIQVADISKTIQDPLAAKVR 182 (263)
T ss_pred EEeecccc------CCCCCceEEeeechhhccCcHHHHHH
Confidence 99987773 24457777776555555555555553
No 467
>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=31.29 E-value=1.7e+02 Score=31.81 Aligned_cols=72 Identities=18% Similarity=0.181 Sum_probs=48.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEE
Q 002454 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (920)
Q Consensus 156 ~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 235 (920)
..+.++++.++ +++.+|++...+ +...+.+.+.+++.| +.+.... +.... +.+.+.+.+..+++.++|+|
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~---~~~~~~v~~~l~~~~-i~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~d~I 81 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL---KKSRPRFEAALAKSI-IVVDVIV-FGGEC----STEEVVKALCGAEEQEADVI 81 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH---HHHHHHHHHHHHhcC-CeeEEEE-cCCCC----CHHHHHHHHHHHHhcCCCEE
Confidence 44667788888 888888765443 345678888888888 6553332 33221 23567777777887899988
Q ss_pred EE
Q 002454 236 IV 237 (920)
Q Consensus 236 i~ 237 (920)
|-
T Consensus 82 Ia 83 (349)
T cd08550 82 IG 83 (349)
T ss_pred EE
Confidence 85
No 468
>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=31.04 E-value=1.6e+02 Score=28.12 Aligned_cols=70 Identities=10% Similarity=0.068 Sum_probs=46.6
Q ss_pred eeeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHHcCcccEEEeceeeecCceeeeeeccccccccEEEEEecCCC
Q 002454 489 GFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKTYDAAVGDLTILGNRTEYVEFTQPYAESGFSMIVPAKQE 566 (920)
Q Consensus 489 G~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~~~~~t~~r~~~~~fs~p~~~~~~~~iv~~~~~ 566 (920)
.+-.+++..+.++. +.+ ++... ++..++.+.|.+|++|+++.. .+.....+. +.++....++++++....
T Consensus 13 ~~l~~~l~~~~~~~P~v~--i~i~~--~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~~~hp 83 (197)
T cd08452 13 EFLPPIVREYRKKFPSVK--VELRE--LSSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLALPKQHP 83 (197)
T ss_pred hHHHHHHHHHHHHCCCcE--EEEEe--cChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEEeCCCc
Confidence 44567788887776 455 55543 456789999999999998852 222223333 356777788888876643
No 469
>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=31.02 E-value=3.4e+02 Score=25.35 Aligned_cols=81 Identities=10% Similarity=0.112 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCce
Q 002454 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (920)
Q Consensus 154 ~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~ 233 (920)
.++.+..|.++++.+++.++-+.-.- ..+.+.+-....-.| +++.... -++..+.+.+-+..+.+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvdD~~A~---D~~~k~~l~ma~P~g-vk~~i~s-----------ve~a~~~l~~~~~~~~~ 76 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVNDEVAN---DELRKTLLKLAAPPG-VKLRIFT-----------VEKAIEAINSPKYDKQR 76 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccC---CHHHHHHHHhhCCCC-CeEEEEE-----------HHHHHHHHhCcCCCCce
Confidence 47788999999999998887665542 345555544444456 6654321 14555566654555678
Q ss_pred EEEEEecCHhHHHHHHH
Q 002454 234 VFIVLQASLDMTIHLFT 250 (920)
Q Consensus 234 vii~~~~~~~~~~~~l~ 250 (920)
++++ .-++..+..+++
T Consensus 77 v~il-~k~~~~~~~l~~ 92 (151)
T cd00001 77 VFLL-FKNPQDVLRLVE 92 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 899998887765
No 470
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=30.99 E-value=3.5e+02 Score=29.86 Aligned_cols=132 Identities=13% Similarity=0.166 Sum_probs=69.8
Q ss_pred hccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCC-CCcchHHHHHHHHhc
Q 002454 117 ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG-GDSGKLALLAEALQN 195 (920)
Q Consensus 117 ~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g-~~~~~~~~l~~~l~~ 195 (920)
...+++|++.++-++ . ...++ ...+ ......+...+++.|.-.-++++.+..+.- +.......+++.+.+
T Consensus 212 ~~~yg~~~~G~sIPa----~---eHS~i-~s~~-~~~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~~~~~~~lk~~i~~ 282 (407)
T cd01569 212 AYYYEDPMAGFSIPA----A---EHSTM-TAWG-RERELEAFRNLLEQFGPGIVSVVSDSYDFWNALTLWGPRLKDEILA 282 (407)
T ss_pred HHhcCCCcccccccH----H---HhHHH-HhCC-CccHHHHHHHHHHHcCCCcEEEEecCccHHHHHHHHHHHHHHHHHh
Confidence 567788877654332 1 11111 1112 133567888899888766677778777643 112234455555555
Q ss_pred cCCceEeEEeecCCCCCCCCChHHHHH-HHHhhcc--------CC-----ceEEEEEecC---HhHHHHHHHHHHHcCCC
Q 002454 196 VSSSEIQSRLVLPPISSISDPKEAVRG-ELKKVQD--------KQ-----SRVFIVLQAS---LDMTIHLFTEANRMGLV 258 (920)
Q Consensus 196 ~g~~~i~~~~~~~~~~~~~~~~~d~~~-~l~~l~~--------~~-----~~vii~~~~~---~~~~~~~l~~a~~~g~~ 258 (920)
.| ..+ .+...++. + .++.. ..+.+.+ ++ +++-|+ .++ ...+..+++.+++.|..
T Consensus 283 ~g-~~l--viRpDSGD----~-~~l~~~~~~~L~~~FG~~~n~kGykvl~~~v~Ii-~gd~ide~~i~~Il~~L~~~G~~ 353 (407)
T cd01569 283 RG-GTL--VIRPDSGD----P-VDIICGVLEILGEIFGGTVNSKGYKVLNPHVRII-QGDGITLERIEEILERLKAKGFA 353 (407)
T ss_pred cC-CcE--EEECCCCC----H-HHHHHHHHHHHHHHhCCcccCCcccccCCceEEE-EcCCCCHHHHHHHHHHHHHCCCc
Confidence 56 565 23333332 2 22222 2222222 12 455555 444 46777788889999987
Q ss_pred CCCeEEEE
Q 002454 259 GKDSVWIV 266 (920)
Q Consensus 259 ~~~~~~i~ 266 (920)
..+..|-.
T Consensus 354 ~dNi~fGv 361 (407)
T cd01569 354 SENIVFGM 361 (407)
T ss_pred cccceEec
Confidence 66444433
No 471
>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=30.96 E-value=1.3e+02 Score=31.04 Aligned_cols=78 Identities=9% Similarity=0.066 Sum_probs=49.9
Q ss_pred EEEEEEe---CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHH
Q 002454 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (920)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~ 246 (920)
|++|..+ ++|. ..+...+.+.+++.| ..+.... ... ..+...+.++.+...++|.||+..+..+...
T Consensus 2 i~vi~p~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~---~~~----~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (275)
T cd06317 2 IGYTQNNVGSHSYQ--TTYNKAFQAAAEEDG-VEVIVLD---ANG----DVARQAAQVEDLIAQKVDGIILWPTDGQAYI 71 (275)
T ss_pred eEEEecccCCCHHH--HHHHHHHHHHHHhcC-CEEEEEc---CCc----CHHHHHHHHHHHHHcCCCEEEEecCCccccH
Confidence 4566644 3465 777788888888999 7765432 111 2234455677777778999888344444445
Q ss_pred HHHHHHHHcCC
Q 002454 247 HLFTEANRMGL 257 (920)
Q Consensus 247 ~~l~~a~~~g~ 257 (920)
..++.+.+.|.
T Consensus 72 ~~l~~~~~~~i 82 (275)
T cd06317 72 PGLRKAKQAGI 82 (275)
T ss_pred HHHHHHHHCCC
Confidence 66788888776
No 472
>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=30.79 E-value=5.2e+02 Score=26.16 Aligned_cols=120 Identities=13% Similarity=0.098 Sum_probs=64.0
Q ss_pred EEEEEEeCCC-cccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHHHHH
Q 002454 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (920)
Q Consensus 36 ~IG~i~p~s~-~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~~~v 113 (920)
+||++.+... .....-..|++.++++.+-. ..... ......+...+.+.+.+++.. +++.||+...+..... +
T Consensus 118 ~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~---~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~-~ 192 (268)
T cd01575 118 RIGFLGARMDDTRAQQRLEGFRAALRAAGLD---PPLVV-TTPEPSSFALGRELLAELLARWPDLDAVFCSNDDLALG-A 192 (268)
T ss_pred cEEEecCCCCcccHHHHHHHHHHHHHHcCCC---CCcee-EeccCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHH-H
Confidence 4677665442 23345556777666554321 11111 112234556777788888754 3588999876544333 3
Q ss_pred HHhhccCC------ccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 114 AEIASRVQ------VPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 114 a~~~~~~~------iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
...+.+.+ +.++++... +.. ....|-+-.+..+...+++..++.+..
T Consensus 193 ~~~l~~~g~~~p~di~vig~d~~---~~~-~~~~~~itti~~~~~~~g~~a~~~l~~ 245 (268)
T cd01575 193 LFECQRRGISVPEDIAIAGFGDL---EIA-AALPPALTTVRTPRREIGRRAAELLLA 245 (268)
T ss_pred HHHHHHhCCCCCcceEEEecCCc---hhh-hccCCCceeeeCCHHHHHHHHHHHHHH
Confidence 33333433 345655544 222 222344555666677777777766644
No 473
>TIGR03730 tungstate_WtpA tungstate ABC transporter binding protein WtpA. Members of this protein family are tungstate (and, more weakly, molybdate) binding proteins of tungstate(/molybdate) ABC transporters, as first characterized in Pyrococcus furiosus. Model seed members and cutoffs, pending experimental evidence for more distant homologs, were chosen such that this model identifies select archaeal proteins, excluding weaker archaeal and all bacterial homologs. Note that this family is homologous to molybdate transporters, and that at least one other family of tungstate transporter binding protein, TupA, also exists.
Probab=30.73 E-value=2.7e+02 Score=29.09 Aligned_cols=72 Identities=13% Similarity=0.025 Sum_probs=41.8
Q ss_pred eeHHHHHHHHHHC-CCccceEEEecCCChhHHHHHHH--cCcccEEEeceeeecCce---eeeeeccccccccEEEEEec
Q 002454 490 FSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVY--DKTYDAAVGDLTILGNRT---EYVEFTQPYAESGFSMIVPA 563 (920)
Q Consensus 490 ~~~dl~~~la~~l-n~~~~~~~~~~~gs~~~~~~~l~--~~~~D~~~~~~~~t~~r~---~~~~fs~p~~~~~~~~iv~~ 563 (920)
..-||.+.+.++. |.+ +++.. |.-..+..++. ...+|+.+..=.-..++. ..++...+|....++++++.
T Consensus 14 ~~~ei~~~Fe~~~~gvk--v~~~~--~gSg~L~~Qi~e~Gap~DVfisAd~~~~~~L~~~g~~~~~~~~a~n~LVL~~~~ 89 (273)
T TIGR03730 14 PFEEMEKEFEAKHPNVD--VQREA--AGSVAAVRKITELGKPADILASADYTLIPQMMIPNYADWYIMFATNEIVLAYTD 89 (273)
T ss_pred HHHHHHHHHHhhCCCce--EEEEe--CcHHHHHHHHHHcCCCeeEEEeCCHHHHHHHHhCCCcCceeeEEcccEEEEEeC
Confidence 3345666666665 777 44433 23355788885 467888765332222222 22344467888899998875
Q ss_pred CC
Q 002454 564 KQ 565 (920)
Q Consensus 564 ~~ 565 (920)
..
T Consensus 90 ~~ 91 (273)
T TIGR03730 90 KS 91 (273)
T ss_pred CC
Confidence 43
No 474
>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=30.57 E-value=3.6e+02 Score=25.21 Aligned_cols=81 Identities=9% Similarity=0.052 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCce
Q 002454 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (920)
Q Consensus 154 ~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~ 233 (920)
.++.+..|.++++.+++.++-+.-.- ..+.+.+-....-.| +++.... -++..+.+.+-...+.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A~---D~~~k~~lkma~P~g-vk~~i~s-----------ve~a~~~l~~~~~~~~~ 77 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVNDDVAN---DEVRQTLMGIVAPTG-FKVRFVS-----------LEKTINVIHKPAYHDQT 77 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccC---CHHHHHHHHhhCCCC-CEEEEEE-----------HHHHHHHHhCcCCCCce
Confidence 46778889999999998888765542 345555554444456 6654321 14455556554555678
Q ss_pred EEEEEecCHhHHHHHHH
Q 002454 234 VFIVLQASLDMTIHLFT 250 (920)
Q Consensus 234 vii~~~~~~~~~~~~l~ 250 (920)
++++ .-++.++..+++
T Consensus 78 v~vl-~k~~~da~~l~~ 93 (151)
T TIGR00854 78 IFLL-FRNPQDVLTLVE 93 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 899998887764
No 475
>COG3181 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.49 E-value=4.6e+02 Score=27.96 Aligned_cols=124 Identities=12% Similarity=0.042 Sum_probs=77.5
Q ss_pred eccCCCCCChHHhh-----hCC-cccccc-cch---HHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeech
Q 002454 667 RRLEPNVTDIQSLK-----SGN-LKVGCV-DDS---FVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERP 736 (920)
Q Consensus 667 ~~~~~~i~s~~dL~-----~s~-~~vg~~-~~~---~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~ 736 (920)
-+...+.+|++||. +.+ +.++.. .|+ .....+.+..+. ..+.+.|+. ..+.+..+..|++++......
T Consensus 128 v~~~s~~~t~~dlv~~~k~~p~~v~~~~~g~Gs~dhl~~~~~~k~~Gi-~~~~Vpy~g-~gea~taLlgg~v~a~~~~~s 205 (319)
T COG3181 128 VRADSPYKTLKDLVAYAKADPGSVIGGGSGLGSADHLAGALFAKAAGI-KITYVPYKG-GGEALTALLGGHVDAGSTNLS 205 (319)
T ss_pred EeCCCCcccHHHHHHHHHhCCCeEEecCCCCCcHHHHHHHHHHHHhCC-ceeEEeecC-ccHHHHHHhcCceeeeecChh
Confidence 44455689999994 233 333332 112 222233333333 556778998 899999999999999988765
Q ss_pred hHHHHHhh-c---------------CCceEEee----eeeecceeeEecCCCc--chHHHHHHHHhhhccchHHHHHH
Q 002454 737 YEKVFLDK-Y---------------CKKYTAIN----TYRFGGLGFAFQRGSP--IALDISRAILDLSEDGRLKTLEE 792 (920)
Q Consensus 737 ~~~~~~~~-~---------------~~~~~~~~----~~~~~~~~~~~~k~sp--~~~~~n~~i~~l~e~G~~~~~~~ 792 (920)
...-+.+. . .+.-+..+ .+.....++..|+|-| ....++.++.++.++..+++..+
T Consensus 206 e~~~~vksG~lr~Lav~s~eRl~~~pdvPT~~E~G~~~~~~~wrgvfap~g~~~e~~~~~~~a~kk~l~s~e~~~~~~ 283 (319)
T COG3181 206 ELLSQVKSGTLRLLAVFSEERLPGLPDVPTLKEQGYDVVMSIWRGVFAPAGTPDEIIAKLSAALKKALASPEWQKRLK 283 (319)
T ss_pred hhhhhhccCceEEEEeechhhcCCCCCCCChHhcCCceeeeeeeEEEeCCCCCHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence 54433321 0 11111111 2335567899999977 99999999999999977654443
No 476
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=30.47 E-value=54 Score=38.95 Aligned_cols=53 Identities=11% Similarity=0.221 Sum_probs=46.5
Q ss_pred hhhhHHHHHHHHHhccC--cccccccchhhHHHHHHHHHHHHHHHhhccccceee
Q 002454 613 QISNILWFAFSTIFFSH--RANIQSNLTRVVVVLWLFVVFILTSSYTASLSSLLT 665 (920)
Q Consensus 613 ~~~~~~~~~~~~l~~~~--~~~~~s~s~Ri~~~~w~~~~lil~~~Yta~L~s~Lt 665 (920)
.+..|+|+.+.+|...| -..+......++.++.++++++|.++..+|+++++.
T Consensus 294 kY~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iq 348 (727)
T KOG0498|consen 294 KYVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQ 348 (727)
T ss_pred HHHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHH
Confidence 47789999999997766 445688889999999999999999999999999873
No 477
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=30.47 E-value=22 Score=28.42 Aligned_cols=17 Identities=24% Similarity=0.266 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHhhccc
Q 002454 832 FCFLLFVIRLLNNSWSH 848 (920)
Q Consensus 832 ls~~vf~~E~~~~~~~~ 848 (920)
+.++|..+.++.|++..
T Consensus 13 f~ifVap~WL~lHY~sk 29 (75)
T PF06667_consen 13 FMIFVAPIWLILHYRSK 29 (75)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 33444445555555443
No 478
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=30.01 E-value=2.4e+02 Score=29.35 Aligned_cols=95 Identities=13% Similarity=0.146 Sum_probs=65.9
Q ss_pred ceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHH
Q 002454 142 PYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVR 221 (920)
Q Consensus 142 ~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~ 221 (920)
.++++-.. .+..++++.++.+.+|.+.+-+|-+.++ .+.+++.|+..| ...+..+. +-..
T Consensus 162 D~vIQNga-nS~VG~~ViQlaka~GiktinvVRdR~~-------ieel~~~Lk~lG-A~~ViTee-----------el~~ 221 (354)
T KOG0025|consen 162 DSVIQNGA-NSGVGQAVIQLAKALGIKTINVVRDRPN-------IEELKKQLKSLG-ATEVITEE-----------ELRD 221 (354)
T ss_pred CeeeecCc-ccHHHHHHHHHHHHhCcceEEEeecCcc-------HHHHHHHHHHcC-CceEecHH-----------Hhcc
Confidence 46666555 4567899999999999999999987765 678899999999 66544321 1112
Q ss_pred HHHHhhc--cCCceEEEEEecCHhHHHHHHHHHHHcCC
Q 002454 222 GELKKVQ--DKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (920)
Q Consensus 222 ~~l~~l~--~~~~~vii~~~~~~~~~~~~l~~a~~~g~ 257 (920)
....+.+ ..+++.-+- +..+..+..+.+.+.+-|.
T Consensus 222 ~~~~k~~~~~~~prLalN-cVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 222 RKMKKFKGDNPRPRLALN-CVGGKSATEIARYLERGGT 258 (354)
T ss_pred hhhhhhhccCCCceEEEe-ccCchhHHHHHHHHhcCce
Confidence 2233332 235665555 6777888888888888765
No 479
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=29.93 E-value=6.4e+02 Score=26.69 Aligned_cols=47 Identities=13% Similarity=0.045 Sum_probs=28.2
Q ss_pred chHHHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccC
Q 002454 151 DSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVS 197 (920)
Q Consensus 151 ~~~~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g 197 (920)
....+..+++..+..|..-+.++..-..-.+.++..+.++...++.+
T Consensus 84 ~t~eai~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~~ 130 (299)
T COG0329 84 STAEAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAVD 130 (299)
T ss_pred cHHHHHHHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhcC
Confidence 44456667777777777777666554432223555666666666655
No 480
>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=29.77 E-value=5.2e+02 Score=26.16 Aligned_cols=118 Identities=11% Similarity=0.082 Sum_probs=59.1
Q ss_pred cEEEEEEEeCC-CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEEcCCchHHHHH
Q 002454 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (920)
Q Consensus 34 ~i~IG~i~p~s-~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aiiGp~~s~~~~~ 112 (920)
.-+|+++.... ......-..|+..++++- +.++... .....+...+.+.+.+++..+.+.+|+.+... .+..
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~-----~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~ai~~~~d~-~a~g 188 (264)
T cd01574 116 HRTIAHVAGPEEWLSARARLAGWRAALEAA-----GIAPPPV-LEGDWSAESGYRAGRELLREGDPTAVFAANDQ-MALG 188 (264)
T ss_pred CCEEEEEecCCccchHHHHHHHHHHHHHHC-----CCCccee-eecCCCHHHHHHHHHHHHhCCCCcEEEEcCcH-HHHH
Confidence 34677664432 122344556777766531 2333222 22334556667777777765558899987543 3333
Q ss_pred HHHhhccCC------ccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHH
Q 002454 113 VAEIASRVQ------VPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (920)
Q Consensus 113 va~~~~~~~------iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l 162 (920)
+...+.+.+ +.++++... +.. ....|-+-....+...+++..++.+
T Consensus 189 ~~~~~~~~g~~ip~~i~ii~~d~~---~~~-~~~~~~~~ti~~~~~~~g~~a~~~l 240 (264)
T cd01574 189 VLRALHELGLRVPDDVSVVGFDDI---PES-AYFIPPLTTVRQDFAALGRRAVELL 240 (264)
T ss_pred HHHHHHHcCCCCccceEEecccCc---hHH-hccCCCcceeeCCHHHHHHHHHHHH
Confidence 444444433 344555433 211 1122334444555556666666555
No 481
>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=29.68 E-value=1.6e+02 Score=30.21 Aligned_cols=78 Identities=10% Similarity=0.073 Sum_probs=46.3
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
|+++..+ +.|. ..+...+++++++.| .++..... .. . ........++.+.+.+.|.+|+..+.. ....
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~-~----~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYV--SEIQLGALDACRDTG-YQLVIEPC-DS-G----SPDLAERVRALLQRSRVDGVILTPPLS-DNPE 71 (270)
T ss_pred EEEEEcCCCcccH--HHHHHHHHHHHHhCC-CeEEEEeC-CC-C----chHHHHHHHHHHHHCCCCEEEEeCCCC-CccH
Confidence 4566644 3466 777888889999988 77654321 11 1 112334455556667889888733332 2345
Q ss_pred HHHHHHHcCC
Q 002454 248 LFTEANRMGL 257 (920)
Q Consensus 248 ~l~~a~~~g~ 257 (920)
.++.+.+.|.
T Consensus 72 ~~~~~~~~~i 81 (270)
T cd01545 72 LLDLLDEAGV 81 (270)
T ss_pred HHHHHHhcCC
Confidence 6677777665
No 482
>PLN02522 ATP citrate (pro-S)-lyase
Probab=29.56 E-value=9.3e+02 Score=28.40 Aligned_cols=197 Identities=11% Similarity=0.083 Sum_probs=107.2
Q ss_pred cEEEEEEEeCC----------CcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCC--eEEE
Q 002454 34 VTKIGAIVDAN----------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEK--VKVI 101 (920)
Q Consensus 34 ~i~IG~i~p~s----------~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~--v~ai 101 (920)
+-..|.+.|.+ ...|......++-|+++. ++....+++.- |..+.+++.+.+...+ ..+|
T Consensus 38 ~~~~~~~~~~~~~~~~~~~g~~~~~iPVf~tv~eA~~~~----~~~~~~vifvp----~~~a~da~lEa~~a~GIk~~VI 109 (608)
T PLN02522 38 PSVAGIINPGSEGFQKLFFGQEEIAIPVHGSIEAACKAH----PTADVFINFAS----FRSAAASSMEALKQPTIRVVAI 109 (608)
T ss_pred CeeEEEEcCCCCcceeEecCCEeeCccccchHHHHHHhC----CCCcEEEEeCC----hHHhHHHHHHHHhhCCCCEEEE
Confidence 45567778844 123567788888888763 23344444443 2233333333333233 3444
Q ss_pred Ec-CCchHHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHcCCeEEEEEEEeCCCC
Q 002454 102 AG-METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG 180 (920)
Q Consensus 102 iG-p~~s~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~~w~~v~ii~~~~~~g 180 (920)
|. .........+..++++.++.+|.|.+... ..... +++.-........+. -..+.--+|++|......
T Consensus 110 iteGfpe~d~~~l~~~Ar~~g~rlIGPNc~Gi---i~p~~----~kig~~~~~~~~~~~--~~~~~pG~VgiVSqSGtL- 179 (608)
T PLN02522 110 IAEGVPESDTKQLIAYARANNKVVIGPATVGG---IQAGA----FKIGDTAGTLDNIIQ--CKLYRPGSVGFVSKSGGM- 179 (608)
T ss_pred ECCCCChhhHHHHHHHHHHcCCEEECCCCCee---EccCc----ccccccccccccccC--cCCCCCCcEEEEeccHHH-
Confidence 43 22223356688899999999998887732 11111 111100000000000 012344579999887643
Q ss_pred CCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccC-CceEEEEEec-CHhHHHHHHHHHHHcCC
Q 002454 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQA-SLDMTIHLFTEANRMGL 257 (920)
Q Consensus 181 ~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vii~~~~-~~~~~~~~l~~a~~~g~ 257 (920)
...+.+.+...| +-+...+.+-... +...++.+.|..+.+. ++++|+++.= ...+-..+++.+++...
T Consensus 180 -----~~ei~~~~~~~G-lG~S~~VsiGnd~---~~g~~~~D~L~~~~~Dp~Tk~IvlygEiGg~~e~~f~ea~~~a~~ 249 (608)
T PLN02522 180 -----SNEMYNVIARVT-DGIYEGIAIGGDV---FPGSTLSDHVLRFNNIPQIKMIVVLGELGGRDEYSLVEALKQGKV 249 (608)
T ss_pred -----HHHHHHHHHHcC-CCeEEEEEeCCCC---CCCCCHHHHHHHHhcCCCCCEEEEEEecCchhHHHHHHHHHHhcC
Confidence 345556677767 5554444443322 2235677888887644 8888888333 45677788888887664
No 483
>PRK09271 flavodoxin; Provisional
Probab=29.49 E-value=2.1e+02 Score=26.93 Aligned_cols=86 Identities=8% Similarity=-0.007 Sum_probs=50.2
Q ss_pred EEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecC-------
Q 002454 169 RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS------- 241 (920)
Q Consensus 169 ~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~------- 241 (920)
++.|+|... +|..+.+++.+.+.++..| .++.... +.. .++.+...++ .+.++|++ .++
T Consensus 2 kv~IvY~S~-tGnTe~~A~~ia~~l~~~g-~~v~~~~-~~~--------~~~~~~~~~~--~~~d~vil-gt~T~~~G~~ 67 (160)
T PRK09271 2 RILLAYASL-SGNTREVAREIEERCEEAG-HEVDWVE-TDV--------QTLAEYPLDP--EDYDLYLL-GTWTDNAGRT 67 (160)
T ss_pred eEEEEEEcC-CchHHHHHHHHHHHHHhCC-CeeEEEe-ccc--------ccccccccCc--ccCCEEEE-ECcccCCCcC
Confidence 577888764 4544677888899999888 7654221 111 1111111122 25778877 442
Q ss_pred HhHHHHHHHHHHHcCCCCCCeEEEEec
Q 002454 242 LDMTIHLFTEANRMGLVGKDSVWIVTN 268 (920)
Q Consensus 242 ~~~~~~~l~~a~~~g~~~~~~~~i~t~ 268 (920)
++.+..|+..+.+....++.+..+++.
T Consensus 68 p~~~~~f~~~l~~~~~~~k~~avfgsg 94 (160)
T PRK09271 68 PPEMKRFIAELAETIGKPPNVAVFGTG 94 (160)
T ss_pred CHHHHHHHHHHHHHhccCCeEEEEecC
Confidence 335888888887744444545566554
No 484
>PF11735 CAP59_mtransfer: Cryptococcal mannosyltransferase 1 ; InterPro: IPR021047 The capsule of pathogenic fungi is a complex polysaccharide whose formation is determined by a number of enzymes including, most importantly, alpha-1,3-mannosyltransferase 1 [, ]. It is responsible for addition of mannose residues in an alpha-1,3 linkage to a polymannosly precursor.
Probab=29.42 E-value=2.3e+02 Score=28.87 Aligned_cols=48 Identities=21% Similarity=0.246 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHcCCeEEEE-EEEeCCCCCCcchHHHHHHHHhccCCceEe
Q 002454 154 QMKCIADLARKYNWRRVAA-IYEDNVYGGDSGKLALLAEALQNVSSSEIQ 202 (920)
Q Consensus 154 ~~~aia~~l~~~~w~~v~i-i~~~~~~g~~~~~~~~l~~~l~~~g~~~i~ 202 (920)
.+.++.++++..|-.+|.+ |||++...+..+.+..++..|.+.| +.-.
T Consensus 19 ~~~~ll~li~~LGp~nv~vSIyE~~S~D~T~~~L~~L~~~L~~lg-v~~~ 67 (241)
T PF11735_consen 19 WGDALLELIRFLGPENVFVSIYESGSWDGTKEALRALDAELDALG-VPHS 67 (241)
T ss_pred HHHHHHHHHHHhCcCeEEEEEEeCCCCccHHHHHHHHHHHHHhCC-CCeE
Confidence 4458999999999998887 8998765444677888888889988 5543
No 485
>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=29.32 E-value=96 Score=33.60 Aligned_cols=73 Identities=10% Similarity=0.065 Sum_probs=48.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceE
Q 002454 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (920)
Q Consensus 155 ~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 234 (920)
...+.+.++.++.+++.++++...+. . ..+.+.+.+++.+ ..+- . .+.+.. +.+.+.+.+..+++.++|.
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~--~-~~~~v~~~l~~~~-~~~~-~-~~~~~p----~~~~v~~~~~~~~~~~~d~ 80 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLAT--K-LAERVASALGDRV-AGTF-D-GAVMHT----PVEVTEAAVAAAREAGADG 80 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHH--H-HHHHHHHHhccCC-cEEe-C-CCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 35577888899999999998765442 3 6677788887765 4331 1 122211 3356777777787789999
Q ss_pred EEE
Q 002454 235 FIV 237 (920)
Q Consensus 235 ii~ 237 (920)
||-
T Consensus 81 IIa 83 (337)
T cd08177 81 IVA 83 (337)
T ss_pred EEE
Confidence 886
No 486
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=29.25 E-value=96 Score=29.93 Aligned_cols=30 Identities=17% Similarity=0.285 Sum_probs=25.3
Q ss_pred EEEEcCCchHHHHHHHHhhccCCccEEeec
Q 002454 99 KVIAGMETWEETAVVAEIASRVQVPILSFA 128 (920)
Q Consensus 99 ~aiiGp~~s~~~~~va~~~~~~~iP~is~~ 128 (920)
.+|+||..+.-+-....+++..++|+|+.+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstg 32 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTG 32 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHh
Confidence 579999888887778888888999999743
No 487
>COG0107 HisF Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]
Probab=29.22 E-value=78 Score=31.44 Aligned_cols=47 Identities=21% Similarity=0.280 Sum_probs=38.2
Q ss_pred ceeeeeHHHHHHHHHHCCCccceEEEecCCChhHHHHHHHcCcccEEEe
Q 002454 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKTYDAAVG 534 (920)
Q Consensus 486 ~~~G~~~dl~~~la~~ln~~~~~~~~~~~gs~~~~~~~l~~~~~D~~~~ 534 (920)
.-.||++++++.+++..+.. ..-----|+-..+.+.+..+++|.+++
T Consensus 182 tk~GyDl~l~~~v~~~v~iP--vIASGGaG~~ehf~eaf~~~~adAaLA 228 (256)
T COG0107 182 TKAGYDLELTRAVREAVNIP--VIASGGAGKPEHFVEAFTEGKADAALA 228 (256)
T ss_pred cccCcCHHHHHHHHHhCCCC--EEecCCCCcHHHHHHHHHhcCccHHHh
Confidence 66799999999999999988 433333467788999999999998765
No 488
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=29.20 E-value=5.9e+02 Score=25.42 Aligned_cols=93 Identities=13% Similarity=0.049 Sum_probs=52.1
Q ss_pred CCcccccccchHHHHHHHHhcCCCCCceeecCCCHHHHHHHHhcCCeeEEEeechhHHHHHhhcCCceEEeeeeeeccee
Q 002454 682 GNLKVGCVDDSFVKKYLEEVLGFRSGNIVPFGNTEANYIQKFENNTIDSLFLERPYEKVFLDKYCKKYTAINTYRFGGLG 761 (920)
Q Consensus 682 s~~~vg~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 761 (920)
.+++|++.--....+||.+. +. ..+++.... .-+. +-..|-.|+.++-.....-...+.. .+.+.+....-.
T Consensus 114 ~~~rIATkYp~it~~yf~~~-gv-~~~iv~l~G-svE~--aP~~GlAD~IvDivsTG~TLr~NgL---~~ie~Il~s~A~ 185 (215)
T PRK01686 114 PRLRVATKYPNIARRYFAEK-GE-QVEIIKLYG-SVEL--APLVGLADAIVDIVETGNTLRANGL---VEVEEIMDISAR 185 (215)
T ss_pred CCCEEEeCCHHHHHHHHHHc-CC-eEEEEECcC-ceee--ccccCCccEEEEeecChHHHHHCcC---EEeeEEEeeEEE
Confidence 36888887777888898876 22 244554444 2222 3345667777765545444333332 333434445556
Q ss_pred eEecCCCc--chHHHHHHHHhhh
Q 002454 762 FAFQRGSP--IALDISRAILDLS 782 (920)
Q Consensus 762 ~~~~k~sp--~~~~~n~~i~~l~ 782 (920)
+..++.|. -.+.++..+.++.
T Consensus 186 LI~n~~s~~~k~~~i~~l~~~l~ 208 (215)
T PRK01686 186 LIVNRASLKLKREEIRPLIEKLR 208 (215)
T ss_pred EEEecccchhhHHHHHHHHHHHH
Confidence 77777765 2345666665553
No 489
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=29.18 E-value=1.8e+02 Score=30.31 Aligned_cols=55 Identities=15% Similarity=0.133 Sum_probs=30.1
Q ss_pred ccEEEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhcCCeEEEE
Q 002454 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (920)
Q Consensus 33 ~~i~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~~~v~aii 102 (920)
.+|+||+..... .. -.+++.+... +..|++++++..++...+..|.. .-.+++-+
T Consensus 32 ~tLkVG~~~~~~----~~---~~e~a~~~~k-~~~G~~Velv~fsd~~~~n~AL~-------~G~ID~n~ 86 (272)
T PRK09861 32 KHIKVGVINGAE----QD---VAEVAKKVAK-EKYGLDVELVGFSGSLLPNDATN-------HGELDANV 86 (272)
T ss_pred CcEEEEEcCCch----HH---HHHHHHHHHH-HcCCCeEEEEecCchhhHHHHHH-------cCCcceeh
Confidence 479999875322 11 2222223222 22489999997766555544432 34566655
No 490
>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=29.05 E-value=2.4e+02 Score=29.24 Aligned_cols=80 Identities=10% Similarity=0.012 Sum_probs=50.1
Q ss_pred eEEEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHH
Q 002454 168 RRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (920)
Q Consensus 168 ~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (920)
++++++..+ ++|- ..+...+.+.+++.| .++.... .. ++.+...+.+..+...+.|.||+.....+..
T Consensus 1 ~~ig~i~~~~~~~~~--~~~~~gi~~~a~~~g-y~~~~~~--~~-----~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~ 70 (280)
T cd06315 1 KNIIFVASDLKNGGI--LGVGEGVREAAKAIG-WNLRILD--GR-----GSEAGQAAALNQAIALKPDGIVLGGVDAAEL 70 (280)
T ss_pred CeEEEEecccCCcHH--HHHHHHHHHHHHHcC-cEEEEEC--CC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHH
Confidence 457777764 2343 567788888899988 7764421 11 1224445678888888999999833333323
Q ss_pred HHHHHHHHHcCC
Q 002454 246 IHLFTEANRMGL 257 (920)
Q Consensus 246 ~~~l~~a~~~g~ 257 (920)
...++.+.+.+.
T Consensus 71 ~~~~~~~~~~~i 82 (280)
T cd06315 71 QAELELAQKAGI 82 (280)
T ss_pred HHHHHHHHHCCC
Confidence 455666777665
No 491
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=28.97 E-value=4.8e+02 Score=24.33 Aligned_cols=126 Identities=18% Similarity=0.170 Sum_probs=72.9
Q ss_pred HHHHhh-cCCeEEEEcCCch--HHHHHHHHhhccCCccEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHHc
Q 002454 89 AQELIN-KEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY 165 (920)
Q Consensus 89 a~~li~-~~~v~aiiGp~~s--~~~~~va~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~~ 165 (920)
+..+|+ -++...|+||..- +.-..+..+.+.+++|++..+++.. ....+.- -+......++..+++.-
T Consensus 28 ~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~-~~~~~~i--------~~~~~~lh~it~~l~Dp 98 (170)
T COG1880 28 VAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMG-NLIGRGI--------GSEYINLHAITQYLTDP 98 (170)
T ss_pred HHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhc-chhhccc--------ccchhHHHHHHHHhcCC
Confidence 334443 3579999999765 4456688899999999998776632 3333221 13334456777888775
Q ss_pred CCe---------EEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCC---CChHHHHHHHHhhc
Q 002454 166 NWR---------RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSIS---DPKEAVRGELKKVQ 228 (920)
Q Consensus 166 ~w~---------~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~---~~~~d~~~~l~~l~ 228 (920)
+|. -|.++..-..|. ..+++.++... .. ..|.....+-+.+..+ -.++++.+.|+++.
T Consensus 99 ~w~G~dg~g~yDlviflG~~~yy~--sq~Ls~lKhFs-~i--~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 99 NWPGFDGNGNYDLVIFLGSIYYYL--SQVLSGLKHFS-NI--KTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCCCcCCCCCcceEEEEeccHHHH--HHHHHHhhhhh-cc--eEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 554 466666665565 55555555433 21 2344444444443322 23456777777654
No 492
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=28.92 E-value=2.2e+02 Score=29.73 Aligned_cols=55 Identities=18% Similarity=0.152 Sum_probs=42.3
Q ss_pred EEEecCCCCHHHHHH-HHHHHhhcCCeEEEEcCCchHHHHHHHHhhccCCccEEee
Q 002454 73 LQIRDHNRDPFQAAT-AAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (920)
Q Consensus 73 ~~~~D~~~d~~~a~~-~a~~li~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~is~ 127 (920)
+.+.|+=|+...-.+ ++.+|..+-.+..|||+..|+.+..++.+|...+.|..-.
T Consensus 185 ~~~~nTIC~AT~~RQ~a~~~la~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~I 240 (280)
T TIGR00216 185 VPVFNTICYATQNRQDAVKELAPEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYLI 240 (280)
T ss_pred CCCCCCcccccHHHHHHHHHHHhhCCEEEEECCCCCchHHHHHHHHHHhCCCEEEE
Confidence 345687777665544 5667776667889999999999999999999988775543
No 493
>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=28.48 E-value=80 Score=28.11 Aligned_cols=17 Identities=12% Similarity=0.333 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 002454 822 LYIVYGATSIFCFLLFV 838 (920)
Q Consensus 822 ~f~il~~g~~ls~~vf~ 838 (920)
+.+++|+.+++.+++++
T Consensus 67 ~~Ii~gv~aGvIg~Ill 83 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILL 83 (122)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHHHH
Confidence 34444444444444333
No 494
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=28.48 E-value=3.9e+02 Score=25.15 Aligned_cols=85 Identities=7% Similarity=-0.013 Sum_probs=54.0
Q ss_pred cCchH-HHHHHHHHHHHcCCeEEEEEEEeCCCCCCcchHHHHHHHHh-ccCCceEeEEeecCCCCCCCCChHHHHHHHHh
Q 002454 149 SNDSE-QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ-NVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (920)
Q Consensus 149 p~~~~-~~~aia~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~-~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (920)
-+++. .++.+..|.++.+.+++.++-+.-.- ..+.+.+-.... =.| +++.... -++..+.+.+
T Consensus 11 IDdRLIHGQV~~~W~~~~~~~~IiVvdD~vA~---D~~~k~~lkma~~P~g-vk~~i~s-----------v~~a~~~l~~ 75 (158)
T PRK09756 11 IDNRLVHGQVGVTWTSTIGANLLVVVDDVVAN---DDIQQKLMGITAETYG-FGIRFFT-----------IEKTINVIGK 75 (158)
T ss_pred ecccchhHHHHHhhhcccCCCEEEEEcchhcC---CHHHHHHHHhcCCCCC-CEEEEEE-----------HHHHHHHHHh
Confidence 34443 46778899999999998888665542 334444444333 345 5554321 1455566666
Q ss_pred hccCCceEEEEEecCHhHHHHHHH
Q 002454 227 VQDKQSRVFIVLQASLDMTIHLFT 250 (920)
Q Consensus 227 l~~~~~~vii~~~~~~~~~~~~l~ 250 (920)
...+.+++++ .-++.++..+++
T Consensus 76 -~~~~~~vlvl-~~~~~da~~l~~ 97 (158)
T PRK09756 76 -AAPHQKIFLI-CRTPQTVRKLVE 97 (158)
T ss_pred -ccCCceEEEE-ECCHHHHHHHHH
Confidence 5456778888 899998887765
No 495
>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=28.35 E-value=1.7e+02 Score=29.95 Aligned_cols=78 Identities=9% Similarity=-0.013 Sum_probs=48.7
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
++++..+ ++|. ..+...+.+++++.| ..+..... .. +.....+.++++...++|.||+..++.. ...
T Consensus 2 igvv~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~---~~----~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~ 70 (266)
T cd06282 2 VGVVLPSLANPVF--AECVQGIQEEARAAG-YSLLLATT---DY----DAEREADAVETLLRQRVDGLILTVADAA-TSP 70 (266)
T ss_pred eEEEeCCCCcchH--HHHHHHHHHHHHHCC-CEEEEeeC---CC----CHHHHHHHHHHHHhcCCCEEEEecCCCC-chH
Confidence 4555543 3344 667788889999988 77665322 11 1234456777777778999988334432 234
Q ss_pred HHHHHHHcCCC
Q 002454 248 LFTEANRMGLV 258 (920)
Q Consensus 248 ~l~~a~~~g~~ 258 (920)
.++.+.+.|..
T Consensus 71 ~~~~~~~~~ip 81 (266)
T cd06282 71 ALDLLDAERVP 81 (266)
T ss_pred HHHHHhhCCCC
Confidence 67888887763
No 496
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=28.26 E-value=2.2e+02 Score=28.80 Aligned_cols=78 Identities=18% Similarity=0.214 Sum_probs=48.6
Q ss_pred CCeEEEEEEEeCCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHH
Q 002454 166 NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (920)
Q Consensus 166 ~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~ 245 (920)
..+++.++.... ....+.+.+.+.| .++.....+..... ..+....+..+...+.|+|++ .++..+
T Consensus 124 ~~~~ili~~~~~-------~~~~l~~~L~~~G-~~v~~~~~Y~~~~~----~~~~~~~~~~~~~~~~d~ivf--tS~~~v 189 (249)
T PRK05928 124 KGKRVLYLRGNG-------GREVLGDTLEERG-AEVDECEVYERVPP----KLDGAELLARLQSGEVDAVIF--TSPSTV 189 (249)
T ss_pred CCCEEEEECCCC-------CHHHHHHHHHHCC-CEEeEEEEEEeeCC----CCChHHHHHHHHhCCCCEEEE--CCHHHH
Confidence 456777665443 2567888899888 87766555543221 112223344444457888776 788888
Q ss_pred HHHHHHHHHcCC
Q 002454 246 IHLFTEANRMGL 257 (920)
Q Consensus 246 ~~~l~~a~~~g~ 257 (920)
..+++.+.+.+.
T Consensus 190 ~~~~~~~~~~~~ 201 (249)
T PRK05928 190 RAFFSLAPELGR 201 (249)
T ss_pred HHHHHHhcccch
Confidence 888888876653
No 497
>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=28.23 E-value=1.8e+02 Score=29.29 Aligned_cols=78 Identities=14% Similarity=0.120 Sum_probs=49.5
Q ss_pred EEEEEEEeC---CCCCCcchHHHHHHHHhc--cCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHh
Q 002454 169 RVAAIYEDN---VYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (920)
Q Consensus 169 ~v~ii~~~~---~~g~~~~~~~~l~~~l~~--~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~ 243 (920)
+|++|.... .++ ......+++++++ .+ +++.... ... +..+....+.++...+++.+++ .....
T Consensus 1 ~Ig~i~~~~~~~~~~--~~~~~~~~~~~~~~g~~-~~~~~~~--~~~-----~~~~~~~~~~~~~~~~~d~ii~-~~~~~ 69 (269)
T cd01391 1 KIGVLLPLSGSAPFG--AQLLAGIELAAEEIGRG-LEVILAD--SQS-----DPERALEALRDLIQQGVDGIIG-PPSSS 69 (269)
T ss_pred CceEEeecCCCcHHH--HHHHHHHHHHHHHhCCc-eEEEEec--CCC-----CHHHHHHHHHHHHHcCCCEEEe-cCCCH
Confidence 366777643 455 6777888888888 66 5554322 211 2245667777887778999988 44444
Q ss_pred HHHHHHHHHHHcCC
Q 002454 244 MTIHLFTEANRMGL 257 (920)
Q Consensus 244 ~~~~~l~~a~~~g~ 257 (920)
....+...+.+.+.
T Consensus 70 ~~~~~~~~~~~~~i 83 (269)
T cd01391 70 SALAVVELAAAAGI 83 (269)
T ss_pred HHHHHHHHHHHcCC
Confidence 44447777777766
No 498
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=28.20 E-value=5.6e+02 Score=27.61 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=33.0
Q ss_pred eeeHHHHHHHHHHCCCccce-EEEecCCChhHHHHHHHcCcccEEEecee
Q 002454 489 GFSIELFRLVVDHLNYDLPY-EFVPHDGVYDDLINGVYDKTYDAAVGDLT 537 (920)
Q Consensus 489 G~~~dl~~~la~~ln~~~~~-~~~~~~gs~~~~~~~l~~~~~D~~~~~~~ 537 (920)
-+.-.+++.+.+.+|++ . ++.+.+ -.-+...|.+|.+|+......
T Consensus 42 ~~~t~v~~~iLe~~GY~--V~e~~~~~--~~~~~~ala~GdiDv~~~~W~ 87 (331)
T PRK11119 42 TFQTLLVSRALEKLGYD--VNKPKEVD--YNVFYTSIANGDATFTAVNWF 87 (331)
T ss_pred HHHHHHHHHHHHHcCCc--eeeecccC--cHHHHHHHHcCCCeEehhhcc
Confidence 35567888888889998 5 444432 367889999999999876444
No 499
>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=28.08 E-value=1.7e+02 Score=29.89 Aligned_cols=78 Identities=15% Similarity=0.111 Sum_probs=48.0
Q ss_pred EEEEEEe--CCCCCCcchHHHHHHHHhccCCceEeEEeecCCCCCCCCChHHHHHHHHhhccCCceEEEEEecCHhHHHH
Q 002454 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (920)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~i~~~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vii~~~~~~~~~~~ 247 (920)
++++..+ +.|. ..+...+.+++++.| .++... .... +.....+.++++.+.++|.+++..+... ...
T Consensus 2 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~---~~~~----~~~~~~~~i~~~~~~~vdgiii~~~~~~-~~~ 70 (268)
T cd06289 2 IGLVINDLTNPFF--AELAAGLEEVLEEAG-YTVFLA---NSGE----DVERQEQLLSTMLEHGVAGIILCPAAGT-SPD 70 (268)
T ss_pred EEEEecCCCcchH--HHHHHHHHHHHHHcC-CeEEEe---cCCC----ChHHHHHHHHHHHHcCCCEEEEeCCCCc-cHH
Confidence 4556543 3444 667778888888888 776432 1111 1234456777787788999888333333 334
Q ss_pred HHHHHHHcCCC
Q 002454 248 LFTEANRMGLV 258 (920)
Q Consensus 248 ~l~~a~~~g~~ 258 (920)
.++++.+.|..
T Consensus 71 ~~~~~~~~~ip 81 (268)
T cd06289 71 LLKRLAESGIP 81 (268)
T ss_pred HHHHHHhcCCC
Confidence 77788877763
No 500
>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=27.94 E-value=4.6e+02 Score=26.75 Aligned_cols=123 Identities=11% Similarity=0.031 Sum_probs=0.0
Q ss_pred EEEEEEeCCCcccHHHHHHHHHHHHHHhcCCCCceEEEEEecCCCCHHHHHHHHHHHhhc-CCeEEEEcCCchHHHHHHH
Q 002454 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVVA 114 (920)
Q Consensus 36 ~IG~i~p~s~~~g~~~~~a~~~Av~~iN~~~~g~~l~~~~~D~~~d~~~a~~~a~~li~~-~~v~aiiGp~~s~~~~~va 114 (920)
+|+++.+........-..|++.|+++.+-.. ..+.....+...+...+.+.+.+++.. .++.||+.. +...+..+.
T Consensus 111 ~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~ 187 (265)
T cd01543 111 HFAFYGLPGARWSDEREEAFRQLVAEAGYEC--SFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFAC-TDARARQLL 187 (265)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHcCCcc--ccccCccccccccHHHHHHHHHHHHhcCCCCcEEEec-ChHHHHHHH
Q ss_pred HhhccCCc------cEEeecCCCCCCCccCCCCceeEEeccCchHHHHHHHHHHHH
Q 002454 115 EIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (920)
Q Consensus 115 ~~~~~~~i------P~is~~~~~~~~~~~~~~~~~~~r~~p~~~~~~~aia~~l~~ 164 (920)
..+.+.++ -++++... +.......|.+-....+...++...++.+.+
T Consensus 188 ~~l~~~g~~vp~di~vigfd~~---~~~~~~~~~~ltti~~~~~~~g~~a~~~l~~ 240 (265)
T cd01543 188 EACRRAGIAVPEEVAVLGVDND---ELICELSRPPLSSVEQNAERIGYEAAKLLDR 240 (265)
T ss_pred HHHHHhCCCCCCceEEEeeCCc---hhhhccCCCCCceeecCHHHHHHHHHHHHHH
Done!