Query 002309
Match_columns 938
No_of_seqs 443 out of 3959
Neff 9.7
Searched_HMMs 46136
Date Thu Mar 28 21:11:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002309.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002309hhsearch_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 3.8E-95 8E-100 753.8 53.2 780 27-868 22-846 (897)
2 KOG4440 NMDA selective glutama 100.0 5.3E-85 1.1E-89 681.1 39.0 752 25-868 29-858 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 2.5E-77 5.4E-82 646.8 62.3 724 80-864 83-853 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 4.2E-66 9.2E-71 616.2 55.7 596 215-867 5-624 (656)
5 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.8E-47 3.8E-52 418.0 39.0 363 33-421 1-399 (400)
6 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1.4E-46 3.1E-51 420.3 39.2 365 31-421 2-382 (384)
7 cd06374 PBP1_mGluR_groupI Liga 100.0 1.5E-46 3.3E-51 430.8 39.8 375 26-422 4-469 (472)
8 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1.7E-46 3.8E-51 411.2 38.1 355 33-420 1-363 (364)
9 cd06375 PBP1_mGluR_groupII Lig 100.0 4.8E-46 1E-50 422.4 40.7 364 30-416 1-454 (458)
10 cd06361 PBP1_GPC6A_like Ligand 100.0 6.7E-46 1.5E-50 414.0 40.2 347 34-419 2-396 (403)
11 cd06362 PBP1_mGluR Ligand bind 100.0 6.3E-46 1.4E-50 425.7 40.3 370 30-420 1-450 (452)
12 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 2.4E-45 5.1E-50 400.6 39.4 361 33-420 1-371 (372)
13 cd06365 PBP1_Pheromone_recepto 100.0 2.1E-45 4.6E-50 419.0 39.4 367 30-416 1-452 (469)
14 cd06364 PBP1_CaSR Ligand-bindi 100.0 4.1E-45 9E-50 418.9 41.9 374 26-417 7-494 (510)
15 cd06376 PBP1_mGluR_groupIII Li 100.0 6.6E-45 1.4E-49 416.6 40.7 366 30-416 1-452 (463)
16 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2.6E-44 5.7E-49 398.2 39.8 363 33-420 1-398 (400)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 4.1E-44 9E-49 401.8 40.0 372 33-420 1-381 (382)
18 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 9.6E-44 2.1E-48 397.5 40.4 337 28-417 16-364 (377)
19 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3.4E-43 7.3E-48 387.4 39.5 361 33-421 1-370 (371)
20 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 5.7E-43 1.2E-47 386.8 38.5 360 33-421 1-369 (370)
21 cd06366 PBP1_GABAb_receptor Li 100.0 3.5E-43 7.5E-48 390.1 37.0 338 33-422 1-348 (350)
22 cd06386 PBP1_NPR_C_like Ligand 100.0 7.8E-43 1.7E-47 389.8 38.8 350 35-417 3-379 (387)
23 cd06367 PBP1_iGluR_NMDA N-term 100.0 3.7E-43 8.1E-48 391.0 36.0 339 31-416 2-351 (362)
24 cd06363 PBP1_Taste_receptor Li 100.0 2.5E-42 5.3E-47 389.7 39.6 353 27-417 2-396 (410)
25 cd06370 PBP1_Speract_GC_like L 100.0 1.5E-42 3.2E-47 390.7 36.8 352 32-412 1-390 (404)
26 cd06385 PBP1_NPR_A Ligand-bind 100.0 3.9E-42 8.4E-47 388.4 37.7 356 33-418 1-392 (405)
27 cd06372 PBP1_GC_G_like Ligand- 100.0 8.6E-42 1.9E-46 384.0 38.2 356 33-418 1-387 (391)
28 cd06373 PBP1_NPR_like Ligand b 100.0 6.8E-42 1.5E-46 385.5 36.1 357 33-418 1-390 (396)
29 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.5E-41 3.2E-46 378.5 36.9 348 33-414 1-369 (382)
30 cd06352 PBP1_NPR_GC_like Ligan 100.0 5.4E-41 1.2E-45 378.3 37.6 359 33-419 1-384 (389)
31 cd06394 PBP1_iGluR_Kainate_KA1 100.0 6.1E-42 1.3E-46 367.9 28.4 323 33-421 1-332 (333)
32 cd06382 PBP1_iGluR_Kainate N-t 100.0 2.2E-41 4.9E-46 371.5 31.2 316 33-420 1-326 (327)
33 KOG1056 Glutamate-gated metabo 100.0 2E-40 4.4E-45 375.2 37.6 392 26-459 26-494 (878)
34 cd06384 PBP1_NPR_B Ligand-bind 100.0 3.7E-40 8.1E-45 370.9 38.3 356 33-418 1-393 (399)
35 PRK15404 leucine ABC transport 100.0 3.3E-38 7.2E-43 349.8 36.9 340 27-409 21-365 (369)
36 PF01094 ANF_receptor: Recepto 100.0 6E-38 1.3E-42 348.9 32.6 334 48-404 2-348 (348)
37 cd06368 PBP1_iGluR_non_NMDA_li 100.0 8.1E-38 1.8E-42 343.4 31.9 316 33-420 1-323 (324)
38 cd06381 PBP1_iGluR_delta_like 100.0 9.1E-37 2E-41 334.4 36.0 332 33-420 1-362 (363)
39 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 7.9E-37 1.7E-41 337.5 34.4 328 33-403 1-334 (334)
40 cd06346 PBP1_ABC_ligand_bindin 100.0 2.5E-36 5.5E-41 328.7 30.5 303 33-399 1-309 (312)
41 cd06338 PBP1_ABC_ligand_bindin 100.0 5.2E-36 1.1E-40 332.2 33.4 328 33-402 1-344 (345)
42 cd06350 PBP1_GPCR_family_C_lik 100.0 5.1E-36 1.1E-40 332.8 32.4 308 33-417 1-340 (348)
43 cd06345 PBP1_ABC_ligand_bindin 100.0 1E-35 2.2E-40 329.1 33.8 321 33-395 1-338 (344)
44 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 9.9E-36 2.2E-40 325.6 29.7 302 79-421 44-354 (362)
45 cd06348 PBP1_ABC_ligand_bindin 100.0 3.8E-35 8.3E-40 324.7 34.0 334 33-400 1-343 (344)
46 cd06355 PBP1_FmdD_like Peripla 100.0 2.8E-34 6.1E-39 317.2 35.1 337 33-411 1-345 (348)
47 cd06340 PBP1_ABC_ligand_bindin 100.0 1.2E-34 2.6E-39 320.5 31.0 323 33-395 1-341 (347)
48 cd06344 PBP1_ABC_ligand_bindin 100.0 2.2E-34 4.7E-39 316.7 31.4 320 33-396 1-327 (332)
49 COG0683 LivK ABC-type branched 100.0 5.7E-34 1.2E-38 315.3 34.7 339 29-407 8-356 (366)
50 cd06383 PBP1_iGluR_AMPA_Like N 100.0 6.3E-35 1.4E-39 320.5 25.6 330 41-397 7-354 (368)
51 cd06329 PBP1_SBP_like_3 Peripl 100.0 6.1E-34 1.3E-38 314.3 32.3 316 33-392 1-334 (342)
52 TIGR03669 urea_ABC_arch urea A 100.0 2E-33 4.4E-38 310.5 35.3 340 32-415 1-349 (374)
53 cd06343 PBP1_ABC_ligand_bindin 100.0 4.2E-33 9.1E-38 310.8 35.8 343 28-408 3-362 (362)
54 cd06349 PBP1_ABC_ligand_bindin 100.0 3.4E-33 7.3E-38 308.7 33.6 330 33-407 1-339 (340)
55 cd06331 PBP1_AmiC_like Type I 100.0 2.7E-33 5.9E-38 308.3 32.6 320 33-394 1-326 (333)
56 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 1.8E-32 3.9E-37 293.7 37.3 335 28-419 15-373 (382)
57 cd06347 PBP1_ABC_ligand_bindin 100.0 4.2E-33 9E-38 307.8 33.4 320 33-396 1-329 (334)
58 TIGR03407 urea_ABC_UrtA urea A 100.0 9.7E-33 2.1E-37 306.0 35.8 331 32-404 1-338 (359)
59 cd06327 PBP1_SBP_like_1 Peripl 100.0 4.5E-33 9.8E-38 306.7 30.1 318 33-394 1-328 (334)
60 cd06330 PBP1_Arsenic_SBP_like 100.0 1.3E-32 2.9E-37 304.9 32.5 321 33-391 1-334 (346)
61 cd06336 PBP1_ABC_ligand_bindin 100.0 7.1E-33 1.5E-37 306.3 29.9 323 33-397 1-343 (347)
62 cd06359 PBP1_Nba_like Type I p 100.0 2.1E-32 4.7E-37 301.0 33.2 324 33-401 1-331 (333)
63 cd06357 PBP1_AmiC Periplasmic 100.0 8.9E-32 1.9E-36 298.4 36.6 340 33-413 1-348 (360)
64 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 3.3E-32 7.2E-37 299.9 32.0 315 33-416 1-322 (328)
65 cd06328 PBP1_SBP_like_2 Peripl 100.0 5.8E-32 1.3E-36 297.0 33.0 316 33-392 1-325 (333)
66 PF13458 Peripla_BP_6: Peripla 100.0 3.6E-32 7.8E-37 301.6 31.4 334 31-406 1-342 (343)
67 cd06360 PBP1_alkylbenzenes_lik 100.0 1.8E-31 3.8E-36 295.0 34.1 325 33-398 1-332 (336)
68 cd06358 PBP1_NHase Type I peri 100.0 3.1E-31 6.7E-36 291.8 32.1 315 33-392 1-324 (333)
69 cd06356 PBP1_Amide_Urea_BP_lik 100.0 5.1E-31 1.1E-35 289.6 32.9 317 33-392 1-325 (334)
70 cd06334 PBP1_ABC_ligand_bindin 100.0 3.3E-31 7.2E-36 291.7 30.8 330 33-391 1-346 (351)
71 cd06335 PBP1_ABC_ligand_bindin 100.0 5E-31 1.1E-35 291.6 32.3 317 33-391 1-336 (347)
72 KOG1055 GABA-B ion channel rec 100.0 1.4E-32 2.9E-37 300.3 19.3 369 28-418 38-431 (865)
73 cd06332 PBP1_aromatic_compound 100.0 6.5E-30 1.4E-34 282.2 33.7 319 33-395 1-326 (333)
74 PF13433 Peripla_BP_5: Peripla 100.0 1.3E-29 2.7E-34 264.7 29.8 317 32-390 1-324 (363)
75 cd06337 PBP1_ABC_ligand_bindin 100.0 1.2E-29 2.7E-34 281.2 28.4 331 33-408 1-357 (357)
76 cd06326 PBP1_STKc_like Type I 100.0 5.3E-28 1.1E-32 267.2 33.1 318 32-390 1-327 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 1.6E-28 3.5E-33 269.4 25.4 301 33-392 1-328 (336)
78 TIGR03863 PQQ_ABC_bind ABC tra 100.0 1.1E-27 2.4E-32 260.7 25.8 292 45-394 10-307 (347)
79 cd06269 PBP1_glutamate_recepto 100.0 3.9E-27 8.5E-32 255.7 28.7 224 33-264 1-235 (298)
80 cd06341 PBP1_ABC_ligand_bindin 100.0 2.4E-26 5.3E-31 254.2 30.5 308 33-383 1-318 (341)
81 cd04509 PBP1_ABC_transporter_G 100.0 2.3E-26 5.1E-31 249.6 26.9 280 33-324 1-290 (299)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.9 6.3E-26 1.4E-30 247.5 29.5 278 33-326 1-293 (312)
83 cd06268 PBP1_ABC_transporter_L 99.9 2E-24 4.4E-29 234.3 27.8 280 33-326 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.3E-23 2.7E-28 218.7 29.1 323 46-418 18-366 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 1.4E-20 2.9E-25 197.6 20.1 218 464-816 24-243 (247)
86 PRK10797 glutamate and asparta 99.9 2.4E-20 5.1E-25 200.0 21.3 223 464-817 39-272 (302)
87 PF00497 SBP_bac_3: Bacterial 99.8 4.4E-20 9.5E-25 191.2 15.8 221 467-816 1-224 (225)
88 PRK15010 ABC transporter lysin 99.8 2.6E-19 5.6E-24 189.3 20.6 222 463-816 24-254 (260)
89 PRK11260 cystine transporter s 99.8 2E-19 4.4E-24 190.7 19.8 223 462-817 38-262 (266)
90 PRK11917 bifunctional adhesin/ 99.8 4.1E-19 8.8E-24 186.7 20.7 219 463-815 36-258 (259)
91 PRK15007 putative ABC transpor 99.8 5.7E-19 1.2E-23 185.1 19.9 217 464-816 20-242 (243)
92 TIGR01096 3A0103s03R lysine-ar 99.8 5.7E-19 1.2E-23 186.0 19.5 218 465-815 24-250 (250)
93 PRK15437 histidine ABC transpo 99.8 1.5E-18 3.3E-23 183.2 19.1 221 464-816 25-254 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 2.1E-18 4.7E-23 183.6 18.2 222 463-815 31-260 (275)
95 PF00060 Lig_chan: Ligand-gate 99.8 1.8E-19 3.9E-24 172.8 4.1 108 586-700 1-115 (148)
96 PRK10859 membrane-bound lytic 99.8 1.7E-17 3.7E-22 189.5 19.0 222 462-816 40-266 (482)
97 TIGR03870 ABC_MoxJ methanol ox 99.7 4.8E-16 1E-20 162.4 16.3 208 466-814 1-241 (246)
98 PRK09959 hybrid sensory histid 99.7 6E-16 1.3E-20 199.7 20.0 216 464-816 301-520 (1197)
99 TIGR02285 conserved hypothetic 99.7 7.8E-16 1.7E-20 163.4 16.1 226 464-816 17-261 (268)
100 COG0834 HisJ ABC-type amino ac 99.7 3.7E-15 8E-20 159.6 18.7 225 463-816 32-264 (275)
101 cd00134 PBPb Bacterial peripla 99.6 7.5E-15 1.6E-19 150.6 19.2 214 467-815 1-218 (218)
102 smart00062 PBPb Bacterial peri 99.6 1.4E-14 3.1E-19 148.5 18.6 215 466-815 1-219 (219)
103 PRK09959 hybrid sensory histid 99.6 3.4E-15 7.3E-20 192.8 16.9 222 462-817 53-278 (1197)
104 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 3.1E-14 6.8E-19 148.0 18.3 210 467-815 2-228 (232)
105 cd01391 Periplasmic_Binding_Pr 99.6 3E-13 6.4E-18 143.7 23.8 216 33-262 1-220 (269)
106 smart00079 PBPe Eukaryotic hom 99.4 3.4E-12 7.4E-17 119.9 11.9 123 689-816 1-133 (134)
107 PF04348 LppC: LppC putative l 99.3 1.2E-10 2.5E-15 133.4 22.7 309 30-404 218-534 (536)
108 COG4623 Predicted soluble lyti 99.2 1.3E-10 2.9E-15 118.4 13.8 219 464-816 22-247 (473)
109 cd01537 PBP1_Repressors_Sugar_ 98.8 2.2E-07 4.8E-12 98.4 19.7 205 33-257 1-211 (264)
110 TIGR01098 3A0109s03R phosphate 98.8 6E-08 1.3E-12 102.2 13.2 198 465-801 32-254 (254)
111 PF10613 Lig_chan-Glu_bd: Liga 98.8 4.8E-09 1E-13 81.2 3.2 49 486-534 14-65 (65)
112 cd01536 PBP1_ABC_sugar_binding 98.7 1.6E-06 3.5E-11 92.0 22.8 205 33-257 1-213 (267)
113 PRK00489 hisG ATP phosphoribos 98.7 6.3E-08 1.4E-12 102.9 10.4 164 523-816 51-219 (287)
114 cd06267 PBP1_LacI_sugar_bindin 98.6 1.8E-06 3.8E-11 91.5 19.7 205 33-257 1-210 (264)
115 cd06325 PBP1_ABC_uncharacteriz 98.6 2.4E-06 5.2E-11 91.6 20.1 201 33-248 1-208 (281)
116 cd06300 PBP1_ABC_sugar_binding 98.6 9.8E-06 2.1E-10 86.4 22.5 203 33-250 1-210 (272)
117 COG2984 ABC-type uncharacteriz 98.5 4.4E-05 9.6E-10 78.5 23.6 205 27-248 26-240 (322)
118 COG3107 LppC Putative lipoprot 98.4 2.6E-05 5.6E-10 84.3 19.8 318 29-411 255-603 (604)
119 cd06320 PBP1_allose_binding Pe 98.4 6.4E-05 1.4E-09 80.2 23.4 199 33-249 1-207 (275)
120 cd06282 PBP1_GntR_like_2 Ligan 98.3 4.6E-05 1E-09 80.8 19.4 203 33-257 1-209 (266)
121 PRK10653 D-ribose transporter 98.3 0.00019 4.1E-09 77.5 24.3 202 28-248 23-231 (295)
122 cd06323 PBP1_ribose_binding Pe 98.2 0.00021 4.6E-09 75.8 22.3 203 33-257 1-212 (268)
123 cd06273 PBP1_GntR_like_1 This 98.1 0.00014 3.1E-09 77.2 18.8 202 33-256 1-210 (268)
124 PRK10936 TMAO reductase system 98.1 0.0013 2.9E-08 72.5 26.2 200 29-248 44-254 (343)
125 cd06317 PBP1_ABC_sugar_binding 98.1 0.00041 8.8E-09 74.0 21.2 201 33-249 1-212 (275)
126 cd06319 PBP1_ABC_sugar_binding 98.0 0.00061 1.3E-08 72.7 21.8 199 33-249 1-210 (277)
127 cd06301 PBP1_rhizopine_binding 98.0 0.00095 2.1E-08 71.0 22.2 207 33-257 1-216 (272)
128 cd06310 PBP1_ABC_sugar_binding 98.0 0.0021 4.5E-08 68.4 24.1 207 33-257 1-215 (273)
129 TIGR03431 PhnD phosphonate ABC 97.9 9.4E-05 2E-09 79.4 13.4 116 688-809 125-257 (288)
130 cd06312 PBP1_ABC_sugar_binding 97.9 0.0019 4.2E-08 68.6 23.4 199 33-249 1-208 (271)
131 PF13407 Peripla_BP_4: Peripla 97.9 0.0011 2.4E-08 69.8 21.4 202 34-251 1-209 (257)
132 cd01545 PBP1_SalR Ligand-bindi 97.9 0.0011 2.5E-08 70.2 19.7 201 33-252 1-207 (270)
133 cd06305 PBP1_methylthioribose_ 97.9 0.0018 4E-08 68.8 21.3 206 33-257 1-215 (273)
134 cd06309 PBP1_YtfQ_like Peripla 97.8 0.0022 4.8E-08 68.2 21.4 208 33-257 1-218 (273)
135 cd06298 PBP1_CcpA_like Ligand- 97.7 0.0023 5E-08 67.8 19.9 202 33-254 1-207 (268)
136 cd06311 PBP1_ABC_sugar_binding 97.7 0.0099 2.1E-07 63.2 23.7 202 34-249 2-210 (274)
137 cd06284 PBP1_LacI_like_6 Ligan 97.7 0.0033 7.2E-08 66.5 19.9 198 34-252 2-204 (267)
138 PRK15395 methyl-galactoside AB 97.7 0.015 3.2E-07 63.8 24.9 209 28-248 21-249 (330)
139 PRK09701 D-allose transporter 97.7 0.025 5.4E-07 61.4 26.5 203 33-249 26-241 (311)
140 cd01539 PBP1_GGBP Periplasmic 97.6 0.0095 2.1E-07 64.5 22.9 208 33-251 1-228 (303)
141 cd06322 PBP1_ABC_sugar_binding 97.6 0.013 2.9E-07 61.9 23.0 195 33-248 1-203 (267)
142 cd06289 PBP1_MalI_like Ligand- 97.6 0.0034 7.4E-08 66.5 18.4 202 33-253 1-207 (268)
143 COG1879 RbsB ABC-type sugar tr 97.6 0.021 4.6E-07 62.4 24.6 211 30-257 32-250 (322)
144 cd06271 PBP1_AglR_RafR_like Li 97.5 0.0073 1.6E-07 63.9 20.0 203 34-257 2-214 (268)
145 cd06303 PBP1_LuxPQ_Quorum_Sens 97.5 0.018 3.8E-07 61.5 22.6 212 33-257 1-222 (280)
146 cd06288 PBP1_sucrose_transcrip 97.5 0.005 1.1E-07 65.2 18.3 203 33-258 1-211 (269)
147 TIGR01481 ccpA catabolite cont 97.5 0.0076 1.7E-07 66.1 20.1 202 30-253 58-265 (329)
148 cd01540 PBP1_arabinose_binding 97.5 0.017 3.7E-07 61.9 22.2 213 33-257 1-227 (289)
149 PF00532 Peripla_BP_1: Peripla 97.5 0.0052 1.1E-07 65.4 17.6 204 33-254 3-211 (279)
150 cd06321 PBP1_ABC_sugar_binding 97.5 0.021 4.6E-07 60.5 22.5 205 33-258 1-213 (271)
151 cd06275 PBP1_PurR Ligand-bindi 97.4 0.0088 1.9E-07 63.4 19.0 205 33-257 1-211 (269)
152 cd01575 PBP1_GntR Ligand-bindi 97.4 0.011 2.4E-07 62.5 19.6 205 33-257 1-210 (268)
153 PF04392 ABC_sub_bind: ABC tra 97.4 0.011 2.5E-07 63.4 19.6 185 33-233 1-194 (294)
154 cd06308 PBP1_sensor_kinase_lik 97.4 0.022 4.9E-07 60.3 21.8 207 33-259 1-216 (270)
155 cd01542 PBP1_TreR_like Ligand- 97.4 0.013 2.8E-07 61.6 19.5 200 34-258 2-207 (259)
156 PRK10355 xylF D-xylose transpo 97.4 0.053 1.1E-06 59.4 24.2 202 29-249 23-236 (330)
157 cd06295 PBP1_CelR Ligand bindi 97.3 0.017 3.6E-07 61.5 19.8 206 32-257 4-219 (275)
158 cd06299 PBP1_LacI_like_13 Liga 97.3 0.017 3.6E-07 61.1 19.6 205 33-257 1-208 (265)
159 cd06283 PBP1_RegR_EndR_KdgR_li 97.3 0.021 4.6E-07 60.3 20.1 205 33-257 1-211 (267)
160 cd06324 PBP1_ABC_sugar_binding 97.3 0.035 7.6E-07 60.1 22.0 207 34-256 2-234 (305)
161 cd01538 PBP1_ABC_xylose_bindin 97.3 0.041 8.8E-07 59.0 22.2 199 33-250 1-216 (288)
162 cd06274 PBP1_FruR Ligand bindi 97.3 0.026 5.6E-07 59.6 20.2 205 33-257 1-211 (264)
163 cd06306 PBP1_TorT-like TorT-li 97.3 0.048 1E-06 57.7 22.1 194 33-248 1-207 (268)
164 cd06281 PBP1_LacI_like_5 Ligan 97.3 0.014 3.1E-07 61.8 18.0 201 33-254 1-206 (269)
165 cd01574 PBP1_LacI Ligand-bindi 97.2 0.039 8.5E-07 58.1 21.3 202 33-257 1-207 (264)
166 cd06293 PBP1_LacI_like_11 Liga 97.2 0.036 7.8E-07 58.7 21.0 205 33-257 1-210 (269)
167 cd06285 PBP1_LacI_like_7 Ligan 97.2 0.024 5.1E-07 59.9 19.5 197 33-252 1-203 (265)
168 cd06313 PBP1_ABC_sugar_binding 97.2 0.059 1.3E-06 57.2 22.4 171 68-248 29-207 (272)
169 cd06278 PBP1_LacI_like_2 Ligan 97.2 0.029 6.2E-07 59.2 19.9 191 33-246 1-196 (266)
170 cd06270 PBP1_GalS_like Ligand 97.2 0.033 7.2E-07 58.9 19.9 200 33-252 1-205 (268)
171 PRK10703 DNA-binding transcrip 97.2 0.029 6.3E-07 61.9 20.0 208 31-257 59-272 (341)
172 cd06316 PBP1_ABC_sugar_binding 97.2 0.081 1.8E-06 56.9 23.0 203 33-248 1-210 (294)
173 cd06318 PBP1_ABC_sugar_binding 97.1 0.084 1.8E-06 56.3 22.7 200 33-249 1-215 (282)
174 PRK11303 DNA-binding transcrip 97.1 0.063 1.4E-06 58.8 21.9 206 30-257 60-271 (328)
175 cd06286 PBP1_CcpB_like Ligand- 97.1 0.037 8.1E-07 58.2 19.4 201 33-256 1-207 (260)
176 cd06292 PBP1_LacI_like_10 Liga 97.1 0.059 1.3E-06 57.2 20.8 206 34-257 2-214 (273)
177 cd06296 PBP1_CatR_like Ligand- 97.1 0.039 8.4E-07 58.4 19.1 205 33-257 1-212 (270)
178 PRK10014 DNA-binding transcrip 97.1 0.048 1E-06 60.1 20.3 202 30-251 63-270 (342)
179 cd01541 PBP1_AraR Ligand-bindi 97.0 0.033 7.2E-07 59.1 18.3 207 33-257 1-216 (273)
180 PRK10423 transcriptional repre 97.0 0.074 1.6E-06 58.2 21.5 206 30-257 55-268 (327)
181 cd06294 PBP1_ycjW_transcriptio 97.0 0.044 9.6E-07 57.9 19.1 202 33-254 1-213 (270)
182 cd06307 PBP1_uncharacterized_s 97.0 0.13 2.7E-06 54.7 22.7 208 33-257 1-217 (275)
183 PRK15408 autoinducer 2-binding 97.0 0.28 6E-06 53.7 25.5 199 32-248 24-233 (336)
184 cd06314 PBP1_tmGBP Periplasmic 97.0 0.22 4.7E-06 52.8 24.0 203 33-257 1-211 (271)
185 cd06290 PBP1_LacI_like_9 Ligan 96.9 0.061 1.3E-06 56.8 18.9 200 33-253 1-205 (265)
186 TIGR02417 fruct_sucro_rep D-fr 96.9 0.084 1.8E-06 57.8 20.4 205 30-257 59-270 (327)
187 COG1609 PurR Transcriptional r 96.9 0.1 2.3E-06 57.0 20.8 204 30-252 57-265 (333)
188 cd06354 PBP1_BmpA_PnrA_like Pe 96.9 0.094 2E-06 55.4 19.9 196 33-247 1-206 (265)
189 cd06277 PBP1_LacI_like_1 Ligan 96.9 0.1 2.3E-06 55.1 20.2 198 34-252 2-205 (268)
190 cd06291 PBP1_Qymf_like Ligand 96.9 0.084 1.8E-06 55.7 19.4 199 33-257 1-206 (265)
191 PRK11553 alkanesulfonate trans 96.9 0.0082 1.8E-07 65.3 11.7 112 688-805 119-237 (314)
192 cd06302 PBP1_LsrB_Quorum_Sensi 96.8 0.26 5.7E-06 53.1 23.3 199 33-249 1-210 (298)
193 cd06304 PBP1_BmpA_like Peripla 96.8 0.095 2.1E-06 55.2 19.2 199 33-247 1-202 (260)
194 TIGR02955 TMAO_TorT TMAO reduc 96.8 0.26 5.6E-06 53.0 22.8 194 33-248 1-207 (295)
195 cd06272 PBP1_hexuronate_repres 96.8 0.085 1.8E-06 55.5 18.7 200 33-257 1-205 (261)
196 PRK10727 DNA-binding transcrip 96.8 0.12 2.6E-06 57.0 20.5 207 30-257 58-270 (343)
197 cd01543 PBP1_XylR Ligand-bindi 96.8 0.086 1.9E-06 55.6 18.4 201 33-257 1-205 (265)
198 cd06280 PBP1_LacI_like_4 Ligan 96.7 0.13 2.7E-06 54.3 19.3 200 33-257 1-205 (263)
199 cd06297 PBP1_LacI_like_12 Liga 96.7 0.12 2.6E-06 54.6 19.1 201 33-257 1-213 (269)
200 cd06279 PBP1_LacI_like_3 Ligan 96.7 0.14 3.1E-06 54.6 19.4 196 33-252 1-223 (283)
201 PRK09526 lacI lac repressor; R 96.6 0.31 6.6E-06 53.7 22.4 204 31-257 63-273 (342)
202 PRK14987 gluconate operon tran 96.6 0.21 4.7E-06 54.7 20.7 206 31-257 63-272 (331)
203 PF12974 Phosphonate-bd: ABC t 96.6 0.015 3.2E-07 60.7 10.6 121 688-814 95-230 (243)
204 PRK09492 treR trehalose repres 96.5 0.26 5.5E-06 53.6 20.3 191 30-248 61-256 (315)
205 PRK10401 DNA-binding transcrip 96.3 0.36 7.8E-06 53.2 20.5 206 31-257 59-270 (346)
206 PRK11041 DNA-binding transcrip 96.2 0.33 7.1E-06 52.6 19.4 207 30-257 34-246 (309)
207 TIGR01729 taurine_ABC_bnd taur 96.1 0.054 1.2E-06 58.5 12.3 70 688-764 90-164 (300)
208 cd01544 PBP1_GalR Ligand-bindi 96.0 0.43 9.3E-06 50.4 18.5 197 33-257 1-212 (270)
209 TIGR02637 RhaS rhamnose ABC tr 95.8 2.7 5.8E-05 45.2 23.7 198 34-249 1-210 (302)
210 TIGR02634 xylF D-xylose ABC tr 95.6 1.6 3.5E-05 47.0 21.2 198 34-249 1-209 (302)
211 PF07885 Ion_trans_2: Ion chan 95.5 0.048 1E-06 45.2 6.9 57 620-682 22-78 (79)
212 TIGR02405 trehalos_R_Ecol treh 95.4 1.6 3.4E-05 47.3 20.4 190 31-248 59-253 (311)
213 cd06353 PBP1_BmpA_Med_like Per 95.3 0.77 1.7E-05 48.1 16.8 195 33-247 1-200 (258)
214 cd06315 PBP1_ABC_sugar_binding 95.1 2.9 6.3E-05 44.4 20.7 202 33-251 2-216 (280)
215 cd05466 PBP2_LTTR_substrate Th 95.0 0.89 1.9E-05 44.2 15.7 70 492-573 13-82 (197)
216 COG3221 PhnD ABC-type phosphat 94.8 0.55 1.2E-05 49.8 13.8 110 688-803 134-260 (299)
217 PF13379 NMT1_2: NMT1-like fam 94.8 0.12 2.5E-06 54.2 8.8 74 688-766 104-189 (252)
218 COG4213 XylF ABC-type xylose t 94.7 4.5 9.7E-05 42.0 19.0 204 26-249 20-242 (341)
219 PF03466 LysR_substrate: LysR 94.3 1.7 3.7E-05 43.3 16.0 196 465-803 6-206 (209)
220 cd08468 PBP2_Pa0477 The C-term 94.0 1.8 3.8E-05 43.0 15.4 73 492-573 13-85 (202)
221 TIGR03427 ABC_peri_uca ABC tra 94.0 0.29 6.2E-06 53.1 9.8 69 689-764 97-170 (328)
222 cd08418 PBP2_TdcA The C-termin 93.8 2.8 6.1E-05 41.2 16.4 72 492-573 13-84 (201)
223 cd08459 PBP2_DntR_NahR_LinR_li 93.8 1.8 3.9E-05 42.8 14.8 70 492-573 13-82 (201)
224 cd08442 PBP2_YofA_SoxR_like Th 93.8 3.4 7.3E-05 40.3 16.7 70 492-573 13-82 (193)
225 TIGR01728 SsuA_fam ABC transpo 93.8 0.87 1.9E-05 48.5 13.2 71 688-764 91-165 (288)
226 PRK11151 DNA-binding transcrip 93.7 2.6 5.7E-05 45.4 16.9 83 465-573 91-173 (305)
227 cd06287 PBP1_LacI_like_8 Ligan 93.6 5.6 0.00012 41.9 18.9 153 94-257 54-211 (269)
228 cd08421 PBP2_LTTR_like_1 The C 93.6 4.8 0.0001 39.5 17.6 70 492-573 13-82 (198)
229 TIGR02990 ectoine_eutA ectoine 93.5 1.4 3.1E-05 45.1 13.2 91 152-245 108-203 (239)
230 TIGR02122 TRAP_TAXI TRAP trans 93.3 0.3 6.6E-06 53.1 8.8 60 688-754 131-197 (320)
231 cd08463 PBP2_DntR_like_4 The C 93.2 4.6 0.0001 40.1 16.7 72 491-573 12-83 (203)
232 CHL00180 rbcR LysR transcripti 93.1 4.1 9E-05 43.9 17.2 86 465-573 95-180 (305)
233 cd08440 PBP2_LTTR_like_4 TThe 93.1 5.2 0.00011 38.9 16.8 70 492-573 13-82 (197)
234 cd08417 PBP2_Nitroaromatics_li 92.8 2.2 4.7E-05 42.1 13.6 70 492-573 13-82 (200)
235 cd08433 PBP2_Nac The C-teminal 92.7 6.4 0.00014 38.5 16.8 70 492-573 13-82 (198)
236 PRK12684 transcriptional regul 92.7 4.4 9.6E-05 43.8 16.7 116 691-816 184-305 (313)
237 cd08438 PBP2_CidR The C-termin 92.6 7.9 0.00017 37.7 17.3 70 492-573 13-82 (197)
238 cd08420 PBP2_CysL_like C-termi 92.5 6.3 0.00014 38.5 16.6 70 492-573 13-82 (201)
239 cd08412 PBP2_PAO1_like The C-t 92.2 6.9 0.00015 38.2 16.4 71 491-573 12-82 (198)
240 PF09084 NMT1: NMT1/THI5 like; 92.2 0.76 1.6E-05 46.7 9.3 59 688-752 83-145 (216)
241 cd08461 PBP2_DntR_like_3 The C 92.1 4.7 0.0001 39.5 15.0 70 492-573 13-82 (198)
242 PRK11242 DNA-binding transcrip 92.0 7.3 0.00016 41.6 17.4 83 465-573 91-173 (296)
243 PRK12679 cbl transcriptional r 91.7 9.4 0.0002 41.4 17.8 116 691-816 184-306 (316)
244 cd08435 PBP2_GbpR The C-termin 91.6 10 0.00022 37.0 16.9 72 492-573 13-84 (201)
245 COG1744 Med Uncharacterized AB 91.6 11 0.00024 41.2 17.8 208 29-248 33-244 (345)
246 cd08434 PBP2_GltC_like The sub 91.5 8.8 0.00019 37.2 16.2 70 492-573 13-82 (195)
247 cd08466 PBP2_LeuO The C-termin 91.3 6 0.00013 38.8 14.7 70 492-573 13-82 (200)
248 cd08411 PBP2_OxyR The C-termin 91.3 8.2 0.00018 37.8 15.7 70 492-573 14-83 (200)
249 PRK09791 putative DNA-binding 91.1 6.1 0.00013 42.4 15.6 86 464-573 94-179 (302)
250 PRK11233 nitrogen assimilation 91.0 5.9 0.00013 42.7 15.3 68 493-572 106-173 (305)
251 cd08462 PBP2_NodD The C-termin 90.8 7 0.00015 38.5 14.7 68 493-573 14-81 (200)
252 cd08426 PBP2_LTTR_like_5 The C 90.7 13 0.00029 36.2 16.6 70 492-573 13-82 (199)
253 PRK12682 transcriptional regul 90.6 9 0.0002 41.3 16.3 84 465-573 93-176 (309)
254 PRK12681 cysB transcriptional 90.5 7.1 0.00015 42.5 15.3 85 464-573 92-176 (324)
255 cd08415 PBP2_LysR_opines_like 90.5 13 0.00028 36.2 16.2 71 491-573 12-82 (196)
256 cd08413 PBP2_CysB_like The C-t 90.4 11 0.00023 37.1 15.7 71 492-573 13-83 (198)
257 cd08444 PBP2_Cbl The C-termina 90.4 14 0.0003 36.3 16.4 72 491-573 12-83 (198)
258 cd08467 PBP2_SyrM The C-termin 90.3 11 0.00024 37.0 15.7 70 492-573 13-82 (200)
259 cd08419 PBP2_CbbR_RubisCO_like 90.1 17 0.00037 35.3 16.8 70 492-573 12-81 (197)
260 cd08460 PBP2_DntR_like_1 The C 89.9 4.4 9.5E-05 40.0 12.3 70 491-573 12-81 (200)
261 PRK12683 transcriptional regul 89.9 11 0.00025 40.5 16.3 105 691-804 184-294 (309)
262 TIGR02424 TF_pcaQ pca operon t 89.8 8.6 0.00019 41.2 15.3 86 464-573 92-177 (300)
263 PRK10837 putative DNA-binding 89.7 19 0.00041 38.2 17.8 83 465-573 89-171 (290)
264 cd08427 PBP2_LTTR_like_2 The C 89.4 12 0.00026 36.4 15.0 72 492-573 13-84 (195)
265 cd08441 PBP2_MetR The C-termin 89.4 21 0.00046 34.8 16.9 69 493-573 14-82 (198)
266 COG3473 Maleate cis-trans isom 89.3 12 0.00026 36.5 13.4 91 152-245 106-201 (238)
267 cd08464 PBP2_DntR_like_2 The C 89.2 11 0.00025 36.7 14.7 70 492-573 13-82 (200)
268 cd08448 PBP2_LTTR_aromatics_li 89.2 17 0.00038 35.2 16.0 70 492-573 13-82 (197)
269 cd08436 PBP2_LTTR_like_3 The C 89.1 18 0.00039 34.9 16.1 71 492-573 13-83 (194)
270 PRK10339 DNA-binding transcrip 89.1 25 0.00054 38.2 18.5 149 95-256 113-266 (327)
271 cd08443 PBP2_CysB The C-termin 88.9 24 0.00052 34.6 16.8 72 491-573 12-83 (198)
272 cd08465 PBP2_ToxR The C-termin 88.6 13 0.00027 36.7 14.6 70 492-573 13-82 (200)
273 cd08437 PBP2_MleR The substrat 88.2 22 0.00048 34.6 16.0 72 492-573 13-84 (198)
274 cd08449 PBP2_XapR The C-termin 88.1 26 0.00057 33.9 16.5 72 492-573 13-84 (197)
275 PRK10341 DNA-binding transcrip 88.0 17 0.00037 39.2 16.1 85 465-573 97-181 (312)
276 cd08425 PBP2_CynR The C-termin 88.0 24 0.00052 34.3 16.1 70 492-573 14-83 (197)
277 cd08456 PBP2_LysR The C-termin 87.9 19 0.00042 34.9 15.4 70 492-573 13-82 (196)
278 cd06353 PBP1_BmpA_Med_like Per 87.9 2.4 5.2E-05 44.4 8.9 86 33-127 122-207 (258)
279 cd06276 PBP1_FucR_like Ligand- 87.8 37 0.00079 35.1 18.2 145 90-257 46-195 (247)
280 cd08429 PBP2_NhaR The C-termin 87.7 25 0.00055 34.8 16.2 71 492-571 13-83 (204)
281 PF13377 Peripla_BP_3: Peripla 87.1 2.3 4.9E-05 40.6 7.7 98 156-257 1-101 (160)
282 PF12683 DUF3798: Protein of u 87.1 39 0.00084 34.8 16.1 208 31-248 2-224 (275)
283 TIGR00035 asp_race aspartate r 86.6 5.4 0.00012 40.9 10.4 87 81-196 59-146 (229)
284 PRK11013 DNA-binding transcrip 86.4 23 0.00051 38.1 16.0 83 465-573 94-176 (309)
285 cd08469 PBP2_PnbR The C-termin 86.3 20 0.00043 35.9 14.6 70 492-573 13-82 (221)
286 cd08486 PBP2_CbnR The C-termin 86.2 30 0.00065 33.9 15.7 70 492-573 14-83 (198)
287 cd08430 PBP2_IlvY The C-termin 86.1 34 0.00075 33.1 16.7 71 492-573 13-83 (199)
288 cd08453 PBP2_IlvR The C-termin 85.6 37 0.0008 33.1 16.4 73 492-573 13-85 (200)
289 PRK11482 putative DNA-binding 85.6 25 0.00053 38.1 15.6 82 464-573 116-197 (317)
290 PRK12680 transcriptional regul 85.3 37 0.00081 36.9 17.0 84 465-573 93-176 (327)
291 PRK15421 DNA-binding transcrip 85.2 33 0.00072 37.1 16.4 83 465-573 89-171 (317)
292 cd08451 PBP2_BudR The C-termin 85.0 39 0.00084 32.7 17.7 70 493-573 15-84 (199)
293 PF03808 Glyco_tran_WecB: Glyc 84.8 15 0.00032 35.7 12.0 100 150-261 35-136 (172)
294 cd08445 PBP2_BenM_CatM_CatR Th 84.7 42 0.0009 32.9 16.5 70 492-573 14-83 (203)
295 cd08458 PBP2_NocR The C-termin 84.5 41 0.0009 32.7 16.4 70 492-573 13-82 (196)
296 cd08423 PBP2_LTTR_like_6 The C 84.4 30 0.00065 33.6 14.7 73 492-573 13-87 (200)
297 PRK11480 tauA taurine transpor 84.1 5.6 0.00012 43.2 9.8 67 688-761 112-183 (320)
298 COG1794 RacX Aspartate racemas 83.8 50 0.0011 33.0 14.9 76 91-196 70-146 (230)
299 TIGR00363 lipoprotein, YaeC fa 83.8 35 0.00075 35.6 14.9 119 688-814 106-250 (258)
300 cd08416 PBP2_MdcR The C-termin 82.9 48 0.001 32.1 16.2 72 492-573 13-84 (199)
301 cd08457 PBP2_OccR The C-termin 82.8 48 0.001 32.1 16.8 70 492-573 13-82 (196)
302 PRK09860 putative alcohol dehy 82.7 5.6 0.00012 44.4 9.1 89 152-242 19-109 (383)
303 PRK10537 voltage-gated potassi 82.6 2.6 5.6E-05 46.8 6.3 60 618-683 164-223 (393)
304 cd08414 PBP2_LTTR_aromatics_li 82.1 50 0.0011 31.8 16.7 70 492-573 13-82 (197)
305 COG1454 EutG Alcohol dehydroge 81.8 7.4 0.00016 42.7 9.3 92 152-245 17-110 (377)
306 PRK11074 putative DNA-binding 81.4 36 0.00078 36.4 14.7 85 465-573 92-176 (300)
307 PRK09508 leuO leucine transcri 81.3 23 0.00051 38.2 13.3 84 464-573 111-194 (314)
308 PRK15454 ethanol dehydrogenase 81.3 6.7 0.00015 43.9 9.1 89 152-242 37-127 (395)
309 KOG1419 Voltage-gated K+ chann 81.0 2.1 4.4E-05 47.7 4.6 91 587-683 234-324 (654)
310 TIGR00787 dctP tripartite ATP- 80.6 3.3 7.1E-05 43.4 6.1 103 688-802 126-231 (257)
311 PLN03192 Voltage-dependent pot 80.2 2.8 6.2E-05 52.1 6.2 69 623-697 251-324 (823)
312 cd08428 PBP2_IciA_ArgP The C-t 80.1 45 0.00098 32.3 14.1 65 494-571 15-79 (195)
313 cd08189 Fe-ADH5 Iron-containin 79.6 14 0.00031 41.0 11.0 90 152-243 14-105 (374)
314 cd08190 HOT Hydroxyacid-oxoaci 79.3 8.4 0.00018 43.5 9.1 88 152-241 11-100 (414)
315 PF02608 Bmp: Basic membrane p 78.9 98 0.0021 33.3 18.4 203 32-248 2-212 (306)
316 cd08192 Fe-ADH7 Iron-containin 78.8 9.1 0.0002 42.5 9.2 90 152-243 12-103 (370)
317 COG1910 Periplasmic molybdate- 78.8 18 0.00038 35.8 9.7 106 688-805 87-201 (223)
318 PRK10624 L-1,2-propanediol oxi 78.5 9.5 0.00021 42.6 9.2 88 152-241 18-107 (382)
319 cd08446 PBP2_Chlorocatechol Th 78.1 68 0.0015 31.0 16.4 70 492-573 14-83 (198)
320 PRK11062 nhaR transcriptional 78.0 41 0.00089 35.9 13.8 84 465-571 93-176 (296)
321 cd08193 HVD 5-hydroxyvalerate 77.8 9.9 0.00021 42.3 9.1 89 153-243 15-105 (376)
322 PF00465 Fe-ADH: Iron-containi 77.8 12 0.00027 41.4 9.9 90 152-245 11-102 (366)
323 PRK09906 DNA-binding transcrip 77.8 86 0.0019 33.3 16.3 81 467-573 92-172 (296)
324 PRK10200 putative racemase; Pr 77.7 22 0.00048 36.4 10.8 86 81-195 59-146 (230)
325 PRK10094 DNA-binding transcrip 77.1 76 0.0016 34.1 15.6 70 494-573 108-177 (308)
326 cd08551 Fe-ADH iron-containing 76.5 12 0.00027 41.5 9.4 90 152-243 11-102 (370)
327 PRK11716 DNA-binding transcrip 76.4 54 0.0012 34.2 14.0 83 465-572 67-149 (269)
328 cd08194 Fe-ADH6 Iron-containin 76.1 12 0.00027 41.6 9.2 88 152-241 11-100 (375)
329 TIGR02638 lactal_redase lactal 76.1 12 0.00025 41.8 9.0 88 152-241 17-106 (379)
330 cd06533 Glyco_transf_WecG_TagA 75.0 46 0.00099 32.2 11.7 99 149-259 32-132 (171)
331 PRK11063 metQ DL-methionine tr 74.8 53 0.0012 34.5 13.0 120 688-814 119-263 (271)
332 PF06506 PrpR_N: Propionate ca 73.6 62 0.0013 31.5 12.4 128 80-249 17-145 (176)
333 PF03480 SBP_bac_7: Bacterial 73.3 2.5 5.3E-05 45.2 2.7 102 688-801 126-230 (286)
334 TIGR03339 phn_lysR aminoethylp 72.9 1.3E+02 0.0027 31.5 16.4 69 493-573 98-166 (279)
335 cd08450 PBP2_HcaR The C-termin 72.7 93 0.002 29.9 16.2 70 492-573 13-82 (196)
336 PRK05452 anaerobic nitric oxid 72.6 1E+02 0.0022 35.5 15.7 140 100-261 198-348 (479)
337 PF12727 PBP_like: PBP superfa 71.9 34 0.00073 33.9 10.2 103 688-800 81-191 (193)
338 PF13407 Peripla_BP_4: Peripla 71.8 11 0.00023 39.3 7.1 78 167-248 1-81 (257)
339 cd08188 Fe-ADH4 Iron-containin 71.3 19 0.00042 40.0 9.3 87 152-240 16-104 (377)
340 KOG3857 Alcohol dehydrogenase, 71.1 29 0.00062 36.7 9.4 95 137-233 39-137 (465)
341 PF02608 Bmp: Basic membrane p 70.9 18 0.00039 39.0 8.7 89 33-128 128-221 (306)
342 PRK07475 hypothetical protein; 70.3 21 0.00046 36.9 8.7 122 81-234 62-207 (245)
343 PF14503 YhfZ_C: YhfZ C-termin 70.0 11 0.00025 38.0 6.2 87 700-795 114-208 (232)
344 cd08185 Fe-ADH1 Iron-containin 69.7 21 0.00046 39.8 9.2 87 153-242 15-104 (380)
345 COG0715 TauA ABC-type nitrate/ 69.6 27 0.00059 38.1 10.0 73 688-766 126-203 (335)
346 PF13685 Fe-ADH_2: Iron-contai 69.6 32 0.00069 35.6 9.6 101 154-260 9-109 (250)
347 TIGR01256 modA molybdenum ABC 69.3 45 0.00097 33.6 10.9 70 729-803 135-205 (216)
348 PF13531 SBP_bac_11: Bacterial 68.9 35 0.00077 34.7 10.1 111 688-804 91-218 (230)
349 cd08181 PPD-like 1,3-propanedi 68.9 24 0.00051 39.0 9.2 86 153-241 15-103 (357)
350 cd08176 LPO Lactadehyde:propan 68.7 20 0.00043 39.9 8.7 88 152-241 16-105 (377)
351 PRK00945 acetyl-CoA decarbonyl 68.3 36 0.00079 32.7 9.0 122 89-220 27-168 (171)
352 TIGR03298 argP transcriptional 68.1 1.6E+02 0.0034 31.2 15.4 64 496-572 107-170 (292)
353 cd08170 GlyDH Glycerol dehydro 68.0 20 0.00042 39.6 8.4 85 153-242 12-98 (351)
354 PF01177 Asp_Glu_race: Asp/Glu 67.6 86 0.0019 31.5 12.5 121 94-245 63-198 (216)
355 cd08431 PBP2_HupR The C-termin 67.6 1.1E+02 0.0023 29.5 13.1 71 492-573 13-83 (195)
356 COG2247 LytB Putative cell wal 67.1 95 0.0021 32.8 12.2 77 96-197 77-159 (337)
357 PRK03635 chromosome replicatio 66.9 1E+02 0.0022 32.8 13.5 81 465-572 90-170 (294)
358 cd08191 HHD 6-hydroxyhexanoate 66.7 28 0.00061 38.9 9.4 87 153-242 12-100 (386)
359 COG0078 ArgF Ornithine carbamo 66.0 1.8E+02 0.004 30.7 15.9 162 31-229 44-212 (310)
360 PF15179 Myc_target_1: Myc tar 65.7 13 0.00027 35.3 5.1 38 829-866 13-51 (197)
361 cd08485 PBP2_ClcR The C-termin 64.8 1.4E+02 0.003 28.9 16.0 69 492-572 14-82 (198)
362 cd07766 DHQ_Fe-ADH Dehydroquin 64.6 47 0.001 36.2 10.6 100 153-259 12-113 (332)
363 COG1638 DctP TRAP-type C4-dica 64.5 39 0.00084 36.7 9.5 104 688-805 157-265 (332)
364 COG1744 Med Uncharacterized AB 64.4 93 0.002 34.1 12.5 75 31-111 161-235 (345)
365 cd08182 HEPD Hydroxyethylphosp 64.2 31 0.00067 38.3 9.1 86 153-243 12-99 (367)
366 TIGR02122 TRAP_TAXI TRAP trans 63.5 1.4E+02 0.0031 32.0 14.1 42 1-42 1-42 (320)
367 cd08187 BDH Butanol dehydrogen 63.3 31 0.00068 38.5 8.9 86 153-241 18-106 (382)
368 cd06305 PBP1_methylthioribose_ 62.9 30 0.00065 36.2 8.4 77 167-248 2-81 (273)
369 cd08186 Fe-ADH8 Iron-containin 62.7 33 0.00072 38.3 8.9 88 153-242 12-105 (383)
370 cd08171 GlyDH-like2 Glycerol d 62.6 32 0.00069 37.8 8.7 87 153-243 12-100 (345)
371 cd08432 PBP2_GcdR_TrpI_HvrB_Am 62.1 93 0.002 29.8 11.4 64 493-571 14-77 (194)
372 KOG3713 Voltage-gated K+ chann 61.7 7.2 0.00016 43.3 3.3 64 599-672 358-421 (477)
373 cd08452 PBP2_AlsR The C-termin 60.8 1.6E+02 0.0035 28.3 16.0 70 492-573 13-82 (197)
374 TIGR00315 cdhB CO dehydrogenas 60.1 71 0.0015 30.5 9.2 121 90-220 21-160 (162)
375 PRK09986 DNA-binding transcrip 59.1 2.4E+02 0.0052 29.7 16.7 85 465-573 97-181 (294)
376 PRK15408 autoinducer 2-binding 58.9 41 0.00088 36.8 8.7 82 163-248 22-106 (336)
377 PRK09423 gldA glycerol dehydro 58.7 37 0.00081 37.6 8.4 85 152-241 18-104 (366)
378 TIGR00696 wecB_tagA_cpsF bacte 58.6 1.5E+02 0.0033 28.8 11.6 86 150-245 35-122 (177)
379 cd06267 PBP1_LacI_sugar_bindin 58.5 32 0.00069 35.5 7.7 76 167-248 2-79 (264)
380 cd01537 PBP1_Repressors_Sugar_ 58.3 30 0.00064 35.7 7.4 78 166-248 1-80 (264)
381 PRK11139 DNA-binding transcrip 58.2 1.5E+02 0.0033 31.5 13.0 102 691-800 181-287 (297)
382 PF14851 FAM176: FAM176 family 58.1 22 0.00048 33.3 5.3 25 838-862 22-48 (153)
383 cd06301 PBP1_rhizopine_binding 58.0 35 0.00077 35.6 7.9 78 166-248 1-82 (272)
384 cd06312 PBP1_ABC_sugar_binding 58.0 35 0.00076 35.7 7.9 79 166-248 1-83 (271)
385 cd06306 PBP1_TorT-like TorT-li 57.6 36 0.00078 35.6 7.9 80 166-248 1-82 (268)
386 COG1880 CdhB CO dehydrogenase/ 57.1 1.7E+02 0.0036 27.5 10.4 123 88-219 27-167 (170)
387 COG0426 FpaA Uncharacterized f 56.7 1.9E+02 0.004 32.0 12.8 142 100-263 195-343 (388)
388 PRK03601 transcriptional regul 55.9 2E+02 0.0043 30.1 13.3 83 465-573 89-171 (275)
389 PRK03692 putative UDP-N-acetyl 55.6 81 0.0018 32.5 9.6 87 150-245 92-179 (243)
390 cd08481 PBP2_GcdR_like The C-t 54.9 1.1E+02 0.0025 29.2 10.6 64 728-797 125-190 (194)
391 cd08183 Fe-ADH2 Iron-containin 54.7 55 0.0012 36.4 8.9 83 153-242 12-96 (374)
392 PRK13348 chromosome replicatio 54.6 2.8E+02 0.0062 29.2 15.0 104 691-803 180-287 (294)
393 PRK09861 cytoplasmic membrane 54.6 2.5E+02 0.0054 29.6 13.3 193 495-814 47-264 (272)
394 cd02071 MM_CoA_mut_B12_BD meth 54.5 88 0.0019 28.2 8.7 67 174-248 9-79 (122)
395 PLN02245 ATP phosphoribosyl tr 54.5 92 0.002 34.4 10.1 105 689-802 178-295 (403)
396 cd08550 GlyDH-like Glycerol_de 52.8 56 0.0012 35.9 8.6 84 153-241 12-97 (349)
397 cd08447 PBP2_LTTR_aromatics_li 52.5 2.2E+02 0.0047 27.2 15.6 69 492-572 13-81 (198)
398 cd00755 YgdL_like Family of ac 52.4 1E+02 0.0022 31.5 9.7 117 42-174 60-182 (231)
399 PRK00865 glutamate racemase; P 52.0 1.5E+02 0.0033 31.0 11.2 36 90-125 61-96 (261)
400 cd08422 PBP2_CrgA_like The C-t 51.8 84 0.0018 30.1 9.1 66 726-797 126-193 (197)
401 cd06310 PBP1_ABC_sugar_binding 51.3 54 0.0012 34.2 8.0 80 166-248 1-83 (273)
402 PF04273 DUF442: Putative phos 51.2 1.4E+02 0.0031 26.4 9.1 85 158-244 22-107 (110)
403 cd01536 PBP1_ABC_sugar_binding 50.8 58 0.0013 33.6 8.2 78 166-248 1-81 (267)
404 PRK11063 metQ DL-methionine tr 50.6 32 0.00069 36.2 5.9 57 28-101 29-85 (271)
405 PF00625 Guanylate_kin: Guanyl 50.5 2E+02 0.0043 28.0 11.3 128 96-245 3-134 (183)
406 cd06289 PBP1_MalI_like Ligand- 50.5 60 0.0013 33.7 8.2 77 167-248 2-80 (268)
407 KOG0498 K+-channel ERG and rel 50.2 19 0.00042 42.9 4.5 70 623-698 295-369 (727)
408 cd08178 AAD_C C-terminal alcoh 50.0 84 0.0018 35.3 9.5 79 162-242 19-99 (398)
409 cd01545 PBP1_SalR Ligand-bindi 49.4 67 0.0015 33.4 8.4 78 167-248 2-81 (270)
410 cd06282 PBP1_GntR_like_2 Ligan 49.1 68 0.0015 33.2 8.3 77 167-248 2-80 (266)
411 PF12683 DUF3798: Protein of u 48.8 1.9E+02 0.0042 29.9 10.6 100 149-258 16-139 (275)
412 PRK11921 metallo-beta-lactamas 48.4 2.2E+02 0.0047 31.9 12.5 138 100-258 194-341 (394)
413 cd01391 Periplasmic_Binding_Pr 48.3 63 0.0014 33.0 7.9 78 166-248 1-83 (269)
414 PRK15116 sulfur acceptor prote 48.3 1.6E+02 0.0035 30.9 10.4 105 44-164 81-191 (268)
415 cd08175 G1PDH Glycerol-1-phosp 48.0 75 0.0016 34.9 8.6 87 153-241 12-100 (348)
416 cd08177 MAR Maleylacetate redu 47.4 49 0.0011 36.2 7.0 98 152-259 11-110 (337)
417 cd06302 PBP1_LsrB_Quorum_Sensi 47.1 71 0.0015 34.1 8.2 78 167-248 2-82 (298)
418 cd01540 PBP1_arabinose_binding 47.1 56 0.0012 34.5 7.4 77 166-248 1-80 (289)
419 PRK00002 aroB 3-dehydroquinate 47.0 1.6E+02 0.0036 32.4 11.1 112 139-259 9-127 (358)
420 cd01994 Alpha_ANH_like_IV This 46.9 2.8E+02 0.006 27.5 11.5 102 108-233 46-147 (194)
421 cd06318 PBP1_ABC_sugar_binding 46.7 68 0.0015 33.6 8.0 77 167-248 2-81 (282)
422 cd06277 PBP1_LacI_like_1 Ligan 46.6 98 0.0021 32.1 9.1 75 167-248 2-81 (268)
423 cd01538 PBP1_ABC_xylose_bindin 46.3 89 0.0019 33.0 8.8 77 167-248 2-81 (288)
424 cd06299 PBP1_LacI_like_13 Liga 46.2 81 0.0018 32.7 8.3 76 167-248 2-79 (265)
425 PF14981 FAM165: FAM165 family 45.5 49 0.0011 23.4 4.0 33 834-866 3-35 (51)
426 cd06322 PBP1_ABC_sugar_binding 44.9 85 0.0018 32.5 8.3 77 167-248 2-81 (267)
427 COG1464 NlpA ABC-type metal io 44.5 78 0.0017 32.7 7.2 47 30-87 29-75 (268)
428 cd06303 PBP1_LuxPQ_Quorum_Sens 44.3 72 0.0016 33.6 7.6 81 166-247 1-84 (280)
429 KOG1545 Voltage-gated shaker-l 44.3 6.8 0.00015 41.2 -0.3 89 575-669 344-434 (507)
430 PF13380 CoA_binding_2: CoA bi 43.9 36 0.00078 30.5 4.3 86 165-259 1-88 (116)
431 TIGR02370 pyl_corrinoid methyl 43.4 1.6E+02 0.0035 29.2 9.3 87 166-260 86-176 (197)
432 cd06320 PBP1_allose_binding Pe 42.8 88 0.0019 32.6 8.0 80 166-248 1-83 (275)
433 PRK09701 D-allose transporter 42.7 1.1E+02 0.0024 32.9 8.8 85 161-248 21-108 (311)
434 PRK10481 hypothetical protein; 42.7 2.2E+02 0.0047 28.9 10.0 75 156-236 120-195 (224)
435 PRK13583 hisG ATP phosphoribos 42.1 1.8E+02 0.0039 29.5 9.3 92 689-789 110-212 (228)
436 TIGR00249 sixA phosphohistidin 41.9 1.4E+02 0.0029 28.3 8.2 99 144-245 23-121 (152)
437 PF02310 B12-binding: B12 bind 41.5 2.5E+02 0.0053 24.9 9.7 48 176-231 12-59 (121)
438 cd06300 PBP1_ABC_sugar_binding 41.1 1E+02 0.0022 32.0 8.2 80 166-248 1-86 (272)
439 cd06281 PBP1_LacI_like_5 Ligan 41.0 1.1E+02 0.0025 31.7 8.5 77 167-248 2-80 (269)
440 TIGR02667 moaB_proteo molybden 41.0 1.6E+02 0.0034 28.2 8.5 66 163-232 3-72 (163)
441 PRK10936 TMAO reductase system 40.9 1.1E+02 0.0024 33.5 8.6 81 164-248 46-129 (343)
442 PF00205 TPP_enzyme_M: Thiamin 40.8 25 0.00055 32.4 3.0 56 87-143 2-61 (137)
443 COG2358 Imp TRAP-type uncharac 40.7 1.3E+02 0.0029 32.1 8.6 78 688-772 127-214 (321)
444 cd06167 LabA_like LabA_like pr 40.7 3E+02 0.0065 25.5 11.6 93 153-248 27-124 (149)
445 cd06316 PBP1_ABC_sugar_binding 40.6 89 0.0019 33.1 7.7 79 166-248 1-82 (294)
446 cd08179 NADPH_BDH NADPH-depend 40.4 65 0.0014 35.8 6.7 78 162-241 21-101 (375)
447 cd06295 PBP1_CelR Ligand bindi 39.8 1.2E+02 0.0025 31.7 8.4 77 164-248 3-88 (275)
448 PRK07377 hypothetical protein; 39.8 64 0.0014 31.0 5.4 61 465-542 75-135 (184)
449 PRK09801 transcriptional activ 39.7 1.6E+02 0.0034 31.6 9.5 70 727-802 223-293 (310)
450 PF07302 AroM: AroM protein; 39.2 1.5E+02 0.0032 30.0 8.1 74 165-244 126-201 (221)
451 PRK10014 DNA-binding transcrip 39.1 1.6E+02 0.0035 31.9 9.7 79 165-248 65-145 (342)
452 PRK14498 putative molybdopteri 38.9 2.4E+02 0.0051 34.0 11.6 169 508-811 440-631 (633)
453 cd06315 PBP1_ABC_sugar_binding 38.7 1.5E+02 0.0032 31.2 9.0 79 165-248 1-82 (280)
454 cd08180 PDD 1,3-propanediol de 38.4 75 0.0016 34.7 6.7 78 160-240 18-97 (332)
455 COG0563 Adk Adenylate kinase a 38.4 98 0.0021 30.2 6.8 28 98-125 3-30 (178)
456 PF00532 Peripla_BP_1: Peripla 38.3 82 0.0018 33.3 6.8 74 165-244 2-77 (279)
457 TIGR02637 RhaS rhamnose ABC tr 38.3 1.1E+02 0.0024 32.6 8.0 77 168-248 2-82 (302)
458 cd00423 Pterin_binding Pterin 38.2 2.7E+02 0.0059 29.0 10.5 26 81-106 22-48 (258)
459 PRK11303 DNA-binding transcrip 37.7 1.7E+02 0.0038 31.4 9.6 80 164-248 61-142 (328)
460 cd08479 PBP2_CrgA_like_9 The C 37.3 1.8E+02 0.0039 27.9 8.9 64 492-570 14-77 (198)
461 PF07287 DUF1446: Protein of u 37.3 6E+02 0.013 28.0 13.4 105 42-175 6-111 (362)
462 cd06323 PBP1_ribose_binding Pe 37.2 1.2E+02 0.0027 31.3 8.0 77 167-248 2-81 (268)
463 PRK09189 uroporphyrinogen-III 37.1 1.3E+02 0.0029 30.8 8.0 87 151-245 103-191 (240)
464 cd06317 PBP1_ABC_sugar_binding 37.1 1.3E+02 0.0028 31.3 8.2 77 167-248 2-82 (275)
465 cd06296 PBP1_CatR_like Ligand- 36.5 1.4E+02 0.0029 31.0 8.2 76 167-248 2-79 (270)
466 cd02067 B12-binding B12 bindin 36.4 2E+02 0.0044 25.6 8.2 66 174-247 9-78 (119)
467 cd08549 G1PDH_related Glycerol 36.4 1.4E+02 0.003 32.6 8.3 98 153-259 12-113 (332)
468 cd06273 PBP1_GntR_like_1 This 36.2 1.5E+02 0.0033 30.6 8.6 76 167-248 2-79 (268)
469 cd01539 PBP1_GGBP Periplasmic 36.1 1.4E+02 0.0031 31.8 8.4 78 166-248 1-83 (303)
470 PF10566 Glyco_hydro_97: Glyco 35.9 3.5E+02 0.0076 28.4 10.6 100 147-249 29-152 (273)
471 cd08173 Gro1PDH Sn-glycerol-1- 35.6 1.5E+02 0.0033 32.4 8.5 82 154-241 14-98 (339)
472 cd06319 PBP1_ABC_sugar_binding 35.5 1.2E+02 0.0027 31.5 7.8 77 167-248 2-81 (277)
473 PRK10653 D-ribose transporter 35.0 1.6E+02 0.0034 31.2 8.6 80 164-248 26-108 (295)
474 PF00072 Response_reg: Respons 35.0 2.8E+02 0.006 23.7 8.9 57 180-247 10-69 (112)
475 COG1179 Dinucleotide-utilizing 34.9 2E+02 0.0043 29.4 8.1 88 43-146 80-168 (263)
476 cd06270 PBP1_GalS_like Ligand 34.4 1.8E+02 0.004 30.0 8.8 76 167-248 2-79 (268)
477 cd01574 PBP1_LacI Ligand-bindi 34.4 1.8E+02 0.0039 29.9 8.8 77 167-248 2-80 (264)
478 cd08197 DOIS 2-deoxy-scyllo-in 34.2 4E+02 0.0086 29.3 11.4 102 153-259 12-119 (355)
479 PRK09756 PTS system N-acetylga 33.7 2.7E+02 0.0058 26.6 8.6 81 151-242 17-98 (158)
480 cd08475 PBP2_CrgA_like_6 The C 33.7 3.7E+02 0.0081 25.5 10.5 66 727-798 129-196 (199)
481 cd00886 MogA_MoaB MogA_MoaB fa 33.6 2.1E+02 0.0045 27.0 8.0 63 166-232 2-70 (152)
482 cd06278 PBP1_LacI_like_2 Ligan 33.5 1.6E+02 0.0035 30.3 8.2 75 167-248 2-78 (266)
483 TIGR01744 XPRTase xanthine pho 33.3 89 0.0019 30.9 5.6 70 56-126 5-79 (191)
484 cd06285 PBP1_LacI_like_7 Ligan 33.3 1.7E+02 0.0037 30.2 8.4 76 167-248 2-79 (265)
485 TIGR00854 pts-sorbose PTS syst 33.3 2.6E+02 0.0056 26.4 8.4 82 151-242 13-94 (151)
486 PRK14174 bifunctional 5,10-met 33.0 6.3E+02 0.014 26.9 15.3 148 68-233 60-216 (295)
487 TIGR02417 fruct_sucro_rep D-fr 33.0 2.6E+02 0.0055 30.1 9.9 80 164-248 60-141 (327)
488 PRK10355 xylF D-xylose transpo 32.9 1.9E+02 0.0041 31.4 8.8 80 164-248 25-107 (330)
489 cd06324 PBP1_ABC_sugar_binding 32.9 1.5E+02 0.0033 31.6 8.0 77 167-248 2-83 (305)
490 PRK14805 ornithine carbamoyltr 32.6 6.5E+02 0.014 26.9 15.4 131 32-198 39-177 (302)
491 PRK05752 uroporphyrinogen-III 32.6 1.8E+02 0.0039 30.2 8.2 84 152-243 113-201 (255)
492 PF03830 PTSIIB_sorb: PTS syst 32.5 1.1E+02 0.0025 28.8 6.0 83 152-244 14-96 (151)
493 cd01542 PBP1_TreR_like Ligand- 32.3 1.9E+02 0.0041 29.6 8.5 75 167-247 2-78 (259)
494 PF02502 LacAB_rpiB: Ribose/Ga 32.3 2.7E+02 0.006 25.8 8.2 61 173-237 6-70 (140)
495 cd06307 PBP1_uncharacterized_s 32.1 1.4E+02 0.0031 31.1 7.5 80 166-248 1-84 (275)
496 cd01575 PBP1_GntR Ligand-bindi 32.1 1.8E+02 0.004 29.9 8.4 76 167-248 2-79 (268)
497 PRK00856 pyrB aspartate carbam 32.0 6.7E+02 0.014 26.9 13.3 136 31-197 45-187 (305)
498 PF00558 Vpu: Vpu protein; In 32.0 96 0.0021 25.6 4.5 17 841-857 9-25 (81)
499 cd02070 corrinoid_protein_B12- 31.9 3.7E+02 0.008 26.7 9.9 86 165-258 83-172 (201)
500 KOG0780 Signal recognition par 31.8 5.1E+02 0.011 28.6 10.9 100 155-260 121-223 (483)
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=3.8e-95 Score=753.81 Aligned_cols=780 Identities=20% Similarity=0.337 Sum_probs=635.8
Q ss_pred CCCeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCC-CCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCC
Q 002309 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQ 104 (938)
Q Consensus 27 ~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~-g~~l~~~~~D~~-~~~~~a~~~a~~li~~~V~aviGp~ 104 (938)
..+.+|.||.+||-.+ .+...|+++|+...|.+..--+ -.+|.+++..-. .+.+..+.++|+..++||.||+|-.
T Consensus 22 ~f~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~Gv~Aifg~y 98 (897)
T KOG1054|consen 22 AFPNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGFY 98 (897)
T ss_pred cCCCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheecc
Confidence 3678899999999886 3677899999988887543211 145555554333 4678888899999999999999999
Q ss_pred ChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHH
Q 002309 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (938)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l 184 (938)
.......+..+|...++|+|+++. | .+...++.+++.|+ ...++++++.||+|.+++++| |.+.|...++.+
T Consensus 99 d~ks~~~ltsfc~aLh~~~vtpsf--p--~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqai 170 (897)
T KOG1054|consen 99 DKKSVNTLTSFCGALHVSFVTPSF--P--TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY-DTDRGLSILQAI 170 (897)
T ss_pred cccchhhhhhhccceeeeeecccC--C--cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE-cccchHHHHHHH
Confidence 999999999999999999998755 2 23345778888886 458999999999999999999 667899999999
Q ss_pred HHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhc
Q 002309 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (938)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 264 (938)
.+.+.++++.|.+...-.+. +..+++.+++.+...+.+.+++.|..+....++.++.+.+-...+|++++.+..-..
T Consensus 171 ~~~a~~~nw~VtA~~v~~~~---d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d 247 (897)
T KOG1054|consen 171 MEAAAQNNWQVTAINVGNIN---DVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTD 247 (897)
T ss_pred HHHHHhcCceEEEEEcCCcc---cHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCch
Confidence 99999999999876544433 466699999999999999999999999999999999999888899999998643333
Q ss_pred ccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC------CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCc
Q 002309 265 LDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGK 338 (938)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~ 338 (938)
.+. +.......++.+++..+-+++-.++|.++|++... ...++...++.+|||+.+.++|++.+.++..+
T Consensus 248 ~dl----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~ 323 (897)
T KOG1054|consen 248 IDL----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRID 323 (897)
T ss_pred hhH----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhc
Confidence 333 34456778899999999999999999999997653 23556778999999999999999999877544
Q ss_pred ccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCC
Q 002309 339 ISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYS 418 (938)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~ 418 (938)
+.- ++..|++. -++..+|.+|..+.++|++++++|+||+++||..|.|.+...+|+++..++.+++|+|+...
T Consensus 324 ~~r------RG~~GD~~-an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~ 396 (897)
T KOG1054|consen 324 ISR------RGNAGDCL-ANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGE 396 (897)
T ss_pred hhc------cCCCcccc-CCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeecccC
Confidence 321 22233222 23478999999999999999999999999999999999999999999999999999999998
Q ss_pred CCccCCCcccccCCCCCCccccccceeEeCCCCccCCCcccccCCCceeEEEecccccccceeee---ccCCcceEeeeH
Q 002309 419 GLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSK---VRGSDMFQGFCI 495 (938)
Q Consensus 419 g~~~~~~~~~~~~~~~~~~~~~~l~~i~w~g~~~~~P~~~~~~~~g~~lrv~~~~~~~~~~~~~~---~~~~~~~~G~~~ 495 (938)
|+....... +...+... ...+++.|.+.-..||..+... -.|+.+++|||+
T Consensus 397 ~fv~~~t~a----~~~~d~~~----------------------~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyCv 450 (897)
T KOG1054|consen 397 GFVPGSTVA----QSRNDQAS----------------------KENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYCV 450 (897)
T ss_pred ceeeccccc----cccccccc----------------------cccceEEEEEecCCchhHHHhhHHHhcCCcccceeHH
Confidence 865321110 00000000 1112233333322233222221 147889999999
Q ss_pred HHHHHHHHhCCCCccEEEEecCC-C--CCCCC-hhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 496 DVFTAAVNLLPYAVPYQFVAFGD-G--HKNPS-YTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 496 dll~~la~~l~f~~~~~~~~~~~-~--~~~~~-~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
||+.+||++.++++++..+..+. | +..++ |+||+++|..|++|++++++|||.+|++.+|||.||+..|+++|.++
T Consensus 451 dLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKK 530 (897)
T KOG1054|consen 451 DLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKK 530 (897)
T ss_pred HHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeC
Confidence 99999999999875555554321 2 24555 99999999999999999999999999999999999999999999999
Q ss_pred cC-CCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCC-------------ccccchhhhhHHHHHHHhh
Q 002309 572 RK-LNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGP-------------PKRQVITILWFSLSTLFFA 637 (938)
Q Consensus 572 ~~-~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~l~~~ 637 (938)
|+ ..+..++||.|+..++|+|++.+++.|+++++++.|++++||+-. ..+++.|++||+++++|+|
T Consensus 531 PqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQ 610 (897)
T KOG1054|consen 531 PQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQ 610 (897)
T ss_pred cccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhc
Confidence 98 789999999999999999999999999999999999999887422 1246899999999999999
Q ss_pred hhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCC-eeEEeCchHHHHHH
Q 002309 638 HIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP-IGYQEGSFAEYYLS 716 (938)
Q Consensus 638 ~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~-i~~~~~s~~~~~~~ 716 (938)
|| +..|||.|+||+..+||||+|||+++|||||+||||++++.+||.|+|||+++.+. .|+..+....+||+
T Consensus 611 G~-------DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr 683 (897)
T KOG1054|consen 611 GC-------DISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFR 683 (897)
T ss_pred CC-------CCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHh
Confidence 95 67899999999999999999999999999999999999999999999999988762 56667666788885
Q ss_pred Hhcccc-ccccc----------ccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhc-CCcEEEeCccccccceEeee
Q 002309 717 QELNIS-KSRLV----------ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS-QCSFRIVGQEFTKSGWGFAF 784 (938)
Q Consensus 717 ~~~~~~-~~~~~----------~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~ 784 (938)
+.. +. ..++. -+.+..|.++.+++. ++.+||+.|....+|.-++ .|+-+.+|..+.+.+||++.
T Consensus 684 ~Sk-iavy~kMW~yM~SaepsVFv~t~aeGv~rVRks---KGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiAT 759 (897)
T KOG1054|consen 684 RSK-IAVYEKMWTYMKSAEPSVFVRTTAEGVARVRKS---KGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIAT 759 (897)
T ss_pred hhh-HHHHHHHHHHHhcCCcceeeehhhhHHHHHHhc---CCceEeehHhhhhhhhhccCCccceecccccCCcceeecC
Confidence 421 11 11222 135677888888764 7789999999999998665 79999999999999999999
Q ss_pred cCCCcchhhHHHHHHhhhccCcHHHHHHhhcC-CCCCCCccccc--ccccccccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 002309 785 PRDSPLAVDLSSAILELAENGDLQRIHDKWLM-KSSCSLENAEL--ESDRLHLSSFWGLFLICGVACFIALVIYFLQIMQ 861 (938)
Q Consensus 785 ~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~-~~~c~~~~~~~--~~~~l~l~~~~g~f~il~~g~~la~~vf~~e~~~ 861 (938)
||||.|+..+|.++++|.|.|+++++++|||+ +++|.....+. +...|+|.+++|+||||..|++||.++-+.|+++
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 99999999999999999999999999999999 89999876553 4579999999999999999999999999999999
Q ss_pred HhhhcCC
Q 002309 862 QLCKSAP 868 (938)
Q Consensus 862 ~~~~~~~ 868 (938)
+.+...+
T Consensus 840 ksr~Eak 846 (897)
T KOG1054|consen 840 KSRAEAK 846 (897)
T ss_pred HhhHHHH
Confidence 8876653
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=5.3e-85 Score=681.13 Aligned_cols=752 Identities=24% Similarity=0.420 Sum_probs=620.7
Q ss_pred cCCCCeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEcc--CCCChHHHHHHHH-HHHhcCcEEEE
Q 002309 25 VSARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS--SNCSGFIGMVEAL-RFMETDIVAII 101 (938)
Q Consensus 25 ~~~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D--~~~~~~~a~~~a~-~li~~~V~avi 101 (938)
++..+.+++||.+..... .+.-+.-++.++|++.+ ..++.+.-.. .+.++.+.+-.+| +|++..|.+|+
T Consensus 29 a~~np~t~nig~Vlst~~-----~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~ 100 (993)
T KOG4440|consen 29 AACNPKTVNIGAVLSTRK-----HEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVL 100 (993)
T ss_pred cCCCccceeeeeeeechh-----HHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEE
Confidence 356788999999997543 57888899999997763 3666653333 3345667777777 56777888776
Q ss_pred -c-CCChhH---HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc
Q 002309 102 -G-PQCSTV---AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE 175 (938)
Q Consensus 102 -G-p~~s~~---~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~ 175 (938)
. |..|.. -.++...+..+.||++.....+..+++ .-++.|.|+.|+++.|+.+..+++.+|.|++|.++.+||.
T Consensus 101 vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~ 180 (993)
T KOG4440|consen 101 VSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDH 180 (993)
T ss_pred ecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccc
Confidence 2 233322 244567788999999999888999998 4589999999999999999999999999999999999999
Q ss_pred cccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEE
Q 002309 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (938)
Q Consensus 176 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~w 255 (938)
-|+....+++..+++...++.....+.|+ ..++...|-++|+.++|||++..+.++|..+++.|-+++|++.||+|
T Consensus 181 ~gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VW 256 (993)
T KOG4440|consen 181 EGRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVW 256 (993)
T ss_pred cchhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEE
Confidence 99888778887777766666666678877 78899999999999999999999999999999999999999999999
Q ss_pred EEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhc
Q 002309 256 IATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (938)
Q Consensus 256 i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 335 (938)
|.++..... .....|++|.+..+..+. .++.-|+|.++|.|++++++.
T Consensus 257 iV~E~a~~~----------nn~PdG~LGlqL~~~~~~----------------------~~hirDsv~vlasAv~e~~~~ 304 (993)
T KOG4440|consen 257 IVGERAISG----------NNLPDGILGLQLINGKNE----------------------SAHIRDSVGVLASAVHELLEK 304 (993)
T ss_pred EEecccccc----------CCCCCceeeeEeecCccc----------------------cceehhhHHHHHHHHHHHHhh
Confidence 998643222 234678999887654222 235669999999999999865
Q ss_pred CCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCc-ccccccceEEcCCCCCccceEEEEEe-eccceEEEEE
Q 002309 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINV-IGTGFRMIGY 413 (938)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~G~tG~v~F~~~g~~~~~~~~I~~~-~~~~~~~Vg~ 413 (938)
.. ++ ..+..||++...|..|..+.+.+...+ -+|.||.|.||++|+|....|+|+|+ ++.+.+.+|.
T Consensus 305 e~-I~----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~ 373 (993)
T KOG4440|consen 305 EN-IT----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGI 373 (993)
T ss_pred cc-CC----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcc
Confidence 32 21 123457888999999999998888755 58999999999999999999999999 5666666666
Q ss_pred eeCCCCCccCCCcccccCCCCCCccccccceeEeCCCCccCCCcccccCCCceeEEEecccccccceeeecc--------
Q 002309 414 WSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVFPNNGKLLKIGVPNRASYREFVSKVR-------- 485 (938)
Q Consensus 414 w~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~i~w~g~~~~~P~~~~~~~~g~~lrv~~~~~~~~~~~~~~~~-------- 485 (938)
|+. ..+.+ +...|+|||+.+..|++..+|+ +|||.+.+.+|| ++..+
T Consensus 374 yd~---~r~~~----------------nd~~IiWpGg~~~KP~gi~~pt---hLrivTi~~~PF---VYv~p~~sd~~c~ 428 (993)
T KOG4440|consen 374 YDG---TRVIP----------------NDRKIIWPGGETEKPRGIQMPT---HLRIVTIHQEPF---VYVKPTLSDGTCK 428 (993)
T ss_pred ccc---eeecc----------------CCceeecCCCCcCCCccccccc---eeEEEEeccCCe---EEEecCCCCcchh
Confidence 643 22221 2246999999999999999985 699999876544 43210
Q ss_pred -----------------------C------CcceEeeeHHHHHHHHHhCCCCccEEEEecCC-CC---------CC-CCh
Q 002309 486 -----------------------G------SDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGD-GH---------KN-PSY 525 (938)
Q Consensus 486 -----------------------~------~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~-~~---------~~-~~~ 525 (938)
+ .-|+.||||||+-.|++.+||+++..+++.+. |. .+ .+|
T Consensus 429 eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew 508 (993)
T KOG4440|consen 429 EEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEW 508 (993)
T ss_pred hhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeeccccccccee
Confidence 0 12789999999999999999998888877542 11 12 369
Q ss_pred hHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhh
Q 002309 526 TQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVW 605 (938)
Q Consensus 526 ~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~ 605 (938)
+|++++|..|++||+++++||+++|.++++||.||...|+.++.+++...+.+.+||+||+..+|+++.++..+|++++|
T Consensus 509 ~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lY 588 (993)
T KOG4440|consen 509 NGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLY 588 (993)
T ss_pred hhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecccCCC-CCCC-------ccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhh
Q 002309 606 ILEHRINDE-FRGP-------PKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASL 677 (938)
Q Consensus 606 ~~~~~~~~~-~~~~-------~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L 677 (938)
+++|+++.+ |.-. ...++...+||+||.|+.+| .+...|||.|.|++.++|+-|++||+++|||||
T Consensus 589 lLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSG------igEgtPRSfSARvLGmVWaGFaMIiVASYTANL 662 (993)
T KOG4440|consen 589 LLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSG------IGEGTPRSFSARVLGMVWAGFAMIIVASYTANL 662 (993)
T ss_pred HHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccc------cCCCCCcchhHHHHHHHHhhhheeeehhhhhhh
Confidence 999998863 3221 23568999999999999999 457789999999999999999999999999999
Q ss_pred hhhhhcccccCCCCChHHhhhCCC----CeeEEeCchHHHHHHHhccccc--ccc--cccCCHHHHHHHHhcCCCCCceE
Q 002309 678 TSILTVQQLYSPINGIESLRKSDD----PIGYQEGSFAEYYLSQELNISK--SRL--VALRTPEDYAKALKDGPGKGGVA 749 (938)
Q Consensus 678 ~s~Lt~~~~~~~i~s~~dL~~~~~----~i~~~~~s~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~l~~~~~~g~~~ 749 (938)
+|||...+.+..++.+.|-.-.+. ..+...+|....||++....+. .++ ..|.+.+|.++++.+ |+.+
T Consensus 663 AAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~----gkL~ 738 (993)
T KOG4440|consen 663 AAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRD----GKLH 738 (993)
T ss_pred hhheeecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHc----Ccee
Confidence 999999999999999999654442 3677889999999976543331 111 236778888999988 8999
Q ss_pred EEEecchhHHHHHhcCCcEEEeCccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcC--C-CCCCCcccc
Q 002309 750 AVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLM--K-SSCSLENAE 826 (938)
Q Consensus 750 a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~--~-~~c~~~~~~ 826 (938)
|||.|+..++|..+++|.|...|+.|..++||++++||||+.+.+..+|+++.|+|.++++.++|.. . ..|....
T Consensus 739 AFIWDS~rLEfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~-- 816 (993)
T KOG4440|consen 739 AFIWDSARLEFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRS-- 816 (993)
T ss_pred EEEeecceeeehhhcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhc--
Confidence 9999999999999999999999999999999999999999999999999999999999999999998 2 3333332
Q ss_pred cccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 002309 827 LESDRLHLSSFWGLFLICGVACFIALVIYFLQIMQQLCKSAP 868 (938)
Q Consensus 827 ~~~~~l~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~~~ 868 (938)
..+..|+++++.|+|++.+.|++..+...++|+.|++++.++
T Consensus 817 k~PatLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 817 KAPATLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred cCcccccccccccEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 357889999999999999999999888889999988877653
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=2.5e-77 Score=646.82 Aligned_cols=724 Identities=21% Similarity=0.377 Sum_probs=554.6
Q ss_pred CChHHHHHHHHHHHhc-CcEEEEcCCChh---HHHHHHHhhccCCccEEEcccCCC-CCCCC-CCCceEEecCCchHHHH
Q 002309 80 CSGFIGMVEALRFMET-DIVAIIGPQCST---VAHIVSYVSNELQVPLLSFGVTDP-TLSSL-QYPFFVRTTQSDSYQMT 153 (938)
Q Consensus 80 ~~~~~a~~~a~~li~~-~V~aviGp~~s~---~~~~va~~~~~~~iP~Is~~~~~~-~l~~~-~~p~~~r~~ps~~~~~~ 153 (938)
.||..-+...|+++.. +|.+||--..|. ++..+--+..+.+||+|+..+.+. .++++ ....|+++.||-++|++
T Consensus 83 tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~ 162 (1258)
T KOG1053|consen 83 TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQ 162 (1258)
T ss_pred CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHH
Confidence 6899999999999977 888776444443 333344567788999999865543 44543 33579999999999999
Q ss_pred HHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhh--cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 154 AVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 154 ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
++.++|++|+|..+++|....+.-+..+..+++.... .|+++.......+. .++.......++|+-++.||++.|
T Consensus 163 Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s---~~d~~a~~q~qLkki~a~VillyC 239 (1258)
T KOG1053|consen 163 VMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS---TDDLLAKLQAQLKKIQAPVILLYC 239 (1258)
T ss_pred HHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC---CCchHHHHHHHHHhcCCcEEEEEe
Confidence 9999999999999999998887777777777776654 36676666566555 222233333455556699999999
Q ss_pred ChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCC
Q 002309 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM 311 (938)
Q Consensus 232 ~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 311 (938)
+.+.+..+|..|.++|+++.+|+||++...... + ....+...|.+.+.... |+
T Consensus 240 ~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~---~---~~pa~~P~GLisv~~~~------------w~--------- 292 (1258)
T KOG1053|consen 240 SREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL---E---PRPAEFPLGLISVSYDT------------WR--------- 292 (1258)
T ss_pred cHHHHHHHHHHHHhcCCcCCceEEEeehhccCC---C---CCCccCccceeeeeccc------------hh---------
Confidence 999999999999999999999999996432211 1 11123455666544221 22
Q ss_pred CchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCc--cccCchHHHHHHHhcCcccccccceEEcC
Q 002309 312 NSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAM--SIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (938)
Q Consensus 312 ~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~g~~l~~~l~~~~f~G~tG~v~F~~ 389 (938)
..+...+-|+|-++|.|...+....+.++. ...+|-.. .....++.+.++|.|+.|+| ++++|++
T Consensus 293 ~~l~~rVrdgvaiva~aa~s~~~~~~~lp~-----------~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~~ 359 (1258)
T KOG1053|consen 293 YSLEARVRDGVAIVARAASSMLRIHGFLPE-----------PKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFNE 359 (1258)
T ss_pred hhHHHHHhhhHHHHHHHHHHHHhhcccCCC-----------cccccccccCccccchhhhhhhhheeeecc--cceeecC
Confidence 233466779999999999999877665431 12233222 23335899999999999999 7899999
Q ss_pred CCCCccceEEEEEee-ccceEEEEEeeCCCCCccC-CCcccccCCCCCCccccccceeEeCCCCccCCCcccc-----cC
Q 002309 390 DRSLIHAAYDIINVI-GTGFRMIGYWSNYSGLSKE-PPETLYAQPFNRSSTIQHLHSVIWPGETLSKPRGWVF-----PN 462 (938)
Q Consensus 390 ~g~~~~~~~~I~~~~-~~~~~~Vg~w~~~~g~~~~-~~~~~~~~~~~~~~~~~~l~~i~w~g~~~~~P~~~~~-----~~ 462 (938)
+|-...+...++..+ +..|.+||.|..+. |.|. .-|..|.+..+...+..+|+.++.. .++|++ |.
T Consensus 360 ~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~M~y~vWPr~~~~~q~~~d~~HL~VvTLe------E~PFVive~vDP~ 432 (1258)
T KOG1053|consen 360 DGYLVHPNLVVIDLNRDRTWERVGSWENGT-LVMKYPVWPRYHKFLQPVPDKLHLTVVTLE------ERPFVIVEDVDPL 432 (1258)
T ss_pred CceeeccceEEEecCCCcchheeceecCCe-EEEeccccccccCccCCCCCcceeEEEEec------cCCeEEEecCCCC
Confidence 998788888888776 46799999998754 4332 1111222222222233344433321 111211 23
Q ss_pred CCceeEEEeccccccc-ceeeecc----CCcceEeeeHHHHHHHHHhCCCCccEEEEecCC-CC-CCCChhHHHHhhhcc
Q 002309 463 NGKLLKIGVPNRASYR-EFVSKVR----GSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGD-GH-KNPSYTQLVDSITTG 535 (938)
Q Consensus 463 ~g~~lrv~~~~~~~~~-~~~~~~~----~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~-~~-~~~~~~~~i~~l~~g 535 (938)
.+.+++-.++...... -+...++ -..|++||||||++.||+.+||+++.+++..|. |+ .|+.|+|||++|..+
T Consensus 433 t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~ 512 (1258)
T KOG1053|consen 433 TQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQ 512 (1258)
T ss_pred cCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCcccceecCcchhhHHHHHhh
Confidence 3333333333210000 0000000 135899999999999999999997666666552 33 789999999999999
Q ss_pred eecEEeccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHH-HhhhheeecccCCC
Q 002309 536 VFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVV-GIVVWILEHRINDE 614 (938)
Q Consensus 536 ~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~-~~~~~~~~~~~~~~ 614 (938)
++||+++.++|+++|.+.+|||.||.++|+++||.+.+...+..+||.||++.||+.++++++.+ ++.++++|++++..
T Consensus 513 rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvg 592 (1258)
T KOG1053|consen 513 RADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVG 592 (1258)
T ss_pred hhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCccc
Confidence 99999999999999999999999999999999999999889999999999999999999998866 55677999988765
Q ss_pred CC---------CCccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhccc
Q 002309 615 FR---------GPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQ 685 (938)
Q Consensus 615 ~~---------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~ 685 (938)
+. +.+.++++.++|..++.+|... ++.++|+...+|+++.+|.||++|+.++|||||+|||..++
T Consensus 593 yn~~l~~gkkpggp~FtigkaiwllwaLvFnns------Vpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~ 666 (1258)
T KOG1053|consen 593 YNRNLANGKKPGGPSFTIGKAIWLLWALVFNNS------VPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEE 666 (1258)
T ss_pred ccccccCCCCCCCcceehhhHHHHHHHHHhCCC------cCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 42 2246789999999999888776 67889999999999999999999999999999999999999
Q ss_pred ccCCCCChHHhhhCC-------CCeeEEeCchHHHHHHHhccccccccccc--CCHHHHHHHHhcCCCCCceEEEEecch
Q 002309 686 LYSPINGIESLRKSD-------DPIGYQEGSFAEYYLSQELNISKSRLVAL--RTPEDYAKALKDGPGKGGVAAVVDERP 756 (938)
Q Consensus 686 ~~~~i~s~~dL~~~~-------~~i~~~~~s~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~g~~~a~i~~~~ 756 (938)
+..++..+.|=+-+. .++|.+.++..++++++++......++.| ...++.++.|+. |+.||||+|..
T Consensus 667 ~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK~----gKLDAFIyDaA 742 (1258)
T KOG1053|consen 667 YYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLKN----GKLDAFIYDAA 742 (1258)
T ss_pred hhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHhc----ccchhHHHHHH
Confidence 999999999966433 35787777777888866554333445544 577899999998 99999999999
Q ss_pred hHHHHHhc--CCcEEEeC--ccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcCCCCCCCcccccccccc
Q 002309 757 YVELFLSS--QCSFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLMKSSCSLENAELESDRL 832 (938)
Q Consensus 757 ~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~~~~c~~~~~~~~~~~l 832 (938)
.++|+..+ .|+|..+| ..|...+||+++|||||++..||.+|+++...|+++++++.|+. +.|.++..+..+.+|
T Consensus 743 VLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wlt-gic~n~k~evmSsqL 821 (1258)
T KOG1053|consen 743 VLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLT-GICHNSKNEVMSSQL 821 (1258)
T ss_pred HHHHhhccCCCceEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhh-cccccchhhhhhccc
Confidence 99999887 59999998 89999999999999999999999999999999999999999998 778877777789999
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 002309 833 HLSSFWGLFLICGVACFIALVIYFLQIMQQLC 864 (938)
Q Consensus 833 ~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~ 864 (938)
++++|.|+||+|++|++||+++|++|.+.+.+
T Consensus 822 dIdnmaGvFymL~~amgLSllvfi~EHlvYw~ 853 (1258)
T KOG1053|consen 822 DIDNMAGVFYMLAVAMGLSLLVFIWEHLVYWK 853 (1258)
T ss_pred ChhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999765443
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=4.2e-66 Score=616.22 Aligned_cols=596 Identities=37% Similarity=0.664 Sum_probs=511.5
Q ss_pred HHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhh
Q 002309 215 LLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRK 294 (938)
Q Consensus 215 ~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 294 (938)
.+.+++....+++++++.+..+..++.+|.++||+..+|+|+.++......+.... ....+...|.+..+.+.|.+...
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~s~~~ 83 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL-YSLIDVMNGVLGLRGHIPRSELL 83 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc-ccchhheeeEEeeccCCCccHHH
Confidence 45566668899999999988899999999999999999999999987766655222 34556788999999999999999
Q ss_pred HHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHh
Q 002309 295 KNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL 374 (938)
Q Consensus 295 ~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~ 374 (938)
++|..+|+.. ....+.++.++||+++++|.|++++.. . ......|+..+.|.++..+.+.+.
T Consensus 84 ~~~~~~~~~~---~~~~~~~~~~~~D~~~~~a~~~~~~~~-~--------------~~~~~~~~~~~~~~~~~~~~~~~~ 145 (656)
T KOG1052|consen 84 QNFVTRWQTS---NVELLVYALWAYDAIQALARAVESLLN-I--------------GNLSLSCGRNNSWLDALGVFNFGK 145 (656)
T ss_pred HHHHHHHhhc---cccccchhhHHHHHHHHHHHHHHHhhc-C--------------CCCceecCCCCcccchhHHHHHHH
Confidence 9999999864 235678899999999999999999754 1 123455666677778888988888
Q ss_pred cCcccc---cccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCCccCCCcccccCCCCCCccccccceeEeCCCC
Q 002309 375 QSNLVG---LTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSKEPPETLYAQPFNRSSTIQHLHSVIWPGET 451 (938)
Q Consensus 375 ~~~f~G---~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~i~w~g~~ 451 (938)
+....+ .+|.+.++.++.+....|+|++..+.+.+.||.|++..| .+|+||+..
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~ 202 (656)
T KOG1052|consen 146 KLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKD 202 (656)
T ss_pred hhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCc
Confidence 876544 557788887888899999999999999999999998764 258999999
Q ss_pred ccCCCcccccCCCceeEEEecccccccceeee--c-cCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCC--CCCChh
Q 002309 452 LSKPRGWVFPNNGKLLKIGVPNRASYREFVSK--V-RGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGH--KNPSYT 526 (938)
Q Consensus 452 ~~~P~~~~~~~~g~~lrv~~~~~~~~~~~~~~--~-~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~--~~~~~~ 526 (938)
...|++|.+|.+|+++||+++..+||..+... . .+++++.|+|+||++++++++||+++++.++.+.|. ++|+|+
T Consensus 203 ~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~ 282 (656)
T KOG1052|consen 203 YFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWD 282 (656)
T ss_pred ccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChh
Confidence 99999999999999999999988776655543 1 246799999999999999999999888888876554 457999
Q ss_pred HHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhhe
Q 002309 527 QLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWI 606 (938)
Q Consensus 527 ~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~ 606 (938)
|++++|.+|++|++ ++++++++|.+++|||.||++.++++++++++..+..|.|+.||+++||++++++++++++++|+
T Consensus 283 g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~ 361 (656)
T KOG1052|consen 283 GLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLLWI 361 (656)
T ss_pred HHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999 89999999999999999999999999999999655599999999999999999999999999999
Q ss_pred eecccCCCCCCCc-----cccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhh
Q 002309 607 LEHRINDEFRGPP-----KRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSIL 681 (938)
Q Consensus 607 ~~~~~~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~L 681 (938)
++|+.+.++ ... .....+++|+++++++.|+ +.+.|++.++|++.++||+|++|++++|||+|+|+|
T Consensus 362 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~-------~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~L 433 (656)
T KOG1052|consen 362 LERLSPYEL-PPRQIVTSLFSLLNCLWLTVGSLLQQG-------SDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFL 433 (656)
T ss_pred HhccccccC-CccccceeEeecccchhhhhHHHhccC-------CCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999988 222 1235678899999999998 468999999999999999999999999999999999
Q ss_pred hcccccCCCCChHHhhh-CCCCeeEEeCchHHHHHHHh---cccccc-cccccCCHHHHHHHHhcCCCCCceEEEEecch
Q 002309 682 TVQQLYSPINGIESLRK-SDDPIGYQEGSFAEYYLSQE---LNISKS-RLVALRTPEDYAKALKDGPGKGGVAAVVDERP 756 (938)
Q Consensus 682 t~~~~~~~i~s~~dL~~-~~~~i~~~~~s~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~ 756 (938)
|++++.++|++++||++ ++..+|+..+++...++.+. ...... ..+.+.+++++.+++.++.. +.++++.+..
T Consensus 434 t~~~~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~--~~~~~~~~~~ 511 (656)
T KOG1052|consen 434 TVPRLRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS--GGYAFASDEL 511 (656)
T ss_pred cccccCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC--CceEEEeccH
Confidence 99999999999999995 77789999999999999665 333334 66778999999999999433 2466666666
Q ss_pred hHHHHHhcC--CcEEEeCccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcCC----CCCCCcccccccc
Q 002309 757 YVELFLSSQ--CSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLMK----SSCSLENAELESD 830 (938)
Q Consensus 757 ~~~~~~~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~~----~~c~~~~~~~~~~ 830 (938)
.+.|...++ |+++.+++.+...+++ ++||||||++.++++|++++|.|.++++.++|+.. ..|...+ ...
T Consensus 512 ~~~~~~~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~ 587 (656)
T KOG1052|consen 512 YLAYLFLRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTK 587 (656)
T ss_pred HHHHHHhhcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---ccc
Confidence 666665554 9999999999999999 99999999999999999999999999999999994 3444433 467
Q ss_pred cccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 002309 831 RLHLSSFWGLFLICGVACFIALVIYFLQIMQQLCKSA 867 (938)
Q Consensus 831 ~l~l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~~ 867 (938)
.|++++++|+|+++++|+++|+++|++|++|++++..
T Consensus 588 ~l~~~~~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 588 ALDLESFWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 8999999999999999999999999999999998876
No 5
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=1.8e-47 Score=417.97 Aligned_cols=363 Identities=21% Similarity=0.310 Sum_probs=293.0
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEE-ccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~-~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||+||+..+ .+.+.|+++||+++|.+..++++.+|.+.+ +++.+|++.++.++|+|+++||+|||||.++..+..
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 3899999876 357899999999999999999999999999 899999999999999999999999999999999999
Q ss_pred HHHhhccCCccEEEccc-----------CCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccch
Q 002309 112 VSYVSNELQVPLLSFGV-----------TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG 180 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~-----------~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~ 180 (938)
++++|+..+||+|+++. ++|.++..+||++.| |+ ..+.+|+++++++|+|++|++|| |+++|...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lr--p~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAAR--PP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEec--Cc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999855 345555556665555 44 46788999999999999999999 88899999
Q ss_pred HHHHHHHHhhcceEEEEEee-------cCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCe
Q 002309 181 VSALNDKLAERRCRISYKSG-------IPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (938)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~-------~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 253 (938)
++.+.+++.+.+.+|..... +++. ..+.....|.+++..+ ++||++|+++.+..+|++|+++||+..+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~v~~~~~~~~~~~---l~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y 229 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQKVDRNISRVFTNL---FTTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDS 229 (400)
T ss_pred HHHHHHHHhhcCceEEEEEcccCcchhhhhH---HHHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCe
Confidence 99999999999999886541 1111 1222333344444444 89999999999999999999999999999
Q ss_pred EEEEeCcchhcccCCCCChhhhhccc-cEEEEEEcCCCChhhHHHH----HHHhhhcCC---C--CCCCchhhHHhHHHH
Q 002309 254 VWIATDWLAYMLDSASLPSETLESMQ-GVLVLRQHIPESDRKKNFL----SRWKNLTGG---S--LGMNSYGLYAYDSVW 323 (938)
Q Consensus 254 ~wi~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~--~~~~~~~~~~YDav~ 323 (938)
+||+|++.....+. .+...... ++++++.+.|......+|. .+|++.... + ..++.+++++|||||
T Consensus 230 ~wI~t~~~~~~~dl----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~ 305 (400)
T cd06392 230 HWVFVNEEISDTEI----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVL 305 (400)
T ss_pred EEEEecCCcccccH----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHH
Confidence 99999986654433 33444444 6777999988777555553 677644311 1 146789999999999
Q ss_pred HHHHHHHHHHhcCCcccccCCccccccCCCcccc--CCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEE
Q 002309 324 LLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (938)
Q Consensus 324 ~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~ 401 (938)
++|+|+++++...... +..+ ..| +...+|++|..|+++|++++|+|+||+|+||++|+|.++.|+|+
T Consensus 306 ~~A~Al~~ll~~~~~~---------~~~~--l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi 374 (400)
T cd06392 306 MLANAFHRKLEDRKWH---------SMAS--LNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEIL 374 (400)
T ss_pred HHHHHHHHHhhccccC---------CCCC--CccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEE
Confidence 9999999865422111 1122 356 56789999999999999999999999999999999999999999
Q ss_pred Eee-----ccceEEEEEeeCCCCCc
Q 002309 402 NVI-----GTGFRMIGYWSNYSGLS 421 (938)
Q Consensus 402 ~~~-----~~~~~~Vg~w~~~~g~~ 421 (938)
|++ +.++++||+|++.+||+
T Consensus 375 ~l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 375 GTSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred eccccccCCCCceEeEEecCCCCCC
Confidence 954 66799999999998863
No 6
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=1.4e-46 Score=420.26 Aligned_cols=365 Identities=21% Similarity=0.308 Sum_probs=309.1
Q ss_pred eEEEEEEee-CC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCC-ChHHHHHHHHHHHhcCcEEEEcCCC
Q 002309 31 VVNVGALFT-LD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQC 105 (938)
Q Consensus 31 ~i~IG~i~~-~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~V~aviGp~~ 105 (938)
.|+||+++| ++ +..|...+.|+++||++||+++++|++.+|.+.+.+.++ ++..+++.+|+++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 55 455778899999999999999999999999999999765 7778889999988789999999999
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~ 185 (938)
|..+.+++++++.++||+|+++++++.+++. .++++|+.|++..++.++++++++|+|++|++||+++. |...++.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHH
Confidence 9999999999999999999999998888864 35788888999899999999999999999999997664 666667888
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 265 (938)
+.+++.|++|+. ..++.+ +.|++++|++||..++++||+++....+..+++||+++||+.+.|+|++++......
T Consensus 160 ~~~~~~g~~v~~-~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKI-RQLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEE-EECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 888889999886 446544 689999999999999999999999999999999999999999999999877533322
Q ss_pred cCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhh-cCCCC---------CCCchhhHHhHHHHHHHHHHHHHHhc
Q 002309 266 DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGSL---------GMNSYGLYAYDSVWLLAHAIESFFNQ 335 (938)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~YDav~~~a~Al~~~~~~ 335 (938)
+. ........++++++...+..+.+++|.++|+++ ++... .+..+++++||||+++|+|++++.+.
T Consensus 235 ~~----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~~ 310 (384)
T cd06393 235 DL----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQM 310 (384)
T ss_pred cc----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhhc
Confidence 22 111122334688888888899999999999853 52100 12568999999999999999975322
Q ss_pred CCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcC-CCCCccceEEEEEeeccceEEEEEe
Q 002309 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVIGTGFRMIGYW 414 (938)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~-~g~~~~~~~~I~~~~~~~~~~Vg~w 414 (938)
......|+...+|++|..|+++|++++|+|+||+++||+ +|+|.+..++|+|+.++++++||+|
T Consensus 311 ---------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W 375 (384)
T cd06393 311 ---------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVW 375 (384)
T ss_pred ---------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEE
Confidence 112346778889999999999999999999999999996 6789999999999999999999999
Q ss_pred eCCCCCc
Q 002309 415 SNYSGLS 421 (938)
Q Consensus 415 ~~~~g~~ 421 (938)
++..||+
T Consensus 376 ~~~~g~~ 382 (384)
T cd06393 376 NPNTGLN 382 (384)
T ss_pred cCCCCcC
Confidence 9999875
No 7
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=1.5e-46 Score=430.82 Aligned_cols=375 Identities=21% Similarity=0.329 Sum_probs=310.7
Q ss_pred CCCCeeEEEEEEeeCCC-----------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHH
Q 002309 26 SARPAVVNVGALFTLDS-----------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVE 88 (938)
Q Consensus 26 ~~~~~~i~IG~i~~~~~-----------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~ 88 (938)
...+++|.||++||.+. ..|.+...|+.+|||+||+++++|||++|++.++|+|+++..|++.
T Consensus 4 ~~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~ 83 (472)
T cd06374 4 ARMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQ 83 (472)
T ss_pred EEecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHH
Confidence 45788999999999983 1367888999999999999999999999999999999999999999
Q ss_pred HHHHHhc--------------------------CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCce
Q 002309 89 ALRFMET--------------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFF 141 (938)
Q Consensus 89 a~~li~~--------------------------~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~ 141 (938)
+.+++.+ +|.|||||.+|..+.++++++..++||+|+++++++.+++ ..|||+
T Consensus 84 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~ 163 (472)
T cd06374 84 SIEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYF 163 (472)
T ss_pred HHHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCce
Confidence 9999852 7999999999999999999999999999999999999998 579999
Q ss_pred EEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc
Q 002309 142 VRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (938)
Q Consensus 142 ~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~ 221 (938)
||+.|++..++.++++++++|+|++|++||+|++||+...+.+.+.+++.|+||+....++.. ....++..++++||+
T Consensus 164 fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~ 241 (472)
T cd06374 164 LRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRS 241 (472)
T ss_pred EEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999988877544 347899999999997
Q ss_pred C--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHH-
Q 002309 222 M--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL- 298 (938)
Q Consensus 222 ~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~- 298 (938)
. +++||++.+....+..++++|+++|+. .+++||++++|...... .....+..+|.+++.+..+..+.+++|+
T Consensus 242 ~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~---~~~~~~~~~G~l~~~~~~~~~~~F~~~l~ 317 (472)
T cd06374 242 RLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDV---VEGYEEEAEGGITIKLQSPEVPSFDDYYL 317 (472)
T ss_pred cCCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHh---hhcchhhhheeEEEEecCCCCccHHHHHH
Confidence 5 455677667778899999999999985 56899999988653211 1234467899999998888777777654
Q ss_pred --------------HHHhhhcC-C------CC-----------------CCCchhhHHhHHHHHHHHHHHHHHhcCCccc
Q 002309 299 --------------SRWKNLTG-G------SL-----------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (938)
Q Consensus 299 --------------~~~~~~~~-~------~~-----------------~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 340 (938)
+.|+..|+ . .. ....++.++|||||++|+||++++.+....+
T Consensus 318 ~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~~ 397 (472)
T cd06374 318 KLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPGH 397 (472)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCCC
Confidence 44555442 0 00 0124566899999999999999986543111
Q ss_pred ccCCccccccCCCccccCCccccCchHHHHHHHhcCccccccc-ceEEcCCCCCccceEEEEEeec-----cceEEEEEe
Q 002309 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYW 414 (938)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG-~v~F~~~g~~~~~~~~I~~~~~-----~~~~~Vg~w 414 (938)
...|+.... .++.+|+++|++++|+|++| +|.||++|++. ..|+|+|++. .++++||.|
T Consensus 398 -------------~~~c~~~~~-~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w 462 (472)
T cd06374 398 -------------VGLCDAMKP-IDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSW 462 (472)
T ss_pred -------------CCCCcCCCC-CCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEE
Confidence 113443333 35999999999999999999 69999999974 5899999994 358999999
Q ss_pred eCCCCCcc
Q 002309 415 SNYSGLSK 422 (938)
Q Consensus 415 ~~~~g~~~ 422 (938)
++ .+|.+
T Consensus 463 ~~-~~l~~ 469 (472)
T cd06374 463 HE-GDLGI 469 (472)
T ss_pred eC-Ccccc
Confidence 74 45543
No 8
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.7e-46 Score=411.23 Aligned_cols=355 Identities=18% Similarity=0.240 Sum_probs=297.5
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||+||+.++ ...+.|+++||+++|.+..+++. +. +-...|.+.+.+++|+++++||.|||||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~--~~---~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQ--ID---IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccc--eE---EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998764 35789999999999998655431 11 1223588999999999999999999999999999999
Q ss_pred HHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcc
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR 192 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g 192 (938)
+++|+..+||+|+++. |... ...|++++.|+ +++|+++++++|+|++|++||+++ ||...++.+.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999999744 3332 33568999998 799999999999999999999655 99999999999999999
Q ss_pred eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCCh
Q 002309 193 CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPS 272 (938)
Q Consensus 193 ~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~ 272 (938)
++|.....++.. ..++.+.|++++.+++++||++|+++.+..+++++.+.+|+..+|+||+|+......+. .
T Consensus 145 ~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~----~ 216 (364)
T cd06390 145 WQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL----T 216 (364)
T ss_pred ceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH----H
Confidence 999877666543 66999999999999999999999999999999999889999999999999832222222 3
Q ss_pred hhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC------CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 273 ETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 273 ~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
+......|+++++++.|..+..++|.++|++.+. ....++.+++++|||||++|+|++++..++..++..
T Consensus 217 ~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~---- 292 (364)
T cd06390 217 KFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRR---- 292 (364)
T ss_pred HHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC----
Confidence 4556889999999999999999999999987653 112467899999999999999999986654433211
Q ss_pred ccccCCCccccC--CccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCC
Q 002309 347 LKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (938)
Q Consensus 347 ~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~ 420 (938)
+....|. ...+|++|..|+++|++++|+|+||+++||++|+|.+..|+|+|+.+.++++||+|++..|+
T Consensus 293 -----~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 293 -----GNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred -----CCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 1122343 34589999999999999999999999999999999999999999999999999999998875
No 9
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=4.8e-46 Score=422.44 Aligned_cols=364 Identities=22% Similarity=0.367 Sum_probs=308.2
Q ss_pred eeEEEEEEeeCCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh--
Q 002309 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (938)
Q Consensus 30 ~~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~-- 94 (938)
++|.||++||.+. ..|.+...|+.+|||+||+++++|||++|++.++|+|+++..|++.+.+++.
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 4799999999983 3578899999999999999999999999999999999999999999988873
Q ss_pred -----------------------cCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchH
Q 002309 95 -----------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSY 150 (938)
Q Consensus 95 -----------------------~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~ 150 (938)
.+|.|||||.+|..+.+++++++.++||+|+++++++.|++ .+|||+||+.|+|..
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~ 160 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFY 160 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHH
Confidence 26999999999999999999999999999999999999998 579999999999999
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc-CCceEEEE
Q 002309 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVL 229 (938)
Q Consensus 151 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~-~~~~viv~ 229 (938)
|++++++++++|+|++|++||+|++||+...+.+.+++++.|+||+..+.++.. ....|+.+++++++. .++||||+
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~l~~~~~a~vVvl 238 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRS--ADRKSYDSVIRKLLQKPNARVVVL 238 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CCHHHHHHHHHHHhccCCCEEEEE
Confidence 999999999999999999999999999999999999999999999988888764 446899999999875 69999999
Q ss_pred EeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHH---------
Q 002309 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR--------- 300 (938)
Q Consensus 230 ~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~--------- 300 (938)
.+...++..++++|+++|+. +.||++++|...... .....+.++|++++.+.....+.+++|++.
T Consensus 239 ~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~---~~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n 312 (458)
T cd06375 239 FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESI---VKGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRN 312 (458)
T ss_pred ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchh---hhccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCC
Confidence 99999999999999999985 799999988643211 112335789999999988777777766644
Q ss_pred ------HhhhcC---C--C-----------------CCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCC
Q 002309 301 ------WKNLTG---G--S-----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (938)
Q Consensus 301 ------~~~~~~---~--~-----------------~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (938)
|+..|+ . . ......+.++||||+++|+|||+++++++...
T Consensus 313 ~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~------------ 380 (458)
T cd06375 313 PWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNT------------ 380 (458)
T ss_pred cHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCC------------
Confidence 555553 0 0 01234688999999999999999986543211
Q ss_pred CccccCCccccCchHHHH-HHHhcCccc-----cccc-ceEEcCCCCCccceEEEEEeec--cc----eEEEEEeeC
Q 002309 353 GNLHLGAMSIFDDGMLLL-GNILQSNLV-----GLTG-PLKFNSDRSLIHAAYDIINVIG--TG----FRMIGYWSN 416 (938)
Q Consensus 353 ~~~~~~~~~~~~~g~~l~-~~l~~~~f~-----G~tG-~v~F~~~g~~~~~~~~I~~~~~--~~----~~~Vg~w~~ 416 (938)
...|.....++ +++++ ++|++++|. |.+| +|.||+||+ ....|+|+|++. ++ +++||.|+.
T Consensus 381 -~~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 381 -TKLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGD-GLGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred -CCCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCC-CCcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 12355555554 88999 599999999 9988 599999999 477999999993 32 689999964
No 10
>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=6.7e-46 Score=414.04 Aligned_cols=347 Identities=23% Similarity=0.337 Sum_probs=293.5
Q ss_pred EEEEeeCCC---------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHH
Q 002309 34 VGALFTLDS---------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (938)
Q Consensus 34 IG~i~~~~~---------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~l 92 (938)
||++||.+. ..|.+...|+.+|+|+||+++ +|||++|+++++|+|+++..|+..+.+|
T Consensus 2 lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~l 80 (403)
T cd06361 2 IGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRF 80 (403)
T ss_pred EEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHH
Confidence 788888874 237788999999999999999 5589999999999999999999999999
Q ss_pred Hhc-------------------CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHH
Q 002309 93 MET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (938)
Q Consensus 93 i~~-------------------~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~ 152 (938)
+++ +|.|||||.+|..+.+++++++.++||+||++++++.|++ .+||||||+.|+|..|+
T Consensus 81 i~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa 160 (403)
T cd06361 81 LSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQT 160 (403)
T ss_pred HhhcccccccccccccCCCCCCCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHH
Confidence 873 7999999999999999999999999999999999999997 67999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCC---hhhHHHHHHHHhcCCceEEEE
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVN---TGYVMDLLVKVALMESRVIVL 229 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~---~~d~~~~l~~lk~~~~~viv~ 229 (938)
+++++++++++|++|++|++|++||++..+.|++++++.|+||+..+.++...... ..++..+++.++.+++|+||+
T Consensus 161 ~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv 240 (403)
T cd06361 161 KAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV 240 (403)
T ss_pred HHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE
Confidence 99999999999999999999999999999999999999999999988887641111 156667777789999999999
Q ss_pred EeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCC
Q 002309 230 HVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSL 309 (938)
Q Consensus 230 ~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 309 (938)
.+...++..++++|+++|+ +++||++++|.+.... ..........|.+++.+..+..+.++ +.|++.+
T Consensus 241 ~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~--~~~~~~~~~~g~ig~~~~~~~~~~F~---~~~~~~~---- 308 (403)
T cd06361 241 FARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKI--LTDPNVKKIGKVVGFTFKSGNISSFH---QFLKNLL---- 308 (403)
T ss_pred EeChHHHHHHHHHHHHhCC---CeEEEEECcccCcccc--ccCCcccccceEEEEEecCCccchHH---HHHHHhh----
Confidence 9999999999999999998 6899999998753222 11223356788999988775555544 4444433
Q ss_pred CCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcC
Q 002309 310 GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS 389 (938)
Q Consensus 310 ~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~ 389 (938)
..++||||+++|+||++++.++ .|....+. ++++|+++|++++|+|++|++.||+
T Consensus 309 -----~~~v~~AVyaiA~Al~~~~~~~-------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~ 363 (403)
T cd06361 309 -----IHSIQLAVFALAHAIRDLCQER-------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDA 363 (403)
T ss_pred -----HHHHHHHHHHHHHHHHHhccCC-------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECC
Confidence 3468999999999999964321 24333333 4899999999999999988999999
Q ss_pred CCCCccceEEEEEeeccc----eEEEEEeeCCCC
Q 002309 390 DRSLIHAAYDIINVIGTG----FRMIGYWSNYSG 419 (938)
Q Consensus 390 ~g~~~~~~~~I~~~~~~~----~~~Vg~w~~~~g 419 (938)
+|+. ...|+|+++++++ +++||.|++.+.
T Consensus 364 ~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 364 NGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred CCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 9994 7789999999643 699999998753
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=6.3e-46 Score=425.65 Aligned_cols=370 Identities=24% Similarity=0.377 Sum_probs=309.5
Q ss_pred eeEEEEEEeeCCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh--
Q 002309 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-- 94 (938)
Q Consensus 30 ~~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~-- 94 (938)
+++.||++||++. ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..|++.+.+++.
T Consensus 1 Gd~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~ 80 (452)
T cd06362 1 GDIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRAS 80 (452)
T ss_pred CCeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhh
Confidence 4799999999983 3577789999999999999999999999999999999999999999998885
Q ss_pred ---------------------cCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHH
Q 002309 95 ---------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (938)
Q Consensus 95 ---------------------~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~ 152 (938)
.+|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..|||+||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc-CCceEEEEEe
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHV 231 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~-~~~~viv~~~ 231 (938)
.++++++++++|++|++||+|++||....+.+.+.+++.|+||+....++.. ....|+.+++++|++ .++|+||+.+
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 9999999999999999999999999999999999999999999988888754 347899999999987 5799999999
Q ss_pred ChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHH-------------
Q 002309 232 SPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFL------------- 298 (938)
Q Consensus 232 ~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------- 298 (938)
...++..++++|+++|+. .+++||.++.|...... .....+..+|++++.+.....+.+++|+
T Consensus 239 ~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~---~~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~ 314 (452)
T cd06362 239 REDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSV---VEGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPW 314 (452)
T ss_pred ChHHHHHHHHHHHHcCCc-CceEEEEeccccccchh---hcccccccceEEEEEecccccccHHHHhhhCCcCcCCCChH
Confidence 999999999999999997 56899999887653211 1233467888888887766555544433
Q ss_pred --HHHhhhcC------CC----------------CCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCc
Q 002309 299 --SRWKNLTG------GS----------------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGN 354 (938)
Q Consensus 299 --~~~~~~~~------~~----------------~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (938)
+.|+..+. .. .....+++++|||||++|+||++++.++.... .
T Consensus 315 ~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~-------------~ 381 (452)
T cd06362 315 FREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT-------------T 381 (452)
T ss_pred HHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------C
Confidence 33443332 00 01244789999999999999999986543211 1
Q ss_pred cccCCccccCchHHHHHHHhcCccccccc-ceEEcCCCCCccceEEEEEeec----cceEEEEEeeCCCCC
Q 002309 355 LHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG----TGFRMIGYWSNYSGL 420 (938)
Q Consensus 355 ~~~~~~~~~~~g~~l~~~l~~~~f~G~tG-~v~F~~~g~~~~~~~~I~~~~~----~~~~~Vg~w~~~~g~ 420 (938)
..|+... +.++.+|+++|++++|+|++| +|+||++|++ ...|+|++++. .++++||+|++..|+
T Consensus 382 ~~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 382 GLCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 1244433 445999999999999999998 7999999997 55999999984 358999999887665
No 12
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=2.4e-45 Score=400.61 Aligned_cols=361 Identities=14% Similarity=0.221 Sum_probs=301.8
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCC-CEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHG-TKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g-~~l~~~~~D~~-~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
.||+||+.++ .+.+.||++|++++|.+..+++. .+|...+.... .|++.+.+++|+++++||.||+||.++..+.
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMN 77 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHH
Confidence 3899999655 35789999999999999877664 58887665444 5899999999999999999999999999999
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhh
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~ 190 (938)
+++++|+..+||+|.+.- + .+...++.+++.|+ +.+|+++++++|+|++|++|| |+++|...++.+.+.++.
T Consensus 78 ~v~s~c~~~~iP~i~~~~-~---~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~ 149 (372)
T cd06387 78 TLTSFCGALHTSFITPSF-P---TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCC-C---CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 999999999999998632 2 12344788999998 689999999999999999999 778899999999999999
Q ss_pred cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCC
Q 002309 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (938)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 270 (938)
.++.|......+.. ...+++..+++++.++.++||++|+++.+..+|++|+++||+..+|+||+|+......+.
T Consensus 150 ~~~~V~~~~v~~~~---~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl--- 223 (372)
T cd06387 150 NNWQVTARSVGNIK---DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL--- 223 (372)
T ss_pred CCceEEEEEeccCC---chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH---
Confidence 99988766544332 356899999999999999999999999999999999999999999999999743333333
Q ss_pred ChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC------CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
.+......++++++++.+..+..++|.++|++.+. ...+++.+++++|||||++|+|++++...+..++.
T Consensus 224 -~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~--- 299 (372)
T cd06387 224 -ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSR--- 299 (372)
T ss_pred -HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCccc---
Confidence 23344455599999999999999999999987653 11245678999999999999999998654433221
Q ss_pred ccccccCCCccccC--CccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCC
Q 002309 345 SRLKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (938)
Q Consensus 345 ~~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~ 420 (938)
.+....|. ...+|.+|..|+++|++++|+|+||+++||++|+|.++.|+|+|+.+.++++||+|++..|+
T Consensus 300 ------~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 300 ------RGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred ------CCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 01122443 35689999999999999999999999999999999999999999999999999999998875
No 13
>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=2.1e-45 Score=418.98 Aligned_cols=367 Identities=20% Similarity=0.293 Sum_probs=303.9
Q ss_pred eeEEEEEEeeCCC----------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHH
Q 002309 30 AVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (938)
Q Consensus 30 ~~i~IG~i~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~ 87 (938)
++|.||++||.+. ..|.+...|+.+|||+||++..+|||++|++.++|+||++..|++
T Consensus 1 Gdi~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~ 80 (469)
T cd06365 1 GDLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALE 80 (469)
T ss_pred CCeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHH
Confidence 4689999999972 126778899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHH
Q 002309 88 EALRFME--------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (938)
Q Consensus 88 ~a~~li~--------------~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~ 152 (938)
.+.+++. .+|+|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|+|..|+
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHH
Confidence 9999985 36999999999999999999999999999999999999997 67999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
.++++++++|+|++|++|+.|++||....+.+.+++++.|+||+..+.++........++..++++++++++|+||+++.
T Consensus 161 ~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~ 240 (469)
T cd06365 161 LGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGD 240 (469)
T ss_pred HHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcC
Confidence 99999999999999999999999999999999999999999999988887662112348899999999999999999999
Q ss_pred hhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHH------------
Q 002309 233 PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------ 300 (938)
Q Consensus 233 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------ 300 (938)
...+..++.++.+.+. .+++||++++|...... .....+.++|++++.++.+..+++++|+++
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~---~~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~ 315 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSP---KDFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFL 315 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeeccccccccc---cccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHH
Confidence 8888776655555443 56999999988654322 133456899999999999888888877655
Q ss_pred ---HhhhcC------C-----------C----------CCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcccccc
Q 002309 301 ---WKNLTG------G-----------S----------LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTM 350 (938)
Q Consensus 301 ---~~~~~~------~-----------~----------~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~ 350 (938)
|+..|+ . . ......+.++||||+++|+||++++.++...
T Consensus 316 ~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~----------- 384 (469)
T cd06365 316 EKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVET----------- 384 (469)
T ss_pred HhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccC-----------
Confidence 443332 0 0 0012356789999999999999999775421
Q ss_pred CCCccccCCccccCchHHHHHHHhcCcccccccc-eEEcCCCCCccceEEEEEeec--c---ceEEEEEeeC
Q 002309 351 EGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGP-LKFNSDRSLIHAAYDIINVIG--T---GFRMIGYWSN 416 (938)
Q Consensus 351 ~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~-v~F~~~g~~~~~~~~I~~~~~--~---~~~~Vg~w~~ 416 (938)
.+..+|.. .+. ++.+|+++|++++|+|.+|. |.||+||++ ...|+|+|++. + .+++||+|++
T Consensus 385 -~~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~ 452 (469)
T cd06365 385 -QSENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSP 452 (469)
T ss_pred -CCcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeC
Confidence 01123332 233 48899999999999999995 999999995 67999999983 2 3699999975
No 14
>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=4.1e-45 Score=418.88 Aligned_cols=374 Identities=20% Similarity=0.306 Sum_probs=310.7
Q ss_pred CCCCeeEEEEEEeeCCC----------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChH
Q 002309 26 SARPAVVNVGALFTLDS----------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGF 83 (938)
Q Consensus 26 ~~~~~~i~IG~i~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~ 83 (938)
...+++|.||++||.+. ..|.+...|+.+|||+||+++++||+++|++.++|+|+++.
T Consensus 7 ~~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~ 86 (510)
T cd06364 7 AQKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVS 86 (510)
T ss_pred eeecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchH
Confidence 35678999999999984 34778899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhc-------------------CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEE
Q 002309 84 IGMVEALRFMET-------------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVR 143 (938)
Q Consensus 84 ~a~~~a~~li~~-------------------~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r 143 (938)
.|++.+.+++.+ +|.|||||.+|.++.++++++..++||+|+++++++.+++ ..||++||
T Consensus 87 ~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffR 166 (510)
T cd06364 87 KALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLR 166 (510)
T ss_pred HHHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeE
Confidence 999999999864 2569999999999999999999999999999999999998 67999999
Q ss_pred ecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC
Q 002309 144 TTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME 223 (938)
Q Consensus 144 ~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~ 223 (938)
+.|+|..+++++++++++|+|++|++|+.|++||+...+.+++.+++.|+||+..+.++.. ....|+.++++++++++
T Consensus 167 t~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~ 244 (510)
T cd06364 167 TIPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNST 244 (510)
T ss_pred cCCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999988877653 35789999999999999
Q ss_pred ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHH----
Q 002309 224 SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLS---- 299 (938)
Q Consensus 224 ~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---- 299 (938)
+|+||+.+...++..++++|+++|+. +++||+++.|...... ......+.+.|++++.+.....+.+++|++
T Consensus 245 a~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~--~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p 320 (510)
T cd06364 245 AKVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLI--AMPEYFDVMGGTIGFALKAGQIPGFREFLQKVHP 320 (510)
T ss_pred CeEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccc--ccCCccceeeEEEEEEECCCcCccHHHHHHhCCc
Confidence 99999999999999999999999985 5799999988654322 223455788999999888766665555443
Q ss_pred -----------HHhhhcC---CC---C------------------------C--------------------CCchhhHH
Q 002309 300 -----------RWKNLTG---GS---L------------------------G--------------------MNSYGLYA 318 (938)
Q Consensus 300 -----------~~~~~~~---~~---~------------------------~--------------------~~~~~~~~ 318 (938)
.|+..|+ .. . . ...++.++
T Consensus 321 ~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v 400 (510)
T cd06364 321 KKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNV 400 (510)
T ss_pred ccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHH
Confidence 3444442 00 0 0 11235679
Q ss_pred hHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCccccccc-ceEEcCCCCCccce
Q 002309 319 YDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAA 397 (938)
Q Consensus 319 YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG-~v~F~~~g~~~~~~ 397 (938)
||||+++|+|||+++.+..... ......|......+ +++|+++|++++|+|.+| .|.||++|+. ...
T Consensus 401 ~~AVyAvAhaLh~~~~c~~~~~----------~~~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~ 468 (510)
T cd06364 401 YLAVYSIAHALQDIYTCTPGKG----------LFTNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGN 468 (510)
T ss_pred HHHHHHHHHHHHHHhcCCCCCC----------CccCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCCC-ccc
Confidence 9999999999999987642210 00012355544454 899999999999999998 5999999994 679
Q ss_pred EEEEEeec---c---ceEEEEEeeCC
Q 002309 398 YDIINVIG---T---GFRMIGYWSNY 417 (938)
Q Consensus 398 ~~I~~~~~---~---~~~~Vg~w~~~ 417 (938)
|+|+|++. + .+++||.|++.
T Consensus 469 YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 469 YSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 99999994 2 26899999863
No 15
>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=6.6e-45 Score=416.62 Aligned_cols=366 Identities=23% Similarity=0.399 Sum_probs=299.9
Q ss_pred eeEEEEEEeeCCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHH----
Q 002309 30 AVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF---- 92 (938)
Q Consensus 30 ~~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~l---- 92 (938)
++|+||++||.+. ..|.+...|+.+|+|+||+++++|||++|+++++|+|+++..+.+.+..+
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 4799999999981 25677899999999999999999999999999999999876655555443
Q ss_pred Hh-------------------cCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHH
Q 002309 93 ME-------------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQM 152 (938)
Q Consensus 93 i~-------------------~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~ 152 (938)
++ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|+|..++
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 32 37999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhc-CCceEEEEE
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLH 230 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~-~~~~viv~~ 230 (938)
+++++++++|+|++|++||+|++||....+.+.+.+++. |+||.....++.. ....|+.+++++|++ .++|+||+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~ 238 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIF 238 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEe
Confidence 999999999999999999999999999999999999987 4688766555444 347899999999986 799999999
Q ss_pred eChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHH-----------
Q 002309 231 VSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLS----------- 299 (938)
Q Consensus 231 ~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~----------- 299 (938)
+...++..++++|+++|+.+ .|+||++++|....... ....+.+.|.+++.+.....+.+++|..
T Consensus 239 ~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~---~~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~ 314 (463)
T cd06376 239 ANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPI---LQQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNV 314 (463)
T ss_pred cChHHHHHHHHHHHhcCCcC-ceEEEEecccccccccc---ccCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCc
Confidence 99999999999999999864 59999999886543221 1123568999999888777776666554
Q ss_pred ----HHhhhcC---C--CC---------------------CCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccc
Q 002309 300 ----RWKNLTG---G--SL---------------------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKT 349 (938)
Q Consensus 300 ----~~~~~~~---~--~~---------------------~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~ 349 (938)
.|+..|+ . .. .....++++||||+++|+||++++++++.-
T Consensus 315 ~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~---------- 384 (463)
T cd06376 315 WFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG---------- 384 (463)
T ss_pred HHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC----------
Confidence 5665442 0 00 012267899999999999999998654311
Q ss_pred cCCCccccCCccccCchHHHHHHHhcCccccccc-ceEEcCCCCCccceEEEEEeec-----cceEEEEEeeC
Q 002309 350 MEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSLIHAAYDIINVIG-----TGFRMIGYWSN 416 (938)
Q Consensus 350 ~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG-~v~F~~~g~~~~~~~~I~~~~~-----~~~~~Vg~w~~ 416 (938)
....|.... +.++.+|+++|++++|+|++| +|.||++|++ ...|+|++++. .++++||.|++
T Consensus 385 ---~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ---YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ---CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 112354433 445999999999999999999 6999999996 45799999983 35799999975
No 16
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=2.6e-44 Score=398.16 Aligned_cols=363 Identities=23% Similarity=0.359 Sum_probs=294.4
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEE--EEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLN--ITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~--~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
+||+||+.++.. .+.|+++|+++||++..+|+|.+|. +.+.|++ |++.|..++|++++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~---~~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKK---DDEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCch---HHHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 489999998854 3569999999999999999999555 4888995 999999999999999999999998888889
Q ss_pred HHHHhhccCCccEEEc----ccCC-----CCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccc
Q 002309 111 IVSYVSNELQVPLLSF----GVTD-----PTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRN 179 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~----~~~~-----~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~ 179 (938)
.++++|+.++||+|++ ++++ +.+++ .+||+++| |+ ..+++++++++++|+|++++++| |+++|..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~-d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFY-DTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEE-eCCccHH
Confidence 9999999999999984 3332 33443 46777777 54 67899999999999999999865 6778899
Q ss_pred hHHHHHHHHhhcceEEEEEeecCCCCCCC---hhhHHH-HHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCe
Q 002309 180 GVSALNDKLAERRCRISYKSGIPPESGVN---TGYVMD-LLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (938)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~---~~d~~~-~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 253 (938)
.++.+.+.+++.|+||.... +... .. ...+.. .++++++ .+.++||++|.++.+..+|++|+++||++.+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~-~~~~--~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y 229 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQK-VENN--INKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDC 229 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEe-cCcc--hhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCe
Confidence 99999999999999998643 2211 10 012222 4556665 66799999999999999999999999999999
Q ss_pred EEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCC---------CCCCCchhhHHhHHHHH
Q 002309 254 VWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG---------SLGMNSYGLYAYDSVWL 324 (938)
Q Consensus 254 ~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~---------~~~~~~~~~~~YDav~~ 324 (938)
+||++++....++.. +...+.+.|+.+++++.|......+|..+|+.++.. ...++.+++++|||||+
T Consensus 230 ~wi~t~~~~~~~dl~---~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~ 306 (400)
T cd06391 230 HWIIINEEISDMDVQ---ELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLL 306 (400)
T ss_pred EEEEeCccccccccc---hHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHH
Confidence 999999877776651 223346678888999999888888999988876521 01356899999999999
Q ss_pred HHHHHHHHHhcCCcccccCCccccccCCCccccC--CccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEE
Q 002309 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (938)
Q Consensus 325 ~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~ 402 (938)
+|+|++++........ .....|. ...+|..|..|+++|++++|+|+||+++|+++|+|.++.|+|+|
T Consensus 307 ~A~A~~~l~~~~~~~~-----------~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin 375 (400)
T cd06391 307 LANAFHKKLEDRKWHS-----------MASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILG 375 (400)
T ss_pred HHHHHHHHHhhccccC-----------CCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEE
Confidence 9999998753322111 1122343 45689999999999999999999999999999999999999999
Q ss_pred ee-----ccceEEEEEeeCCCCC
Q 002309 403 VI-----GTGFRMIGYWSNYSGL 420 (938)
Q Consensus 403 ~~-----~~~~~~Vg~w~~~~g~ 420 (938)
++ +.|+++||+|++..||
T Consensus 376 ~~~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 376 TNYGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred eeccccCCCcceEEEEEcCCcCC
Confidence 96 8899999999999886
No 17
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=4.1e-44 Score=401.77 Aligned_cols=372 Identities=20% Similarity=0.294 Sum_probs=300.8
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||+||+.+. ...+.|+++|+++||++..++++.+|.+.+.++. +|+..+++++|++++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 4899999984 6789999999999999876767888888888776 69999999999999999999999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~ 191 (938)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999998888774 4679999998863 458899999999999999997665 667778888899888
Q ss_pred c--eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCC
Q 002309 192 R--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (938)
Q Consensus 192 g--~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 269 (938)
| +.|... .+... ....|+..+|++||+.++|+||+.+.++++..+++||+++||+.++|+||++++.....+.
T Consensus 153 g~~i~v~~~-~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~-- 227 (382)
T cd06380 153 DNKWQVTAR-RVDNV--TDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL-- 227 (382)
T ss_pred CCceEEEEE-EecCC--CcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH--
Confidence 8 666543 23322 1357999999999999999999999999999999999999999999999998754333222
Q ss_pred CChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCC------CCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
........++.+++...+..+..++|.++|++.++. ...++.+++++||||+++|+|++++.+.+++.....
T Consensus 228 --~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~ 305 (382)
T cd06380 228 --SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRI 305 (382)
T ss_pred --HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 112223345777777777788899999999988731 124667899999999999999999876543211000
Q ss_pred CccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCC
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~ 420 (938)
.. .....+..|.-+...+|.+|..|.++|++++|+|++|+++||++|+|.+..++|++++++++++||+|++..|+
T Consensus 306 ~~-~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 306 DI-SRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred cc-ccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCCcCc
Confidence 00 00011112222245678899999999999999999999999999999889999999999999999999998875
No 18
>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=9.6e-44 Score=397.49 Aligned_cols=337 Identities=25% Similarity=0.350 Sum_probs=277.2
Q ss_pred CCeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHH-HHHhcCcEEEEc-CC-
Q 002309 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEAL-RFMETDIVAIIG-PQ- 104 (938)
Q Consensus 28 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~-~li~~~V~aviG-p~- 104 (938)
.+.+|+||+++|.+ ....|+++|++++|++.+.+++.++.....+.++++..++..+| +|++++|.|||| +.
T Consensus 16 ~~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~ 90 (377)
T cd06379 16 SPKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPP 90 (377)
T ss_pred CCcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCC
Confidence 35689999999843 57899999999999965543333333322222456666665665 578889999973 33
Q ss_pred Chh---HHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccch
Q 002309 105 CST---VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG 180 (938)
Q Consensus 105 ~s~---~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~ 180 (938)
++. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|++..|+.++++++++++|++|++||++++||.+.
T Consensus 91 ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~ 170 (377)
T cd06379 91 TSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAA 170 (377)
T ss_pred CCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHH
Confidence 332 4677899999999999999999998887 459999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcce----EEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEE
Q 002309 181 VSALNDKLAERRC----RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (938)
Q Consensus 181 ~~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 256 (938)
...+++.+++.|+ +|+....++++ ..|+.+++++++..++|+|++++...++..++++|+++||++++|+||
T Consensus 171 ~~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi 246 (377)
T cd06379 171 QKRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWI 246 (377)
T ss_pred HHHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 9999999999999 88887778755 689999999999999999999999999999999999999999999999
Q ss_pred EeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcC
Q 002309 257 ATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (938)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~ 336 (938)
+++.+... .+...|++++++..+ ..+++++||||+++|+|++++.+..
T Consensus 247 ~t~~~~~~----------~~~~~g~~g~~~~~~----------------------~~~~~~~yDAV~~~A~Al~~~~~~~ 294 (377)
T cd06379 247 VSEQAGAA----------RNAPDGVLGLQLING----------------------KNESSHIRDAVAVLASAIQELFEKE 294 (377)
T ss_pred Eecccccc----------ccCCCceEEEEECCC----------------------CCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 99886321 134578999887643 1246789999999999999987532
Q ss_pred CcccccCCccccccCCCccccCCc-cccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEee
Q 002309 337 GKISFSNDSRLKTMEGGNLHLGAM-SIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWS 415 (938)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~ 415 (938)
. .+ .....|... .+|.+|..++++|++++|+|++|+++||++|+|....|+|+|+++.++++||+|+
T Consensus 295 ~-~~-----------~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~ 362 (377)
T cd06379 295 N-IT-----------EPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYN 362 (377)
T ss_pred C-CC-----------CCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEc
Confidence 1 11 111234433 3688899999999999999999999999999988889999999999999999998
Q ss_pred CC
Q 002309 416 NY 417 (938)
Q Consensus 416 ~~ 417 (938)
+.
T Consensus 363 ~~ 364 (377)
T cd06379 363 GD 364 (377)
T ss_pred Cc
Confidence 63
No 19
>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-43 Score=387.35 Aligned_cols=361 Identities=17% Similarity=0.221 Sum_probs=292.3
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCC-CCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILH-GTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~-g~~l~~~~~D~~-~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
+||+||+..+ .+...|+++|++.+|.+...++ +.+|...+.... .|.+.+.+++|+++++||.|||||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899999655 3568999999999998764533 357777665554 4899999999999999999999999999999
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhh
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE 190 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~ 190 (938)
+++++|+.++||+|+++.. +...+.+.+++.|+ +..++++++++|+|++|++||+ +++|...++.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhHh
Confidence 9999999999999997543 22345555666666 4688888999999999999995 33455679999999999
Q ss_pred cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCC
Q 002309 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASL 270 (938)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~ 270 (938)
.|++|+.......+ +.|++++|++|+.+++++||++|+++.+..+++||+++||+.++|+||+++......+.
T Consensus 150 ~g~~v~~~~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l--- 222 (371)
T cd06388 150 NGWQVSAICVENFN----DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL--- 222 (371)
T ss_pred cCCeeeeEEeccCC----cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH---
Confidence 99998875544433 56999999999999999999999999999999999999999999999998742222111
Q ss_pred ChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC-----CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 271 PSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG-----GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 271 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~-----~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
.+......++.+++...+..+..++|.++|++.+. .+..+..+++++||||+++|.|++++.......+
T Consensus 223 -~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~----- 296 (371)
T cd06388 223 -ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDIS----- 296 (371)
T ss_pred -HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcc-----
Confidence 22223445588999988888999999999987653 1135778999999999999999999754322211
Q ss_pred cccccCCCcccc--CCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCCc
Q 002309 346 RLKTMEGGNLHL--GAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (938)
Q Consensus 346 ~~~~~~~~~~~~--~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~~ 421 (938)
..+.+..| +...+|.+|..|.++|++++|+|+||+++||++|+|.+..++|+++..+++++||+|++..|++
T Consensus 297 ----~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~~ 370 (371)
T cd06388 297 ----RRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKLV 370 (371)
T ss_pred ----cCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCcc
Confidence 01122245 4467999999999999999999999999999999999889999999999999999999998864
No 20
>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=5.7e-43 Score=386.80 Aligned_cols=360 Identities=16% Similarity=0.233 Sum_probs=294.1
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccC-CCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~-~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||+||+..+ .+.+.|+++|++.+|.. +.+|...+... ..|.+.+.+++|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899998765 35789999999999986 36777655444 358999999999999999999999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~ 191 (938)
++++|+.++||+|+++++ ++..++|.+++.|+ ...++++++++|+|++|++||+ ++||...++.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~----~~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFP----TDGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCC----CCCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 999999999999987554 23467888899988 5899999999999999999997 569999999999999999
Q ss_pred ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCC
Q 002309 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (938)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 271 (938)
|++|+..............|++++|++|+..++++||+.|+++.+..++++|+++||+.++|+||+++......+.
T Consensus 145 g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l---- 220 (370)
T cd06389 145 KWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDL---- 220 (370)
T ss_pred CceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccch----
Confidence 9887744311111002366999999999999999999999999999999999999999999999998642222111
Q ss_pred hhhhhccccEEEEEEcCCCChhhHHHHHHHhh----hcC--CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKN----LTG--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~--~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
........++.+++...+..+..++|.++|++ .++ +...+...++++||||+++|.|++++......+..
T Consensus 221 ~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~---- 296 (370)
T cd06389 221 SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISR---- 296 (370)
T ss_pred hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc----
Confidence 11222345688899888889999999999996 331 12457789999999999999999998554322210
Q ss_pred cccccCCCccccC--CccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCCc
Q 002309 346 RLKTMEGGNLHLG--AMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (938)
Q Consensus 346 ~~~~~~~~~~~~~--~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~~ 421 (938)
.++...|. ...+|.+|..|.++|++++|+|+||+++||++|+|.+..++|++++++++++||+|++..|+.
T Consensus 297 -----~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 297 -----RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred -----CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 11222443 467899999999999999999999999999999999889999999999999999999988864
No 21
>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=3.5e-43 Score=390.06 Aligned_cols=338 Identities=47% Similarity=0.805 Sum_probs=303.3
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~~~ 110 (938)
+||+++|++ +..|.....|+++|+++||+++|+++|++|+++++|++|++..|++.+++|+.+ +|.+||||.+|..+.
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 888999999999999999999976689999999999999999999999999987 999999999999999
Q ss_pred HHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHh
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~ 189 (938)
+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++||+|++||....+.+.+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~ 160 (350)
T cd06366 81 FVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQ 160 (350)
T ss_pred HHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHH
Confidence 9999999999999999999998865 678999999999999999999999999999999999999999999999999999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC--
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS-- 267 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~-- 267 (938)
+.|++|+....+++. .+..|+.+++++++.+++|+|++++.+.++..++++++++|+..++|+|+.++++...++.
T Consensus 161 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 238 (350)
T cd06366 161 EAGIEISYRAAFPPS--ANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSS 238 (350)
T ss_pred HcCCEEEEEeccCCC--CChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCC
Confidence 999999998888765 2368999999999999999999999999999999999999998888999999876543321
Q ss_pred CCCChhhhhccccEEEEEEcCCC-ChhhHHHHHHHhhhcCCC----CCCCchhhHHhHHHHHHHHHHHHHHhcCCccccc
Q 002309 268 ASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~----~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 342 (938)
.+..+...+..+|++++.++.++ .+..++|.++|+++++.. ..+..+++++|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee------------------
Confidence 12334455778999999998887 788999999999998311 1578899999999987
Q ss_pred CCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCCcc
Q 002309 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLSK 422 (938)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~~~ 422 (938)
+.+|+|++|+++||++|++.+..|+++++.++++++||+|++..|+++
T Consensus 301 --------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~~ 348 (350)
T cd06366 301 --------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLSV 348 (350)
T ss_pred --------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCccc
Confidence 236889999999999999888999999999999999999999888753
No 22
>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=7.8e-43 Score=389.83 Aligned_cols=350 Identities=16% Similarity=0.251 Sum_probs=289.7
Q ss_pred EEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 35 GALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 35 G~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
=+++|.+ ...+.....|+++|+|+||+++++++|++|+++++|++|++..+...+..+.+++|.|||||.||.++.+
T Consensus 3 ~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~~ 82 (387)
T cd06386 3 LVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAAP 82 (387)
T ss_pred EEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHHH
Confidence 3566654 2235678999999999999999998999999999999999876777776666779999999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccch---HHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---VSALND 186 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~---~~~l~~ 186 (938)
++++++.++||+|+++++++.+++ ..||++||+.|++..++.++++++++|+|++|++||++++||++. ++.+.+
T Consensus 83 va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~ 162 (387)
T cd06386 83 VARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHH 162 (387)
T ss_pred HHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHH
Confidence 999999999999999999998876 358999999999999999999999999999999999999999886 889999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch-hcc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA-YML 265 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~-~~~ 265 (938)
.+++.|++|+....++.. +.++..+++++++.+ |+||+++++..+..++++|+++||+..+|+||..+... ...
T Consensus 163 ~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~ 237 (387)
T cd06386 163 VFQEEGYHMSIYPFDETK----DLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSY 237 (387)
T ss_pred HHHhcCceEEEEecCCCC----cccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEeccccccc
Confidence 999999999876555433 578999999999987 99999999999999999999999999999999998653 111
Q ss_pred cC------CCCC---hhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC--C----CCCCCchhhHHhHHHHHHHHHHH
Q 002309 266 DS------ASLP---SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--G----SLGMNSYGLYAYDSVWLLAHAIE 330 (938)
Q Consensus 266 ~~------~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~----~~~~~~~~~~~YDav~~~a~Al~ 330 (938)
.. ...+ ....+.+.|+.+++++ .+.+++|.++|++++. + ...++.+++++||||+++|+|++
T Consensus 238 ~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~ 314 (387)
T cd06386 238 GDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV---KPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALH 314 (387)
T ss_pred CCCCCccCCCcCHHHHHHHHhheEEeccCCC---ChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHH
Confidence 00 0012 1223455666555544 4678888888884442 1 12345889999999999999999
Q ss_pred HHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee---ccc
Q 002309 331 SFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI---GTG 407 (938)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~---~~~ 407 (938)
++++.++. +.+|..|.++|++++|+|++|.+.||++|+| ...|.|+.++ .++
T Consensus 315 ~~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r-~~~~~v~~~~~~~~~~ 369 (387)
T cd06386 315 EVLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDR-YGDFSVIAMTDVEAGT 369 (387)
T ss_pred HHhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCc-cccEEEEEccCCCCcc
Confidence 98754321 2359999999999999999999999999998 5599999986 467
Q ss_pred eEEEEEeeCC
Q 002309 408 FRMIGYWSNY 417 (938)
Q Consensus 408 ~~~Vg~w~~~ 417 (938)
++.||.|...
T Consensus 370 ~~~~~~~~~~ 379 (387)
T cd06386 370 YEVVGNYFGK 379 (387)
T ss_pred EEEEeEEccc
Confidence 8999999754
No 23
>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=3.7e-43 Score=391.00 Aligned_cols=339 Identities=21% Similarity=0.274 Sum_probs=292.0
Q ss_pred eEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH-
Q 002309 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV- 108 (938)
Q Consensus 31 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~- 108 (938)
.|+||+++|.+. ...+++.|+..+|.+..+..+.++++++.|+.+||..++.++|+++.+ +|.+|+||.+|..
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 589999999884 358888888888877654468999999999999999999999998865 7899999999998
Q ss_pred --HHHHHHhhccCCccEEEcccCCCCC-CC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHH
Q 002309 109 --AHIVSYVSNELQVPLLSFGVTDPTL-SS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (938)
Q Consensus 109 --~~~va~~~~~~~iP~Is~~~~~~~l-~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l 184 (938)
+.+++++++.++||+|+++++++.+ ++ ..|||+||+.|++..+++++++++++|+|++|++||++++||++..+.+
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l 156 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRV 156 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHH
Confidence 9999999999999999999999988 76 6799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcceE--EEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 185 NDKLAERRCR--ISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 185 ~~~l~~~g~~--v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
++.+++.|+| ++....++.. ...++...+.++++.++|+|+++|+..++..++++|+++||+.++|+||+++.+.
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~---~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~ 233 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS---DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELAL 233 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC---CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccc
Confidence 9999999999 7766666654 1237889999999999999999999999999999999999999999999999876
Q ss_pred hcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCccccc
Q 002309 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (938)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 342 (938)
... ....+...|++++++..+ ..+.+++||||+++|+|++++++++....
T Consensus 234 ~~~------~~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~-- 283 (362)
T cd06367 234 GSG------LAPEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGALP-- 283 (362)
T ss_pred ccc------CCccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCC--
Confidence 421 122345679999987642 23577899999999999999987543321
Q ss_pred CCccccccCCCccccCCcc--ccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee-ccceEEEEEeeC
Q 002309 343 NDSRLKTMEGGNLHLGAMS--IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (938)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~--~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~-~~~~~~Vg~w~~ 416 (938)
.....|.... +|.+|..|.++|++++|.|++|+|+||++|++.++.|+|+|++ +.+|++||.|++
T Consensus 284 ---------~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 284 ---------EPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred ---------CCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 1123455543 2788999999999999999999999999999888999999999 889999999975
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=2.5e-42 Score=389.70 Aligned_cols=353 Identities=24% Similarity=0.369 Sum_probs=297.7
Q ss_pred CCCeeEEEEEEeeCCC---------------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHH
Q 002309 27 ARPAVVNVGALFTLDS---------------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIG 85 (938)
Q Consensus 27 ~~~~~i~IG~i~~~~~---------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a 85 (938)
..++++.||++||.+. ..|.....|+++|+++||+++|+|+|++|+++++|+|+ +..|
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a 80 (410)
T cd06363 2 RLPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSAN 80 (410)
T ss_pred CCCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHH
Confidence 3578999999999984 12667789999999999999999999999999999976 7779
Q ss_pred HHHHHHHHh----------------cCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCc
Q 002309 86 MVEALRFME----------------TDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSD 148 (938)
Q Consensus 86 ~~~a~~li~----------------~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~ 148 (938)
++.+.+|+. ++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+||+.|++
T Consensus 81 ~~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~ 160 (410)
T cd06363 81 FPPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSD 160 (410)
T ss_pred HHHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCc
Confidence 999999874 48999999999999999999999999999999999999987 5789999999999
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEE
Q 002309 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (938)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv 228 (938)
..++.++++++++++|++|++|++|++||....+.+.+.+++.|++|+....++... ..+.|+.+++++|+.+++|+|+
T Consensus 161 ~~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~-~~~~d~~~~l~~i~~~~~dvIi 239 (410)
T cd06363 161 KDQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDT-DPETDYQQILKQINQTKVNVIV 239 (410)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCC-chHHHHHHHHHHHhcCCCeEEE
Confidence 999999999999999999999999999999999999999999999999888776531 2378999999999999999999
Q ss_pred EEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCC
Q 002309 229 LHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGS 308 (938)
Q Consensus 229 ~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 308 (938)
+++.++++..++++|+++|+.. ..|+.++.|...... ......+...+++++....+..+.+++|.++
T Consensus 240 l~~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~-------- 307 (410)
T cd06363 240 VFASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDEL--PSLPGIRNIGTVLGVAQQTVTIPGFSDFIYS-------- 307 (410)
T ss_pred EEcChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccc--cCCccceeeccEEEEEeCCCCCccHHHHHHH--------
Confidence 9999999999999999999853 489988776432111 1112223455677777777777888888775
Q ss_pred CCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEc
Q 002309 309 LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFN 388 (938)
Q Consensus 309 ~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~ 388 (938)
+++.+||||+++|+|+++++.++.. .|..... .+++.|.++|++++|+|++|++.||
T Consensus 308 -----~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~~-~~~~~l~~~L~~~~~~g~~g~i~fd 364 (410)
T cd06363 308 -----FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRVP-VYPWQLLEELKKVNFTLLGQTVRFD 364 (410)
T ss_pred -----HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCCC-CCHHHHHHHHhccEEecCCcEEEeC
Confidence 4567999999999999998765321 1222222 2488999999999999999999999
Q ss_pred CCCCCccceEEEEEeecc----ceEEEEEeeCC
Q 002309 389 SDRSLIHAAYDIINVIGT----GFRMIGYWSNY 417 (938)
Q Consensus 389 ~~g~~~~~~~~I~~~~~~----~~~~Vg~w~~~ 417 (938)
++|++ ...+.|++++.. ++++||+|.+.
T Consensus 365 ~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 365 ENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 99994 567999999643 58999999874
No 25
>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=1.5e-42 Score=390.66 Aligned_cols=352 Identities=20% Similarity=0.309 Sum_probs=293.7
Q ss_pred EEEEEEeeCCC----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChh
Q 002309 32 VNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCST 107 (938)
Q Consensus 32 i~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~ 107 (938)
|+||++.|++. ..|.....|+++|+++||+++|+++|++|+++++|++|++..|+.++++|+.++|.+||||.+|.
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~~v~aiiGp~~S~ 80 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKRGVVAFIGPECTC 80 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhcCceEEECCCchh
Confidence 68999999975 45889999999999999999999889999999999999999999999999998999999999985
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~ 186 (938)
. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++||++++||....+.+++
T Consensus 81 ~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 T--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred H--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 4 4568999999999999999999887 579999999999999999999999999999999999999999999999999
Q ss_pred HHhhcceEEEEEeecCCCCC---CChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCC-CCCeEEEEeCcch
Q 002309 187 KLAERRCRISYKSGIPPESG---VNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMM-GNGYVWIATDWLA 262 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~---~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~wi~~~~~~ 262 (938)
.+++.|++|+..+.++.... ....++..++++++.. ++++|+++...++..++++|+++||+ ..+|+||+++...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 99999999998888875410 0147888999988764 78888888878899999999999998 5789999876311
Q ss_pred hc---------------ccC-CCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC------------CCCCCCch
Q 002309 263 YM---------------LDS-ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG------------GSLGMNSY 314 (938)
Q Consensus 263 ~~---------------~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------------~~~~~~~~ 314 (938)
.. ... ........+.++|++.+.+..+ .+..++|.++|++... ....++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 00 010 0111244467888888776555 6677899999987642 12246678
Q ss_pred hhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCccccccc-ceEEcCCCCC
Q 002309 315 GLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTG-PLKFNSDRSL 393 (938)
Q Consensus 315 ~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG-~v~F~~~g~~ 393 (938)
++++||||+++|+|+++++++++.. .+|..|.++|++++|+|++| ++.||++|+|
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~~------------------------~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGDI------------------------YNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCCC------------------------CCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 9999999999999999987653321 24899999999999999999 8999999997
Q ss_pred ccceEEEEEeeccceEEEE
Q 002309 394 IHAAYDIINVIGTGFRMIG 412 (938)
Q Consensus 394 ~~~~~~I~~~~~~~~~~Vg 412 (938)
...|.|++++++.|-.-|
T Consensus 373 -~~~y~v~~~~~~~~~~~~ 390 (404)
T cd06370 373 -EGNYSVLALQPIPPGDNG 390 (404)
T ss_pred -ccceEEEEeccccccCCC
Confidence 588999999887554433
No 26
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=3.9e-42 Score=388.42 Aligned_cols=356 Identities=21% Similarity=0.293 Sum_probs=290.1
Q ss_pred EEEEEeeCCCc---ch-hHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHH-----HHHHHHHH-HhcCcEEEEc
Q 002309 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFI-----GMVEALRF-METDIVAIIG 102 (938)
Q Consensus 33 ~IG~i~~~~~~---~g-~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~-----a~~~a~~l-i~~~V~aviG 102 (938)
+||+++|++.. +| .....|+++|+|+||+++|+|+|++|++++.|+++++.. +...+.++ ..++|.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 58999999844 44 678899999999999999999999999999999766543 33333333 2459999999
Q ss_pred CCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEE-EEEcCc-cccc
Q 002309 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSV-IFVDNE-YGRN 179 (938)
Q Consensus 103 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vai-i~~d~~-~g~~ 179 (938)
|.||.++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|+++++ +|.++. +++.
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~ 160 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRP 160 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccc
Confidence 999999999999999999999999999999987 6799999999999999999999999999999984 665544 3343
Q ss_pred ---hHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEE
Q 002309 180 ---GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (938)
Q Consensus 180 ---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 256 (938)
..+.+.+.+++.|++|+.....+. +..++..+|+++++. .|+|++++....+..++++|.++||+.+.|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEED----DLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCC----chhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 458889999999999987753322 267999999999875 499999999999999999999999999999999
Q ss_pred EeCcchhcccC----------CCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhh----cCCCC---CCCchhhHHh
Q 002309 257 ATDWLAYMLDS----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGSL---GMNSYGLYAY 319 (938)
Q Consensus 257 ~~~~~~~~~~~----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~---~~~~~~~~~Y 319 (938)
+++++...... ...+....+.+++++......+..+..++|.++|+++ ++.+. .++.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 99765432221 1111233456788888877777788899999999985 42111 1568899999
Q ss_pred HHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEE
Q 002309 320 DSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYD 399 (938)
Q Consensus 320 Dav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~ 399 (938)
||||++|.|++++.+.++. +.+|+.|.++|++++|+|++|.+.||++|+| ...|.
T Consensus 316 Dav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~ 370 (405)
T cd06385 316 DGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFA 370 (405)
T ss_pred HHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeE
Confidence 9999999999998654321 2359999999999999999999999999997 47787
Q ss_pred EEEe---eccceEEEEEeeCCC
Q 002309 400 IINV---IGTGFRMIGYWSNYS 418 (938)
Q Consensus 400 I~~~---~~~~~~~Vg~w~~~~ 418 (938)
|+++ +++++++||+|+..+
T Consensus 371 ~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcEEEEEEEcccC
Confidence 7755 678899999998643
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=8.6e-42 Score=383.99 Aligned_cols=356 Identities=16% Similarity=0.259 Sum_probs=287.2
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|.+ ...+.....|+++|+++||+++++++|++|+++++|++|++..|+.++++++.+ +|.+||||.||.+
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999976 234567779999999999999999988999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---cccc--chHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGR--NGVS 182 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~---~~g~--~~~~ 182 (938)
+.+++++++.++||+|+++++++.+++ ..||+++|+.|++..++.++++++++|+|++|++||+++ .+++ ...+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999987 578999999999999999999999999999999998543 3432 2334
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
.+.+.++ .+++++..+.++.+ +.++...+.+.+..++|+||+++.+..+..++++|+++||+.++|+||.+.+..
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~ 235 (391)
T cd06372 161 AVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFE 235 (391)
T ss_pred HHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhc
Confidence 4555553 67888888877765 566666666666789999999999999999999999999988889999964322
Q ss_pred hcc-cCCC---CChhhhhccccEEEEEEcCCC-ChhhHHHHHHHhhhcCCC---------CCCCchhhHHhHHHHHHHHH
Q 002309 263 YML-DSAS---LPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGS---------LGMNSYGLYAYDSVWLLAHA 328 (938)
Q Consensus 263 ~~~-~~~~---~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~YDav~~~a~A 328 (938)
... .... ......+.+.|++++.+..+. .+..++|.++|++++... ...+.+++++|||||++|+|
T Consensus 236 ~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~A 315 (391)
T cd06372 236 DNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALA 315 (391)
T ss_pred CccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHH
Confidence 111 1100 112233467788888776542 355678888887776200 12357899999999999999
Q ss_pred HHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHh---cCcccccccceEEcCCCCCccceEEEEEeec
Q 002309 329 IESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNIL---QSNLVGLTGPLKFNSDRSLIHAAYDIINVIG 405 (938)
Q Consensus 329 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~---~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~ 405 (938)
++++++++.. +.+|..+.++|+ +++|+|++|+|.||++|+| .+.|.|+++++
T Consensus 316 l~~~~~~g~~------------------------~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~ 370 (391)
T cd06372 316 VKEMLKAGKD------------------------FRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQK 370 (391)
T ss_pred HHHHHhcCCC------------------------CCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccc
Confidence 9998764321 335889999999 6899999999999999997 78999999985
Q ss_pred ----cceEEEEEeeCCC
Q 002309 406 ----TGFRMIGYWSNYS 418 (938)
Q Consensus 406 ----~~~~~Vg~w~~~~ 418 (938)
..+++||+|+..+
T Consensus 371 ~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 371 SGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred cCCccceeeEEEecchh
Confidence 3489999998754
No 28
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=6.8e-42 Score=385.51 Aligned_cols=357 Identities=19% Similarity=0.297 Sum_probs=297.7
Q ss_pred EEEEEeeCCC----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCC----ChHHHHHHHHHHH-hcCcEEEEcC
Q 002309 33 NVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC----SGFIGMVEALRFM-ETDIVAIIGP 103 (938)
Q Consensus 33 ~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~----~~~~a~~~a~~li-~~~V~aviGp 103 (938)
+||+++|.+. ..|.....|+++|+|+||+++|+++|++|+++++|+++ ++..++..+.+++ +++|.+||||
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 5899999983 23567889999999999999998889999999999999 8999999998887 4589999999
Q ss_pred CChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccc----c
Q 002309 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYG----R 178 (938)
Q Consensus 104 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g----~ 178 (938)
.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||++++++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~ 160 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCY 160 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHH
Confidence 99999999999999999999999999999987 679999999999999999999999999999999999887764 4
Q ss_pred chHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEe
Q 002309 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (938)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 258 (938)
...+.+.+.+++.|++|+.. .+... ....|+.++|++++... |+|++++.+.++..++++|+++|+...+|+||..
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~-~~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~ 236 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDF-PFDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNI 236 (396)
T ss_pred HHHHHHHHHHhhcCceeeEE-eecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 56788999999999998754 34433 11479999999999865 9999999999999999999999999999999997
Q ss_pred Ccchhccc---------CCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhh----cCC---CCCCCchhhHHhHHH
Q 002309 259 DWLAYMLD---------SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGG---SLGMNSYGLYAYDSV 322 (938)
Q Consensus 259 ~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~---~~~~~~~~~~~YDav 322 (938)
+....... .........+..+|++.+....++.+..++|.++|+++ ++. ...++.+++++||||
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 65432211 00111233345678888888888888889999999875 310 113557899999999
Q ss_pred HHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEE
Q 002309 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (938)
Q Consensus 323 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~ 402 (938)
+++++|++++.++++. +.+++.|.++|++++|+|++|++.||++|++ ...|.|++
T Consensus 317 ~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~ 371 (396)
T cd06373 317 LLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWD 371 (396)
T ss_pred HHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeee
Confidence 9999999998654322 1248999999999999999999999999996 56788866
Q ss_pred e---eccceEEEEEeeCCC
Q 002309 403 V---IGTGFRMIGYWSNYS 418 (938)
Q Consensus 403 ~---~~~~~~~Vg~w~~~~ 418 (938)
+ ++++++.+|.|++.+
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 5 578899999998754
No 29
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=1.5e-41 Score=378.48 Aligned_cols=348 Identities=20% Similarity=0.285 Sum_probs=284.6
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
+||++.|++ +..|...+.|+++|+|+||+++++++|++|++++.|++|++..++..+.++ .++|.+||||.||.++
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~-~~~V~aviGp~~S~~~ 79 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY-EGYASAFVGPVNPGYC 79 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc-cCCceEEECCCCchHH
Confidence 589999997 445777899999999999999999889999999999999988777555443 4589999999999999
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
.+++++++.++||+|+++++++.+++ ..||+|+|+.|++ +.++++++++|+|++|++||+++++|....+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999987 6799999999986 4678899999999999999999999999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC-ceEEEEEeCh-----hhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSP-----SLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~-~~viv~~~~~-----~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
++.|++|+....++.+ ..|+.++|++||..+ +|+||+++.. ..+..++++|+++||+..+|+||.+++..
T Consensus 157 ~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~ 232 (382)
T cd06371 157 RAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLL 232 (382)
T ss_pred HHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccc
Confidence 9999999988888765 789999999999987 6999998775 67789999999999999999999998543
Q ss_pred hcc-------cCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhh-cCCC---CCCCchhhHHhHHHHHHHHHHHH
Q 002309 263 YML-------DSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL-TGGS---LGMNSYGLYAYDSVWLLAHAIES 331 (938)
Q Consensus 263 ~~~-------~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~---~~~~~~~~~~YDav~~~a~Al~~ 331 (938)
... .....+.+..+.+++++.+.+..+..+..+.|.+.|+.. ++.+ ...+.+++++|||++++|+|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 111 111112333457788887776654444445555554311 1101 12345667899999999999999
Q ss_pred HHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEE
Q 002309 332 FFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMI 411 (938)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~V 411 (938)
+++.++. .++.++.++|++++|+|++|+++||++|++ ...|.|+++++.+++-+
T Consensus 313 a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~ 366 (382)
T cd06371 313 ARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLY 366 (382)
T ss_pred HHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeee
Confidence 8765332 148999999999999999999999999996 79999999998877655
Q ss_pred EEe
Q 002309 412 GYW 414 (938)
Q Consensus 412 g~w 414 (938)
-.+
T Consensus 367 ~~~ 369 (382)
T cd06371 367 PTY 369 (382)
T ss_pred eeE
Confidence 443
No 30
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=5.4e-41 Score=378.25 Aligned_cols=359 Identities=21% Similarity=0.393 Sum_probs=311.7
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++ +..|.....|+++|+|+||++|++++|++|+++++|++|++..|++.+.+++.+ +|.+||||.+|..
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 599999998 456888999999999999999976679999999999999999999999999876 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc-cccchHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALND 186 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~-~g~~~~~~l~~ 186 (938)
+.+++++++.++||+|++.++++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~ 160 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEA 160 (389)
T ss_pred HHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHH
Confidence 999999999999999999999988886 5789999999999999999999999999999999998888 99999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
++++.|++|+....++.. ....|+..++++++..+ |+|++++.+.++..+++++.++|+...+++|++++.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999988888754 12578999999999887 999999999999999999999999888899999877655421
Q ss_pred C---------CCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCC--------CCCCCchhhHHhHHHHHHHHHH
Q 002309 267 S---------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG--------SLGMNSYGLYAYDSVWLLAHAI 329 (938)
Q Consensus 267 ~---------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~~~YDav~~~a~Al 329 (938)
. .+......+.+.|++++.+..+..+..++|.++|+++++. ...+..++.++||||+++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 1 1122344567889999888888788899999999988831 1245778999999999999999
Q ss_pred HHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeec--cc
Q 002309 330 ESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIG--TG 407 (938)
Q Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~--~~ 407 (938)
+++..+++. +.++..+.++|++++|.|++|++.||++|++ ...|.|+++++ +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCce
Confidence 998765321 2258889999999999999999999999997 57899999996 56
Q ss_pred eEEEEEeeCCCC
Q 002309 408 FRMIGYWSNYSG 419 (938)
Q Consensus 408 ~~~Vg~w~~~~g 419 (938)
+..++.+...++
T Consensus 373 ~~~~~~~~~~~~ 384 (389)
T cd06352 373 LEVVYLYDTSSG 384 (389)
T ss_pred EEEEEeccccce
Confidence 788888876553
No 31
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=6.1e-42 Score=367.92 Aligned_cols=323 Identities=20% Similarity=0.284 Sum_probs=265.7
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChH-HHHHHHHHHHhcCcEEEEcCCChhH-HH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGF-IGMVEALRFMETDIVAIIGPQCSTV-AH 110 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~-~a~~~a~~li~~~V~aviGp~~s~~-~~ 110 (938)
+||+||+..+..|...+.|+++|++++|++++++++.+|++++.|++.++. .++.++|++++++|.|||||.+|.. +.
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~gV~AIiGp~ss~~~~~ 80 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPKGVVSVLGPSSSPASSS 80 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhcCeEEEECCCCchHHHH
Confidence 489999999999999999999999999999999866799999999998764 8888999999889999999999965 67
Q ss_pred HHHHhhccCCccEEEcccCC-CCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHh
Q 002309 111 IVSYVSNELQVPLLSFGVTD-PTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~-~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~ 189 (938)
+++++|+..+||+|+++... |.+...++++ +++.|++..+++|+++++++|+|++|++||+++++ +..+++.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999986432 3333334444 89999999999999999999999999999999885 666777776
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCC
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 269 (938)
..++ ....+++....+..|++++|++|+.+++++||++|+++.+..++++|+++||+.++|+|++|+......+.
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5533 12222222112367899999999999999999999999999999999999999999999998876543333
Q ss_pred CChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCC--CC----CCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG--SL----GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--~~----~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
.+......++++++...++.+..++|.+.|++.+.. +. .....++.+||||+++
T Consensus 231 --~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~------------------ 290 (333)
T cd06394 231 --DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV------------------ 290 (333)
T ss_pred --HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE------------------
Confidence 233334666899999999999999999988875520 11 1123566677776542
Q ss_pred CccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCCc
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGLS 421 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~~ 421 (938)
|+||+|+||++|+|.+..++|+++..++.++||+|++..|++
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 899999999999999999999999999999999999998864
No 32
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=2.2e-41 Score=371.54 Aligned_cols=316 Identities=22% Similarity=0.332 Sum_probs=272.7
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC-CChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||++|++ ..|...+.|+++|+|+||+++|+++|++|+++++|++ +++..+++++|+|++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999997 5578899999999999999999989999999999999 89999999999999889999999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~ 191 (938)
++++++.++||+|+++++++.++ .++++||+.|++..++.++++++++++|++|++||++++++ ..+.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~----~~l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL----LRLQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH----HHHHHHHHhh
Confidence 99999999999999888877776 46889999999999999999999999999999999988755 3455555555
Q ss_pred ce---EEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 192 RC---RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 192 g~---~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
|. .+.. ..+++. . |+.++|++|+.+++|+|++++.+.++..++++|+++||..+.|+|++++......+.
T Consensus 153 ~~~g~~v~~-~~~~~~----~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l- 225 (327)
T cd06382 153 GISGITITV-RQLDDD----L-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDL- 225 (327)
T ss_pred ccCCCeEEE-EEccCC----c-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccch-
Confidence 54 4443 456654 4 999999999999999999999999999999999999999999999998765443322
Q ss_pred CCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCC------CCCCCchhhHHhHHHHHHHHHHHHHHhcCCccccc
Q 002309 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFS 342 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~ 342 (938)
........++++++++.++++..++|.++|+++++. ...|+.+++.+|||++++
T Consensus 226 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~----------------- 285 (327)
T cd06382 226 ---EDYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF----------------- 285 (327)
T ss_pred ---hhhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe-----------------
Confidence 122234457888888888889999999999999831 112778899999998764
Q ss_pred CCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCC
Q 002309 343 NDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (938)
Q Consensus 343 ~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~ 420 (938)
|+||+++||++|+|.+..|+|+|++++++++||+|++..||
T Consensus 286 -------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 -------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred -------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 89999999999999999999999999999999999987764
No 33
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2e-40 Score=375.16 Aligned_cols=392 Identities=24% Similarity=0.427 Sum_probs=332.5
Q ss_pred CCCCeeEEEEEEeeCCC-------------cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHH
Q 002309 26 SARPAVVNVGALFTLDS-------------TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRF 92 (938)
Q Consensus 26 ~~~~~~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~l 92 (938)
+.-+++|.||++||.+. ..|.+...|+.+|+|+||+ +.+|||.||++.++|+|..+..|.++..++
T Consensus 26 ~~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~F 104 (878)
T KOG1056|consen 26 ARIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSF 104 (878)
T ss_pred ccCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHH
Confidence 45678999999999982 2367788999999999999 999999999999999999999999999998
Q ss_pred Hhc-----------------CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHH
Q 002309 93 MET-----------------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTA 154 (938)
Q Consensus 93 i~~-----------------~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~a 154 (938)
+.. .|.+||||..|+.+.+++.+..-.+||||+|+++++.|++ .+|+||.|+.|+|..|++|
T Consensus 105 v~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~A 184 (878)
T KOG1056|consen 105 VRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQA 184 (878)
T ss_pred HHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHH
Confidence 853 5899999999999999999999999999999999999999 7899999999999999999
Q ss_pred HHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc-CCceEEEEEeCh
Q 002309 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVSP 233 (938)
Q Consensus 155 i~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~-~~~~viv~~~~~ 233 (938)
+++++++|+|++|..++++++||+.++++|++..++.|+||...+.++.. ..+..+...++++.+ .+++++|+++.+
T Consensus 185 m~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~ 262 (878)
T KOG1056|consen 185 MVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRG 262 (878)
T ss_pred HHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCc
Confidence 99999999999999999999999999999999999999999998777665 678899999999988 899999999999
Q ss_pred hhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHH-------------
Q 002309 234 SLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSR------------- 300 (938)
Q Consensus 234 ~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 300 (938)
++++.++++|+++++.+ .++||.+|+|....+. -........|.+++.+..+..+.+++|.+.
T Consensus 263 ~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~---~~~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~ 338 (878)
T KOG1056|consen 263 EDARRLLKAARRANLTG-EFLWIASDGWASQNSP---TEAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred chHHHHHHHHHHhCCCc-ceEEEecchhhccCCh---hhhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 99999999999999854 5999999999875433 122234789999999988877777766654
Q ss_pred --HhhhcC------------------CCC--------CCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCC
Q 002309 301 --WKNLTG------------------GSL--------GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEG 352 (938)
Q Consensus 301 --~~~~~~------------------~~~--------~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~ 352 (938)
|+..|+ +++ ....-...++|||+++|+||+.+.++-.. +
T Consensus 339 e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~ 405 (878)
T KOG1056|consen 339 EFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------G 405 (878)
T ss_pred hhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------C
Confidence 444432 010 11223567999999999999999866322 1
Q ss_pred CccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeecc----ceEEEEEeeCCCCCccCCCccc
Q 002309 353 GNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT----GFRMIGYWSNYSGLSKEPPETL 428 (938)
Q Consensus 353 ~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~----~~~~Vg~w~~~~g~~~~~~~~~ 428 (938)
....|++.... +|++|.+++++++|.|..|.+.||++|| ....|+|++++.. .+..||+|+....|+
T Consensus 406 ~~~~C~~m~~~-dg~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~------- 476 (878)
T KOG1056|consen 406 TSGLCSAMKAI-DGSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLSLN------- 476 (878)
T ss_pred ccccCcCcccc-CHHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccccc-------
Confidence 23457777775 4999999999999999999999999999 6899999999843 579999998765332
Q ss_pred ccCCCCCCccccccceeEeCCCCccCCCccc
Q 002309 429 YAQPFNRSSTIQHLHSVIWPGETLSKPRGWV 459 (938)
Q Consensus 429 ~~~~~~~~~~~~~l~~i~w~g~~~~~P~~~~ 459 (938)
...+.|.++....|++.|
T Consensus 477 -------------i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 477 -------------IEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred -------------ceeeeeccCCCCCccccc
Confidence 234678888888888887
No 34
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=3.7e-40 Score=370.88 Aligned_cols=356 Identities=17% Similarity=0.259 Sum_probs=285.5
Q ss_pred EEEEEeeCCCc---ch-hHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCCh----HHHHHHHHHH-HhcCcEEEEcC
Q 002309 33 NVGALFTLDST---IG-RVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSG----FIGMVEALRF-METDIVAIIGP 103 (938)
Q Consensus 33 ~IG~i~~~~~~---~g-~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~----~~a~~~a~~l-i~~~V~aviGp 103 (938)
+||+++|.... ++ .....|+++|+|+||+++++++|++|+++++|+++++ ..+...+..+ +.+++.+||||
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 47888886532 12 3566899999999999999888999999999986653 3333333222 23578999999
Q ss_pred CChhHHHHHHHhhccCCccEEEcccCCCCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCc-EEEEEEEcCcccc--
Q 002309 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDNEYGR-- 178 (938)
Q Consensus 104 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~-~vaii~~d~~~g~-- 178 (938)
.||.++.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999988886 478999999999999999988899999999 6889997543322
Q ss_pred --chHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEE
Q 002309 179 --NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (938)
Q Consensus 179 --~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 256 (938)
...+.+.+.+++.|++|+....+..+ ..|+.++|+++|. ++|+|++++....+..++++|+++||+.+.|+||
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i 235 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHIEK----NSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFF 235 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEeccc----hhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEE
Confidence 13566778889999999876555544 7799999999997 8999999999999999999999999999999999
Q ss_pred EeCcchhcccC-----------CCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhh----cCCCCCC---CchhhHH
Q 002309 257 ATDWLAYMLDS-----------ASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNL----TGGSLGM---NSYGLYA 318 (938)
Q Consensus 257 ~~~~~~~~~~~-----------~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 318 (938)
..+++...+.. .+..+...+.+++++.+.++.+..+..++|.++|+++ ++.+..+ +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 98765432210 1112445567889999988888888889999999875 4211123 6679999
Q ss_pred hHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceE
Q 002309 319 YDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (938)
Q Consensus 319 YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~ 398 (938)
||||+++|.|++++.+.++ +|.+|..|.++|++++|+|++|++.||++|+| ...|
T Consensus 316 YDav~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~ 370 (399)
T cd06384 316 YDGVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDF 370 (399)
T ss_pred HHHHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccce
Confidence 9999999999999865432 23358999999999999999999999999997 4456
Q ss_pred EE---EEeeccceEEEEEeeCCC
Q 002309 399 DI---INVIGTGFRMIGYWSNYS 418 (938)
Q Consensus 399 ~I---~~~~~~~~~~Vg~w~~~~ 418 (938)
.+ .++++++++.||+|+..+
T Consensus 371 ~~~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCeEEEEEEEcCCC
Confidence 66 467899999999998744
No 35
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=3.3e-38 Score=349.83 Aligned_cols=340 Identities=17% Similarity=0.216 Sum_probs=292.8
Q ss_pred CCCeeEEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcC
Q 002309 27 ARPAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP 103 (938)
Q Consensus 27 ~~~~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp 103 (938)
..+++|+||++.|++ +..|.....++++|+++||+.||+ .|++|+++++|++++|..|.+.+.+|++++|.+||||
T Consensus 21 ~~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi-~G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~ 99 (369)
T PRK15404 21 ALADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGI-KGDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIGH 99 (369)
T ss_pred ccCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCC-CCeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEcC
Confidence 345689999999999 456888999999999999999999 5999999999999999999999999998899999999
Q ss_pred CChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCccccchHH
Q 002309 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVS 182 (938)
Q Consensus 104 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~ 182 (938)
.+|..+.+++++++..+||+|++.++++.+++..+||+||+.+.+..++.++++++ ++++|+++++|++|+.||++..+
T Consensus 100 ~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~ 179 (369)
T PRK15404 100 LCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLAR 179 (369)
T ss_pred CCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHH
Confidence 99999999999999999999999999999888778999999999999999999976 56799999999999999999999
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
.+.+.+++.|++++....++.+ +.|+.+++.+++..++|+|++.+...+...++++++++|+.. .|+.+++..
T Consensus 180 ~~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~~ 252 (369)
T PRK15404 180 SVKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGVG 252 (369)
T ss_pred HHHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcCC
Confidence 9999999999999988888876 789999999999999999998888888899999999999853 366665432
Q ss_pred hcccCCCCChhhhhccccEEEEEEcC-CCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccc
Q 002309 263 YMLDSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (938)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 341 (938)
..... ....+..+|+++..++. ...+..++|.+.|++++ ..+++.++..+||++++++.|++++..
T Consensus 253 ~~~~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~Y~~~~~l~~Al~~aG~------- 319 (369)
T PRK15404 253 NKSLS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--QDPSGPFVWTTYAAVQSLAAGINRAGS------- 319 (369)
T ss_pred CHHHH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--CCCCccchHHHHHHHHHHHHHHHhhCC-------
Confidence 21100 12235678887665433 34577899999999887 456667889999999999999998521
Q ss_pred cCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceE
Q 002309 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFR 409 (938)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~ 409 (938)
.+++.|.++|++.+|+|+.|++.|+++|++....|.|++|++++..
T Consensus 320 ----------------------~~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~~ 365 (369)
T PRK15404 320 ----------------------DDPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGTK 365 (369)
T ss_pred ----------------------CCHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCeE
Confidence 1378999999999999999999999999877889999998876543
No 36
>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=6e-38 Score=348.90 Aligned_cols=334 Identities=31% Similarity=0.525 Sum_probs=281.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHH-HHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCccEEEc
Q 002309 48 AKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGM-VEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSF 126 (938)
Q Consensus 48 ~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~-~~a~~li~~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~ 126 (938)
...|+++|+++||+++++++|.+|++.+.|+++++..+. ...+.+..++|.+||||.|+..+.+++.+++.++||+|++
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 578999999999999998899999999999995444444 4445556679999999999999999999999999999999
Q ss_pred ccCCCCCCC--CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcc-eEEEEEeecCC
Q 002309 127 GVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERR-CRISYKSGIPP 203 (938)
Q Consensus 127 ~~~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~ 203 (938)
+++++.+++ ..||+++|+.|++..+++++++++++|+|++|++||+++++|.+....+.+.+++.+ .++........
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVIS 161 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEET
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceecccccccc
Confidence 999999988 479999999999999999999999999999999999999999999999999999965 44444133332
Q ss_pred CCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccE
Q 002309 204 ESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGV 281 (938)
Q Consensus 204 ~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~ 281 (938)
. ..+....++++++ .++++|++++.+..+..++++|.++||...+|+||+++.+...... ..........|+
T Consensus 162 ~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~~~ 235 (348)
T PF01094_consen 162 S----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ--NNEDFREAFQGV 235 (348)
T ss_dssp T----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS--THCHHHCCHTTE
T ss_pred c----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc--ccccccccccce
Confidence 2 4455556666655 9999999999999999999999999999999999999987655311 224566789999
Q ss_pred EEEEEcCCCChhhHHHHHHHhhhc------CCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCcc
Q 002309 282 LVLRQHIPESDRKKNFLSRWKNLT------GGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNL 355 (938)
Q Consensus 282 ~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (938)
+++++..+..+.+++|.++|++.. ..+..+..+++++||||+++|+|++++.+.++....
T Consensus 236 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~-------------- 301 (348)
T PF01094_consen 236 LGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTN-------------- 301 (348)
T ss_dssp EEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTS--------------
T ss_pred eeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCC--------------
Confidence 999999999999999999999752 135567889999999999999999999876543220
Q ss_pred ccCCccccCchHHHHHHHhcCcccccccceEEcC-CCCCccceEEEEEee
Q 002309 356 HLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRSLIHAAYDIINVI 404 (938)
Q Consensus 356 ~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~-~g~~~~~~~~I~~~~ 404 (938)
....|.+|..+.++|++++|+|++|++.||+ +|+|.+..|+|+|+|
T Consensus 302 ---~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 302 ---GRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp ---SSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred ---CccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 1156778999999999999999999999999 899989999999875
No 37
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=8.1e-38 Score=343.37 Aligned_cols=316 Identities=22% Similarity=0.345 Sum_probs=268.6
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccC-CCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS-NCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~-~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||+|+|.++ .....|+++|+|+||+++|++++.+|++.+.|+ .+++..++.++|+|+.++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~~~V~aiiG~~~S~~~~a 77 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLSQGVAAIFGPSSSSSANT 77 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHhcCcEEEECCCCHHHHHH
Confidence 5999999987 678999999999999999998767999999998 589999999999999889999999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER 191 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~ 191 (938)
++++++.++||+|+++++++.++ ..+ .+++.|++..++.++++++++++|++|++||+++++ ...++.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~~~--~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~-~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-RQF--TINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEG-LLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-Ccc--eEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHh-HHHHHHHHHhhccC
Confidence 99999999999999998888776 233 455557777999999999999999999999977664 45567777778888
Q ss_pred ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCC
Q 002309 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLP 271 (938)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~ 271 (938)
|++|+.....+ . .+|++++|.+++..++|+|++.+.+.++..++++|+++||..+.|+||+++......+.
T Consensus 154 g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~---- 224 (324)
T cd06368 154 GIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL---- 224 (324)
T ss_pred CceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch----
Confidence 99988765443 3 23899999999999999999999999999999999999999889999998754322211
Q ss_pred hhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCC------CCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 272 SETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGG------SLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 272 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
........++.++....+..+..++|.++|++.++. ...|..+++.+||||+++
T Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~-------------------- 284 (324)
T cd06368 225 ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF-------------------- 284 (324)
T ss_pred hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe--------------------
Confidence 122234456777777788889999999999998831 126788999999999764
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccceEEEEEeeCCCCC
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTGFRMIGYWSNYSGL 420 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~~~~Vg~w~~~~g~ 420 (938)
+|+++||++|+|.+..++|+++.+++++.||+|++..|+
T Consensus 285 ------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 ------------------------------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred ------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 889999999999999999999999999999999987764
No 38
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=9.1e-37 Score=334.39 Aligned_cols=332 Identities=16% Similarity=0.183 Sum_probs=256.9
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||+||+.++.. ....-++.+|++++|+++|+ .|+.+.++.+|+.+|++.|+.++|+|++++|.|||||.+|..+.++
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-DDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 589999987532 23345555666678888886 5778889999999999999999999999999999999999999999
Q ss_pred HHhhccCCccEEEcccCC---C-----CCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHH
Q 002309 113 SYVSNELQVPLLSFGVTD---P-----TLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~---~-----~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~ 183 (938)
+++++..+||+|++.+.. | .+.+ ...+|.|++.|++ .+..++++++++|+|++|+++|++++ |...++.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHH
Confidence 999999999999965321 1 1111 1234666666775 68999999999999999999998776 5566688
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHh-------cCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEE
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-------LMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk-------~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 256 (938)
+.+++++.|+.+... ....+ ....+...++.++ ..+.++||++|+++.+..++++|.++||+..+|+|+
T Consensus 157 ~~~~~~~~g~~v~~~-~~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi 232 (363)
T cd06381 157 FLDQLSRQGIDVLLQ-KVDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWF 232 (363)
T ss_pred HHHHHHhcCceEEEE-ecccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEE
Confidence 888899999866542 22211 1223444444332 445668999999999999999999999999999999
Q ss_pred EeCcchhc-ccCCCCChhhhhccccEEEEEEcCCCChhhH----HHHHHHhhhcC----CCCCCCchhhHHhHHHHHHHH
Q 002309 257 ATDWLAYM-LDSASLPSETLESMQGVLVLRQHIPESDRKK----NFLSRWKNLTG----GSLGMNSYGLYAYDSVWLLAH 327 (938)
Q Consensus 257 ~~~~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~----~~~~~~~~~~~~YDav~~~a~ 327 (938)
+++.+... .+. ........|+++++...|..+..+ +|.+.|++... ....+...++++|||||++
T Consensus 233 ~~~~l~~~~~~l----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~-- 306 (363)
T cd06381 233 LINEEISDTEID----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL-- 306 (363)
T ss_pred Eeccccccchhh----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH--
Confidence 88766553 222 355678899999999988777666 55566754331 1123456799999999998
Q ss_pred HHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeeccc
Q 002309 328 AIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGTG 407 (938)
Q Consensus 328 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~ 407 (938)
+++|++++|+|+||+++||++|.|.+..++|+++.-++
T Consensus 307 ------------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~ 344 (363)
T cd06381 307 ------------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSE 344 (363)
T ss_pred ------------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCC
Confidence 35678889999999999999999999999999999544
Q ss_pred -----eEEEEEeeCCCCC
Q 002309 408 -----FRMIGYWSNYSGL 420 (938)
Q Consensus 408 -----~~~Vg~w~~~~g~ 420 (938)
.+.||+|++..|+
T Consensus 345 ~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 345 TLGKDGRWLATWNPSKGL 362 (363)
T ss_pred ccccceEEeeeccCCCCC
Confidence 7899999998775
No 39
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=7.9e-37 Score=337.45 Aligned_cols=328 Identities=19% Similarity=0.238 Sum_probs=286.9
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
+||++.|++ +..|.....|+++|++++|+++|+ +|++|++++.|++|++..+.+.+.+|++++|.+|+||.+|..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 599999998 456788999999999999999888 6999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCccccchHHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
.+++++++..+||+|++.++++.+.+..||++||+.|++..++.++++++ ++++|++|+++++|++||+...+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999887777776678999999999999999999986 57899999999999999999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
++.|++|+....++++ ..|+...+.++++.++++|++.+.+.++..+++++++.|+. ..|+.++.+.....
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~-- 230 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCDPEF-- 230 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCCHHH--
Confidence 9999999998888765 78999999999999999999999999999999999999984 34676654321110
Q ss_pred CCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
.....+..+|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++. .
T Consensus 231 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~al~~~~----~-------- 294 (334)
T cd06342 231 --IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKF--GDPPGAYAPYAYDAANVLAEAIKKAG----S-------- 294 (334)
T ss_pred --HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHHHHHHHHhC----C--------
Confidence 0122345788888777665 4678899999999988 55668899999999999999999851 1
Q ss_pred ccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEe
Q 002309 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV 403 (938)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~ 403 (938)
.++..+.++|++.+|+|++|+++|+++|++.+..|+|+||
T Consensus 295 -----------------~~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 -----------------TDPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred -----------------CCHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1388999999999999999999999999999999999885
No 40
>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=2.5e-36 Score=328.71 Aligned_cols=303 Identities=21% Similarity=0.296 Sum_probs=264.7
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|+++||++||+ .|++|+++++|++++|..+++.+.+|+++ +|.+|+||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 699999999 445788999999999999999999 69999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHH
Q 002309 109 AHIV-SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (938)
Q Consensus 109 ~~~v-a~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~ 186 (938)
+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++||.|++||++....+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999999998887 457999999999999999999999999999999999999999999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
.+++.|++|+....++++ +.|+.++++++++.++|+|++.+.+.++..++++++++|+.. .|++++.+.....
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~~ 232 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD---KFLLTDGMKSDSF 232 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC---ceEeeccccChHH
Confidence 999999999998888876 789999999999999999999999999999999999999843 3666654332110
Q ss_pred CCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
........++|+++..+..+. +..++|.++|+++| +..|+.+++.+||+++++++|
T Consensus 233 ---~~~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~--g~~p~~~~~~~Yd~~~~l~~A------------------ 288 (312)
T cd06346 233 ---LPADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAY--GESPSAFADQSYDAAALLALA------------------ 288 (312)
T ss_pred ---HHhhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHh--CCCCCccchhhHHHHHHHHHH------------------
Confidence 111222456788876655444 77899999999999 567889999999999998755
Q ss_pred ccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEE
Q 002309 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYD 399 (938)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~ 399 (938)
|.|++|++.|+++|++.. .|+
T Consensus 289 -------------------------------~~g~~g~~~f~~~g~~~~-~~~ 309 (312)
T cd06346 289 -------------------------------YQGASGVVDFDENGDVAG-SYD 309 (312)
T ss_pred -------------------------------hCCCccceeeCCCCCccc-cee
Confidence 668999999999998643 554
No 41
>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=5.2e-36 Score=332.19 Aligned_cols=328 Identities=16% Similarity=0.212 Sum_probs=279.1
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCC---CCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL---HGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il---~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~ 105 (938)
+||+++|++ +..|.....|+++|+++||++||+. .|++|+++++|+++++..+++.+.+|+++ +|.+||||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 699999999 5568889999999999999988763 47999999999999999999999999987 8999999999
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC--CcEEEEEEEcCccccchHHH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG--WNAVSVIFVDNEYGRNGVSA 183 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~--w~~vaii~~d~~~g~~~~~~ 183 (938)
|..+.+++++++.++||+|+++++++.+....+|++||+.|++..++.++++++++++ |+++++|+.|++||+...+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998888877766789999999999999999999999887 99999999999999999999
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchh
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~ 263 (938)
+.+.+++.|++|+....++.. ..|+.+++++|++.++|+|++.+.+.++..+++++++.|+..+ .++. +.+...
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~-~~~~~~ 234 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYM-TVGPAF 234 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEE-ecCCCc
Confidence 999999999999988888765 6799999999999999999999999999999999999998643 2222 222211
Q ss_pred cccCCCCChhhhhccccEEEEEEcCCC-------ChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcC
Q 002309 264 MLDSASLPSETLESMQGVLVLRQHIPE-------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (938)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~ 336 (938)
.... ........|+++...+.+. .+..++|.++|+++| +..|+.++..+||+++++++|++++...
T Consensus 235 ~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~a~~~~~~a~~~ag~~- 307 (345)
T cd06338 235 PAFV----KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKY--GKAPDYHAAGAYAAGQVLQEAVERAGSL- 307 (345)
T ss_pred HHHH----HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHh--CCCCCcccHHHHHHHHHHHHHHHHhCCC-
Confidence 1000 1222345788877666553 367899999999999 4557788999999999999999985211
Q ss_pred CcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEE
Q 002309 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (938)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~ 402 (938)
++..+.++|++++|.|++|++.|+++|++.. .+.+++
T Consensus 308 ----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 308 ----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 3788999999999999999999999998644 545554
No 42
>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=5.1e-36 Score=332.79 Aligned_cols=308 Identities=32% Similarity=0.547 Sum_probs=267.0
Q ss_pred EEEEEeeCCCc-------------chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc----
Q 002309 33 NVGALFTLDST-------------IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET---- 95 (938)
Q Consensus 33 ~IG~i~~~~~~-------------~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~---- 95 (938)
.||++||++.. .|.....++.+|+++||+++++++|++|+++++|++|++..|++.+.+|+.+
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 48999999852 2567789999999999999999899999999999999999999999999975
Q ss_pred ----------CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCC
Q 002309 96 ----------DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGW 164 (938)
Q Consensus 96 ----------~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w 164 (938)
+|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 8999999999999999999999999999999999999976 67899999999999999999999999999
Q ss_pred cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 165 ~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
++|++|+++++||....+.+.+.+++.|++|+....++.. ....|+..++++++.+++|+|++++.+.++..++++|+
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~ 238 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAY 238 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999998888765 33689999999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHH
Q 002309 245 YLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWL 324 (938)
Q Consensus 245 ~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~ 324 (938)
++|+ .+.+ |++++.+.... +......+.++|++++..+.+.....+.|.+.|++ +++++|||||+
T Consensus 239 ~~g~-~~~~-~i~~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~~ 303 (348)
T cd06350 239 KLGM-TGKY-WIISTDWDTST---CLLLFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVYA 303 (348)
T ss_pred HhCC-CCeE-EEEEccccCcc---ccccCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhheeE
Confidence 9999 4444 44554443321 11123346788999988888766666677777764 67899999876
Q ss_pred HHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee
Q 002309 325 LAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (938)
Q Consensus 325 ~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~ 404 (938)
.+.|+++|++ ...|.|++++
T Consensus 304 -----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~~ 323 (348)
T cd06350 304 -----------------------------------------------------------EVKFDENGDR-LASYDIINWQ 323 (348)
T ss_pred -----------------------------------------------------------EEEecCCCCc-ccceeEEEEE
Confidence 5999999996 6778999997
Q ss_pred c----cceEEEEEeeCC
Q 002309 405 G----TGFRMIGYWSNY 417 (938)
Q Consensus 405 ~----~~~~~Vg~w~~~ 417 (938)
. .++++||.|.+.
T Consensus 324 ~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 324 IFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EcCCcEEEEEEEEEcCC
Confidence 6 679999999874
No 43
>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=1e-35 Score=329.12 Aligned_cols=321 Identities=21% Similarity=0.269 Sum_probs=274.4
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|++++|++||+ +|++|+++++|++++|..|++.+++|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 589999998 567899999999999999999998 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC----CCCCceEEecCCchHHHHHHHHHHHh-----cCCcEEEEEEEcCccccc
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS----LQYPFFVRTTQSDSYQMTAVAEMVSY-----YGWNAVSVIFVDNEYGRN 179 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~----~~~p~~~r~~ps~~~~~~ai~~~l~~-----~~w~~vaii~~d~~~g~~ 179 (938)
+.+++++++.++||+|+++++++.+++ ..+|++||+.|++..++.++++++.+ ++|++|++++.++.||+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888888873 46899999999999999999998876 899999999999999999
Q ss_pred hHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
....+++.+++.|++|+....++.+ ..|+.+++.+|+..++++|++.+.+.+...+++++.+.|+..+ ++..+
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 232 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGIS 232 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEec
Confidence 9999999999999999988888765 6789999999999999999999999999999999999998432 33322
Q ss_pred cchhcccCCCCChhhhhccccEEEEEEcCC----CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhc
Q 002309 260 WLAYMLDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (938)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 335 (938)
.+...... .....+..+|++....+.+ .++..++|.++|++++ +..++.+++.+||+++++++|++++..
T Consensus 233 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~yda~~~l~~A~~~ag~- 306 (344)
T cd06345 233 VEGNSPAF---WKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--GGPPNYMGASTYDSIYILAEAIERAGS- 306 (344)
T ss_pred CCcCCHHH---HHhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--CCCCcccchHHHHHHHHHHHHHHHhcC-
Confidence 11100000 0112234566665544433 4677899999999998 567889999999999999999998521
Q ss_pred CCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCcc
Q 002309 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIH 395 (938)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~ 395 (938)
.+++.+.++|++.+|+|++|+++||++|++..
T Consensus 307 ----------------------------~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 307 ----------------------------TDGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred ----------------------------CCHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 13788999999999999999999999999643
No 44
>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=9.9e-36 Score=325.62 Aligned_cols=302 Identities=19% Similarity=0.231 Sum_probs=238.8
Q ss_pred CCChHHHHHHHHHHHhc-CcEEEE-cCCChh--HHHHHHHhhccCCccEEEcccCCC-CCCC-CCCCceEEecCCchHHH
Q 002309 79 NCSGFIGMVEALRFMET-DIVAII-GPQCST--VAHIVSYVSNELQVPLLSFGVTDP-TLSS-LQYPFFVRTTQSDSYQM 152 (938)
Q Consensus 79 ~~~~~~a~~~a~~li~~-~V~avi-Gp~~s~--~~~~va~~~~~~~iP~Is~~~~~~-~l~~-~~~p~~~r~~ps~~~~~ 152 (938)
..||...+.++|+++.+ +|.|+| ||.++. .+..++.++++++||+|+++++++ .+++ ..+|+|+|+.|++..|+
T Consensus 44 ~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~ 123 (362)
T cd06378 44 ETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQA 123 (362)
T ss_pred CCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHH
Confidence 46999999999999987 599755 999997 456788888889999999976665 5565 67999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
+|+++++++|+|++|++||++++.+..+...+++.+.+.++|+.....++... ....+....+++++..++++||++|+
T Consensus 124 ~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~l~~lk~~~arViVl~~s 202 (362)
T cd06378 124 AVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDM-SDDDGDARTQRQLKKLESQVILLYCS 202 (362)
T ss_pred HHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeecc-CCCcchHHHHHHHHhcCCCEEEEECC
Confidence 99999999999999999999988777777888887777666654433333221 12334788899999999999999999
Q ss_pred hhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCC
Q 002309 233 PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMN 312 (938)
Q Consensus 233 ~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~ 312 (938)
.+.+..+|++|+++||++.+|+||++++.....+. ...+...|++++.. ++|+.
T Consensus 203 ~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~-----~~~~~~~G~i~v~~------------~~w~~--------- 256 (362)
T cd06378 203 KEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL-----GPSEFPVGLISVSY------------DGWRY--------- 256 (362)
T ss_pred HHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc-----ccccCCcceEeecc------------ccccc---------
Confidence 99999999999999999999999999876554221 11233466666542 23331
Q ss_pred chhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCC-cc-ccCchHHHHHHHhcCcccccccceEEcCC
Q 002309 313 SYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGA-MS-IFDDGMLLLGNILQSNLVGLTGPLKFNSD 390 (938)
Q Consensus 313 ~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~g~~l~~~l~~~~f~G~tG~v~F~~~ 390 (938)
.+.+..||||+++|+|++.+.+++..++ ....+|.. .. +|.+|..|+++|++++|+|+ +++||++
T Consensus 257 ~~~a~~~DaV~vva~Al~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~ 323 (362)
T cd06378 257 SLRARVRDGVAIIATGASAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTED 323 (362)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCC
Confidence 1356789999999999999876544432 11224533 33 48889999999999999997 9999999
Q ss_pred CCCccceEEEEEeec-cceEEEEEeeCCCCCc
Q 002309 391 RSLIHAAYDIINVIG-TGFRMIGYWSNYSGLS 421 (938)
Q Consensus 391 g~~~~~~~~I~~~~~-~~~~~Vg~w~~~~g~~ 421 (938)
|+|.++.|+|+|++. .+|++||+|++ .+|.
T Consensus 324 G~r~~~~ldIinl~~~~g~~kVG~W~~-~~L~ 354 (362)
T cd06378 324 GYLVNPKLVVISLNKERVWEEVGKWEN-GSLR 354 (362)
T ss_pred CeEccceEEEEEecCCCCceEEEEEcC-CeEE
Confidence 999999999999996 59999999984 4454
No 45
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.8e-35 Score=324.75 Aligned_cols=334 Identities=15% Similarity=0.230 Sum_probs=275.4
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|+++||++||+ .|++|+++++|++++|..+.+.+++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi-~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGV-NGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCc-CCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 699999999 556889999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHH-HHHHHHHHhc-CCcEEEEEEEcC-ccccchHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQM-TAVAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~-~ai~~~l~~~-~w~~vaii~~d~-~~g~~~~~~l~ 185 (938)
+.++.++++..+||+|+++++++.+. ..+||+||+.+++..+. .++..+++++ +|+++++||.++ .||+.....++
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~ 158 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQ 158 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHH
Confidence 99999999999999999887776654 35689999987776554 4455667787 999999999754 49999999999
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 265 (938)
+.+++.|++|+....++.+ +.|+.+++.+++++++|+|++.+.+.++..+++++++.|+..+ ++.++++....
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTPN 231 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCHH
Confidence 9999999999988888866 7899999999999999999999999999999999999998542 55544332211
Q ss_pred cCCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
. .....+..+|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++..++...
T Consensus 232 ~----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~---- 301 (344)
T cd06348 232 V----FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKY--GKAPPQFSAQAFDAVQVVAEALKRLNQKQKLA---- 301 (344)
T ss_pred H----HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHH--CCCccHHHHHHHHHHHHHHHHHHHhcCCCccc----
Confidence 0 1223356688887776655 3466899999999998 56778889999999999999999975432110
Q ss_pred CccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEE
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDI 400 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I 400 (938)
.|. .-..+..|.++|++.+|.|++|++.|+++|++....|.|
T Consensus 302 ------------~~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 302 ------------ELP---LPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred ------------cch---hhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 000 001367899999999999999999999999987666643
No 46
>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=317.16 Aligned_cols=337 Identities=16% Similarity=0.139 Sum_probs=275.9
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|++++|..|++.+.+|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVL-GRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 599999999 5568899999999999999999995 9999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.++.++++..++|+|++..... ...+||+||+.+++..++..+++++.. .++++|++++.|++||.+..+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998653221 235699999999999999999998775 57999999999999999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|++|+....++.+ +.|+.+++.++++.++|+|++...+.++..+++++++.|+..+...++........+.
T Consensus 157 ~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~- 231 (348)
T cd06355 157 LESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR- 231 (348)
T ss_pred HHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh-
Confidence 99999999998888876 8999999999999999999999999999999999999998654444554332211111
Q ss_pred CCCChhhhhccccEEEEEEcC--CCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 268 ASLPSETLESMQGVLVLRQHI--PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
....+...|++....+. ...+..++|.++|+++|+....+..++..+||++++++.|++++.+.
T Consensus 232 ----~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~ag~~---------- 297 (348)
T cd06355 232 ----GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKAGSF---------- 297 (348)
T ss_pred ----hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC----------
Confidence 11123456766554432 35677899999999998322234567889999999999999996211
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee-ccceEEE
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMI 411 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~-~~~~~~V 411 (938)
+++.|.++|++++|++..|+++|+++++.....+.|.+++ +++++.|
T Consensus 298 -------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 298 -------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 3889999999999999999999998443345556677775 4555554
No 47
>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=1.2e-34 Score=320.48 Aligned_cols=323 Identities=20% Similarity=0.254 Sum_probs=274.5
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCC--CCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSI--LHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~i--l~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s 106 (938)
+||++.|++ +..|.....|+++|+++||++||+ ++|++|+++++|+++++..+++.+++|+++ +|.+|+||.+|
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 599999998 456888999999999999999973 479999999999999999999999999988 99999999999
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEcCccccch
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDNEYGRNG 180 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------~w~~vaii~~d~~~g~~~ 180 (938)
..+.+++++++..+||+|++.++++.+++..+||+||+.|++..++.++++++.++ +|+++++|++|++||...
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~ 160 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFGTSV 160 (347)
T ss_pred HhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHhHHH
Confidence 99999999999999999999888888887778999999999999999999999876 459999999999999999
Q ss_pred HHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCc
Q 002309 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDW 260 (938)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~ 260 (938)
.+.+++.+++.|++|+....++.. +.|+.+++++++++++|+|++.+...++..+++++++.|+..+ .++...++
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~ 235 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYPAN----ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGG 235 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccCCC----CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCC
Confidence 999999999999999988888865 7799999999999999999999999999999999999998543 33222222
Q ss_pred chhcccCCCCChhhhhccccEEEEEEcCCC-ChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcc
Q 002309 261 LAYMLDSASLPSETLESMQGVLVLRQHIPE-SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (938)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 339 (938)
....... ....+..+|++...++.+. .+..++|.++|++++ +..++.++..+||+++++++|++++.+.
T Consensus 236 ~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~Y~a~~~l~~A~~~ag~~---- 305 (347)
T cd06340 236 AEDPSFV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARF--GVDLSGNSARAYTAVLVIADALERAGSA---- 305 (347)
T ss_pred cCcHHHH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC----
Confidence 1111001 1233456888887776654 677899999999999 5568889999999999999999996321
Q ss_pred cccCCccccccCCCccccCCccccCchHHHH--HHHhcCccc---ccccceEEcCCCCCcc
Q 002309 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLL--GNILQSNLV---GLTGPLKFNSDRSLIH 395 (938)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~--~~l~~~~f~---G~tG~v~F~~~g~~~~ 395 (938)
+++.+. .+|+++.+. +..|+++||++|+..+
T Consensus 306 -------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~ 341 (347)
T cd06340 306 -------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTN 341 (347)
T ss_pred -------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCccc
Confidence 367777 488888765 4678999999998544
No 48
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.2e-34 Score=316.68 Aligned_cols=320 Identities=15% Similarity=0.152 Sum_probs=269.2
Q ss_pred EEEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHH
Q 002309 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~~ 109 (938)
+||++.|++ +..|.....|+++|+++||+.||+ +|++|+++++|++++|..+.+.+.+|+.+ +|.+|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999999 667889999999999999999998 59999999999999999999999999987 89999999999999
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCc-cccchHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNE-YGRNGVSALNDK 187 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~vaii~~d~~-~g~~~~~~l~~~ 187 (938)
.+++++++..++|+|++.++++.++ ..+||+||+.|++..+++++++++++.+ |++|++||.|+. ||+...+.+.+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~ 158 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSA 158 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHH
Confidence 9999999999999999888888777 4679999999999999999999998876 999999998876 999999999999
Q ss_pred Hhh-cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 188 l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
+++ .|+++.....++.. +.++..++.++++.++++|++.+.......+++++.+.+. ...++.++.+.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~~~ 231 (332)
T cd06344 159 LLERGGGIVVTPCDLSSP----DFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTPDT 231 (332)
T ss_pred HHHhcCCeeeeeccCCCC----CCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCHHH
Confidence 999 58888765544433 5678889999999999999999998888889999888664 233455444322110
Q ss_pred CCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 267 SASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
. .......+|+++..++.+..+..++|.+.|++++ +.+++.++..+||+++++++|++++.+.
T Consensus 232 ~----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~a~~~Yda~~~l~~A~~~ag~~----------- 294 (332)
T cd06344 232 L----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLW--GGDVSWRTATAYDATKALIAALSQGPTR----------- 294 (332)
T ss_pred H----HhchhhhcCeEEEEecccccccchHHHHHHHHHh--cCCchHHHHhHHHHHHHHHHHHHhCCCh-----------
Confidence 1 1223457888888888887778899999999999 5678889999999999999999985211
Q ss_pred ccccCCCccccCCccccCchHHHH-HHHhcCcccccccceEEcCCCCCccc
Q 002309 347 LKTMEGGNLHLGAMSIFDDGMLLL-GNILQSNLVGLTGPLKFNSDRSLIHA 396 (938)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~-~~l~~~~f~G~tG~v~F~~~g~~~~~ 396 (938)
++..+. .++++..|.|+.|+++||++|++...
T Consensus 295 ------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 ------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred ------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 133444 67778889999999999999997543
No 49
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=5.7e-34 Score=315.25 Aligned_cols=339 Identities=22% Similarity=0.252 Sum_probs=280.0
Q ss_pred CeeEEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCC
Q 002309 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQ 104 (938)
Q Consensus 29 ~~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~ 104 (938)
.++|+||++.|++ +.+|.....++++|+++||+.||++ |++|+++++|+.+||..+++.+.+|+.+ +|.+|||+.
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~ 86 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT 86 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec
Confidence 4589999999998 6679999999999999999999985 8889999999999999999999999885 999999999
Q ss_pred ChhHHHHHHHhhccCCccEEEcccCCCCCCCCCC-CceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCccccchHH
Q 002309 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQY-PFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVS 182 (938)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~-p~~~r~~ps~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~~~ 182 (938)
+|..+.++.+++++.++|+|+++++++.+....+ +++||+.|++..|+.++++++.. .+.++|++|++|+.||++..+
T Consensus 87 ~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~ 166 (366)
T COG0683 87 TSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLAD 166 (366)
T ss_pred cCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHH
Confidence 9999999999999999999999999998776443 56999999999999999999775 455699999999999999999
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
.+++.+++.|.+++....+.+. ..++..++.+++..++|+|++.+.+.+...+++++++.|+... ..++......
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~ 241 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTA 241 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCch
Confidence 9999999999986655677766 4559999999999999999999999999999999999998653 2222221111
Q ss_pred hcccCCCCChhhhhcccc-E-EEEEEcCC-CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcc
Q 002309 263 YMLDSASLPSETLESMQG-V-LVLRQHIP-ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (938)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g-~-~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 339 (938)
... ........+ . +......+ ..|..+.|.++|++++.....++.++..+||+++++++|++++.. +
T Consensus 242 ~~~------~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~---~- 311 (366)
T COG0683 242 EFE------EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK---S- 311 (366)
T ss_pred hhh------hhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc---C-
Confidence 110 011112222 2 33333333 456678899999999932356677999999999999999999742 0
Q ss_pred cccCCccccccCCCccccCCccccCchHHHHHHHhcCc-ccccccceEEcCCCCCccceEEEEEeeccc
Q 002309 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNSDRSLIHAAYDIINVIGTG 407 (938)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~G~tG~v~F~~~g~~~~~~~~I~~~~~~~ 407 (938)
.+++.+.++|+... +.+.+|++.||++|++....+.|.+++..+
T Consensus 312 ------------------------~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~~ 356 (366)
T COG0683 312 ------------------------SDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKGG 356 (366)
T ss_pred ------------------------CCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEecC
Confidence 12788999999887 789999999999999999999998888543
No 50
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=100.00 E-value=6.3e-35 Score=320.46 Aligned_cols=330 Identities=16% Similarity=0.146 Sum_probs=246.9
Q ss_pred CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccC------CC-ChHHHHHHHHHHHhcCc--EEEEcCCChhHHHH
Q 002309 41 DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSS------NC-SGFIGMVEALRFMETDI--VAIIGPQCSTVAHI 111 (938)
Q Consensus 41 ~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~------~~-~~~~a~~~a~~li~~~V--~aviGp~~s~~~~~ 111 (938)
+...|...+.|+++|++++|++. |.+|.+.+.+. .+ |.+.+.+++|+++++|+ .|||||.++..+..
T Consensus 7 ~~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~ 82 (368)
T cd06383 7 TEDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASE 82 (368)
T ss_pred cccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHH
Confidence 34467899999999999999985 67788877777 55 56666777999999988 89999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHH-HHhh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND-KLAE 190 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~-~l~~ 190 (938)
++++|+.++||+|+++.. ..++.++|+++|+.|++..+++|+++++++|+|++|++||++++.+......+.+ ...+
T Consensus 83 V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~ 160 (368)
T cd06383 83 IKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTR 160 (368)
T ss_pred HHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhc
Confidence 999999999999997443 2334579999999999999999999999999999999999776643323333333 3333
Q ss_pred cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC-hhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCC
Q 002309 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSAS 269 (938)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~-~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~ 269 (938)
.++++. +.. ..++...++++++.+.+.||+.+. ++.+..++++|.++||++.+|+||++++.....+.
T Consensus 161 ~~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl-- 229 (368)
T cd06383 161 HVITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD-- 229 (368)
T ss_pred CCEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh--
Confidence 445543 112 456889999999999866666666 59999999999999999999999999876554333
Q ss_pred CChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhc-C--CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 270 LPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLT-G--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 270 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~-~--~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
+.......++.++++..+.....+++.++|.+.. . ...+....++.+||||++++.|++.+..+.....
T Consensus 230 --~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~------ 301 (368)
T cd06383 230 --LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDG------ 301 (368)
T ss_pred --hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCC------
Confidence 2334456789999997666666688887774321 0 0112345689999999999999998632111110
Q ss_pred ccccCCCccccCCc---ccc-CchHHHHHHHhcCcccccccceEEcCCCCCccce
Q 002309 347 LKTMEGGNLHLGAM---SIF-DDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAA 397 (938)
Q Consensus 347 ~~~~~~~~~~~~~~---~~~-~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~ 397 (938)
........|... .+| .+|..+.++|++++|+|+||+|+||++|.|.+..
T Consensus 302 --~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~ 354 (368)
T cd06383 302 --STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKT 354 (368)
T ss_pred --CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeee
Confidence 000011234433 256 6677999999999999999999999999886544
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=6.1e-34 Score=314.31 Aligned_cols=316 Identities=16% Similarity=0.183 Sum_probs=272.0
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
+||++.|++ +..|.....|+++|+++||+.||+ .|++|+++++|++++|..+++.+.+|++++|.+||||.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi-~G~~i~l~~~D~~~~p~~a~~~a~~lv~~~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGV-DGRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 589999998 456889999999999999999999 5999999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCccccch
Q 002309 110 HIV-------SYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNG 180 (938)
Q Consensus 110 ~~v-------a~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~vaii~~d~~~g~~~ 180 (938)
.++ +++++.+++|+|++.++++.++. ..+||+||+.|++..++.++++++...+ |+++++|+.|+.||++.
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 998 78889999999999888888876 5679999999999999999999998875 99999999999999999
Q ss_pred HHHHHHHHhh--cceEEEEEeecCCCCCCCh-hhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 181 VSALNDKLAE--RRCRISYKSGIPPESGVNT-GYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 181 ~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~-~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
.+.+.+.+++ .|++|+....++.+ . .|+.+++.++++.++|+|++...+.++..+++++++.|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEe
Confidence 9999999999 99999988777765 6 899999999999999999999888899999999999998532 444
Q ss_pred eCcchhcccCCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhc
Q 002309 258 TDWLAYMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQ 335 (938)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~ 335 (938)
..+....+ .....+..+|++...++.+ ..+..++|.++|++++ +..++.++..+||++++++.|++++..
T Consensus 233 ~~~~~~~~-----~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~y~~~~~~~~a~~~ag~- 304 (342)
T cd06329 233 PYLDQPGN-----PAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKY--GRVPDYYEGQAYNGIQMLADAIEKAGS- 304 (342)
T ss_pred ccccchhH-----HHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHHHHHHHhCC-
Confidence 33322211 1223345678777666554 3577899999999998 557788899999999999999998421
Q ss_pred CCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcC-CCC
Q 002309 336 GGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRS 392 (938)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~-~g~ 392 (938)
.+++.+.++|++++|+|..|+++|+. +++
T Consensus 305 ----------------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~~~ 334 (342)
T cd06329 305 ----------------------------TDPEAVAKALEGMEVDTPVGPVTMRASDHQ 334 (342)
T ss_pred ----------------------------CCHHHHHHHHhCCccccCCCCeEEcccCcc
Confidence 13789999999999999999999985 444
No 52
>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=2e-33 Score=310.47 Aligned_cols=340 Identities=10% Similarity=0.071 Sum_probs=273.2
Q ss_pred EEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 32 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
|+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|++++|..|+..+.+|+++ +|.+||||.+|.
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 6899999999 5568899999999999999999995 9999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
.+.++++++++.++|+|...... .....+|+||+.|++..++.++++++....-+++++|++|++||+.....+++.
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~~~---~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~~ 156 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQYE---GGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRVI 156 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcccc---cccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHHH
Confidence 99999999999999999642211 113358999999999999999999987543378999999999999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|++|+....++.+ +.|+.+++.+++.++||+|++...+.+...++++++++|+..+ ++...........
T Consensus 157 ~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~ 229 (374)
T TIGR03669 157 AKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEH 229 (374)
T ss_pred HHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhh
Confidence 99999999988888876 8899999999999999999999989999999999999998543 2222111111000
Q ss_pred CCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCC-CCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSL-GMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
. ........|+++..++.+ ..+..++|.++|+++|+ .. .++.++..+||+++++++|++++.+.
T Consensus 230 ~---~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g-~~p~~~~~a~~~Yda~~~l~~Ai~~AGs~--------- 296 (374)
T TIGR03669 230 K---RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFP-DAPYINQEAENNYFSVYMYKQAVEEAGTT--------- 296 (374)
T ss_pred h---hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcC-CCCCCChHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 0 011134567666655554 46778999999999993 22 23567889999999999999996321
Q ss_pred ccccccCCCccccCCccccCchHHHHHHHhc-CcccccccceEEcCCCCCccceEEEEEeec-cceEEEEEee
Q 002309 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRSLIHAAYDIINVIG-TGFRMIGYWS 415 (938)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~-~~~~~Vg~w~ 415 (938)
+++.+.++|++ ..|.|+.|+++|+++++.....+.|.++.. +++..+..|+
T Consensus 297 --------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 --------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred --------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 48899999997 579999999999987654445566667764 3355555554
No 53
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.2e-33 Score=310.81 Aligned_cols=343 Identities=15% Similarity=0.192 Sum_probs=284.9
Q ss_pred CCeeEEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcC
Q 002309 28 RPAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGP 103 (938)
Q Consensus 28 ~~~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp 103 (938)
.+++|+||+++|++ +..|.....++++|++++|+.||+ .|++|+++++|+++++..+++.+.+|+++ +|.+||||
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~ 81 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGI-NGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGG 81 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCc-CCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEec
Confidence 35789999999998 456888999999999999999999 59999999999999999999999999975 89999999
Q ss_pred CChhHHHHHHHhhccCCccEEEcccCCCCCCCC-CCCceEEecCCchHHHHHHHHH-HHhcCCcEEEEEEEcCccccchH
Q 002309 104 QCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGV 181 (938)
Q Consensus 104 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~-l~~~~w~~vaii~~d~~~g~~~~ 181 (938)
.+|..+.+++++++..+||+|++.++++.+++. .+||+||+.|++..++.+++++ +++++|++|++|++|+.||++..
T Consensus 82 ~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~ 161 (362)
T cd06343 82 LGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYL 161 (362)
T ss_pred CCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHH
Confidence 999999999999999999999987777777764 7899999999999999999997 45789999999999999999999
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 261 (938)
+.+++.+++.|++++....++.. +.|+.+++.+++..++++|++.+.+.++..+++++++.|+... ++.++++
T Consensus 162 ~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~ 234 (362)
T cd06343 162 KGLKDGLGDAGLEIVAETSYEVT----EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVS 234 (362)
T ss_pred HHHHHHHHHcCCeEEEEeeecCC----CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEecc
Confidence 99999999999999988888866 7899999999999999999999999999999999999998643 4555443
Q ss_pred hhcccCCCCChhhhhccccEEEEEEcC-------CCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHh
Q 002309 262 AYMLDSASLPSETLESMQGVLVLRQHI-------PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFN 334 (938)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~ 334 (938)
...... ......+..+|++....+. ...+..++|.+.|+++++...+++.+...+||+++++++|++++.
T Consensus 235 ~~~~~~--~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~ag- 311 (362)
T cd06343 235 ASVASV--LKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQAG- 311 (362)
T ss_pred cccHHH--HHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhC-
Confidence 221100 0111224567777665442 235778999999999883112478899999999999999999862
Q ss_pred cCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcc---cc-cccceEEcCCCCCccceEEEEEeeccce
Q 002309 335 QGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNL---VG-LTGPLKFNSDRSLIHAAYDIINVIGTGF 408 (938)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f---~G-~tG~v~F~~~g~~~~~~~~I~~~~~~~~ 408 (938)
.. .+++.+.++|+++++ .+ ..|+++|++++++....+.|.++++++|
T Consensus 312 --~~-------------------------~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 312 --DD-------------------------LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred --CC-------------------------CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 11 137899999999987 33 3458999876555666778888887764
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=3.4e-33 Score=308.67 Aligned_cols=330 Identities=18% Similarity=0.221 Sum_probs=275.1
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|++++|++||+ +|++|+++++|+++++..|.+.+.+|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGV-GGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCc-CCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHh
Confidence 699999998 566899999999999999999999 69999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.+++++++..++|+|++.++++.+++ ..+|+||+.|++..++.++++++ ++++|++|++++.|++||+.....+++.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~ 158 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKA 158 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHH
Confidence 999999999999999998877777764 46899999999999999999985 6789999999999999999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|++|+....+++. +.|+..++.+++.+++|+|++.+.+.+...+++++++.|+..+ ++.+.........
T Consensus 159 ~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 231 (340)
T cd06349 159 AEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSPKFI 231 (340)
T ss_pred HHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCHHHH
Confidence 99999999988888766 7799999999999999999999999999999999999998543 4443322111101
Q ss_pred CCCChhhhhccccEEEEEEcCCC--ChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 268 ASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
....+...|++...++.++ .+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~a~~~ag~~---------- 295 (340)
T cd06349 232 ----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKY--GAQPDAFAAQAYDAVGILAAAVRRAGTD---------- 295 (340)
T ss_pred ----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhhhhHHHHHHHHHHHHHHhCCC----------
Confidence 1222457888877776664 467899999999888 4567889999999999999999985211
Q ss_pred cccccCCCccccCCccccCchHHHHHH-HhcCcccccccceEEcCC-CCCccceEEEEEeeccc
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGN-ILQSNLVGLTGPLKFNSD-RSLIHAAYDIINVIGTG 407 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~-l~~~~f~G~tG~v~F~~~-g~~~~~~~~I~~~~~~~ 407 (938)
....+... +.+..+.|+.|+++|+++ |+. ...+.++.+++++
T Consensus 296 -------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~ 339 (340)
T cd06349 296 -------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGK 339 (340)
T ss_pred -------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCc
Confidence 12223232 245568899999999987 654 4578888877765
No 55
>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=2.7e-33 Score=308.29 Aligned_cols=320 Identities=16% Similarity=0.144 Sum_probs=269.2
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++ +..|.....++++|+++||++||+ .|++|+++++|+++||..+.+.+++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 599999998 456889999999999999999998 59999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
+.+++++++..++|+|++.+.... ...|++||+.|++..++.++++++...+|++|++|++|+.||+.....+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~ 156 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALL 156 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHH
Confidence 999999999999999987543221 24589999999999999999998876669999999999999999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
++.|.+|+....++++ ..|+.+++.+++..++|+|++.+.+.++..+++++.+.|+...... +.+....... .
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~~-~- 229 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIP-ILSLTLDENE-L- 229 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCe-eEEcccchhh-h-
Confidence 9999999988888876 7899999999999999999999999999999999999999643333 3332222211 1
Q ss_pred CCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
.........|++...++.+ +.+..+.|.++|+++++....++.++..+||++++++.|++++.+
T Consensus 230 --~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~------------ 295 (333)
T cd06331 230 --AAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGS------------ 295 (333)
T ss_pred --hccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCC------------
Confidence 1112234678887766654 466789999999988831124788899999999999999998421
Q ss_pred ccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCc
Q 002309 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLI 394 (938)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~ 394 (938)
.+++.|.++|++++|+|++|.+.|++++++.
T Consensus 296 -----------------~~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 -----------------TDPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred -----------------CCHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 1388999999999999999999999887653
No 56
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.8e-32 Score=293.65 Aligned_cols=335 Identities=15% Similarity=0.148 Sum_probs=249.7
Q ss_pred CCeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC-CChHHHHHHHHHH-HhcCcEEEEcC-C
Q 002309 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRF-METDIVAIIGP-Q 104 (938)
Q Consensus 28 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~a~~l-i~~~V~aviGp-~ 104 (938)
-+..|+||++|+.. .+.+.|+++|++.+|++..++++.+|++.+.... .|++.+.+.+|++ +.+||.||+|| .
T Consensus 15 ~~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p~ 90 (382)
T cd06377 15 IGHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFPQ 90 (382)
T ss_pred cCCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecCC
Confidence 35579999999966 3579999999999999988877889999887765 4999999999999 59999999994 8
Q ss_pred ChhHHHHHHHhhccCCccEEEcccCCCCC-CCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHH
Q 002309 105 CSTVAHIVSYVSNELQVPLLSFGVTDPTL-SSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSA 183 (938)
Q Consensus 105 ~s~~~~~va~~~~~~~iP~Is~~~~~~~l-~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~ 183 (938)
++..+..+..+|+.++||+|++...++.. ++..+.+.+++.|+...++.|+++++++|+|++|++||+.+.. ...
T Consensus 91 s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~g----l~~ 166 (382)
T cd06377 91 TRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERD----PTG 166 (382)
T ss_pred CHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcC----HHH
Confidence 88888999999999999999986655333 2233333446699999999999999999999999999988763 333
Q ss_pred HHHHHhhcce-E---EEEEeecCCCCCCChhhH-HHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 184 LNDKLAERRC-R---ISYKSGIPPESGVNTGYV-MDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 184 l~~~l~~~g~-~---v~~~~~~~~~~~~~~~d~-~~~l~~lk~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
|++.++..+. . +......++. +.+..++ ++.|+++++.. .++|+++|+.+.+..+++++.+ +|+||+
T Consensus 167 lq~l~~~~~~~~~~~~i~v~~~~~~-~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wIv 239 (382)
T cd06377 167 LLLLWTNHARFHLGSVLNLSRNDPS-TADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWIL 239 (382)
T ss_pred HHHHHHHhcccccCceEEEEeccCc-cCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEEE
Confidence 4455544432 1 2222223221 0124455 99999999999 9999999999999999988764 499999
Q ss_pred eCcchhcccCCCCChhhh--hccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHh-
Q 002309 258 TDWLAYMLDSASLPSETL--ESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFN- 334 (938)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~--~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~- 334 (938)
++. .+. ++.. ..-.|+++ |.+. + .....++.||||+++|+|++.+..
T Consensus 240 ~~~----~~l----e~~~~~g~nigLl~-----------------~~~~---~--~~~l~ali~DAV~lvA~a~~~l~~~ 289 (382)
T cd06377 240 GDP----LPP----EALRTEGLPPGLLA-----------------HGET---T--QPPLEAYVQDALELVARAVGSATLV 289 (382)
T ss_pred cCC----cCh----hhccCCCCCceEEE-----------------Eeec---c--cccHHHHHHHHHHHHHHHHHHhhhc
Confidence 872 111 1111 12223331 2111 1 113388999999999999998631
Q ss_pred -cCCcccccCCccccccCCCccccCCc--c-ccCchHHHHHHHhcCcccccccceEEcCCCCC--ccceEEEEEee--cc
Q 002309 335 -QGGKISFSNDSRLKTMEGGNLHLGAM--S-IFDDGMLLLGNILQSNLVGLTGPLKFNSDRSL--IHAAYDIINVI--GT 406 (938)
Q Consensus 335 -~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~--~~~~~~I~~~~--~~ 406 (938)
....+ .....+|.+. + +|++|..|.++|++++|+|+||+|.| ++|.| .+..++|++++ ..
T Consensus 290 ~~~~~l-----------~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~ 357 (382)
T cd06377 290 QPELAL-----------IPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPV 357 (382)
T ss_pred cccccc-----------CCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccC
Confidence 11111 1223467644 5 99999999999999999999999999 56888 89999999998 44
Q ss_pred c---eEEEEEeeCCCC
Q 002309 407 G---FRMIGYWSNYSG 419 (938)
Q Consensus 407 ~---~~~Vg~w~~~~g 419 (938)
| |++||+|++...
T Consensus 358 G~~~W~kVG~W~~~~~ 373 (382)
T cd06377 358 GQPTWTTVGSWQGGRK 373 (382)
T ss_pred CCccceEEEEecCCCc
Confidence 4 599999998643
No 57
>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=4.2e-33 Score=307.84 Aligned_cols=320 Identities=18% Similarity=0.270 Sum_probs=271.9
Q ss_pred EEEEEeeCCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++. ..|.....|+++|++++|++||+ +|++|+++++|+++++..+++.+++|+++ +|.+||||.++..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGV-LGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCC-CCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHh
Confidence 5999999993 45778899999999999999997 69999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcC-ccccchHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDN-EYGRNGVSALND 186 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~-~~g~~~~~~l~~ 186 (938)
+.+++++++..+||+|++.++.+.+++. .+++||+.|++..++.++++++ ++++|++|++||.++ +|+....+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 9999999999999999998887777653 2589999999999999999986 677999999999875 899999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
.+++.|++++....++.+ ..++.+.++++++.++++|++.+.......+++++++.|+. ..|+.++.|.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~ 231 (334)
T cd06347 159 AFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKL 231 (334)
T ss_pred HHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHH
Confidence 999999999988788765 67899999999999999999999999999999999999974 34676665543211
Q ss_pred CCCCChhhhhccccEEEEEEcCCC--ChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 267 SASLPSETLESMQGVLVLRQHIPE--SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
. ....+...|++...++.+. .+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~Al~~ag~~--------- 296 (334)
T cd06347 232 E----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKY--GKEPDAFAALGYDAYYLLADAIERAGST--------- 296 (334)
T ss_pred H----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHH--CCCcchhHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1 1223567887777766553 577899999999888 5678888999999999999999984210
Q ss_pred ccccccCCCccccCCccccCchHHHHHHHhcC-cccccccceEEcCCCCCccc
Q 002309 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS-NLVGLTGPLKFNSDRSLIHA 396 (938)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~-~f~G~tG~v~F~~~g~~~~~ 396 (938)
++..+.++|.+. .|+|++|+++|+++|+....
T Consensus 297 --------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 297 --------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred --------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 378899998765 69999999999999985433
No 58
>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=9.7e-33 Score=306.02 Aligned_cols=331 Identities=15% Similarity=0.114 Sum_probs=266.5
Q ss_pred EEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 32 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
|+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|++++|..|++.+.+|+++ +|.+|+||.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 6899999998 4567888999999999999999995 9999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCccccchHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNGVSALND 186 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~~~~l~~ 186 (938)
.+.++.++++..++|+|++.... .....|++||+.+++..++.++++++.. .+.+++++++.|++||++..+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 99999999999999999764322 1245789999999999999999998776 5999999999999999999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
.+++.|++|+....++.+ +.|+.+++.+|+..++|+|++...+.....+++++++.|+..+...++.+......+.
T Consensus 157 ~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR 232 (359)
T ss_pred HHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh
Confidence 999999999988888876 8899999999999999999988888888899999999998543333444322211111
Q ss_pred CCCCChhhhhccccEEEEEEc--CCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 267 SASLPSETLESMQGVLVLRQH--IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
....+.++|+.+...+ ....+..++|.++|+++++....+..++..+||+++++++|++++.+.
T Consensus 233 -----~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~~--------- 298 (359)
T TIGR03407 233 -----GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGSF--------- 298 (359)
T ss_pred -----hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1112346776654322 235677899999999988211223455678999999999999996211
Q ss_pred ccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee
Q 002309 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (938)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~ 404 (938)
++..+.++|++++|+++.|+++|+++++.....+.+.+++
T Consensus 299 --------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~ 338 (359)
T TIGR03407 299 --------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIR 338 (359)
T ss_pred --------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEc
Confidence 3889999999999999999999997433233444444443
No 59
>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=4.5e-33 Score=306.67 Aligned_cols=318 Identities=15% Similarity=0.159 Sum_probs=270.9
Q ss_pred EEEEEeeCCCc----chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 33 NVGALFTLDST----IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 33 ~IG~i~~~~~~----~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
+||+++|++.. .|.....|+++|+++|| ||+ .|++|+++++|++++|..+++.+.+|+++ +|.+||||.+|.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi-~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGV-LGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCc-cCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 58999999843 47888999999999999 888 59999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCC-CCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~ 186 (938)
.+.++++++++.+||+|++.++++.++.. .+||+||+.+++..++.++++++...+++++++++.|+.||+.....+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 99999999999999999998888888873 47999999999999999999988877899999999999999999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
.+++.|++|+....++.. ..|+.+++.++++.++|+|++.+.+.++..+++++++.|+.. +..++.........
T Consensus 158 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~- 231 (334)
T cd06327 158 VVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDV- 231 (334)
T ss_pred HHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHH-
Confidence 999999999988888766 789999999999999999999999999999999999999863 23333322211111
Q ss_pred CCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
. ....+..+|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 232 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~Y~~~~~~~~A~~~ag~~--------- 296 (334)
T cd06327 232 H----SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKY--GKMPSMVQAGAYSAVLHYLKAVEAAGTD--------- 296 (334)
T ss_pred H----hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHHHHHHHHHHCCC---------
Confidence 0 112245788887777654 3677899999999999 5568889999999999999999996321
Q ss_pred ccccccCCCccccCCccccCchHHHHHHHhcCc-ccccccceEEcC-CCCCc
Q 002309 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSN-LVGLTGPLKFNS-DRSLI 394 (938)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~-f~G~tG~v~F~~-~g~~~ 394 (938)
++..+.++|+++. ++++.|+++|++ +|+..
T Consensus 297 --------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 297 --------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred --------------------ChHHHHHhccccceeccCCCCceeeccccchh
Confidence 3667999999976 688999999987 67643
No 60
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=1.3e-32 Score=304.89 Aligned_cols=321 Identities=19% Similarity=0.179 Sum_probs=268.7
Q ss_pred EEEEEeeCCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++. ..|.....|+++|+++||+++|+ +|++|+++++|+++++..+.+.+++|+++ +|.+||||.++..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi-~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGI-GGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHH
Confidence 5999999994 45788999999999999999998 69999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCccccchHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~~g~~~~~~l~ 185 (938)
+.+++++++..+||+|++.++++.+.+ ..++++||+.|++..+..+++++++++ +|++|++|+.|++||....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998888887776 578999999999999999999999887 49999999999999999999999
Q ss_pred HHHhhcc--eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchh
Q 002309 186 DKLAERR--CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY 263 (938)
Q Consensus 186 ~~l~~~g--~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~ 263 (938)
+.+++.| ++++....++.. ..|+.+++.+++..++|+|++.+.+.+...+++++++.|+.. +..|+.+.+...
T Consensus 160 ~~~~~~g~~~~~v~~~~~~~~----~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 234 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPKLG----APDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAP 234 (346)
T ss_pred HHHHHhCCCCeecccccCCCC----CcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchh
Confidence 9999985 555544444433 679999999999999999999999999999999999999854 566777665333
Q ss_pred cccCCCCChhhhhccccEEEEEEc--C--CCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcc
Q 002309 264 MLDSASLPSETLESMQGVLVLRQH--I--PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKI 339 (938)
Q Consensus 264 ~~~~~~~~~~~~~~~~g~~~~~~~--~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~ 339 (938)
.+. ....+...|++....+ . +..+..++|.++|++++ +..++.++..+||+++++++|++++......
T Consensus 235 ~~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--g~~p~~~~~~~y~a~~~l~~a~~~a~~~~~~- 306 (346)
T cd06330 235 ELA-----PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKY--GDYPTYGAYGAYQAVMALAAAVEKAGATDGG- 306 (346)
T ss_pred hhh-----hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHH--CCCCChHHHHHHHHHHHHHHHHHHhcCCCCC-
Confidence 211 1222455676554322 1 14678899999999999 5677888999999999999999996432110
Q ss_pred cccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCC
Q 002309 340 SFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (938)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g 391 (938)
.+ .+.+.++|++++|.|+.|++.|+++.
T Consensus 307 -----------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~~ 334 (346)
T cd06330 307 -----------------------AP-PEQIAAALEGLSFETPGGPITMRAAD 334 (346)
T ss_pred -----------------------Cc-HHHHHHHHcCCCccCCCCceeeecCC
Confidence 11 25799999999999999999998843
No 61
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.1e-33 Score=306.30 Aligned_cols=323 Identities=18% Similarity=0.204 Sum_probs=270.4
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCC-CC--CEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSIL-HG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il-~g--~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~ 105 (938)
+||++.|++ +..|.....++++|++++|++||++ .| ++|+++++|++++|..+.+.+.+|+++ +|.+|+|+.+
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 4568889999999999999999986 45 489999999999999999999999987 9999999999
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~ 185 (938)
+..+.. +++++..++|+|++.++++.++...+||+||+.|++..++.++++++++.+|++|++|+.|+.||++....++
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~ 159 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYK 159 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHH
Confidence 999888 9999999999999998888887666799999999999999999999988999999999999999999999999
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHHHcCCCCCCeEEEEeCcchhc
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 264 (938)
+.+++.|++|+....++.+ ..|+.+++.++++.++|+|++.+... ++..++++++++|+..+ ..++........
T Consensus 160 ~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHH
Confidence 9999999999988888866 78999999999999999999999988 99999999999998643 222222111110
Q ss_pred ccCCCCChhhhhccccEEEEEEcCC----CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCccc
Q 002309 265 LDSASLPSETLESMQGVLVLRQHIP----ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKIS 340 (938)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~ 340 (938)
. . ....+.+.|++...++.+ ..+..++|.++|++++ +..++.++..+||+++++++|++++...
T Consensus 235 ~-~----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~p~~~~~~~y~~~~~~~~Al~~ag~~----- 302 (347)
T cd06336 235 L-V----ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRY--GEPPNSEAAVSYDAVYILKAAMEAAGSV----- 302 (347)
T ss_pred H-H----HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHH--CCCCcHHHHHHHHHHHHHHHHHHhcCCC-----
Confidence 1 0 122345678888777655 4677899999999999 4568889999999999999999985211
Q ss_pred ccCCccccccCCCccccCCccccCchHHHHHHHhc--------CcccccccceEEcCCCCCccce
Q 002309 341 FSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ--------SNLVGLTGPLKFNSDRSLIHAA 397 (938)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~--------~~f~G~tG~v~F~~~g~~~~~~ 397 (938)
++..+.+++.. ..|.+..|.+.||++|++..+.
T Consensus 303 ------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 343 (347)
T cd06336 303 ------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPW 343 (347)
T ss_pred ------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCc
Confidence 13334444332 5688899999999999975544
No 62
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=2.1e-32 Score=300.99 Aligned_cols=324 Identities=13% Similarity=0.178 Sum_probs=268.4
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++ +..|.....|+++|++++| +|+ .|++|+++++|++++|..+++.+.+|+.+ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi-~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKL-GGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--Ccc-CCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHH
Confidence 599999999 4457888999999999998 677 69999999999999999999999999977 9999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.+++++++..+||+|+++++.+.+.+ ..+||+||+.|++..+..++++++...+|++|+++++|++||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998776666665 4589999999999999999999999999999999999999999998888887
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
++ .+++....++.+ ..|+.+++.++++.++|+|++...+..+..+++++++.|+.. ...++.+.......
T Consensus 158 ~~---~~v~~~~~~~~~----~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~~-- 227 (333)
T cd06359 158 FK---GEVVGEVYTKLG----QLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEED-- 227 (333)
T ss_pred hC---ceeeeeecCCCC----CcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCHH--
Confidence 74 356655555544 779999999999999999999888888999999999999853 33355544332210
Q ss_pred CCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
......+..+|++...++.+ +++..++|.++|++++ +..++.++..+||+++++++|++++... .
T Consensus 228 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~A~~~ag~~---~------ 294 (333)
T cd06359 228 --TLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--GRLPTLYAAQAYDAAQLLDSAVRKVGGN---L------ 294 (333)
T ss_pred --HHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC---C------
Confidence 01223345688887776665 4678899999999999 5678899999999999999999986211 0
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEE
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDII 401 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~ 401 (938)
.+++.+.++|+++.|+|++|+++|+++|+. ...+.|+
T Consensus 295 ------------------~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 295 ------------------SDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred ------------------CCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 137889999999999999999999999874 3334443
No 63
>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=8.9e-32 Score=298.45 Aligned_cols=340 Identities=15% Similarity=0.145 Sum_probs=274.1
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|+++||++||++ |++|+++++|++++|..|+..+.+|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVL-GRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 699999999 6678999999999999999999995 9999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
+.+++++++..++|++++.+... . ...|++|++.+++..+..++++++...+-+++++|++|++||++....+.+.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999998654321 1 22377888888888788889998876666899999999999999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchh-cccC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAY-MLDS 267 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~-~~~~ 267 (938)
++.|++++....++.+ ..+.|+.+++.+++..++|+|++.+.+..+..++++++++|+... .+.+.+..... .+.
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~~~~- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPA-RMPIASLTTSEAEVA- 232 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCcc-CceeEEeeccHHHHh-
Confidence 9999999876555543 347899999999999999999999999999999999999998643 23333322111 111
Q ss_pred CCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
....+..+|+++..++.+ ..+..+.|.++|+++++....++.++..+||+++++++|++++...
T Consensus 233 ----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ag~~---------- 298 (360)
T cd06357 233 ----AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRAGSD---------- 298 (360)
T ss_pred ----hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCC----------
Confidence 122356788887766543 4677899999999999311235778999999999999999985211
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEe-eccceEEEEE
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINV-IGTGFRMIGY 413 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~-~~~~~~~Vg~ 413 (938)
++..+.++|++++|+|..|.+.|+.+++.......+.++ ++++|..+..
T Consensus 299 -------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~~ 348 (360)
T cd06357 299 -------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVRE 348 (360)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEEc
Confidence 378899999999999999999998765434444556666 5666666543
No 64
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=100.00 E-value=3.3e-32 Score=299.93 Aligned_cols=315 Identities=24% Similarity=0.360 Sum_probs=254.5
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC-CChHHHHHHHHHHH-hcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN-CSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~-~~~~~a~~~a~~li-~~~V~aviGp~~s~~~~ 110 (938)
+||++++... ...+.|+++|++++|.+++++++.++.+.+.+.+ +++..++..+|+++ .++|.+||||.++..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~ 77 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESAS 77 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCCHHHHH
Confidence 4899998876 5789999999999999999877777777776665 79999999999999 67999999999999999
Q ss_pred HHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHh
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~ 189 (938)
+++++++.++||+|++.++.+.+++ ..+|++||+.|++..+++++++++++++|++|++||++++++.. ++.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~-l~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSR-LQELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHH-HHHHHHhhc
Confidence 9999999999999999888887776 57899999999999999999999999999999999998884433 333333333
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCc-eEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMES-RVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~-~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
..+..+.. ..+... .+++...+++++..++ ++|++++....+..++++|.++||++.+|+||+++......+.
T Consensus 157 ~~~~~v~~-~~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~- 230 (328)
T cd06351 157 IKGIQVTV-RRLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL- 230 (328)
T ss_pred ccCceEEE-EEecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch-
Confidence 33444443 344443 3389999999999998 5555555448999999999999999999999999876554333
Q ss_pred CCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcC--CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCcc
Q 002309 269 SLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTG--GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSR 346 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~ 346 (938)
........|+++++...+..+..++|..+|..... ....+...++.+||+++++
T Consensus 231 ---~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~--------------------- 286 (328)
T cd06351 231 ---EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLLL--------------------- 286 (328)
T ss_pred ---hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEEE---------------------
Confidence 34456779999999999999999999999954332 1222334455555554221
Q ss_pred ccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee-ccceEEEEEeeC
Q 002309 347 LKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GTGFRMIGYWSN 416 (938)
Q Consensus 347 ~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~-~~~~~~Vg~w~~ 416 (938)
+|.+.||++|+|.++.++|++++ +.++++||.|+.
T Consensus 287 -----------------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 -----------------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred -----------------------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 99999999999999999999999 899999999984
No 65
>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=5.8e-32 Score=296.96 Aligned_cols=316 Identities=14% Similarity=0.141 Sum_probs=262.6
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHh-cCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVN-SNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN-~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
+||++.|++ +..|.....|+++|++++| +.+|+ +|++|+++++|++++|..++..+.+|+++ +|.+|+||.+|.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 699999999 4568899999999999995 45777 69999999999999999999999999998 999999999999
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCC-CCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALND 186 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~ 186 (938)
.+.++++++++.++|+|++.++++.++.. .++|+||+.+++..+...+++++... +++|++||.|++||++....+++
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~ 158 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKA 158 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHH
Confidence 99999999999999999988888888763 46999999998888888888887766 89999999999999999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 265 (938)
.+++.|++|+....++++ ..|+.+++.++++.++|+|++...+. ....+++++.+.|+... ...........
T Consensus 159 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (333)
T cd06328 159 ALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANL 231 (333)
T ss_pred HHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcc
Confidence 999999999998888876 78999999999999999998876665 67777888887776422 12222111111
Q ss_pred cCCCCChhhhhccccEEEEEEcC-CCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 266 DSASLPSETLESMQGVLVLRQHI-PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
.. ....+...|......+. +.++..+.|.++|++++ +..|+.+++.+||++.++++|++++..
T Consensus 232 ~~----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--g~~p~~~~~~~y~a~~~l~~Ai~~ag~---------- 295 (333)
T cd06328 232 TM----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--GSPPDLFTAGGMSAAIAVVEALEETGD---------- 295 (333)
T ss_pred cc----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--CCCcchhhHHHHHHHHHHHHHHHHhCC----------
Confidence 10 11223456665554444 66788899999999999 567888999999999999999998621
Q ss_pred ccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcC-CCC
Q 002309 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNS-DRS 392 (938)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~-~g~ 392 (938)
.++..+.++|++..|+++.|+++|+. +++
T Consensus 296 -------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~~~~ 325 (333)
T cd06328 296 -------------------TDTEALIAAMEGMSFETPKGTMTFRKEDHQ 325 (333)
T ss_pred -------------------CCHHHHHHHHhCCeeecCCCceEECcccch
Confidence 13889999999999999999999985 444
No 66
>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=3.6e-32 Score=301.56 Aligned_cols=334 Identities=22% Similarity=0.327 Sum_probs=277.8
Q ss_pred eEEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHh-cCcEEEEcCCCh
Q 002309 31 VVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFME-TDIVAIIGPQCS 106 (938)
Q Consensus 31 ~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~-~~V~aviGp~~s 106 (938)
+|+||++.|++ +.+|.....|+++|++++|++||+ .|++|+++++|+.+++..+.+.+.+|++ ++|.+|+||.++
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi-~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGI-NGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEE-TTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCc-CCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 59999999998 445788999999999999999999 4999999999999999999999999999 699999999999
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCccccchHHHHH
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~l~ 185 (938)
..+.+++++++..++|+|++++.++ ...++|+||+.|++..++.++++++ ++++.+++++|+.++++|+...+.++
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999654442 3567999999999999999999985 56899999999999999999999999
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 265 (938)
+.+++.|++++....++.+ ..|+.++++++++.++++|++.+.+.+...+++++.+.|...+.+....+..+...+
T Consensus 157 ~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 232 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASL 232 (343)
T ss_dssp HHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHH
T ss_pred HHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHH
Confidence 9999999999888888876 789999999999999999999999999999999999999764334444332222111
Q ss_pred cCCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 266 DSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
.....+..+|++...++.+ ..+..++|.++|++.++....++.++..+||++.+++.|++++. +.
T Consensus 233 -----~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g----~~---- 299 (343)
T PF13458_consen 233 -----QQLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAG----SL---- 299 (343)
T ss_dssp -----HHHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHT----SH----
T ss_pred -----HHhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhC----CC----
Confidence 1122346888888887766 46778999999999993112488899999999999999999962 11
Q ss_pred CccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee-cc
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI-GT 406 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~-~~ 406 (938)
+++.+.++|++++|+|+.|++.|++.+......+.|++++ +|
T Consensus 300 ---------------------~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 300 ---------------------DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp ---------------------HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred ---------------------CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 4899999999999999999999976555578888999988 44
No 67
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=1.8e-31 Score=294.96 Aligned_cols=325 Identities=17% Similarity=0.258 Sum_probs=275.9
Q ss_pred EEEEEeeCCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++. ..|.....|+++|++++| +++ +|++|+++++|+++++..+.+.+.+|+.+ +|.+||||.++..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKL-GGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCc-CCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHh
Confidence 5999999984 345789999999999986 455 79999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.++++.++..++|+|++.++++.+++ ..+|++||+.|++..++..+++++.+.+|+++++++.++.||++..+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 899999999999999999888888876 3489999999999999999999999999999999999999999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|++++....++.. ..|+.+++.++++.++|+|++.+.+.++..+++++.+.|+.. ...++.++++.....
T Consensus 158 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~- 231 (336)
T cd06360 158 FTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTT- 231 (336)
T ss_pred HHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHH-
Confidence 99999999887777765 789999999999999999999999999999999999999853 234555544332211
Q ss_pred CCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
.....+..+|++...++.+ ..+..+.|.++|++++ +..++.++..+||+++++++|++++... .
T Consensus 232 ---~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~--~~~~~~~~~~~yda~~~~~~A~~~a~~~---~------ 297 (336)
T cd06360 232 ---LGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAY--PDTPSVYAVQGYDAGQALILALEAVGGD---L------ 297 (336)
T ss_pred ---HHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHHHHHHHHHhCCC---C------
Confidence 1223356788877766654 4677899999999999 5678889999999999999999996321 0
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceE
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAY 398 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~ 398 (938)
.+++.+.++|+++.|.|..|+++|+++|++....|
T Consensus 298 ------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 ------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred ------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 13778999999999999999999999998655443
No 68
>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=3.1e-31 Score=291.78 Aligned_cols=315 Identities=18% Similarity=0.199 Sum_probs=261.5
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|+++||+.||+ .|++|+++++|++++|..+++.+.+|+++ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGI-LGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCc-CCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 599999998 446889999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.+++++++ .+||+|++.+.+.. ..+||+||+.+++..++.++++++ +..+|++|++++.|+.||++..+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997543321 346999999999998888777775 5579999999999999999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE-eCcchhccc
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA-TDWLAYMLD 266 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~-~~~~~~~~~ 266 (938)
+++.|++|+....++++ ..|+.+++.++++.++|+|++.........+++++++.|+..+ ++. +..+.....
T Consensus 156 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~ 228 (333)
T cd06358 156 IAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENML 228 (333)
T ss_pred HHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHH
Confidence 99999999988888876 8899999999999999999999888888999999999998654 222 212221111
Q ss_pred CCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCC-CCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS-LGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
. .......+|++....+.+ ..+..++|.++|+++|+.. ..++.++..+||+++++++|++++.. .
T Consensus 229 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~----~---- 296 (333)
T cd06358 229 L----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGS----L---- 296 (333)
T ss_pred H----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCC----C----
Confidence 1 111234677776655443 5678899999999998311 23677889999999999999997421 1
Q ss_pred CccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCC
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRS 392 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~ 392 (938)
++..|.++|++++|+|++|++.|++++.
T Consensus 297 ---------------------~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 297 ---------------------DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred ---------------------CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 3789999999999999999999998764
No 69
>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=5.1e-31 Score=289.60 Aligned_cols=317 Identities=13% Similarity=0.110 Sum_probs=260.4
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....++++|+++||+.||+ .|++|+++++|++++|..+...+.+|+++ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi-~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGI-LGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCC-CCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 599999999 566899999999999999999999 59999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
+.++.+++++.++|+|....... ....||+||+.+++..++.++++++...+-+++++|+.|++||++....+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999998533322 223589999999999999999999877655899999999999999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
++.|++++....++.+ ..|+++++.+++..++|+|++...+.+...+++++++.|+ .. ...+............
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~~~~~~~~ 230 (334)
T cd06356 157 EENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-GN-IPMASSTLGAQGYEHK 230 (334)
T ss_pred HHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-cc-CceeeeecccchhHHh
Confidence 9999999988888876 7899999999999999999999888899999999999998 21 1122211110110000
Q ss_pred CCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCC-CCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 269 SLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
.......+|++....+.+ ..+..++|.++|+++++ ..+ ++.++..+||+++++++|++++.+
T Consensus 231 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~p~~~~~~~~~y~a~~~~~~A~~~ag~----------- 295 (334)
T cd06356 231 ---RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFP-DAPYINEEAENNYEAIYLYKEAVEKAGT----------- 295 (334)
T ss_pred ---ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcC-CCCCCCchhHHHHHHHHHHHHHHHHHCC-----------
Confidence 011245677777665543 35678999999999992 322 367899999999999999998631
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhc-CcccccccceEEcCCCC
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRS 392 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~G~tG~v~F~~~g~ 392 (938)
.+++.|.++|++ ..|+|+.|++.|+++++
T Consensus 296 ------------------~~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 296 ------------------TDRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred ------------------CCHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 137889999997 57899999999997544
No 70
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.3e-31 Score=291.74 Aligned_cols=330 Identities=14% Similarity=0.140 Sum_probs=265.1
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|+++||+.||| .|++|+++++|++++|..++..+.+|+.+ +|.+|+ +.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI-~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGI-NGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCc-CCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 589999998 566889999999999999999999 59999999999999999999999999988 677765 578889
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcC-----CcEEEEEEEcCccccchHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYG-----WNAVSVIFVDNEYGRNGVS 182 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~-----w~~vaii~~d~~~g~~~~~ 182 (938)
+.++++++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++.+.+ .++|++|+.|+.||++...
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998777777764 6689999999999999999999987655 7999999999999999999
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
.+++.+++.|++|+....++.+ +.|+.+++.+++..++|+|++.+.+.++..++++++++|+.. .++.+.+..
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD---KFIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc---eEEEeeccC
Confidence 9999999999999988888866 789999999999999999999999999999999999999842 244443322
Q ss_pred hcccCCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCC----CCCCchhhHHhHHHHHHHHHHHHHHhcC
Q 002309 263 YMLDSASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGS----LGMNSYGLYAYDSVWLLAHAIESFFNQG 336 (938)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~----~~~~~~~~~~YDav~~~a~Al~~~~~~~ 336 (938)
... ......+..+|+++..++.+ +++..++|.+.|+++++.. ..++.++..+||++++++.|++++.+..
T Consensus 232 ~~~----~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 232 DEE----DVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred cHH----HHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 111 01223345688777766544 6788999999999988311 1235789999999999999999997654
Q ss_pred CcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCC
Q 002309 337 GKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDR 391 (938)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g 391 (938)
..-... ....-.+-+.-++.+++....|+.|+++|...-
T Consensus 308 ~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d 346 (351)
T cd06334 308 GETTIA----------------GEEQLENLKLDAARLEELGAEGLGPPVSVSCDD 346 (351)
T ss_pred CCCCCc----------------HHHHHHhhhhhhhhhhhcCcccccCCceecccc
Confidence 321100 000000012334566666778999999997643
No 71
>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=5e-31 Score=291.56 Aligned_cols=317 Identities=18% Similarity=0.203 Sum_probs=260.3
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||++.|++ +..|.....|+++|++++|++||+ .|++|+++++|++++|..|.+.+.+|+++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi-~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGV-LGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCc-CCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 599999999 466888999999999999999999 59999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC--CCCCceEEecCCchHHHHHHHHHH-HhcCCcEEEEEEEcCccccchHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS--LQYPFFVRTTQSDSYQMTAVAEMV-SYYGWNAVSVIFVDNEYGRNGVSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~--~~~p~~~r~~ps~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~l~ 185 (938)
+.+++++++..+||+|++.++.+.+++ ..++|+||+.|++..++.++++++ ++.+|++|+++|+|++||+...+.++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 159 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLT 159 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHH
Confidence 999999999999999998877776665 346899999999999999999986 45679999999999999999999999
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcc
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYML 265 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~ 265 (938)
+.+++.|++++....+++. ..|+.+.+++|++.++++|++.+.+.+...+++++++.|+..+ ++........
T Consensus 160 ~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~- 231 (347)
T cd06335 160 AALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLSGG- 231 (347)
T ss_pred HHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCcCc-
Confidence 9999999999988888876 7899999999999999999999999999999999999998432 2222111111
Q ss_pred cCCCCChhhhhccccEEEEEEcC---CCChhhHHHHHHHhhhcCCCC-----CCCchhhHHhHHHHHHHHHHHHHHhcCC
Q 002309 266 DSASLPSETLESMQGVLVLRQHI---PESDRKKNFLSRWKNLTGGSL-----GMNSYGLYAYDSVWLLAHAIESFFNQGG 337 (938)
Q Consensus 266 ~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~-----~~~~~~~~~YDav~~~a~Al~~~~~~~~ 337 (938)
.. .....+...|++....+. +..+..++|.++|+++++ .. .++.++..+||+++++++|++++...
T Consensus 232 ~~---~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~-- 305 (347)
T cd06335 232 NF---IEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYP-EKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST-- 305 (347)
T ss_pred hh---hhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhC-CCcccccCcchhHHHHHHHHHHHHHHHHHhcCC--
Confidence 00 011223457776655433 256788999999999983 22 34566789999999999999985211
Q ss_pred cccccCCccccccCCCccccCCccccCchHHHHHHHhcC--cccccccc--eEEcCCC
Q 002309 338 KISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQS--NLVGLTGP--LKFNSDR 391 (938)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~--~f~G~tG~--v~F~~~g 391 (938)
.++.+.++|+++ .+.|+.|. +.|++..
T Consensus 306 ---------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~ 336 (347)
T cd06335 306 ---------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKED 336 (347)
T ss_pred ---------------------------CHHHHHHHHHhccCCceeeecccCCCCChhh
Confidence 246788999876 46777774 4576543
No 72
>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=100.00 E-value=1.4e-32 Score=300.32 Aligned_cols=369 Identities=21% Similarity=0.325 Sum_probs=301.7
Q ss_pred CCeeEEEEEEeeCCC-----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc--CcEEE
Q 002309 28 RPAVVNVGALFTLDS-----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAI 100 (938)
Q Consensus 28 ~~~~i~IG~i~~~~~-----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~--~V~av 100 (938)
...+..+++++|+.. ..|+....|+++|++++|..+.||||++|.++..|++|++..+.++..+++.. .-.++
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~ml 117 (865)
T KOG1055|consen 38 SRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLML 117 (865)
T ss_pred CCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhee
Confidence 344688888888873 33678899999999999999999999999999999999999999999999988 45677
Q ss_pred EcCCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccc
Q 002309 101 IGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRN 179 (938)
Q Consensus 101 iGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~ 179 (938)
+|. |++.+..++.-+..++..+++|++++|.|++ +.||++||+.||+.......+.++++|+|++|+.++++..--..
T Consensus 118 l~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~ 196 (865)
T KOG1055|consen 118 LGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSS 196 (865)
T ss_pred ccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcc
Confidence 787 9999999999999999999999999999998 78999999999999999999999999999999999999888888
Q ss_pred hHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
..+.+...+.+.|++++....+.. |....++++++..+|+|+-......++..++++++.+|.+..|+|++..
T Consensus 197 ~~~dl~~~~~~~~ieiv~~qsf~~-------dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 197 TLNDLEARLKEAGIEIVFRQSFSS-------DPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred hHHHHHHhhhccccEEEEeecccc-------CHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 899999999999999998776643 4566789999999999999999999999999999999999999999987
Q ss_pred cchhccc-----C-CCCChhhhhccccEEEEEEcC--CCC------hhhHHHHHHHhhhcC---CCCCCCchhhHHhHHH
Q 002309 260 WLAYMLD-----S-ASLPSETLESMQGVLVLRQHI--PES------DRKKNFLSRWKNLTG---GSLGMNSYGLYAYDSV 322 (938)
Q Consensus 260 ~~~~~~~-----~-~~~~~~~~~~~~g~~~~~~~~--~~~------~~~~~f~~~~~~~~~---~~~~~~~~~~~~YDav 322 (938)
|....+- . +|.-+++..+++|.+++.... +.. ....+|...+.+... ........+.++|||+
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~I 349 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDAI 349 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHHH
Confidence 6554432 2 466677888899988775432 211 223566666554432 1244567789999999
Q ss_pred HHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEE
Q 002309 323 WLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIIN 402 (938)
Q Consensus 323 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~ 402 (938)
|++|+|++++....+.-..+ ..+++.... .-.+.|++++.+++|.|++|.|.|.. |+|. ..-.|-|
T Consensus 350 wa~ala~n~t~e~l~~~~~~-----------l~~f~y~~k-~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ieQ 415 (865)
T KOG1055|consen 350 WALALALNKTMEGLGRSHVR-----------LEDFNYNNK-TIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIEQ 415 (865)
T ss_pred HHHHHHHHHHHhcCCcccee-----------ccccchhhh-HHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHHH
Confidence 99999999997654311100 011111111 12578999999999999999999976 9985 4447889
Q ss_pred eeccceEEEEEeeCCC
Q 002309 403 VIGTGFRMIGYWSNYS 418 (938)
Q Consensus 403 ~~~~~~~~Vg~w~~~~ 418 (938)
+++++++++|+|+...
T Consensus 416 ~qdg~y~k~g~Yds~~ 431 (865)
T KOG1055|consen 416 FQDGKYKKIGYYDSTK 431 (865)
T ss_pred HhCCceEeeccccccc
Confidence 9999999999998754
No 73
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.98 E-value=6.5e-30 Score=282.23 Aligned_cols=319 Identities=18% Similarity=0.249 Sum_probs=266.2
Q ss_pred EEEEEeeCCCc---chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLDST---IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++.. .|.....|+++|++++| +++ .|++|+++++|+.+++..+.+.+.+|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKL-GGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHH
Confidence 59999999944 56788999999999997 566 69999999999999999999999999987 9999999999988
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCC-CCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSL-QYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~-~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.++.+.++..++|+|+++++.+.+++. .+|++||+.|++..++..+++++...+|+++++|+.++.+|+...+.+.+.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888999999999999998887777764 479999999999999999999999999999999999999999999999998
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
++ ..+.....++.. ..|+.++++++++.++|+|++...+..+..+++++++.|+.. ...++.++.+......
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL 229 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH
Confidence 87 356555566654 567999999999999999999888889999999999999843 3446655443322111
Q ss_pred CCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCc
Q 002309 268 ASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDS 345 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~ 345 (938)
.......+|++...++.+ ..+..++|.++|++++ +..++.++..+||++++++.|++++...
T Consensus 230 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~yda~~~~~~a~~~ag~~---------- 293 (333)
T cd06332 230 ----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAY--GRVPSVYAAQGYDAAQLLDAALRAVGGD---------- 293 (333)
T ss_pred ----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhcCC----------
Confidence 223356778887777765 3577899999999999 5567889999999999999999996211
Q ss_pred cccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCcc
Q 002309 346 RLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIH 395 (938)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~ 395 (938)
..++..+.++|++++|+|+.|++.|+++|+...
T Consensus 294 -----------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~ 326 (333)
T cd06332 294 -----------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQ 326 (333)
T ss_pred -----------------CCCHHHHHHHHhcCceecCccceeECCCCCccc
Confidence 013678999999999999999999999998533
No 74
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=1.3e-29 Score=264.72 Aligned_cols=317 Identities=15% Similarity=0.146 Sum_probs=232.4
Q ss_pred EEEEEEeeCCCc---chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 32 VNVGALFTLDST---IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 32 i~IG~i~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
|+||++++++.. .+.....|..+||++||++||++ |++|+.+++|.++|+...++.|.+|+.+ +|.+|+|..+|.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvl-G~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVL-GRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBT-TB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhh
Confidence 789999999844 35678899999999999999997 9999999999999999999999999875 999999999999
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHH-HHhcCCcEEEEEEEcCccccchHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM-VSYYGWNAVSVIFVDNEYGRNGVSALND 186 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~-l~~~~w~~vaii~~d~~~g~~~~~~l~~ 186 (938)
.-++|.++.++++-.++-+..-. -+ ...|++|-+.....+|...++++ ++++|-+++.+|.+|+.|++..-..+++
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~~YE-G~--E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~ 156 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPTQYE-GF--ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRD 156 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEeccccc-cc--cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHH
Confidence 99999999999999998643211 11 45689999999999999999997 5678889999999999999999999999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhccc
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLD 266 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~ 266 (938)
.+++.|++|+.+..+|.+ .+|+..++.+|++.+||+|+-...++....|+++.+++|+... .+-|.+......-.
T Consensus 157 ~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~ 231 (363)
T PF13433_consen 157 LLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAEL 231 (363)
T ss_dssp HHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHH
T ss_pred HHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHH
Confidence 999999999999999987 8999999999999999999999999999999999999998643 45555543322111
Q ss_pred CCCCChhhhhccccEEEEEEcCC--CChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCC
Q 002309 267 SASLPSETLESMQGVLVLRQHIP--ESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSND 344 (938)
Q Consensus 267 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~ 344 (938)
. .-..+...|.++..+|.. ++|.++.|+++|+++|+.+..++.....+|.+|+++|+|++++.+.
T Consensus 232 ~----~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags~--------- 298 (363)
T PF13433_consen 232 A----AMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGSD--------- 298 (363)
T ss_dssp T----TS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS----------
T ss_pred h----hcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1 123357889888887764 6789999999999999544556777888999999999999997322
Q ss_pred ccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCC
Q 002309 345 SRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSD 390 (938)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~ 390 (938)
+.+.+.++|...+|++..|.+++|++
T Consensus 299 --------------------d~~~vr~al~g~~~~aP~G~v~id~~ 324 (363)
T PF13433_consen 299 --------------------DPEAVREALAGQSFDAPQGRVRIDPD 324 (363)
T ss_dssp ---------------------HHHHHHHHTT--EEETTEEEEE-TT
T ss_pred --------------------CHHHHHHHhcCCeecCCCcceEEcCC
Confidence 48999999999999999999999984
No 75
>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=1.2e-29 Score=281.23 Aligned_cols=331 Identities=12% Similarity=0.086 Sum_probs=259.8
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCC--CEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCCh
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHG--TKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCS 106 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g--~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s 106 (938)
+||++.|++ +.+|.....++++|+++||..+++ .| ++|+++++|++++|.+|++.+.+|+++ +|.+|||+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 589999998 556888889999999999965544 45 589999999999999999999999987 99999999999
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCC------C-CCCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCcccc
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTL------S-SLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGR 178 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l------~-~~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~vaii~~d~~~g~ 178 (938)
..+.++++++++.+||+|++.+..+.+ . ...++|+||..+++..+..+++++++..+ +++|++++.|+.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999865432211 1 13478999999999888999999888877 999999999999999
Q ss_pred chHHHHH---HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEE
Q 002309 179 NGVSALN---DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVW 255 (938)
Q Consensus 179 ~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~w 255 (938)
...+.+. +.+++.|++|+....++++ +.|+.+++.+|+++++|+|++.+.+.++..++++++++|+..+ +
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~ 232 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFEPG----TDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---I 232 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccCCC----CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---e
Confidence 7766554 5777899999988888876 7899999999999999999999999999999999999998544 2
Q ss_pred EE-eCcchhcccCCCCChhhhhccccEEEEEEcCCC--------ChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHH
Q 002309 256 IA-TDWLAYMLDSASLPSETLESMQGVLVLRQHIPE--------SDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (938)
Q Consensus 256 i~-~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a 326 (938)
+. .......... ....+..+|++....+.+. ++..++|.++|++++ +..+.....++||++++++
T Consensus 233 ~~~~~~~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~--g~~~~~~~~~~~~~~~~l~ 306 (357)
T cd06337 233 VTIAKALLFPEDV----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAAT--GRQWTQPLGYAHALFEVGV 306 (357)
T ss_pred EEEeccccCHHHH----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHh--CCCccCcchHHHHHHHHHH
Confidence 32 2221110000 1112234565554433332 234789999999998 4556667788999999999
Q ss_pred HHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEeecc
Q 002309 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVIGT 406 (938)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~~~ 406 (938)
+|++++.+. .+++.|.++|+++++.++.|+++|+++ ......|+.+.++
T Consensus 307 ~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~---~~~~~~~~~~~~~ 355 (357)
T cd06337 307 KALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS---PIKNVAKTPLVGG 355 (357)
T ss_pred HHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC---CCccccccccccC
Confidence 999985221 137789999999999999999999865 2334566666665
Q ss_pred ce
Q 002309 407 GF 408 (938)
Q Consensus 407 ~~ 408 (938)
+|
T Consensus 356 ~~ 357 (357)
T cd06337 356 QW 357 (357)
T ss_pred CC
Confidence 43
No 76
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=5.3e-28 Score=267.21 Aligned_cols=318 Identities=14% Similarity=0.159 Sum_probs=258.7
Q ss_pred EEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 32 VNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 32 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
|+||++.|++ +..|.....|+++|+++||+.||+ .|++|+++..|+++|+..+.+.+.+|+++ +|.+|||+.++.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi-~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGV-NGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCc-CCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 6899999999 455788999999999999999998 69999999999999999999999999996 999999998888
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
.+.++.+++...++|+|++.+.++.++....|++||+.+++..++..+++++.+.+|+++++|+.++.+|....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 78888899999999999986666555544568999999999999999999999999999999999999999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|+++.....++.. ..|+.+++.++++.++++|++......+..++++++++|+..+ .++. .......
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~-~~~~--~~~~~~~-- 230 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ-FYNL--SFVGADA-- 230 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc-EEEE--eccCHHH--
Confidence 99999998777677754 6789999999999999999999988889999999999998532 2222 2111110
Q ss_pred CCCChhhhhccccEEEEEE----cCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 268 ASLPSETLESMQGVLVLRQ----HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
.........+|++.... .....+..+.|.+.|++++ +..+++.++..+||+++++++|++++. ++
T Consensus 231 --~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~y~~~~~~~~a~~~~g---~~----- 299 (336)
T cd06326 231 --LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYG-PGAPPSYVSLEGYIAAKVLVEALRRAG---PD----- 299 (336)
T ss_pred --HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhC-CCCCCCeeeehhHHHHHHHHHHHHHcC---CC-----
Confidence 01122345567664322 1234577899999999888 234678889999999999999999852 11
Q ss_pred CccccccCCCccccCCccccCchHHHHHHHhcCccc-ccccceEEcCC
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLV-GLTGPLKFNSD 390 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~-G~tG~v~F~~~ 390 (938)
.+++.+.++|++++.. +..|.++|++.
T Consensus 300 --------------------~~~~~v~~al~~~~~~~~~g~~~~~~~~ 327 (336)
T cd06326 300 --------------------PTRESLLAALEAMGKFDLGGFRLDFSPG 327 (336)
T ss_pred --------------------CCHHHHHHHHHhcCCCCCCCeEEecCcc
Confidence 1388999999998864 44448999753
No 77
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=1.6e-28 Score=269.38 Aligned_cols=301 Identities=15% Similarity=0.152 Sum_probs=244.3
Q ss_pred EEEEEeeCCC---cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 33 NVGALFTLDS---TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
+||++.|++. .+|.....|+++|++++| |++++++++|+.+ +..+...+.+|+.++|.+||||.+|..+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in-------G~~i~l~~~D~~~-~~~a~~~~~~li~~~V~~iiG~~~s~~~ 72 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN-------GASIELRVYDTAG-AAGAAAAARQAVAEGADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc-------CCCceEEEEeCCC-cccHHHHHHHHHHcCCCEEEccCCHHHH
Confidence 5899999984 468889999999999999 7889999999999 9999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHh
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA 189 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~ 189 (938)
.++++++...+||+|++++..+ +.. .|++||+.+++..++.++++++...++++|++++.+++||++..+.+.+.++
T Consensus 73 ~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~ 149 (336)
T cd06339 73 AALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQ 149 (336)
T ss_pred HHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHH
Confidence 9999999999999999765443 222 5899999999999999999999888999999999999999999999999999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC---------------------CceEEEEEeChh-hHHHHHHHHHHcC
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---------------------ESRVIVLHVSPS-LGFQVFSVAKYLG 247 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~---------------------~~~viv~~~~~~-~~~~~l~~a~~~g 247 (938)
+.|++|+....++.+ ..|+.+++++|+.. ++|.|++.+.+. .+..+.+++...+
T Consensus 150 ~~G~~vv~~~~~~~~----~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~ 225 (336)
T cd06339 150 QLGGTVVAIESYDPS----PTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYY 225 (336)
T ss_pred HcCCceeeeEecCCC----HHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhc
Confidence 999999988888876 88999999999998 999999988886 6666777776655
Q ss_pred CCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCC-CchhhHHhHHHHHHH
Q 002309 248 MMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGM-NSYGLYAYDSVWLLA 326 (938)
Q Consensus 248 ~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~YDav~~~a 326 (938)
....+-.+++++.+...... ....+..+|++...+.. ....+|.++|+++| +..| +.+++.+|||+.+++
T Consensus 226 ~~~~~~~~~g~~~~~~~~~~----~~~g~~~~g~~~~~~~~---~~~~~f~~~y~~~~--~~~p~~~~~a~~YDa~~l~~ 296 (336)
T cd06339 226 GVPGDVPLYGTSRWYSGTPA----PLRDPDLNGAWFADPPW---LLDANFELRYRAAY--GWPPLSRLAALGYDAYALAA 296 (336)
T ss_pred cCcCCCCEEEeccccCCCCC----cccCcccCCcEEeCCCc---ccCcchhhhHHHHh--cCCCCchHHHHHHhHHHHHH
Confidence 31113346777766543111 12234567776544321 12348999999998 5667 899999999999998
Q ss_pred HHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHHHhc-CcccccccceEEcCCCC
Q 002309 327 HAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQ-SNLVGLTGPLKFNSDRS 392 (938)
Q Consensus 327 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~-~~f~G~tG~v~F~~~g~ 392 (938)
.++++... +. +|.+ ..|+|++|+++|+++|+
T Consensus 297 ~~~~~~~~------------------------------~~-----al~~~~~~~g~~G~~~f~~~g~ 328 (336)
T cd06339 297 ALAQLGQG------------------------------DA-----ALTPGAGFSGVTGVLRLDPDGV 328 (336)
T ss_pred HHHHcccc------------------------------cc-----ccCCCCccccCcceEEECCCCe
Confidence 87776210 01 3333 46999999999999987
No 78
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=99.96 E-value=1.1e-27 Score=260.65 Aligned_cols=292 Identities=14% Similarity=0.088 Sum_probs=229.3
Q ss_pred hhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCccEE
Q 002309 45 GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLL 124 (938)
Q Consensus 45 g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~va~~~~~~~iP~I 124 (938)
+.....|+++|+|+||+.||++ |++|+++..|. ++|..++..+.+|++++|.+|+|+.+|.++.++++++.+.++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 4567899999999999999996 89999999975 789999999999998899999999999999999999999999999
Q ss_pred EcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCC
Q 002309 125 SFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPP 203 (938)
Q Consensus 125 s~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~ 203 (938)
+++++++.++. ..+||+||+.|++..++.++++++...+.++|++|+.|++||....+.+++.+++.|++|+..+.++.
T Consensus 88 ~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~ 167 (347)
T TIGR03863 88 NAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTF 167 (347)
T ss_pred eCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEecc
Confidence 99999998886 56899999999999999999999887799999999999999999999999999999999998888876
Q ss_pred CCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEE
Q 002309 204 ESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLV 283 (938)
Q Consensus 204 ~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~ 283 (938)
.......|+.......+.+++|+|++.....+....+.... +. .... ....|+..
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~---~~~~--------------------~g~~G~~~ 222 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL---PRPV--------------------AGSAGLVP 222 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc---cccc--------------------ccccCccc
Confidence 42122234442222334489999998765543222111000 00 0000 11122221
Q ss_pred EEEc-CCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccCCccccccCCCccccCCccc
Q 002309 284 LRQH-IPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSI 362 (938)
Q Consensus 284 ~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (938)
...+ ..+.+..++|.++|+++| +..|+.+++.+||++++++.|++++.+.
T Consensus 223 ~~~~~~~~~~~~~~f~~~f~~~~--g~~p~~~~a~aY~av~~~a~Ai~~AGs~--------------------------- 273 (347)
T TIGR03863 223 TAWHRAWERWGATQLQSRFEKLA--GRPMTELDYAAWLAVRAVGEAVTRTRSA--------------------------- 273 (347)
T ss_pred cccCCcccchhHHHHHHHHHHHh--CCCCChHHHHHHHHHHHHHHHHHHhcCC---------------------------
Confidence 1111 223466789999999999 6677888999999999999999997322
Q ss_pred cCchHHHHHHHhcCcc--ccccc-ceEEcC-CCCCc
Q 002309 363 FDDGMLLLGNILQSNL--VGLTG-PLKFNS-DRSLI 394 (938)
Q Consensus 363 ~~~g~~l~~~l~~~~f--~G~tG-~v~F~~-~g~~~ 394 (938)
++..+.++|+++++ .+..| +++|.+ ||+..
T Consensus 274 --d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~ 307 (347)
T TIGR03863 274 --DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR 307 (347)
T ss_pred --CHHHHHHHHcCCCceecccCCCcceeeCCCcccc
Confidence 48999999999877 47877 699986 77643
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=99.96 E-value=3.9e-27 Score=255.65 Aligned_cols=224 Identities=32% Similarity=0.531 Sum_probs=206.2
Q ss_pred EEEEEeeCCC-----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 002309 33 NVGALFTLDS-----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-----DIVAIIG 102 (938)
Q Consensus 33 ~IG~i~~~~~-----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-----~V~aviG 102 (938)
.||++++.+. ..+.....++..|++++|+. ++|++|++.+.|+++++..+...+.++++. ++.+|||
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999875 34567789999999999988 479999999999999999999999888874 8999999
Q ss_pred CCChhHHHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchH
Q 002309 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGV 181 (938)
Q Consensus 103 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~ 181 (938)
|.++..+.+++++++.++||+|+++++++.+++ ..+|+++|+.|++..+++++++++++++|++|+++|+++++|....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999999888887 6789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 261 (938)
+.+++.+++.|+++.....++.. ..++...+++++..++++|++++.+..+..++++|.++||+ .+++||+++.+
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~~~----~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~ 232 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIPDG----SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLW 232 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcCCC----HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChh
Confidence 99999999999999988888765 58999999999999999999999999999999999999998 89999999877
Q ss_pred hhc
Q 002309 262 AYM 264 (938)
Q Consensus 262 ~~~ 264 (938)
...
T Consensus 233 ~~~ 235 (298)
T cd06269 233 LTS 235 (298)
T ss_pred hcc
Confidence 543
No 80
>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=2.4e-26 Score=254.17 Aligned_cols=308 Identities=12% Similarity=0.067 Sum_probs=249.6
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++ +..|.....|+++|++++|+.||+ .|+++++++.|+++++..+.+.+.+|+++ +|.+|||+.++..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi-~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGI-AGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCc-CCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccc
Confidence 599999998 466889999999999999999999 59999999999999999999999999988 9999999998877
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc-cccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~-~g~~~~~~l~~~ 187 (938)
..++ +++...++|+|++.+.++.+.. .|+.|++.+++..++.++++++...+.+++++|+.++. ||+.....+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 7666 8889999999998776665543 57889999999999999999999889999999986665 999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|++++....++.. ..|+..++.+++..++|+|++...+..+..++++++++|+..+. . +.........
T Consensus 157 ~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~-~-~~~~~~~~~~-- 228 (341)
T cd06341 157 LAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKV-V-LSGTCYDPAL-- 228 (341)
T ss_pred HHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCE-E-EecCCCCHHH--
Confidence 99999998876666654 67899999999999999999999888999999999999986542 1 2211111111
Q ss_pred CCCChhhhhccccEEEEEEcCC---CChhhHHHHHHHhhhcC-CCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccccC
Q 002309 268 ASLPSETLESMQGVLVLRQHIP---ESDRKKNFLSRWKNLTG-GSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISFSN 343 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~-~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~~~ 343 (938)
.....+..+|++....+.| ..+..+.|.+.+++... .+..++.++..+||+++++++|++++...
T Consensus 229 ---~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~-------- 297 (341)
T cd06341 229 ---LAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC-------- 297 (341)
T ss_pred ---HHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC--------
Confidence 1223356788888777665 45677788776654431 13468889999999999999999996211
Q ss_pred CccccccCCCccccCCccccCchHH-HHHHHhcCccccccc
Q 002309 344 DSRLKTMEGGNLHLGAMSIFDDGML-LLGNILQSNLVGLTG 383 (938)
Q Consensus 344 ~~~~~~~~~~~~~~~~~~~~~~g~~-l~~~l~~~~f~G~tG 383 (938)
.+++. +.++|++++.....|
T Consensus 298 --------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 --------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred --------------------CChHHHHHHHhhcCCCCCCCC
Confidence 12666 999999997654444
No 81
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=99.95 E-value=2.3e-26 Score=249.63 Aligned_cols=280 Identities=26% Similarity=0.384 Sum_probs=238.3
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++ +..|.....|+++|++++|+++|+ +|+++++++.|+++++..+...+.+++++ +|.+||||.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 599999998 456788999999999999999977 69999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
+.+++++++..+||+|++.+.++.+.+ ..+|++|++.|++..++..+++++++++|+++++++.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 899999999999999999887776665 5689999999999999999999999999999999999988999999999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDS 267 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~ 267 (938)
+++.|+++.....++.. ..++...++++++.++++|++++.+..+..+++++++.|+. .++.|+..+.+......
T Consensus 160 ~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~ 234 (299)
T cd04509 160 FKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL 234 (299)
T ss_pred HHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH
Confidence 99999998876666654 46888999999988899999998889999999999999998 78899998765443211
Q ss_pred CCCChhhhhccccEEEEEEcCCCCh--hhHHHH---HHHhhhcCCCCCCCchhhHHhHHHHH
Q 002309 268 ASLPSETLESMQGVLVLRQHIPESD--RKKNFL---SRWKNLTGGSLGMNSYGLYAYDSVWL 324 (938)
Q Consensus 268 ~~~~~~~~~~~~g~~~~~~~~~~~~--~~~~f~---~~~~~~~~~~~~~~~~~~~~YDav~~ 324 (938)
....+.+.|+++..++.+..+ ..+.|. ..++..+ +..++.++.++||++++
T Consensus 235 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 ----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY--EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh--CCCCChhhhhhcceeee
Confidence 133466788888877765433 333333 3444444 66788999999999988
No 82
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.95 E-value=6.3e-26 Score=247.50 Aligned_cols=278 Identities=19% Similarity=0.278 Sum_probs=229.0
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~ 108 (938)
+||+++|++ +..|.....|+++|+++||+ ||+ +|+++++++.|+++++..+.+.+.+++++ +|.+|||+.++..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi-~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGI-GGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHH
Confidence 599999999 55678889999999999999 888 69999999999999999999999999986 9999999998888
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
+.++.+.+...++|+|++.++++.+. ...+++||+.+++..++..+++++.+.||++|++++.++.+|+...+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 88888999999999999876554443 44689999999999999999999999999999999998899999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
++.|+++.....++.. ..++...+.+++..++++|++......+..+++++++.|+..+ ++.++.......
T Consensus 158 ~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~~~-- 228 (312)
T cd06333 158 PKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASPDF-- 228 (312)
T ss_pred HHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcHHH--
Confidence 9999999877777655 4578889999988899999999888888889999999998644 333332221100
Q ss_pred CCChhhhhccccEEEEEE------cCC----CChhhHHHHHHHhhhcCCCCC-CCchhhHHhHHHHHHH
Q 002309 269 SLPSETLESMQGVLVLRQ------HIP----ESDRKKNFLSRWKNLTGGSLG-MNSYGLYAYDSVWLLA 326 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~------~~~----~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~YDav~~~a 326 (938)
.....+..+|++.... ..| ..+..++|.++|++++ +.. +..+++.+|||+++++
T Consensus 229 --~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~--g~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 229 --LRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY--GAGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred --HHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh--CCCCCCchhHHHHHHHHHHH
Confidence 0122345677665432 122 2356899999999998 454 8889999999999998
No 83
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.93 E-value=2e-24 Score=234.25 Aligned_cols=280 Identities=25% Similarity=0.341 Sum_probs=237.5
Q ss_pred EEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 33 NVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
+||+++|++ +..|.....|+++|++++|+.+|+ +|++++++++|+++++..+.+.+.++++++|.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999998 566889999999999999999988 6999999999999999999999999999999999999999888
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC-CcEEEEEEEcCccccchHHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG-WNAVSVIFVDNEYGRNGVSALNDKL 188 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~-w~~vaii~~d~~~g~~~~~~l~~~l 188 (938)
..+++.+...+||+|++.+..+.+.+..+|++|++.|++..+++++++++...+ |+++++|+.+++++....+.+.+++
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 889999999999999988877666544579999999999999999999999887 9999999999889999999999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhcccCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYMLDSA 268 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~~~~~ 268 (938)
++.|+++.....++.. ..++.+.+++++..++++|++.+.+..+..+++++++.|+ +..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~- 231 (298)
T cd06268 160 KKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL- 231 (298)
T ss_pred HHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH-
Confidence 9999998877666654 4678999999999899999999888999999999999987 3457776654332111
Q ss_pred CCChhhhhccccEEEEEEcCCCC--hhhHHHH-HHHhhhcCCCCCCCchhhHHhHHHHHHH
Q 002309 269 SLPSETLESMQGVLVLRQHIPES--DRKKNFL-SRWKNLTGGSLGMNSYGLYAYDSVWLLA 326 (938)
Q Consensus 269 ~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~-~~~~~~~~~~~~~~~~~~~~YDav~~~a 326 (938)
....+...|++...++.+.. +....|. +.|++.+ +..++.++..+||++++++
T Consensus 232 ---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ---ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ---HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--CCCcccchHHHHHHHHHHc
Confidence 12335678888887766533 3345555 7788777 6788999999999999998
No 84
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.93 E-value=1.3e-23 Score=218.68 Aligned_cols=323 Identities=16% Similarity=0.221 Sum_probs=245.9
Q ss_pred hHHHHHHHHHHHHHhcCCCCCCCCEEEE----------EEccCCC--ChHHHHHHHHHHHhc--CcEEEEcCCChhHHHH
Q 002309 46 RVAKIAIEEAVKDVNSNSSILHGTKLNI----------TMQSSNC--SGFIGMVEALRFMET--DIVAIIGPQCSTVAHI 111 (938)
Q Consensus 46 ~~~~~a~~~Av~~iN~~~~il~g~~l~~----------~~~D~~~--~~~~a~~~a~~li~~--~V~aviGp~~s~~~~~ 111 (938)
+..+.|++.|++.+++.. ..+|.++.+ ++.+..| +.=.++++...|+.+ .-.+++||.|..++.+
T Consensus 18 ~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 456899999999998765 336888877 6666655 455666777777765 4689999999999999
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH------HhcCCcEEEEEEEcCccccch---HH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV------SYYGWNAVSVIFVDNEYGRNG---VS 182 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l------~~~~w~~vaii~~d~~~g~~~---~~ 182 (938)
++.+...+++|+||.++.. ++-+.++++-|+.|++...+..+.++. ++++|++.. ||.+++-.++. ++
T Consensus 97 ~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999865533 444455789999999999999999999 489998655 99877544433 44
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
++....+..+..+....... ..+++..++++++ ..+||||+++.+.+.+.++.+ ++....|++|..|.+.
T Consensus 174 al~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~ 243 (380)
T cd06369 174 ALEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFN 243 (380)
T ss_pred hhhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEeccc
Confidence 55555555444444333332 2578888888876 579999999999999998886 4445689999998765
Q ss_pred hcccCCCCChhhhhccccEEEEEEcCCCChhhHHHHHHHhhhcCCCCCCC-chhhHHhHHHHHHHHHHHHHHhcCCcccc
Q 002309 263 YMLDSASLPSETLESMQGVLVLRQHIPESDRKKNFLSRWKNLTGGSLGMN-SYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (938)
Q Consensus 263 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 341 (938)
.... .+....++++.++.+++..|+.+..++. ..+ +.... .+++..||||+++|+||+++++.+++..
T Consensus 244 ~sy~---~d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~f--n~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~~- 312 (380)
T cd06369 244 DVYY---ENTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTD--NSLLKDDYVAAYHDGVLLFGHVLKKFLESQEGVQ- 312 (380)
T ss_pred chhc---cCcchHHHHhceEEEecCCCCCcccccC-----CCC--CcchHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC-
Confidence 4431 1234556789999999888866554431 112 22333 8899999999999999999998876531
Q ss_pred cCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee--ccceEEEEEeeCCC
Q 002309 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI--GTGFRMIGYWSNYS 418 (938)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~--~~~~~~Vg~w~~~~ 418 (938)
+..+.+.++|.+|.|++|.|++|+|||| ...|.++-.. .+++++||.|+...
T Consensus 313 ------------------------~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 313 ------------------------TFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred ------------------------cHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCC
Confidence 4789999999999999999999999997 7889998775 47899999998754
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.86 E-value=1.4e-20 Score=197.57 Aligned_cols=218 Identities=25% Similarity=0.437 Sum_probs=186.1
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.++|+|++.. +|+||.+.+ ++.+.|+++|+++++++++|.++++ ++ .+|.+++.+|.+|++|+++++
T Consensus 24 ~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~~~~--~~-------~~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLDYTL--KP-------MDFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCceEE--Ee-------CCHHHHHHHHhCCCcCEEEec
Confidence 4679999875 688898754 5789999999999999999976444 44 349999999999999999888
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccc
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (938)
++.+++|.+.++||.||+..++.+++++..
T Consensus 91 ~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 120 (247)
T PRK09495 91 ITITDERKKAIDFSDGYYKSGLLVMVKANN-------------------------------------------------- 120 (247)
T ss_pred CccCHHHHhhccccchheecceEEEEECCC--------------------------------------------------
Confidence 899999999999999999999999987654
Q ss_pred hhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCe
Q 002309 624 ITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI 703 (938)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i 703 (938)
.++++++||. +++|
T Consensus 121 ----------------------------------------------------------------~~~~~~~dL~--g~~I 134 (247)
T PRK09495 121 ----------------------------------------------------------------NDIKSVKDLD--GKVV 134 (247)
T ss_pred ----------------------------------------------------------------CCCCChHHhC--CCEE
Confidence 4678999998 8899
Q ss_pred eEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC--cEEEeCccccccceE
Q 002309 704 GYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQEFTKSGWG 781 (938)
Q Consensus 704 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~ 781 (938)
|+..|+....++.... +..+++.+++..+.+++|.+ |++|+++.+.....+++++.. ++..++.......++
T Consensus 135 ~v~~g~~~~~~l~~~~--~~~~i~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (247)
T PRK09495 135 AVKSGTGSVDYAKANI--KTKDLRQFPNIDNAYLELGT----GRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYG 208 (247)
T ss_pred EEecCchHHHHHHhcC--CCCceEEcCCHHHHHHHHHc----CceeEEEeChHHHHHHHHhCCCCceEEecCcccccceE
Confidence 9999988888875432 33467778889999999999 999999999988888777643 567776666677899
Q ss_pred eeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 782 FAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 782 ~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
++++|++.+++.||++|.++.++|.++++.++|+.
T Consensus 209 ~a~~~~~~l~~~~n~al~~~~~~g~~~~i~~k~~~ 243 (247)
T PRK09495 209 IAFPKGSELREKVNGALKTLKENGTYAEIYKKWFG 243 (247)
T ss_pred EEEcCcHHHHHHHHHHHHHHHHCCcHHHHHHHHcC
Confidence 99999999999999999999999999999999997
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.86 E-value=2.4e-20 Score=200.02 Aligned_cols=223 Identities=17% Similarity=0.276 Sum_probs=185.4
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHH----hCCC-CccEEEEecCCCCCCCChhHHHHhhhcceec
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVN----LLPY-AVPYQFVAFGDGHKNPSYTQLVDSITTGVFD 538 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~----~l~f-~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D 538 (938)
.+.|+||+.. .|+||.+.++ ++.+.||++|+++++++ ++|. .+++++++ .+|..++..|..|++|
T Consensus 39 ~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCcc
Confidence 4569999986 7889988764 67899999998777765 5653 35677777 3488899999999999
Q ss_pred EEeccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCC
Q 002309 539 AVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGP 618 (938)
Q Consensus 539 ~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 618 (938)
++++.+++|++|.+.++||.||+..+..+++++..
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~--------------------------------------------- 143 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG--------------------------------------------- 143 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCC---------------------------------------------
Confidence 99999999999999999999999999999997643
Q ss_pred ccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhh
Q 002309 619 PKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRK 698 (938)
Q Consensus 619 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~ 698 (938)
.|++++||.
T Consensus 144 ----------------------------------------------------------------------~i~sl~dL~- 152 (302)
T PRK10797 144 ----------------------------------------------------------------------DIKDFADLK- 152 (302)
T ss_pred ----------------------------------------------------------------------CCCChHHcC-
Confidence 478999998
Q ss_pred CCCCeeEEeCchHHHHHHHhcc--cccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhc--CC-cEEEeCc
Q 002309 699 SDDPIGYQEGSFAEYYLSQELN--ISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSS--QC-SFRIVGQ 773 (938)
Q Consensus 699 ~~~~i~~~~~s~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~--~~-~l~~~~~ 773 (938)
|++||+..|+....++.+... .+..+++.+.+.++.+++|.+ |++|+++.+...+.+...+ .. .+.++++
T Consensus 153 -Gk~V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~----GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~ 227 (302)
T PRK10797 153 -GKAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLES----GRAVAFMMDDALLAGERAKAKKPDNWEIVGK 227 (302)
T ss_pred -CCEEEEeCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHc----CCceEEEccHHHHHHHHHcCCCCcceEECCc
Confidence 889999999988887743221 123467778999999999999 9999999998776554333 22 5788887
Q ss_pred cccccceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcCC
Q 002309 774 EFTKSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLMK 817 (938)
Q Consensus 774 ~~~~~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~~ 817 (938)
.+...+++++++|+++ ++..+|.+|.+++++|.+++|.++|+..
T Consensus 228 ~~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 228 PQSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred cCCcCceeEEEeCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 7778889999999887 9999999999999999999999999984
No 87
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=99.83 E-value=4.4e-20 Score=191.24 Aligned_cols=221 Identities=26% Similarity=0.413 Sum_probs=183.1
Q ss_pred eEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEee
Q 002309 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (938)
Q Consensus 467 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~ 546 (938)
||||+.. .++||.+.+. ++.+.|+++|+++++++++|+++++...+ |.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeecc---------cccccccccccccccccccccc
Confidence 6889965 6889998876 78999999999999999999886655543 9999999999999999999999
Q ss_pred ecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchhh
Q 002309 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (938)
Q Consensus 547 t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (938)
+++|.+.++||.||+....++++++.+..
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~--------------------------------------------------- 97 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAP--------------------------------------------------- 97 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTC---------------------------------------------------
T ss_pred cccccccccccccccchhheeeecccccc---------------------------------------------------
Confidence 99999999999999999999999864300
Q ss_pred hhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCeeEE
Q 002309 627 LWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQ 706 (938)
Q Consensus 627 ~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~ 706 (938)
....+++++||. +.+||+.
T Consensus 98 -----------------------------------------------------------~~~~~~~~~dl~--~~~i~~~ 116 (225)
T PF00497_consen 98 -----------------------------------------------------------PIKTIKSLDDLK--GKRIGVV 116 (225)
T ss_dssp -----------------------------------------------------------STSSHSSGGGGT--TSEEEEE
T ss_pred -----------------------------------------------------------ccccccchhhhc--Ccccccc
Confidence 014667888996 7789999
Q ss_pred eCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCc--EEEeCccccccceEeee
Q 002309 707 EGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCS--FRIVGQEFTKSGWGFAF 784 (938)
Q Consensus 707 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~--l~~~~~~~~~~~~~~~~ 784 (938)
.|+...+++.+.... ..+++.+.+.++++++|.+ |++|+++.+...+.+++++... ...........++++++
T Consensus 117 ~g~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~l~~----g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 191 (225)
T PF00497_consen 117 RGSSYADYLKQQYPS-NINIVEVDSPEEALEALLS----GRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAV 191 (225)
T ss_dssp TTSHHHHHHHHHTHH-TSEEEEESSHHHHHHHHHT----TSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEE
T ss_pred cchhHHHHhhhhccc-hhhhcccccHHHHHHHHhc----CCeeeeeccchhhhhhhhhcccccccccccccccceeEEee
Confidence 999888888553311 3466678999999999999 8999999999999998888652 33324555666777888
Q ss_pred cCCCc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 785 PRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 785 ~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
+++.+ +++.||++|.++.++|.+++|.+||++
T Consensus 192 ~~~~~~l~~~~n~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 192 RKKNPELLEIFNKAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp ETTTHHHHHHHHHHHHHHHHTTHHHHHHHHHHS
T ss_pred cccccHHHHHHHHHHHHHHhCcHHHHHHHHHcC
Confidence 77555 999999999999999999999999986
No 88
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.83 E-value=2.6e-19 Score=189.26 Aligned_cols=222 Identities=21% Similarity=0.346 Sum_probs=177.7
Q ss_pred CCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEec
Q 002309 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (938)
Q Consensus 463 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 542 (938)
..++|+|++.. .|+||.+.++ ++.+.|+++||++++++++|.+++ +++ .+|..++.++..|++|++++
T Consensus 24 ~~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~--~~~-------~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCT--WVA-------SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceE--EEe-------CCHHHHHHHHHCCCCCEEEe
Confidence 35789999874 6889998765 678999999999999999997754 444 34999999999999999988
Q ss_pred cEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCcccc
Q 002309 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (938)
Q Consensus 543 ~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (938)
.+..|++|.+.++||.||+..+.++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------- 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999888655
Q ss_pred chhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCC
Q 002309 623 VITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP 702 (938)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 702 (938)
+...+++||. +++
T Consensus 123 -----------------------------------------------------------------~~~~~~~dl~--g~~ 135 (260)
T PRK15010 123 -----------------------------------------------------------------PIQPTLDSLK--GKH 135 (260)
T ss_pred -----------------------------------------------------------------CCCCChhHcC--CCE
Confidence 2223688996 888
Q ss_pred eeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHH-HHhcC-C-cEEEeCccc----
Q 002309 703 IGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL-FLSSQ-C-SFRIVGQEF---- 775 (938)
Q Consensus 703 i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~-~-~l~~~~~~~---- 775 (938)
||+..|+....++.+.......+++.+.+.++++++|.+ |++|+++.+.....+ +..+. . ++...+..+
T Consensus 136 Igv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 211 (260)
T PRK15010 136 VGVLQGSTQEAYANETWRSKGVDVVAYANQDLVYSDLAA----GRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKK 211 (260)
T ss_pred EEEecCchHHHHHHHhcccCCceEEecCCHHHHHHHHHc----CCccEEEeCcHHHHHHHHhCCCCCceEEecCcccccc
Confidence 999999987777754332222345667888999999999 999999999877654 33332 2 455554322
Q ss_pred -cccceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 776 -TKSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 776 -~~~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
...+++++++++.+ ++..+|++|.+++++|.+++|.+||++
T Consensus 212 ~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 212 YFGDGTGVGLRKDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred ccCCceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 22346789999876 999999999999999999999999997
No 89
>PRK11260 cystine transporter subunit; Provisional
Probab=99.83 E-value=2e-19 Score=190.75 Aligned_cols=223 Identities=21% Similarity=0.378 Sum_probs=188.2
Q ss_pred CCCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEe
Q 002309 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (938)
Q Consensus 462 ~~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 541 (938)
...++|+|++.. .++||.+.+. ++.+.|+.+|+++.+++++|.++ ++++ ..|.+++.+|.+|++|+++
T Consensus 38 ~~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~--e~~~-------~~~~~~~~~l~~G~~D~~~ 105 (266)
T PRK11260 38 KERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVKA--SLKP-------TKWDGMLASLDSKRIDVVI 105 (266)
T ss_pred hcCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCeE--EEEe-------CCHHHHHHHHhcCCCCEEE
Confidence 346789999875 6888887654 67899999999999999999764 4444 3499999999999999998
Q ss_pred ccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccc
Q 002309 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (938)
Q Consensus 542 ~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (938)
+.++.+++|.+.+.||.||+..++.+++++...
T Consensus 106 ~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------------- 138 (266)
T PRK11260 106 NQVTISDERKKKYDFSTPYTVSGIQALVKKGNE----------------------------------------------- 138 (266)
T ss_pred eccccCHHHHhccccCCceeecceEEEEEcCCc-----------------------------------------------
Confidence 888999999999999999999999998876541
Q ss_pred cchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCC
Q 002309 622 QVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDD 701 (938)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 701 (938)
..+++++||. ++
T Consensus 139 ------------------------------------------------------------------~~~~~~~dL~--g~ 150 (266)
T PRK11260 139 ------------------------------------------------------------------GTIKTAADLK--GK 150 (266)
T ss_pred ------------------------------------------------------------------CCCCCHHHcC--CC
Confidence 3578899996 88
Q ss_pred CeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCc-EEEeCccccccce
Q 002309 702 PIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCS-FRIVGQEFTKSGW 780 (938)
Q Consensus 702 ~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~-l~~~~~~~~~~~~ 780 (938)
+||+..|+....++.+. .+...+..+++..+.+++|.+ |++|+++.+...+.++..+..+ +.+....+...++
T Consensus 151 ~Igv~~G~~~~~~l~~~--~~~~~i~~~~~~~~~l~~L~~----GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (266)
T PRK11260 151 KVGVGLGTNYEQWLRQN--VQGVDVRTYDDDPTKYQDLRV----GRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQES 224 (266)
T ss_pred EEEEecCCcHHHHHHHh--CCCCceEecCCHHHHHHHHHc----CCCCEEEechHHHHHHHHhCCCcceecCCccccCce
Confidence 99999999888887543 344566778899999999999 9999999999888887776554 5555566677889
Q ss_pred EeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcCC
Q 002309 781 GFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLMK 817 (938)
Q Consensus 781 ~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~~ 817 (938)
+++++++++ ++..+|++|.+++++|.++++.++|+..
T Consensus 225 ~~~v~~~~~~l~~~ln~~l~~~~~~g~~~~i~~k~~~~ 262 (266)
T PRK11260 225 GVALRKGNPDLLKAVNQAIAEMQKDGTLKALSEKWFGA 262 (266)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcCC
Confidence 999999887 9999999999999999999999999983
No 90
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.82 E-value=4.1e-19 Score=186.65 Aligned_cols=219 Identities=18% Similarity=0.289 Sum_probs=179.1
Q ss_pred CCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhC-CCCccEEEEecCCCCCCCChhHHHHhhhcceecEEe
Q 002309 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (938)
Q Consensus 463 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l-~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 541 (938)
..+.||||+.. +++||.+.+..++++.||++||++++++++ |..+++++.+ -+|...+.+|.+|++|+++
T Consensus 36 ~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 45789999996 789998865446899999999999999994 7655566665 3477788999999999999
Q ss_pred ccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccc
Q 002309 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (938)
Q Consensus 542 ~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (938)
+.+++|++|.+.++||.||+..+..+++++..
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------ 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC------------------------------------------------
Confidence 99999999999999999999999999998654
Q ss_pred cchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCC
Q 002309 622 QVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDD 701 (938)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 701 (938)
++++++||. |+
T Consensus 139 -------------------------------------------------------------------~~~s~~dL~--g~ 149 (259)
T PRK11917 139 -------------------------------------------------------------------NYKSLADMK--GA 149 (259)
T ss_pred -------------------------------------------------------------------CCCCHHHhC--CC
Confidence 478899998 89
Q ss_pred CeeEEeCchHHHHHHHhccc--ccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCccccccc
Q 002309 702 PIGYQEGSFAEYYLSQELNI--SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSG 779 (938)
Q Consensus 702 ~i~~~~~s~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~ 779 (938)
+||+..|+...+.+.+.... ...+++.+++..+.++++.. |++|+++.+...+.++..+ +..++++.+...+
T Consensus 150 ~V~v~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~----GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~ 223 (259)
T PRK11917 150 NIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDA----KRVDAFSVDKSILLGYVDD--KSEILPDSFEPQS 223 (259)
T ss_pred eEEEecCCcHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHc----CCCcEEEecHHHHHHhhhc--CCeecCCcCCCCc
Confidence 99999999877766432211 11345567889999999999 9999999998776655443 3456666777788
Q ss_pred eEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhc
Q 002309 780 WGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 815 (938)
Q Consensus 780 ~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~ 815 (938)
++++++|+++ ++..+|..|.++.. .+++|.+||-
T Consensus 224 ~~~a~~k~~~~l~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 224 YGIVTKKDDPAFAKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred eEEEEeCCCHHHHHHHHHHHHHHHH--HHHHHHHHhC
Confidence 9999999987 99999999999865 7999999993
No 91
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.82 E-value=5.7e-19 Score=185.09 Aligned_cols=217 Identities=20% Similarity=0.375 Sum_probs=178.3
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.++|||++.. .|+||.+.+. ++.+.|+++|+++++++++|.+++| +. .+|..++.++.+|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~--~~-------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTF--SN-------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEE--Ee-------CCHHHHhHHHhCCCcCEEEEc
Confidence 4689999974 6889988764 6889999999999999999977554 43 359999999999999998878
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccc
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (938)
++.+++|.+.++||.||+..+..++.+.
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~---------------------------------------------------- 115 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQ---------------------------------------------------- 115 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeC----------------------------------------------------
Confidence 8899999999999999998887666542
Q ss_pred hhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCe
Q 002309 624 ITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI 703 (938)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i 703 (938)
..+++++||. +.+|
T Consensus 116 ----------------------------------------------------------------~~~~~~~dL~--g~~I 129 (243)
T PRK15007 116 ----------------------------------------------------------------GKYTSVDQLK--GKKV 129 (243)
T ss_pred ----------------------------------------------------------------CCCCCHHHhC--CCeE
Confidence 2356789997 8899
Q ss_pred eEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCcc-----cccc
Q 002309 704 GYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQE-----FTKS 778 (938)
Q Consensus 704 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~-----~~~~ 778 (938)
|+..|+...+++.+. .+..+.+.+.+.++.+++|.+ |++|+++.+...+.+++++..++..++.. ....
T Consensus 130 gv~~g~~~~~~l~~~--~~~~~~~~~~~~~~~~~~L~~----grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 203 (243)
T PRK15007 130 GVQNGTTHQKFIMDK--HPEITTVPYDSYQNAKLDLQN----GRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGT 203 (243)
T ss_pred EEecCcHHHHHHHHh--CCCCeEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCc
Confidence 999999888888543 233456678899999999999 99999999988888777776665554432 2234
Q ss_pred ceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 779 GWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 779 ~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
+++++++++.+ ++..||++|.++.++|.++++.++|+.
T Consensus 204 ~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 204 GLGIAVRQGNTELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred ceEEEEeCCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 57899998765 999999999999999999999999985
No 92
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.81 E-value=5.7e-19 Score=186.04 Aligned_cols=218 Identities=25% Similarity=0.438 Sum_probs=182.3
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
++|||++.. .|+||.+.++ ++++.||++|+++.+++.+|.+ +++++ .+|..++.+|.+|++|++++++
T Consensus 24 ~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~--~~~~~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAK--CKFVE-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhCCCcCEEEecC
Confidence 689999964 6889988755 6899999999999999999966 55554 3599999999999999998878
Q ss_pred eeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccch
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVI 624 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (938)
+.+.+|.+.+.||.|++..+..++++...
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS--------------------------------------------------- 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC---------------------------------------------------
Confidence 88999999999999999999999987655
Q ss_pred hhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCee
Q 002309 625 TILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIG 704 (938)
Q Consensus 625 ~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~ 704 (938)
+.+.+++||. +.+||
T Consensus 121 ---------------------------------------------------------------~~~~~~~dl~--g~~i~ 135 (250)
T TIGR01096 121 ---------------------------------------------------------------DLAKTLEDLD--GKTVG 135 (250)
T ss_pred ---------------------------------------------------------------CcCCChHHcC--CCEEE
Confidence 2346788997 88899
Q ss_pred EEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC---cEEEeCccccc----
Q 002309 705 YQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC---SFRIVGQEFTK---- 777 (938)
Q Consensus 705 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~---~l~~~~~~~~~---- 777 (938)
+..|+....++.+.... ..++..+.+.++++++|.+ |++|+++.+...+.+.+++.. ++.+++..+..
T Consensus 136 ~~~g~~~~~~l~~~~~~-~~~~~~~~s~~~~~~~L~~----g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 210 (250)
T TIGR01096 136 VQSGTTHEQYLKDYFKP-GVDIVEYDSYDNANMDLKA----GRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYF 210 (250)
T ss_pred EecCchHHHHHHHhccC-CcEEEEcCCHHHHHHHHHc----CCCCEEEeCHHHHHHHHHhCCCCCceEEecccccccccc
Confidence 99999888888554321 3456678899999999999 999999999999888877654 37766554332
Q ss_pred -cceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhc
Q 002309 778 -SGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 815 (938)
Q Consensus 778 -~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~ 815 (938)
..++++++++++ ++..||++|.+|.++|.+++|.+||+
T Consensus 211 ~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 211 GDGYGIGLRKGDTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred CCceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 247899999887 99999999999999999999999996
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.80 E-value=1.5e-18 Score=183.25 Aligned_cols=221 Identities=19% Similarity=0.320 Sum_probs=175.6
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.++|+|++.. .|+||.+.++ ++.+.|+++|+++++++++|.++++... .|+.++.++.+|++|+++++
T Consensus 25 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEec
Confidence 4679999864 5788888654 6789999999999999999977555543 39999999999999999988
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccc
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (938)
++.|++|.+.++||.||...+.++++++..
T Consensus 93 ~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~-------------------------------------------------- 122 (259)
T PRK15437 93 LSITEKRQQEIAFTDKLYAADSRLVVAKNS-------------------------------------------------- 122 (259)
T ss_pred CCCCHHHhhhccccchhhcCceEEEEECCC--------------------------------------------------
Confidence 999999999999999999999999987654
Q ss_pred hhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCe
Q 002309 624 ITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI 703 (938)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i 703 (938)
+...+++||. +.+|
T Consensus 123 ----------------------------------------------------------------~~~~~~~dl~--g~~I 136 (259)
T PRK15437 123 ----------------------------------------------------------------DIQPTVESLK--GKRV 136 (259)
T ss_pred ----------------------------------------------------------------CCCCChHHhC--CCEE
Confidence 2224788986 8899
Q ss_pred eEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHH-HHhcC--CcEEEeC-----ccc
Q 002309 704 GYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL-FLSSQ--CSFRIVG-----QEF 775 (938)
Q Consensus 704 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~--~~l~~~~-----~~~ 775 (938)
|+..|+..+.++.+.......+++.+.+.++.+++|.. |++|+++.+.....+ +..+. .++...+ +.+
T Consensus 137 gv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~----grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 212 (259)
T PRK15437 137 GVLQGTTQETFGNEHWAPKGIEIVSYQGQDNIYSDLTA----GRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKL 212 (259)
T ss_pred EEecCcHHHHHHHhhccccCceEEecCCHHHHHHHHHc----CCccEEEechHHHHHHHHhCCCCCceEEecCccccccc
Confidence 99999988777754322222456678888999999999 999999998876653 23332 2344332 222
Q ss_pred cccceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 776 TKSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 776 ~~~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
...+++++++++.+ +++.+|.+|.+++.+|.+++|.+||+.
T Consensus 213 ~~~~~~ia~~~~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~ 254 (259)
T PRK15437 213 FGVGTGMGLRKEDNELREALNKAFAEMRADGTYEKLAKKYFD 254 (259)
T ss_pred cCcceEEEEeCCCHHHHHHHHHHHHHHHHCCcHHHHHHHhcC
Confidence 23446788887766 999999999999999999999999998
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=99.79 E-value=2.1e-18 Score=183.64 Aligned_cols=222 Identities=18% Similarity=0.240 Sum_probs=178.5
Q ss_pred CCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCC-ccEEEEecCCCCCCCChhHHHHhhhcceecEEe
Q 002309 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYA-VPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (938)
Q Consensus 463 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~-~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 541 (938)
..+.|+|++. +|+||.+.+. ++++.|+++||++++++++|.+ +++.. .+|+.++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 3467999986 4788888654 6789999999999999999975 33333 3599999999999999988
Q ss_pred ccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccc
Q 002309 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (938)
Q Consensus 542 ~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (938)
+++++|++|.+.++||.||+..++.+++++...
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~----------------------------------------------- 130 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNP----------------------------------------------- 130 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCC-----------------------------------------------
Confidence 888999999999999999999999998887551
Q ss_pred cchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhh-CC
Q 002309 622 QVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRK-SD 700 (938)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~ 700 (938)
..+++++||.. .+
T Consensus 131 ------------------------------------------------------------------~~i~~~~dl~~~~g 144 (275)
T TIGR02995 131 ------------------------------------------------------------------KGLKSYKDIAKNPD 144 (275)
T ss_pred ------------------------------------------------------------------CCCCCHHHhccCCC
Confidence 34678888864 26
Q ss_pred CCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC--cEEEeCcc---c
Q 002309 701 DPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQE---F 775 (938)
Q Consensus 701 ~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~---~ 775 (938)
.+||+..|+...+++.+ .+.+..+++.+++.++.+++|.+ |++|+++.+...+.+++++.. ++..+... .
T Consensus 145 ~~Igv~~g~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~----grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (275)
T TIGR02995 145 AKIAAPGGGTEEKLARE-AGVKREQIIVVPDGQSGLKMVQD----GRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAP 219 (275)
T ss_pred ceEEEeCCcHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHc----CCCCEEecChHHHHHHHHhCCCCCceeecCccCCc
Confidence 78999999988888843 34444466778999999999999 999999999998888876532 44443321 1
Q ss_pred cccceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhc
Q 002309 776 TKSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 815 (938)
Q Consensus 776 ~~~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~ 815 (938)
....++++++++++ ++..||++|.++.++|.+++|.+||-
T Consensus 220 ~~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG~~~~i~~ky~ 260 (275)
T TIGR02995 220 VRYYGGAAFRPEDKELRDAFNVELAKLKESGEFAKIIAPYG 260 (275)
T ss_pred cccceeEEECCCCHHHHHHHHHHHHHHHhChHHHHHHHHhC
Confidence 11233788888766 99999999999999999999999994
No 95
>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=99.77 E-value=1.8e-19 Score=172.78 Aligned_cols=108 Identities=31% Similarity=0.521 Sum_probs=83.1
Q ss_pred chhhHHHHHHHHHHHHhhhheeecccCCCCCC-------CccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHH
Q 002309 586 SPLMWTVTACFFVVVGIVVWILEHRINDEFRG-------PPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLV 658 (938)
Q Consensus 586 ~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~ 658 (938)
+++||++++++++++++++|++++..+.+++. ....++.+++|++++.+++|+ ....|++.++|++
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~-------~~~~~~s~s~Ril 73 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQG-------SSIRPRSWSGRIL 73 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHH-------H------HHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhcccc-------ccccccchHHHHH
Confidence 57999999999999999999999988777665 223468899999999999887 4788999999999
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCC
Q 002309 659 LIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSD 700 (938)
Q Consensus 659 ~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 700 (938)
.++|++|+++++++|||+|+|+||.++.+++|+|++||.+++
T Consensus 74 ~~~w~l~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 74 LAFWWLFSLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 999999999999999999999999999999999999999765
No 96
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.76 E-value=1.7e-17 Score=189.55 Aligned_cols=222 Identities=16% Similarity=0.208 Sum_probs=177.3
Q ss_pred CCCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEe
Q 002309 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (938)
Q Consensus 462 ~~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 541 (938)
...++|||++... |+.+..+ ++...||++||++++++++|.+++++ .. .+|+.++.+|.+|++|+++
T Consensus 40 ~~~g~LrVg~~~~----P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e~v--~~------~~~~~ll~aL~~G~iDi~~ 106 (482)
T PRK10859 40 QERGELRVGTINS----PLTYYIG-NDGPTGFEYELAKRFADYLGVKLEIK--VR------DNISQLFDALDKGKADLAA 106 (482)
T ss_pred HhCCEEEEEEecC----CCeeEec-CCCcccHHHHHHHHHHHHhCCcEEEE--ec------CCHHHHHHHHhCCCCCEEe
Confidence 3467899999852 3333332 23359999999999999999775544 32 4699999999999999998
Q ss_pred ccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccc
Q 002309 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (938)
Q Consensus 542 ~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (938)
+++++|++|.+.++||.||+..+..+++++..
T Consensus 107 ~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------ 138 (482)
T PRK10859 107 AGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------ 138 (482)
T ss_pred ccCcCChhhhccCcccCCceeeeEEEEEeCCC------------------------------------------------
Confidence 88999999999999999999999999887654
Q ss_pred cchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCC
Q 002309 622 QVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDD 701 (938)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 701 (938)
..+++++||. |+
T Consensus 139 ------------------------------------------------------------------~~i~~l~dL~--Gk 150 (482)
T PRK10859 139 ------------------------------------------------------------------PRPRSLGDLK--GG 150 (482)
T ss_pred ------------------------------------------------------------------CCCCCHHHhC--CC
Confidence 4678999998 88
Q ss_pred CeeEEeCchHHHHHHHhc-cccccc--ccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCcccccc
Q 002309 702 PIGYQEGSFAEYYLSQEL-NISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKS 778 (938)
Q Consensus 702 ~i~~~~~s~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~ 778 (938)
+|++..|+...+.+.+.. ..+... ...+.+.++++++|.+ |++|+++.+...+.+......++.+........
T Consensus 151 ~I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~----G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~ 226 (482)
T PRK10859 151 TLTVAAGSSHVETLQELKKKYPELSWEESDDKDSEELLEQVAE----GKIDYTIADSVEISLNQRYHPELAVAFDLTDEQ 226 (482)
T ss_pred eEEEECCCcHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHC----CCCCEEEECcHHHHHHHHhCCCceeeeecCCCc
Confidence 999999998887774321 112222 2345789999999999 999999999887776555556666655444566
Q ss_pred ceEeeecCC-Cc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 779 GWGFAFPRD-SP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 779 ~~~~~~~k~-sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
+++++++|+ ++ |+..+|++|.++.++|.+++|.+||+.
T Consensus 227 ~~~~av~k~~~~~L~~~ln~~L~~i~~~G~l~~L~~kyfg 266 (482)
T PRK10859 227 PVAWALPPSGDDSLYAALLDFFNQIKEDGTLARLEEKYFG 266 (482)
T ss_pred eeEEEEeCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHhh
Confidence 789999994 55 999999999999999999999999998
No 97
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.68 E-value=4.8e-16 Score=162.41 Aligned_cols=208 Identities=19% Similarity=0.234 Sum_probs=155.1
Q ss_pred eeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHH---HhhhcceecEEec
Q 002309 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLV---DSITTGVFDAVVG 542 (938)
Q Consensus 466 ~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i---~~l~~g~~D~~~~ 542 (938)
+||||+.. .|+||.+.+ + .||++||++++++++|.+++ +++ .+|++++ ..|.+|++|+++
T Consensus 1 ~l~vg~~~--~~pPf~~~~---~--~Gfdvdl~~~ia~~lg~~~~--~~~-------~~~~~~~~~~~~L~~g~~Dii~- 63 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKD---G--SGFENKIAAALAAAMGRKVV--FVW-------LAKPAIYLVRDGLDKKLCDVVL- 63 (246)
T ss_pred CeEEEeCC--CCCCCccCC---C--CcchHHHHHHHHHHhCCCeE--EEE-------eccchhhHHHHHHhcCCccEEE-
Confidence 47899986 789999863 1 69999999999999997744 444 3488776 699999999988
Q ss_pred cEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCcccc
Q 002309 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (938)
Q Consensus 543 ~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (938)
.++++++| +.||.||+..+.++++++...
T Consensus 64 ~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 64 GLDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred eCCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 48888777 689999999999999987651
Q ss_pred chhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHH--hhhCC
Q 002309 623 VITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIES--LRKSD 700 (938)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~d--L~~~~ 700 (938)
..+++++| |. |
T Consensus 93 -----------------------------------------------------------------~~~~~~~d~~L~--g 105 (246)
T TIGR03870 93 -----------------------------------------------------------------LDIKSWNDPRLK--K 105 (246)
T ss_pred -----------------------------------------------------------------CCCCCccchhhc--c
Confidence 24677765 65 8
Q ss_pred C-CeeEEeCchHHHHHHHhcccc-----cccccccC---------CHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC
Q 002309 701 D-PIGYQEGSFAEYYLSQELNIS-----KSRLVALR---------TPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ 765 (938)
Q Consensus 701 ~-~i~~~~~s~~~~~~~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~ 765 (938)
+ +||+..|+..+.++.+..... ...+..+. +..+.+++|.. |++||++.+.+.+.+++.+.
T Consensus 106 ~~~vgv~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~----GrvDa~i~~~~~~~~~~~~~ 181 (246)
T TIGR03870 106 VSKIGVIFGSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVAT----GKADLAVAFAPEVARYVKAS 181 (246)
T ss_pred CceEEEecCChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHc----CCCCEEEeeHHhHHHHHHhC
Confidence 7 999999999998885421110 01112221 35788999999 99999999877766666543
Q ss_pred -CcEE--EeCccc-------c--ccceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhh
Q 002309 766 -CSFR--IVGQEF-------T--KSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKW 814 (938)
Q Consensus 766 -~~l~--~~~~~~-------~--~~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w 814 (938)
.++. .+++.. . ..+++++++|+.+ |++.||++|.+|+ |.+++|..+|
T Consensus 182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 182 PEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred CCCceEEeccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 2333 233221 1 1135899999988 9999999999999 4899999988
No 98
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.68 E-value=6e-16 Score=199.72 Aligned_cols=216 Identities=13% Similarity=0.202 Sum_probs=177.0
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.++|+|++.. .|+||.+.+. ++.+.||.+|+++++++++|.+ +++++. .+|..++.+|.+|++|++.+
T Consensus 301 ~~~l~v~~~~--~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~~- 368 (1197)
T PRK09959 301 HPDLKVLENP--YSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIPG- 368 (1197)
T ss_pred CCceEEEcCC--CCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEeec-
Confidence 4578998775 7899999865 6899999999999999999965 666653 45888899999999998754
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccc
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (938)
++.|++|.+.++||.||+..++++++++..
T Consensus 369 ~~~t~~r~~~~~fs~py~~~~~~~v~~~~~-------------------------------------------------- 398 (1197)
T PRK09959 369 AIYSEDRENNVLFAEAFITTPYVFVMQKAP-------------------------------------------------- 398 (1197)
T ss_pred ccCCccccccceeccccccCCEEEEEecCC--------------------------------------------------
Confidence 567999999999999999999999886543
Q ss_pred hhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCe
Q 002309 624 ITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI 703 (938)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i 703 (938)
..+. ++. .|++|
T Consensus 399 ----------------------------------------------------------------~~~~---~~~-~g~~v 410 (1197)
T PRK09959 399 ----------------------------------------------------------------DSEQ---TLK-KGMKV 410 (1197)
T ss_pred ----------------------------------------------------------------CCcc---ccc-cCCEE
Confidence 1111 222 48889
Q ss_pred eEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC--cE-EEeCccccccce
Q 002309 704 GYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SF-RIVGQEFTKSGW 780 (938)
Q Consensus 704 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l-~~~~~~~~~~~~ 780 (938)
|+..|+...+++.+.+ +..+++.+++.++++++|.+ |++||++.+...+.|++++.. ++ ......+....+
T Consensus 411 av~~g~~~~~~~~~~~--p~~~~~~~~~~~~~l~av~~----G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 484 (1197)
T PRK09959 411 AIPYYYELHSQLKEMY--PEVEWIKVDNASAAFHKVKE----GELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASL 484 (1197)
T ss_pred EEeCCcchHHHHHHHC--CCcEEEEcCCHHHHHHHHHc----CCCCEEehhhHHHHHHHHhcccccceeeecCCCCchhe
Confidence 9999998888885543 44678889999999999999 999999999999999887742 23 333344456678
Q ss_pred EeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 781 GFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 781 ~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
+|+++|+.| |+..+|++|..+.++ .++++.+||+.
T Consensus 485 ~~av~k~~~~L~~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 485 SFAFPRGEPELKDIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred EEeeCCCCHHHHHHHHHHHHhCCHH-HHHHHHhhccc
Confidence 999999988 999999999999999 88899999987
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=99.67 E-value=7.8e-16 Score=163.37 Aligned_cols=226 Identities=14% Similarity=0.165 Sum_probs=163.1
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhC-CCCccEEEEecCCCCCCCChhHHHHhhhcceecEEec
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l-~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 542 (938)
.++|+++.. .|+||.+.+. ++...|+..++++++++++ ++++++... .|.+++.++ .|+.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~~~~~~~---------pw~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYEHRFVRV---------SFARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCceeEEEC---------CHHHHHHHH-hcCCCeEEe
Confidence 468898876 5888888653 5788999999999999998 877555554 499999999 788888777
Q ss_pred cEeeecCceeeeeeccceec-ccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccc
Q 002309 543 DITIVTNRTKIVDFSQPYAA-SGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (938)
Q Consensus 543 ~~~~t~~r~~~v~fs~p~~~-~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (938)
++++|++|.+.++||.||+. ...++++++..... .
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~-~------------------------------------------- 118 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG-V------------------------------------------- 118 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh-c-------------------------------------------
Confidence 79999999999999999975 56788887654100 0
Q ss_pred cchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccC-C--CCChHHhhh
Q 002309 622 QVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYS-P--INGIESLRK 698 (938)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~-~--i~s~~dL~~ 698 (938)
..+.. + +.++.||.
T Consensus 119 --------------------------------------------------------------~~~~d~~~~~~~l~~l~- 135 (268)
T TIGR02285 119 --------------------------------------------------------------RDEQDGDVDLKKLLASK- 135 (268)
T ss_pred --------------------------------------------------------------cccCCCCccHHHHhcCC-
Confidence 00001 1 12223334
Q ss_pred CCCCeeEEeCchHH----HHHHHhccc-ccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC----CcEE
Q 002309 699 SDDPIGYQEGSFAE----YYLSQELNI-SKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ----CSFR 769 (938)
Q Consensus 699 ~~~~i~~~~~s~~~----~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~----~~l~ 769 (938)
++++|+..|+... +++. .... ...++..+.+.++.+++|.. |++|+++.+...+.+++++. ..+.
T Consensus 136 -g~~vgv~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~L~~----GrvD~~v~d~~~~~~~~~~~~~~~~~~~ 209 (268)
T TIGR02285 136 -KKRLGVIASRSYGQQIDDILS-DSGYQHNTRIIGNAAMGNLFKMLEK----GRVNYTLAYPPEKTYYEELNNGALPPLK 209 (268)
T ss_pred -CeEEEEecceeccHHHHHHHH-hCCcccceeeeccchHHHHHHHHHc----CCccEEEeCcHHHHHHHHhccCCcCCee
Confidence 6789998876543 3332 2221 11234456677889999999 99999999999888887642 1344
Q ss_pred EeCccc--cccceEeeecCCC---cchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 770 IVGQEF--TKSGWGFAFPRDS---PLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 770 ~~~~~~--~~~~~~~~~~k~s---pl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
...... ...+++++++|+. .++..||++|.+|.++|.+++|.+||+.
T Consensus 210 ~~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 210 FLPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred EeecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 443221 2235789999974 3999999999999999999999999997
No 100
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.65 E-value=3.7e-15 Score=159.58 Aligned_cols=225 Identities=26% Similarity=0.348 Sum_probs=181.1
Q ss_pred CCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEec
Q 002309 463 NGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (938)
Q Consensus 463 ~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 542 (938)
....++|++... ..+||.+.+.+.+.+.||++|+++++++.++......++. ..|++++..|..|++|+.+.
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 103 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIA 103 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEe
Confidence 356788888853 4468888876336999999999999999998653244443 46999999999999999999
Q ss_pred cEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCcccc
Q 002309 543 DITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQ 622 (938)
Q Consensus 543 ~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (938)
.+++|++|.+.++||.||+..+..+++++...
T Consensus 104 ~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 135 (275)
T COG0834 104 GMTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------ 135 (275)
T ss_pred ccccCHHHhccccccccccccCeEEEEECCCC------------------------------------------------
Confidence 99999999999999999999999999987661
Q ss_pred chhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCC
Q 002309 623 VITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDP 702 (938)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 702 (938)
..+.+.+||. +++
T Consensus 136 -----------------------------------------------------------------~~~~~~~DL~--gk~ 148 (275)
T COG0834 136 -----------------------------------------------------------------IGIKSLEDLK--GKK 148 (275)
T ss_pred -----------------------------------------------------------------cCcCCHHHhC--CCE
Confidence 2378999999 899
Q ss_pred eeEEeCch--HHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHH--HhcCCc-EEEeCccccc
Q 002309 703 IGYQEGSF--AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF--LSSQCS-FRIVGQEFTK 777 (938)
Q Consensus 703 i~~~~~s~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~--~~~~~~-l~~~~~~~~~ 777 (938)
+|+..|+. ...... .......++.+++..+.+.++.+ |++||++.+...+.+. ..+..+ ..........
T Consensus 149 v~v~~gt~~~~~~~~~--~~~~~~~~~~~~~~~~~~~al~~----Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (275)
T COG0834 149 VGVQLGTTDEAEEKAK--KPGPNAKIVAYDSNAEALLALKN----GRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLS 222 (275)
T ss_pred EEEEcCcchhHHHHHh--hccCCceEEeeCCHHHHHHHHHc----CCccEEEcchHhhhhhhhhhcCCCCceeeeccCCC
Confidence 99999998 444432 22233567788999999999999 9999999999988883 333332 2233333333
Q ss_pred -cceEeeecCC--CcchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 778 -SGWGFAFPRD--SPLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 778 -~~~~~~~~k~--spl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
.+++++++|+ ..+++.+|++|.++.++|.++++.++|+.
T Consensus 223 ~~~~~~~~~~~~~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 223 VEYLGIALRKGDDPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred cceeEEEeccCCcHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 6899999999 46999999999999999999999999998
No 101
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.64 E-value=7.5e-15 Score=150.60 Aligned_cols=214 Identities=29% Similarity=0.521 Sum_probs=176.1
Q ss_pred eEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEee
Q 002309 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (938)
Q Consensus 467 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~ 546 (938)
|+|++.. .++||.+.+. ++.+.|++.++++.+++++|.+ ++++. ..|..++.+|.+|++|+++.....
T Consensus 1 l~i~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDA-NGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 5777776 6788888754 7899999999999999999965 55555 239999999999999999887777
Q ss_pred ecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchhh
Q 002309 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (938)
Q Consensus 547 t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (938)
+.+|.+.+.|+.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 889999999999999999999998655
Q ss_pred hhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCeeEE
Q 002309 627 LWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQ 706 (938)
Q Consensus 627 ~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~ 706 (938)
++.+++||. ++++++.
T Consensus 96 --------------------------------------------------------------~~~~~~dl~--g~~i~~~ 111 (218)
T cd00134 96 --------------------------------------------------------------PIKSVKDLK--GKKVAVQ 111 (218)
T ss_pred --------------------------------------------------------------CCCChHHhC--CCEEEEE
Confidence 345899997 8889999
Q ss_pred eCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC-CcEEEeCcc--ccccceEee
Q 002309 707 EGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVGQE--FTKSGWGFA 783 (938)
Q Consensus 707 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~--~~~~~~~~~ 783 (938)
.++....++.+... ...+..+.+.++.++.+.+ |++|+++.+.....+...+. +++..+... .....++++
T Consensus 112 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 185 (218)
T cd00134 112 KGSTAEKYLKKALP--EAKVVSYDDNAEALAALEN----GRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVA 185 (218)
T ss_pred cCchHHHHHHHhCC--cccEEEeCCHHHHHHHHHc----CCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEE
Confidence 88877777754332 2456678889999999999 89999999998888876665 677776653 444556777
Q ss_pred ecCCCc-chhhHHHHHHhhhccCcHHHHHHhhc
Q 002309 784 FPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 815 (938)
Q Consensus 784 ~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~ 815 (938)
..++++ +...++++|.+++++|.++.+.++|+
T Consensus 186 ~~~~~~~l~~~~~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 186 VGKDNKELLDAVNKALKELRADGELKKISKKWF 218 (218)
T ss_pred EcCCCHHHHHHHHHHHHHHHhCccHHHHHHhhC
Confidence 777774 99999999999999999999999996
No 102
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.62 E-value=1.4e-14 Score=148.46 Aligned_cols=215 Identities=28% Similarity=0.520 Sum_probs=178.1
Q ss_pred eeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEe
Q 002309 466 LLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDIT 545 (938)
Q Consensus 466 ~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~ 545 (938)
+|+|++.. .++||...+. ++.+.|+.+|+++.+.+++|.+ +++.+ ..|..++..+.+|++|++++...
T Consensus 1 ~l~v~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 47888873 7788887654 6779999999999999999965 55554 35999999999999999998776
Q ss_pred eecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchh
Q 002309 546 IVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVIT 625 (938)
Q Consensus 546 ~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 625 (938)
.+.+|...+.|+.|+...+..+++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 6788888899999999999888887543
Q ss_pred hhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCeeE
Q 002309 626 ILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGY 705 (938)
Q Consensus 626 ~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~ 705 (938)
++.+++||. ++++++
T Consensus 97 ---------------------------------------------------------------~~~~~~dL~--g~~i~~ 111 (219)
T smart00062 97 ---------------------------------------------------------------PIKSLEDLK--GKKVAV 111 (219)
T ss_pred ---------------------------------------------------------------CCCChHHhC--CCEEEE
Confidence 478999997 888999
Q ss_pred EeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC--CcEEEeCccccc-cceEe
Q 002309 706 QEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ--CSFRIVGQEFTK-SGWGF 782 (938)
Q Consensus 706 ~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~~~ 782 (938)
..|+....++... .+...+..+.+..+.+.++.+ |++++++...+...+...+. +++.++...... ..+++
T Consensus 112 ~~g~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~----g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (219)
T smart00062 112 VAGTTGEELLKKL--YPEAKIVSYDSQAEALAALKA----GRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAF 185 (219)
T ss_pred ecCccHHHHHHHh--CCCceEEEcCCHHHHHHHhhc----CcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEE
Confidence 9888877777443 123456667888999999999 89999999999888777665 577777665555 78899
Q ss_pred eecCCCc-chhhHHHHHHhhhccCcHHHHHHhhc
Q 002309 783 AFPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 815 (938)
Q Consensus 783 ~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~ 815 (938)
+++++++ +.+.++++|.++.++|.++++.++|+
T Consensus 186 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 186 AVRKGDPELLDKINKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred EEECCCHHHHHHHHHHHHHHHhCchHHHHHhccC
Confidence 9999987 99999999999999999999999986
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.62 E-value=3.4e-15 Score=192.80 Aligned_cols=222 Identities=13% Similarity=0.145 Sum_probs=182.8
Q ss_pred CCCceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEe
Q 002309 462 NNGKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVV 541 (938)
Q Consensus 462 ~~g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~ 541 (938)
.+.++||||+.. +|+|+.+..+.++++.||.+|+++.+++++|.+ +++++. .+|++++.+|.+|++|++.
T Consensus 53 ~~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~ 122 (1197)
T PRK09959 53 ASKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVL 122 (1197)
T ss_pred hhCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEec
Confidence 456789999986 455544443247899999999999999999955 777763 4799999999999999998
Q ss_pred ccEeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccc
Q 002309 542 GDITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKR 621 (938)
Q Consensus 542 ~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (938)
+.++.+++|.+.++||.||+.....+++++..
T Consensus 123 ~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------ 154 (1197)
T PRK09959 123 SHLVASPPLNDDIAATKPLIITFPALVTTLHD------------------------------------------------ 154 (1197)
T ss_pred CccccccccccchhcCCCccCCCceEEEeCCC------------------------------------------------
Confidence 88999999999999999999999999988754
Q ss_pred cchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCC
Q 002309 622 QVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDD 701 (938)
Q Consensus 622 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~ 701 (938)
.+++++|+. +.
T Consensus 155 -------------------------------------------------------------------~~~~~~~l~--~~ 165 (1197)
T PRK09959 155 -------------------------------------------------------------------SMRPLTSSK--PV 165 (1197)
T ss_pred -------------------------------------------------------------------CCCCccccc--Ce
Confidence 345677776 77
Q ss_pred CeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC--cEEEeCcc-cccc
Q 002309 702 PIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC--SFRIVGQE-FTKS 778 (938)
Q Consensus 702 ~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~--~l~~~~~~-~~~~ 778 (938)
++++..|+...+++.+.+ +..+++.+++..+++++|.+ |++||++.+...+.|+++++. ++.+++.. ....
T Consensus 166 ~i~~~~g~~~~~~~~~~~--p~~~i~~~~s~~~al~av~~----G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~ 239 (1197)
T PRK09959 166 NIARVANYPPDEVIHQSF--PKATIISFTNLYQALASVSA----GQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQ 239 (1197)
T ss_pred EEEEeCCCCCHHHHHHhC--CCCEEEeCCCHHHHHHHHHc----CCCCEEEccHHHHHHHHhcccccceEEEeeccCCCC
Confidence 899999998888886543 55688899999999999999 999999999999999888743 45555432 2233
Q ss_pred ceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhcCC
Q 002309 779 GWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWLMK 817 (938)
Q Consensus 779 ~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~~ 817 (938)
...++++|+.| +...+|++|..+.++|.. .|.+||+..
T Consensus 240 ~~~~~~~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 240 YNFFLTRKESVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred ceeEEEcCCcHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 46788999988 899999999999999877 999999973
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=99.60 E-value=3.1e-14 Score=147.97 Aligned_cols=210 Identities=15% Similarity=0.213 Sum_probs=157.3
Q ss_pred eEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEee
Q 002309 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (938)
Q Consensus 467 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~ 546 (938)
|||++.. .|+||.+. ...||++||++++++++|.+++++..+ ..+..++..+.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~-----~~~G~~~el~~~i~~~~g~~i~~~~~~-------~~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNE-----KGEGFENKIAQLLADDLGLPLEYTWFP-------QRRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeCC--CCCCccCC-----CCCchHHHHHHHHHHHcCCceEEEecC-------cchhhHHHHHhcCCccEEEe----
Confidence 7888775 78888763 236999999999999999886665544 12444577899999999865
Q ss_pred ecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchhh
Q 002309 547 VTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITI 626 (938)
Q Consensus 547 t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 626 (938)
+++|.+.++||.||+..++++++++...
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~~---------------------------------------------------- 91 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDSL---------------------------------------------------- 91 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCCc----------------------------------------------------
Confidence 4778899999999999999999887641
Q ss_pred hhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCeeEE
Q 002309 627 LWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQ 706 (938)
Q Consensus 627 ~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~ 706 (938)
..+++++|+...+.+||+.
T Consensus 92 -------------------------------------------------------------~~~~~~~d~~l~g~~V~v~ 110 (232)
T TIGR03871 92 -------------------------------------------------------------LDVKSLDDPRLKKLRIGVF 110 (232)
T ss_pred -------------------------------------------------------------ccccchhhhhhcCCeEEEE
Confidence 3567888832238889999
Q ss_pred eCchHHHHHHHhccccccccc---------ccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC-CcEEEeCccc-
Q 002309 707 EGSFAEYYLSQELNISKSRLV---------ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVGQEF- 775 (938)
Q Consensus 707 ~~s~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~- 775 (938)
.|+...+++.+. +.. .++. ...+..+.+++|.+ |++|+++.+...+.++.++. .++.+.....
T Consensus 111 ~g~~~~~~l~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (232)
T TIGR03871 111 AGTPPAHWLARH-GLV-ENVVGYSLFGDYRPESPPGRMVEDLAA----GEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPE 184 (232)
T ss_pred cCChHHHHHHhc-Ccc-cccccccccccccccCCHHHHHHHHHc----CCcCEEEeccHHHHHHHHhCCCCceeeccccC
Confidence 999888888542 211 1111 13367899999999 99999999988888877653 2444433221
Q ss_pred -----cccceEeeecCCCc-chhhHHHHHHhhhccCcHHHHHHhhc
Q 002309 776 -----TKSGWGFAFPRDSP-LAVDLSSAILELAENGDLQRIHDKWL 815 (938)
Q Consensus 776 -----~~~~~~~~~~k~sp-l~~~i~~~il~l~e~G~~~~l~~~w~ 815 (938)
...+++++++++++ ++..||++|.++. |.+++|.+||.
T Consensus 185 ~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 185 DGGIPFDYRIAMGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred CCCCCccceEEEEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 23357888998876 9999999999986 47999999994
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=143.67 Aligned_cols=216 Identities=20% Similarity=0.316 Sum_probs=176.7
Q ss_pred EEEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
+||+++|.+ ..++.....+++.|++++ |..+++.+.|+++++....+.+.++..+++.++||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 566677788888888887 4667888999999998888888899888999999998887776
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-ccccchHHHHHHHHh
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~l~~~l~ 189 (938)
.+...+...++|+|++.+..+... .+++++++.+++..++..+++++.+.+|+++++++.+. .++......+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 678888999999999877665544 56899999999999999999999999999999999877 677788899999999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC-CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcch
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM-ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLA 262 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~-~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~ 262 (938)
+.|.++......+.. ...++......+++. ++++|++.+. ..+..+++++.+.|+...++.|+..+.+.
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 998776644443332 225677777888776 7888888877 88899999999999874566777765543
No 106
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.38 E-value=3.4e-12 Score=119.87 Aligned_cols=123 Identities=33% Similarity=0.561 Sum_probs=106.5
Q ss_pred CCCChHHhhhC-CCCeeEEeCchHHHHHHHhcccc------c---ccccccCCHHHHHHHHhcCCCCCceEEEEecchhH
Q 002309 689 PINGIESLRKS-DDPIGYQEGSFAEYYLSQELNIS------K---SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 758 (938)
Q Consensus 689 ~i~s~~dL~~~-~~~i~~~~~s~~~~~~~~~~~~~------~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 758 (938)
||++++||..+ +.+||+..|++.+.++.+..... . .+++.+++..+++.+|.. |+ ||++.+.+.+
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----g~-da~v~d~~~~ 75 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRV----SN-YAFLMESTYL 75 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHc----CC-CEEEeehHhH
Confidence 58899999843 26899999999999985432210 0 245678899999999999 89 9999999999
Q ss_pred HHHHhcCCcEEEeCccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 759 ELFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 759 ~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
.++..+.|++.+++..+...+++++++||++|++.||.+|.+|.++|.++++.++|+.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 76 DYELSQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred HHHHhCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 9988888999999988888899999999999999999999999999999999999985
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=99.33 E-value=1.2e-10 Score=133.37 Aligned_cols=309 Identities=14% Similarity=0.142 Sum_probs=168.8
Q ss_pred eeEEEEEEeeCCCcc---hhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 002309 30 AVVNVGALFTLDSTI---GRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (938)
Q Consensus 30 ~~i~IG~i~~~~~~~---g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s 106 (938)
.+-+|++++|++..+ |...+.||..|. +... +.+..+.++|+..+... ....+.+.+|+..||||..-
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~----~~~~~l~~~Dt~~~~~~--~~~~~a~~~ga~~ViGPL~k 288 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA----DSRPELRFYDTNADSAD--ALYQQAVADGADFVIGPLLK 288 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH------T----T--S-EEEEETTTS-HH--HHHHHHHHTT--EEE---SH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc----cCCCceEEecCCCCCHH--HHHHHHHHcCCCEEEcCCCH
Confidence 356899999999544 667788888888 2221 34567888998876433 34456677799999999999
Q ss_pred hHHHHHHHhhcc--CCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHH
Q 002309 107 TVAHIVSYVSNE--LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSAL 184 (938)
Q Consensus 107 ~~~~~va~~~~~--~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l 184 (938)
.....++..-.. ..||++.....+.. .. -+.++...-+...+++.+++.+..-|+++..||+.++++|+...+.|
T Consensus 289 ~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF 365 (536)
T PF04348_consen 289 SNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAF 365 (536)
T ss_dssp HHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHH
T ss_pred HHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHH
Confidence 988888876553 58999987655543 11 24566666677888999999999999999999999999999999999
Q ss_pred HHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcchhc
Q 002309 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWLAYM 264 (938)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~~~~ 264 (938)
.+.+++.|+.+.....+. . ..++...++.-.+.+.|.|++.+.+.+++.+--...-.. ...--.+.|......
T Consensus 366 ~~~W~~~gg~~~~~~~~~-~----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~~--a~~lPvyatS~~~~g 438 (536)
T PF04348_consen 366 NQQWQALGGQVAEVSYYG-S----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFHF--AGDLPVYATSRSYSG 438 (536)
T ss_dssp HHHHHHHHSS--EEEEES-S----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT-T---TT-EEEE-GGG--H
T ss_pred HHHHHHcCCCceeeEecC-C----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhccccc--CCCCCEEEeccccCC
Confidence 999999998886665664 2 568888888666678999999999888877765554221 122223333222111
Q ss_pred ccCCCCChhhhhccccEEEEEEcC---CCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHHHHHHHHHHHHhcCCcccc
Q 002309 265 LDSASLPSETLESMQGVLVLRQHI---PESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVWLLAHAIESFFNQGGKISF 341 (938)
Q Consensus 265 ~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~~~~~~~~~~~ 341 (938)
. .+......+.|+....... +..+..+.+.+.|.+.. ....-.-+.+|||..++.+
T Consensus 439 ~----~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---~~~~RL~AlG~DA~~L~~~-------------- 497 (536)
T PF04348_consen 439 S----PNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---NSLQRLYALGIDAYRLAPR-------------- 497 (536)
T ss_dssp H----T-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHHT--------------
T ss_pred C----CCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc---cHHHHHHHHHHHHHHHHHH--------------
Confidence 1 1234446789988876432 22333333333332111 1112234567777655411
Q ss_pred cCCccccccCCCccccCCccccCchHHHHHHHhcCcccccccceEEcCCCCCccceEEEEEee
Q 002309 342 SNDSRLKTMEGGNLHLGAMSIFDDGMLLLGNILQSNLVGLTGPLKFNSDRSLIHAAYDIINVI 404 (938)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~l~~~~f~G~tG~v~F~~~g~~~~~~~~I~~~~ 404 (938)
-.-++.+....+.|.||.+++|++|. +.....-.++.
T Consensus 498 -------------------------l~~l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~f~ 534 (536)
T PF04348_consen 498 -------------------------LPQLRQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQFR 534 (536)
T ss_dssp -------------------------HHHHHHSTT--EEETTEEEEE-TT-B-EEEE-EEEEEE
T ss_pred -------------------------HHHHhhCCCCcccCCceeEEECCCCe-EEEeecceeec
Confidence 11233344567899999999999985 55555554444
No 108
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.22 E-value=1.3e-10 Score=118.38 Aligned_cols=219 Identities=16% Similarity=0.170 Sum_probs=175.8
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
...|||++.+. |..+... ++...|+++++.+++++.||.+ .+..+. .+-+.++.+|.+|++|++.++
T Consensus 22 rGvLrV~tins----p~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTINS----PLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeecC----ccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 46799999974 3444333 5567799999999999999955 566653 457899999999999999999
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccc
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQV 623 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (938)
+...++|.+.+....-|+...+.+++++..
T Consensus 89 l~~~~~~l~~~~~gP~y~svs~qlVyRkG~-------------------------------------------------- 118 (473)
T COG4623 89 LLYNSERLKNFQPGPTYYSVSQQLVYRKGQ-------------------------------------------------- 118 (473)
T ss_pred ccCChhHhcccCCCCceecccHHHHhhcCC--------------------------------------------------
Confidence 999999999999998899988888888766
Q ss_pred hhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCe
Q 002309 624 ITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPI 703 (938)
Q Consensus 624 ~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i 703 (938)
...+++++|. +..+
T Consensus 119 ----------------------------------------------------------------~Rp~~l~~L~--g~~i 132 (473)
T COG4623 119 ----------------------------------------------------------------YRPRSLGQLK--GRQI 132 (473)
T ss_pred ----------------------------------------------------------------CCCCCHHHcc--Ccee
Confidence 4567899998 7778
Q ss_pred eEEeCchHHHHHHHhc--ccccccccc---cCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCcccccc
Q 002309 704 GYQEGSFAEYYLSQEL--NISKSRLVA---LRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKS 778 (938)
Q Consensus 704 ~~~~~s~~~~~~~~~~--~~~~~~~~~---~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~ 778 (938)
.+..|+...+-++... ..| ..+.. -...++.++++.. |..+..+.|+..+..+.+-++++.+.-..-...
T Consensus 133 ~v~~gs~~~~~l~~lk~~kyP-~l~~k~d~~~~~~dLle~v~~----Gkldytiads~~is~~q~i~P~laVafd~tde~ 207 (473)
T COG4623 133 TVAKGSAHVEDLKLLKETKYP-ELIWKVDDKLGVEDLLEMVAE----GKLDYTIADSVEISLFQRVHPELAVAFDLTDEQ 207 (473)
T ss_pred eccCCcHHHHHHHHHHHhhcc-hhhhhhcccccHHHHHHHHhc----CCcceeeeccHHHHHHHHhCccceeeeeccccc
Confidence 8888887655553211 122 12222 2467889999999 899999999999988877788877776666668
Q ss_pred ceEeeecCCC--cchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 779 GWGFAFPRDS--PLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 779 ~~~~~~~k~s--pl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
+.++.+|.+. .|...++.++..+.|.|.++++++||+.
T Consensus 208 ~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 208 PVAWYLPRDDDSTLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred CceeeccCCchHHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 8999999854 4999999999999999999999999997
No 109
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=98.82 E-value=2.2e-07 Score=98.38 Aligned_cols=205 Identities=12% Similarity=0.079 Sum_probs=144.6
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||+++|.+ ..+......+++.+.++ . |+ ++.+.|+.+++....+.+.+++.+++.++|+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~----~----g~--~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKA----A----GY--QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHH----c----CC--eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999986 44555667777777766 1 33 4567788888877788888888889998887665544444
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~l~ 189 (938)
....+...++|+|.+....+. .++++++.+++...+..+++++...+-++|+++..+.. ++....+.+.+.++
T Consensus 71 ~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~ 145 (264)
T cd01537 71 IVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALK 145 (264)
T ss_pred HHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHH
Confidence 567788899999987665432 24667788888899999999999889999999986544 56667889999998
Q ss_pred hcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERR-CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.| ..+........ +..+....+.++.+.+ +++|+.. +...+..+++++.+.|+..++.+-++
T Consensus 146 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGDW----DAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCCC----CHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 887 43332222222 3556667777777666 4555544 33566678899999887644444444
No 110
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=98.78 E-value=6e-08 Score=102.23 Aligned_cols=198 Identities=18% Similarity=0.203 Sum_probs=138.4
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
++|+||+.. .++|+. +.+...++.+.+++++|.+ ++++.. .+|+.++..+.+|++|+++.+.
T Consensus 32 ~~l~vg~~~--~~~~~~--------~~~~~~~l~~~l~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~Di~~~~~ 93 (254)
T TIGR01098 32 KELNFGILP--GENASN--------LTRRWEPLADYLEKKLGIK--VQLFVA------TDYSAVIEAMRFGRVDIAWFGP 93 (254)
T ss_pred CceEEEECC--CCCHHH--------HHHHHHHHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEECc
Confidence 569999985 333332 3345678999999999976 444432 4699999999999999998654
Q ss_pred eeec---Cceeeeeeccceecc------cEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCC
Q 002309 545 TIVT---NRTKIVDFSQPYAAS------GLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEF 615 (938)
Q Consensus 545 ~~t~---~r~~~v~fs~p~~~~------~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~ 615 (938)
.... +|....+|+.|+... ...+++++.
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d------------------------------------------- 130 (254)
T TIGR01098 94 SSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKAD------------------------------------------- 130 (254)
T ss_pred HHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECC-------------------------------------------
Confidence 3322 566667888876543 234555542
Q ss_pred CCCccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHH
Q 002309 616 RGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIES 695 (938)
Q Consensus 616 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~d 695 (938)
.+|++++|
T Consensus 131 ------------------------------------------------------------------------~~i~~~~d 138 (254)
T TIGR01098 131 ------------------------------------------------------------------------SPIKSLKD 138 (254)
T ss_pred ------------------------------------------------------------------------CCCCChHH
Confidence 36889999
Q ss_pred hhhCCCCeeEEe-CchH-----HHHHHHhccccc----ccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC
Q 002309 696 LRKSDDPIGYQE-GSFA-----EYYLSQELNISK----SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ 765 (938)
Q Consensus 696 L~~~~~~i~~~~-~s~~-----~~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~ 765 (938)
|. |++|++.. ++.. ..++.+..+... ..+....+..+.++++.+ |++|+.+.+.+....+..+.
T Consensus 139 L~--gk~I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~----G~~Da~~~~~~~~~~~~~~~ 212 (254)
T TIGR01098 139 LK--GKTFAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVAN----GKVDAATNNSSAIGRLKKRG 212 (254)
T ss_pred hc--CCEEEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHc----CCCCeEEecHHHHHHHHHhC
Confidence 97 88899874 3221 233433333221 234445667889999999 99999999988887766554
Q ss_pred C----cEEEeCccccccceEeeecCC-Cc-chhhHHHHHHhh
Q 002309 766 C----SFRIVGQEFTKSGWGFAFPRD-SP-LAVDLSSAILEL 801 (938)
Q Consensus 766 ~----~l~~~~~~~~~~~~~~~~~k~-sp-l~~~i~~~il~l 801 (938)
. ++.++.......+++++++|+ .+ +++.||++|+.+
T Consensus 213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 213 PSDMKKVRVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred ccchhheEEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 2 578887666666789999999 55 999999999764
No 111
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=98.77 E-value=4.8e-09 Score=81.17 Aligned_cols=49 Identities=24% Similarity=0.588 Sum_probs=37.7
Q ss_pred CCcceEeeeHHHHHHHHHhCCCCccEEEEecCC-C--CCCCChhHHHHhhhc
Q 002309 486 GSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGD-G--HKNPSYTQLVDSITT 534 (938)
Q Consensus 486 ~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~-~--~~~~~~~~~i~~l~~ 534 (938)
++.+++|||+||+++||+.|||++++..++.+. | +.|++|+||+++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 578999999999999999999996665554321 2 267899999999864
No 112
>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=98.73 E-value=1.6e-06 Score=91.98 Aligned_cols=205 Identities=11% Similarity=0.088 Sum_probs=138.3
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCC-hhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC-STVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~-s~~~~ 110 (938)
+||++.|.. +.+......+++.+.++. | +++.+.++..++......+.+++.+++.+||+... .....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g--~~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------G--VELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------C--ceEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999875 555566777777777762 3 34555777778888888888888889998875433 33333
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--ccccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~l~~ 186 (938)
.....+...++|+|......+. .+.+..+.+++...+..+++++... +-+++++++.+. .++....+.+++
T Consensus 71 ~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 145 (267)
T cd01536 71 PALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRD 145 (267)
T ss_pred HHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHH
Confidence 3455666789999987554322 2345567778888889999988776 889999998654 467778899999
Q ss_pred HHhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~v-iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
.+++.| .++....... .+..+..+.+.++.+..++. .+++++...+..+++++++.|+. .+...++
T Consensus 146 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg 213 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN----WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVG 213 (267)
T ss_pred HHHhCCCcEEEEEecCC----CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEe
Confidence 999884 6654332222 22455667777776555443 33344446777799999998875 3333343
No 113
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.70 E-value=6.3e-08 Score=102.91 Aligned_cols=164 Identities=20% Similarity=0.239 Sum_probs=129.7
Q ss_pred CChhHHHHhhhcceecEEeccEeeecCceeeeeeccc--eecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHH
Q 002309 523 PSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQP--YAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVV 600 (938)
Q Consensus 523 ~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p--~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~ 600 (938)
.+|.+++..|.+|++|+++.+..++.+|.+.++|+.| |....+++++|...
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~--------------------------- 103 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS--------------------------- 103 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC---------------------------
Confidence 4589999999999999999998989999999999988 66667777777543
Q ss_pred HhhhheeecccCCCCCCCccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhh
Q 002309 601 GIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSI 680 (938)
Q Consensus 601 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~ 680 (938)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hhcccccCCCCChHHhhhCCCCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHH
Q 002309 681 LTVQQLYSPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL 760 (938)
Q Consensus 681 Lt~~~~~~~i~s~~dL~~~~~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~ 760 (938)
+|++++||. |+++++..+.....++.+ .+.. .+++.+.+..+. ++.. |..+++++.......
T Consensus 104 --------~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi~-~~iv~~~gs~ea--a~~~----G~aDaivd~~~~~~~ 165 (287)
T PRK00489 104 --------DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGID-AEVVELSGAVEV--APRL----GLADAIVDVVSTGTT 165 (287)
T ss_pred --------CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCCc-eEEEECCCchhh--hhcC----CcccEEEeeHHHHHH
Confidence 678899998 889999888888888843 3332 345556555554 5555 899999988777776
Q ss_pred HHhcCCcEEEeCccccccceEeeecC--CCc-chhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 761 FLSSQCSFRIVGQEFTKSGWGFAFPR--DSP-LAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 761 ~~~~~~~l~~~~~~~~~~~~~~~~~k--~sp-l~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
+... ++..+ +.+.....+++.+| .+| .+..+|..+.++ .|.+..+.+||+.
T Consensus 166 l~~~--~L~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~ 219 (287)
T PRK00489 166 LRAN--GLKIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLM 219 (287)
T ss_pred HHHC--CCEEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEE
Confidence 6553 57777 56666778999999 666 888899999999 5999999999998
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=98.64 E-value=1.8e-06 Score=91.47 Aligned_cols=205 Identities=10% Similarity=0.023 Sum_probs=138.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||++.|.. ..+......+++.+.++. |+++ .+.|...++........+++++++.++|....+..+..
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA--------GYSV--LLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 479999885 444455666666666552 4444 45677778888888888898889988876555544444
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~l~ 189 (938)
...+...++|+|.+....+. +.+..+.+++...++..++++...|.+++++++.+.. ++....+.+++.++
T Consensus 71 -~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~ 143 (264)
T cd06267 71 -LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALE 143 (264)
T ss_pred -HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHH
Confidence 66678899999987654322 3455677788888899989888889999999986543 66677788899998
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|..+......... .+..+....+.++.+.. +++|+.. +...+..+++++++.|+..++.+.+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 144 EAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 887533221112221 12455666777766555 5655543 44566778888888887544444443
No 115
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.62 E-value=2.4e-06 Score=91.57 Aligned_cols=201 Identities=15% Similarity=0.120 Sum_probs=136.5
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||++.+.+..+-.....+++ +++++.|..+ |.++++.+.|+..++.........+++++|.+||+..++. ...+
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 589999876544333444444 5566666654 8999999999999998888888888888999999865432 2222
Q ss_pred HHhhccCCccEEEcccCCCCCC----CCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-ccccchHHHHH
Q 002309 113 SYVSNELQVPLLSFGVTDPTLS----SLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALN 185 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~----~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~l~ 185 (938)
.....++|+|.+...++... ....+....+..++...+...++++... +.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 25677999998764433211 1111222234455666678888888765 999999998643 36667788999
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
+.+++.|+++.... . . ...++...++++.. .+++|++..+ ..+..+++++.+.|+
T Consensus 154 ~~~~~~g~~~~~~~-~-~----~~~~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V-S----SSNDVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c-C----CHHHHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999998876532 1 1 24567777777764 3677666544 566678888887765
No 116
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.56 E-value=9.8e-06 Score=86.37 Aligned_cols=203 Identities=13% Similarity=0.030 Sum_probs=135.3
Q ss_pred EEEEEeeCCCc-chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHH
Q 002309 33 NVGALFTLDST-IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s-~~~~ 110 (938)
|||+++|.... +-.....+++.+.++. +. .|+++++.+.|+..++....+....++.++|.+||....+ ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~-~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KK-AGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hc-cCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 58999976532 2223444554444432 22 3677888999999998888888888888899988874433 3233
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEc--CccccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d--~~~g~~~~~~l~~ 186 (938)
.....+...++|+|...... .. +.+.++.+++...+..+++++... +-++++++..+ ...+......+++
T Consensus 76 ~~l~~~~~~~iPvv~~~~~~---~~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~ 149 (272)
T cd06300 76 PVIEEACEAGIPVVSFDGTV---TT---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKE 149 (272)
T ss_pred HHHHHHHHCCCeEEEEecCC---CC---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHH
Confidence 34456677899999875432 11 446778889999999999988766 88899999743 3345566788999
Q ss_pred HHhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCC
Q 002309 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (938)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~ 250 (938)
++.+.| +.+....... .+.++....+.++.++.+++-.+.+..+.+..+++++++.|+..
T Consensus 150 a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~d~A~g~~~al~~~g~~~ 210 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD----WDQAVAQKAVADFLASNPDVDGIWTQGGDAVGAVQAFEQAGRDI 210 (272)
T ss_pred HHHHCCCcEEEeecCCC----CCHHHHHHHHHHHHHhCCCcCEEEecCCCcHHHHHHHHHcCCCC
Confidence 998887 7765322111 22455666777776555443333333323888999999999843
No 117
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.49 E-value=4.4e-05 Score=78.45 Aligned_cols=205 Identities=14% Similarity=0.115 Sum_probs=143.3
Q ss_pred CCCeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 002309 27 ARPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (938)
Q Consensus 27 ~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s 106 (938)
...+.++||+....+-+.=.....|++-|+++.-. ..+++.+.+.++|+..+...++++..++.++|++-. +
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~G~-------~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~-t 97 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDAGY-------KNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIA-T 97 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhcCc-------cCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecC-C
Confidence 34566778888888754435567777777776521 167888899999999999999999998777777633 4
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCC--C--CCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEc-Cccccc
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSS--L--QYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD-NEYGRN 179 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~--~--~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d-~~~g~~ 179 (938)
..+.++..-.. ++|++-.+.+++.-.. + .-|.--=+.-||..-...-.+++++. +-++++++|.. .+....
T Consensus 98 p~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~ 175 (322)
T COG2984 98 PAAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVS 175 (322)
T ss_pred HHHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHH
Confidence 44554443333 3999977776654222 1 12333446667776677777777765 88999999954 557888
Q ss_pred hHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh---hHHHHHHHHHHcCC
Q 002309 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS---LGFQVFSVAKYLGM 248 (938)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~---~~~~~l~~a~~~g~ 248 (938)
..+.++..+++.|++|... .++ ...|....++.+. .++|+|++.++.. ....+++.|.+.+.
T Consensus 176 l~eelk~~A~~~Gl~vve~-~v~-----~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 176 LVEELKKEARKAGLEVVEA-AVT-----SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHCCCEEEEE-ecC-----cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 8999999999999998743 232 2456777777776 5799999987764 34456777877665
No 118
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.39 E-value=2.6e-05 Score=84.28 Aligned_cols=318 Identities=11% Similarity=0.094 Sum_probs=188.3
Q ss_pred CeeEEEEEEeeCC---CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 002309 29 PAVVNVGALFTLD---STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQC 105 (938)
Q Consensus 29 ~~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~ 105 (938)
..+=+|++++|++ +..|.....||..|-. -+... ++-..++.++|+...+..++- .....+|+..||||..
T Consensus 255 ~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~---~~~~~~~~i~dT~~~~l~~i~--aqaqq~G~~~VVGPLl 328 (604)
T COG3107 255 ASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQ---TAQVAELKIYDTSAQPLDAIL--AQAQQDGADFVVGPLL 328 (604)
T ss_pred CCchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccC---CccccceeeccCCcccHHHHH--HHHHhcCCcEEecccc
Confidence 3467899999999 4456777888887765 22221 333477888999877655432 1233459999999999
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALN 185 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~ 185 (938)
....+.+..--. ..||++....++..- ..+......-+.+.+++..++.+-.-|.+...++.+.+++|+...++|.
T Consensus 329 K~nVe~L~~~~q-~~i~vLALN~~~n~r---~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~ 404 (604)
T COG3107 329 KPNVEALLASNQ-QPIPVLALNQPENSR---NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFN 404 (604)
T ss_pred chhHHHHHhCcC-CCCceeeecCCcccc---CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHHH
Confidence 988887665443 678888754433221 2344555555666678999999999999999999999999999999999
Q ss_pred HHHhhcceEEEEEeecCCCC--------------CCChhhHHHHH----HHHhcCC-ceEEEEEeChhhHHHHHHHHHHc
Q 002309 186 DKLAERRCRISYKSGIPPES--------------GVNTGYVMDLL----VKVALME-SRVIVLHVSPSLGFQVFSVAKYL 246 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~--------------~~~~~d~~~~l----~~lk~~~-~~viv~~~~~~~~~~~l~~a~~~ 246 (938)
+.+++.|...+....|.... .....+..... ..+.+.. .|.|++...+..+..+=-...-.
T Consensus 405 ~~Wq~~gg~~v~~~~fg~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IKP~ia~~ 484 (604)
T COG3107 405 QEWQKLGGGTVLQQKFGSTSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIKPMIAMA 484 (604)
T ss_pred HHHHHhcCCchhHhhcCcHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHhhHHHhh
Confidence 99999887433322221100 00011111000 1122223 78888888887766554333322
Q ss_pred CCCCCCeEEEEeCcchhcccCCCCChhhhhccccEEEEEE---cCCCChhhHHHHHHHhhhcCCCCCCCchhhHHhHHHH
Q 002309 247 GMMGNGYVWIATDWLAYMLDSASLPSETLESMQGVLVLRQ---HIPESDRKKNFLSRWKNLTGGSLGMNSYGLYAYDSVW 323 (938)
Q Consensus 247 g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~ 323 (938)
+.....-.+..+.... ....++....++|+..... ..++.|..+.....|... |..+.
T Consensus 485 ~~~~~~p~yaSSr~~~-----gT~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~--------------~sl~R 545 (604)
T COG3107 485 NGSDSPPLYASSRSSQ-----GTNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND--------------YSLAR 545 (604)
T ss_pred cCCCCcceeeeccccc-----cCCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc--------------hHHHH
Confidence 2211112333322211 1112355567788665432 234556666666666532 23445
Q ss_pred HHHHHHHHHHhcCCcccccCCccccccCCCccccCCccccCchHHHHHH------HhcCcccccccceEEcCCCCCccce
Q 002309 324 LLAHAIESFFNQGGKISFSNDSRLKTMEGGNLHLGAMSIFDDGMLLLGN------ILQSNLVGLTGPLKFNSDRSLIHAA 397 (938)
Q Consensus 324 ~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~------l~~~~f~G~tG~v~F~~~g~~~~~~ 397 (938)
++|.+++. +.|..+ ......+|+||.++-|+++. +...
T Consensus 546 LyAmGvDA-----------------------------------wrLan~f~elrqV~G~~i~G~TG~Lsad~~c~-I~R~ 589 (604)
T COG3107 546 LYAMGVDA-----------------------------------WRLANHFSELRQVPGYQIDGLTGTLSADPDCV-IERK 589 (604)
T ss_pred HHHhcchH-----------------------------------HHHHHHhHHhhcCCCcccccccceeecCCCce-Eeec
Confidence 55544443 122222 23335789999999999875 4455
Q ss_pred EEEEEeeccceEEE
Q 002309 398 YDIINVIGTGFRMI 411 (938)
Q Consensus 398 ~~I~~~~~~~~~~V 411 (938)
..=.+++.++.++|
T Consensus 590 l~Waqy~~G~vvP~ 603 (604)
T COG3107 590 LSWAQYQQGQVVPV 603 (604)
T ss_pred chHHHhcCCCeeeC
Confidence 44445555555554
No 119
>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=98.39 E-value=6.4e-05 Score=80.23 Aligned_cols=199 Identities=10% Similarity=0.060 Sum_probs=126.5
Q ss_pred EEEEEeeC-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEE-EcCCChhHHH
Q 002309 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~av-iGp~~s~~~~ 110 (938)
+||++.|. +..+-.....+++.+.++ .|+.+.+...|+..++....+....++.++|.++ +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK--------LGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH--------hCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999985 333333444555555554 2567777666777777766677777888888875 5665544444
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--ccccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~l~~ 186 (938)
+....+...++|+|......+ ....+ .+.+++...++..++++... |.++++++.... .........+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKLI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCCC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 455667788999998644221 11112 35677788889999988766 889999997432 233455678999
Q ss_pred HHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe-ChhhHHHHHHHHHHcCCC
Q 002309 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~-~~~~~~~~l~~a~~~g~~ 249 (938)
++++. |+++..... .. ....+....++++....+++-.+.+ +...+..+++.+++.|+.
T Consensus 147 ~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 147 AIKKASGIEVVASQP--AD--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHhhCCCcEEEEecC--CC--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 99998 887653221 11 2234455566666554444434444 445566788888988874
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=98.29 E-value=4.6e-05 Score=80.78 Aligned_cols=203 Identities=12% Similarity=0.103 Sum_probs=125.6
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||++.|.. .++-.....+++.+.++ . |+.+.+ .++..++....+...+++.+++.+||....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~----~----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARA----A----GYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHH----C----CCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 478899854 33323344455554433 1 454444 556667776667777788888988875333222233
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc---CccccchHHHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALNDKL 188 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~l~~~l 188 (938)
....+...++|+|......+ ...++ +..++...+..+++++...|.++++++..+ .+++....+.+.+.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 55667788999998643321 22333 346777889999999888899999999742 335666788999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHH-hcC-CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKV-ALM-ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l-k~~-~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++.|+.+........ ...+....+.++ ++. .+++|+. ++...+..+++++++.|+..++-+-+.
T Consensus 144 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di~v~ 209 (266)
T cd06282 144 RAAGLAPLPPVEIPF----NTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDLSVV 209 (266)
T ss_pred HHcCCCCCccccCCC----cHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 998876433222221 123333444443 333 4566555 456667789999999998654434333
No 121
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.29 E-value=0.00019 Score=77.47 Aligned_cols=202 Identities=8% Similarity=0.088 Sum_probs=121.7
Q ss_pred CCeeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcE-EEEcCCC
Q 002309 28 RPAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIV-AIIGPQC 105 (938)
Q Consensus 28 ~~~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~-aviGp~~ 105 (938)
....-+||+++|.. .++-.....+++.+.++. |+++ .+.++..++.........++.+++. +|++|..
T Consensus 23 ~~~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~ 92 (295)
T PRK10653 23 AMAKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTD 92 (295)
T ss_pred cccCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence 33456899999853 433345556666666652 3444 4466777777777777777777776 4556665
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CCc-EEEEEEEc--CccccchH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWN-AVSVIFVD--NEYGRNGV 181 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w~-~vaii~~d--~~~g~~~~ 181 (938)
+.........+...++|+|.+.... . ..+.+..+.+++..-+..+++++... +.+ +++++..+ ........
T Consensus 93 ~~~~~~~l~~~~~~~ipvV~~~~~~---~--~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~ 167 (295)
T PRK10653 93 SDAVGNAVKMANQANIPVITLDRGA---T--KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERG 167 (295)
T ss_pred hHHHHHHHHHHHHCCCCEEEEccCC---C--CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHH
Confidence 5544445567777899999875321 1 11234456677776678888876654 543 56665532 22344667
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEE-eChhhHHHHHHHHHHcCC
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~-~~~~~~~~~l~~a~~~g~ 248 (938)
+.+.+++++.|..+... .... .+..+....+.++.+..++.-.+. .+...+..+++++++.|+
T Consensus 168 ~gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~ 231 (295)
T PRK10653 168 EGFKQAVAAHKFNVLAS--QPAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK 231 (295)
T ss_pred HHHHHHHhhCCCEEEEe--cCCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC
Confidence 88999999999876422 1111 123334445556654444433333 344455568999999887
No 122
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.21 E-value=0.00021 Score=75.81 Aligned_cols=203 Identities=11% Similarity=0.110 Sum_probs=125.6
Q ss_pred EEEEEeeC-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEE-EEcCCChhHHH
Q 002309 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVA-IIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~a-viGp~~s~~~~ 110 (938)
.||++.|. ++.+-.....+++.+.++. |+.+ .+.++..++....+...+++.+++.+ |++|..+....
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~ 70 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVV 70 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH
Confidence 37888885 3444456667777777662 3444 45667777777777777777778887 55665554433
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEc--CccccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVD--NEYGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d--~~~g~~~~~~l~~ 186 (938)
.....+...++|+|......+ ..+.+-.+..++...+..+++++... +-+++++++.+ ..++....+.+.+
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 145 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHE 145 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 444455678999998754321 11223346666676788888887776 77999999853 3456666788899
Q ss_pred HHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++. |+++....... .+..+....+.++.+.. +++ +++.+...+..+++++++.|+ ++...++
T Consensus 146 ~l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~--~di~iig 212 (268)
T cd06323 146 VVDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK--DDVKVVG 212 (268)
T ss_pred HHHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC--CCcEEEE
Confidence 99984 77754321111 12233334455554333 344 334444556668889999887 3334444
No 123
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=98.12 E-value=0.00014 Score=77.19 Aligned_cols=202 Identities=16% Similarity=0.128 Sum_probs=125.7
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE--cCCChhHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi--Gp~~s~~~ 109 (938)
+||++.|.. ..+-.....+++.++++. |+.+ .+.|+..++.........+++++|.++| ++..+
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTL--LVASSGYDLDREYAQARKLLERGVDGLALIGLDHS--- 67 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC---
Confidence 489999853 333334445555555442 3444 4467778888777777788887776654 43322
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc---CccccchHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALND 186 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~l~~ 186 (938)
......+...++|+|......+. ...+ .+..++...+..+++.+...|.+++++|... ..++......|.+
T Consensus 68 ~~~~~~l~~~~iPvv~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06273 68 PALLDLLARRGVPYVATWNYSPD---SPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRA 141 (268)
T ss_pred HHHHHHHHhCCCCEEEEcCCCCC---CCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHH
Confidence 23334567789999987543221 1223 3556788889999998887899999999743 2345567888999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEE
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 256 (938)
++++.|+.+.....+... .+.++....+.++.+ ..+++|+. ++...+..+++++++.|+..++.+-+
T Consensus 142 ~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i~v 210 (268)
T cd06273 142 ALAEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDLSI 210 (268)
T ss_pred HHHHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCceEE
Confidence 999988654321111111 123334455556543 34666664 55666778899999999865544333
No 124
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.09 E-value=0.0013 Score=72.48 Aligned_cols=200 Identities=11% Similarity=-0.017 Sum_probs=115.6
Q ss_pred CeeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCCh
Q 002309 29 PAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCS 106 (938)
Q Consensus 29 ~~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s 106 (938)
..+-+||++.|.. +.+-.....+++-+.++. |+.+.+...+...+...-......++++++.+|| .|...
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~--------G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~ 115 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL--------GVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTP 115 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCCh
Confidence 3478999999874 322233445666555532 4555443322223444444555667777887765 45444
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-----CCcEEEEEEEcC--ccccc
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-----GWNAVSVIFVDN--EYGRN 179 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-----~w~~vaii~~d~--~~g~~ 179 (938)
....... .+...++|+|.+..... .+. ....+..++...+...++++... |-++++++..+. .....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3322222 45678999997632211 111 12346677788888888876654 478999987432 23334
Q ss_pred hHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 180 GVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 180 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
..+.+++.+++.|+++... .... .+.+.....++++.+ .++++|+ +....+..+++.+++.|+
T Consensus 190 R~~Gf~~~l~~~~i~~~~~-~~~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~ 254 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDI-AYGD---NDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL 254 (343)
T ss_pred HHHHHHHHHhcCCCEEEEe-ecCC---CcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC
Confidence 5678889998888876542 1111 122233344444432 2467775 344567778888888887
No 125
>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=98.07 E-value=0.00041 Score=73.96 Aligned_cols=201 Identities=13% Similarity=0.073 Sum_probs=121.2
Q ss_pred EEEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHH
Q 002309 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~ 109 (938)
.||+++|.. ..+......+++.+.++. |+. +.+.++..++....+....++.++|.+|| .|..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVE--VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCE--EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 378899863 555566677777777762 344 44567777887777777778888888774 45444433
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEE-ecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCcc--ccchHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVR-TTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY--GRNGVSAL 184 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r-~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~~--g~~~~~~l 184 (938)
......+...++|+|...... .....++.+. +.+++...+...++.+.+. +-++|+++..+.++ +....+.+
T Consensus 71 ~~~l~~~~~~~iPvV~~~~~~---~~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 71 IPGLRKAKQAGIPVVITNSNI---SEKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHHHCCCcEEEeCCCC---CCCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 344455678899999765432 1222344332 3455556677777776554 67899999754333 34456788
Q ss_pred HHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHh-c--CCceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-L--MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk-~--~~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
++++++.|..+......... ....+....+.++- + ..++.|+. ++...+..+++++++.|+.
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc
Confidence 89999886432221111111 11223333344432 2 23566664 4445577899999999985
No 126
>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=98.04 E-value=0.00061 Score=72.69 Aligned_cols=199 Identities=8% Similarity=0.085 Sum_probs=120.2
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEE-EcCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~av-iGp~~s~~~~ 110 (938)
+||++.|.. ..+-.....+++.+.++ . |+++ .+.++..++.........++..++.++ ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~----~----g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKA----L----GYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHh----c----CCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 478888854 32222333444444333 1 4444 456777788777777777887788877 5666555445
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEc--CccccchHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVD--NEYGRNGVS 182 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------~w~~vaii~~d--~~~g~~~~~ 182 (938)
.....+...++|+|.+.... . ...++..+.+++...+..+++++.+. |-++++++... ...+....+
T Consensus 71 ~~l~~~~~~~ipvV~~~~~~---~--~~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (277)
T cd06319 71 TLLKLAAQAKIPVVIADIGA---E--GGDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTK 145 (277)
T ss_pred HHHHHHHHCCCCEEEEecCC---C--CCceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHH
Confidence 55667778899999864321 1 11233446667666677777765443 66899999743 344667788
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEE-EEeChhhHHHHHHHHHHcCCC
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV-LHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv-~~~~~~~~~~~l~~a~~~g~~ 249 (938)
.+++.+++.|+.+.... ...+ .+..+....++++.+..++... ++.....+..+++++++.|+.
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC
Confidence 99999999987654221 1111 1233444555555444454433 333444566789999999985
No 127
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=98.00 E-value=0.00095 Score=70.98 Aligned_cols=207 Identities=12% Similarity=0.105 Sum_probs=124.6
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||+++|.. .++-.....+++-+.++ . .|+. +.+.++..++..-.+....+++.+|.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~------~-~~~~--~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKV------L-GGVE--LQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHH------c-CCcE--EEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589999854 33323344455544444 1 2344 44567777887777777778888888775 565554444
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--ccccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~l~~ 186 (938)
.+...+...++|+|......+.. .+.+..+..++...+..+++.+... +-++++++.... .......+.+.+
T Consensus 72 ~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 72 PIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 55556788899999864432111 1234457778888888888887655 456999997432 334455688899
Q ss_pred HHhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++.| +.+... .... .+.......++++-+. .+++| ++.+...+..+++.+++.|....+...++
T Consensus 148 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg 216 (272)
T cd06301 148 VLAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAG 216 (272)
T ss_pred HHHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEe
Confidence 998887 443321 1111 1222333444554332 34553 44455667789999999998632444444
No 128
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.97 E-value=0.0021 Score=68.42 Aligned_cols=207 Identities=11% Similarity=0.015 Sum_probs=119.9
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~ 110 (938)
|||++.|.- ..+-.....+++.+.++ .|+++.+...++..++....+....++..++.+||- +.......
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689998763 32222333444433333 256666654444567777677777777778887774 33322223
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCcc--ccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY--GRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~~--g~~~~~~l~~ 186 (938)
.....+...++|+|......+ + ..+ +-.+.+++...+..+++++... |.++++++....++ .......+.+
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~---~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLN---S-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 344445568999998643211 1 011 2235566667778888887766 89999999743332 3345678889
Q ss_pred HHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~v-iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++. |+.+... .... .+..+....+.++....+++ .+++.+...+..+++.+++.|+. .+...++
T Consensus 148 a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig 215 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVG 215 (273)
T ss_pred HHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEE
Confidence 99888 7765431 1111 12233344555554333333 34444556677899999999985 3444444
No 129
>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=97.95 E-value=9.4e-05 Score=79.41 Aligned_cols=116 Identities=19% Similarity=0.306 Sum_probs=74.6
Q ss_pred CCCCChHHhhhCCCCeeEEe-CchHHH-----HHHHhcccccc---cccccC-CHHHHHHHHhcCCCCCceEEEEecchh
Q 002309 688 SPINGIESLRKSDDPIGYQE-GSFAEY-----YLSQELNISKS---RLVALR-TPEDYAKALKDGPGKGGVAAVVDERPY 757 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~-~s~~~~-----~~~~~~~~~~~---~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~~~~~ 757 (938)
.+|++++||. |++|++.. ++.... .+.+..+.... +.+.+. +..+.+.+|.+ |++|+++.+...
T Consensus 125 s~i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~----G~vDa~~~~~~~ 198 (288)
T TIGR03431 125 SPIKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVAN----GTVDAATTNDEN 198 (288)
T ss_pred CCCCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHc----CCCCeEeccHHH
Confidence 4689999996 88899863 332211 22222332211 123344 67889999999 899999998877
Q ss_pred HHHHHhcC-----CcEEEeCccccccceEeeecCCC-c-chhhHHHHHHhhhccCcHHH
Q 002309 758 VELFLSSQ-----CSFRIVGQEFTKSGWGFAFPRDS-P-LAVDLSSAILELAENGDLQR 809 (938)
Q Consensus 758 ~~~~~~~~-----~~l~~~~~~~~~~~~~~~~~k~s-p-l~~~i~~~il~l~e~G~~~~ 809 (938)
+..+..+. .++.+..........+++++++- + +++.++++|.++.+++..++
T Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~ 257 (288)
T TIGR03431 199 LDRMIRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACF 257 (288)
T ss_pred HHHHHHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHH
Confidence 76665432 12444432111224578889984 3 99999999999999965544
No 130
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.95 E-value=0.0019 Score=68.62 Aligned_cols=199 Identities=13% Similarity=0.070 Sum_probs=126.3
Q ss_pred EEEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCC-ChHHHHHHHHHHHhcCcEEEEc-CCChhH
Q 002309 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIG-PQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~V~aviG-p~~s~~ 108 (938)
|||++.|.. ..+-.....+++.|.++. |+.+.+. ++.. ++.........++.+++.++|. |.....
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~--------g~~v~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 70 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL--------GVDVEYR--GPETFDVADMARLIEAAIAAKPDGIVVTIPDPDA 70 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh--------CCEEEEE--CCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 588999864 344455667777777762 4555444 4444 7777777777788888887775 333332
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEc--CccccchHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVD--NEYGRNGVSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~vaii~~d--~~~g~~~~~~l~ 185 (938)
.......+...++|+|......+... ..+.+..+..++...+..+++++.+ .|-++++++..+ ...+....+.+.
T Consensus 71 ~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~ 148 (271)
T cd06312 71 LDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFA 148 (271)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHH
Confidence 33344455678999998754322211 1244566788888999999999888 899999998743 334556788899
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
+++++.|+.+.. +... .+..+....++++-.. ++++|+ +.+...+..+++.+++.|+.
T Consensus 149 ~~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~-~~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 149 DGLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVL-TLGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEE-EeCCccchHHHHHHHhcCCC
Confidence 999888765431 1111 1233344455555333 345443 34456677788888888875
No 131
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.95 E-value=0.0011 Score=69.76 Aligned_cols=202 Identities=9% Similarity=0.055 Sum_probs=136.9
Q ss_pred EEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002309 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (938)
Q Consensus 34 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~ 111 (938)
||++.|.. ..+-.....+++.|.++.+ ..+.+. .|...|+..-.+.+.+++++++.+|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g--------~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELG--------YEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHT--------CEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcC--------CEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 78888886 3455567888888888864 444444 78889998888899999999988775 6777766666
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCC--cEEEEEEEcC--ccccchHHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW--NAVSVIFVDN--EYGRNGVSALNDK 187 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w--~~vaii~~d~--~~g~~~~~~l~~~ 187 (938)
...-+...+||+|++... .....+....+.+++...+..+++.+....- .+++++.... .........+.+.
T Consensus 72 ~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 677788889999986544 1122355667778888899999998765422 6788775433 3334567888888
Q ss_pred Hhh-cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCC
Q 002309 188 LAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (938)
Q Consensus 188 l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 251 (938)
+++ .++++...... .. .+.+.....+.++-...+-..|++++...+..+++.+++.|+...
T Consensus 148 l~~~~~~~~~~~~~~-~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 888 46666653222 12 235555655655554444223355666677778999999898443
No 132
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=97.85 E-value=0.0011 Score=70.23 Aligned_cols=201 Identities=13% Similarity=0.088 Sum_probs=121.3
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHH-hcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li-~~~V~aviGp~~s~~~~ 110 (938)
.||++.|.. +.+......|++.+.++ .|+.+.+...|... ......+.+++ ..++.++|.........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNP 70 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCcc
Confidence 378999864 45556667777777763 25666665554332 22344555544 55888887644332233
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCcc--ccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~--g~~~~~~l~~~l 188 (938)
...+.+...++|+|......+. ..+++ +..+....+..+++.+...|.++++++..+..+ .......+.+++
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 144 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDAL 144 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHH
Confidence 4455667789999987554322 12232 446777778888898888899999999855443 234467788899
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 252 (938)
++.|+.+......... ....+....+.++.+ .++++|+ +++...+..+++++++.|...++
T Consensus 145 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~ 207 (270)
T cd01545 145 AEAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPD 207 (270)
T ss_pred HHcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 8888764210011111 111222234444433 3466666 44557778899999999975443
No 133
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.85 E-value=0.0018 Score=68.79 Aligned_cols=206 Identities=10% Similarity=-0.015 Sum_probs=122.6
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcC-CChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGP-QCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp-~~s~~~~ 110 (938)
+||++.|.. ..+-.....+++-+.++. |+.+ .+.++..++.........++..++.+||.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~--~~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL--------GGDL--RVYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc--------CCEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 488888853 333334555665555543 3444 446777788777777777888889888763 3333333
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh--cCCcEEEEEEEc-CccccchHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSALNDK 187 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~--~~w~~vaii~~d-~~~g~~~~~~l~~~ 187 (938)
.+...+...++|+|......+. +.+..+.+++...++.+++++.. .|.++|+++... ..........+.+.
T Consensus 71 ~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~ 144 (273)
T cd06305 71 PWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAV 144 (273)
T ss_pred HHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHH
Confidence 4445567789999987443211 22334667778888888888766 588999999743 22233445677888
Q ss_pred Hhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceE---EEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 188 LAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALMESRV---IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 188 l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~v---iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++.+ +.+......... .+.++....++++....++. .+++.+...+..++..+++.|+.. +...++
T Consensus 145 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig 215 (273)
T cd06305 145 LKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYG 215 (273)
T ss_pred HHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEE
Confidence 88777 554432111111 12333444555554334433 233344556777888989988753 333444
No 134
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.83 E-value=0.0022 Score=68.23 Aligned_cols=208 Identities=10% Similarity=0.052 Sum_probs=123.2
Q ss_pred EEEEEeeC-CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTL-DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~-~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|. +++ +...+.-.+++.-+.. |+++. +.++..+...-.+....++.+++.+|| .|.......
T Consensus 1 ~~g~~~~~~~~~----~~~~~~~~~~~~a~~~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESP----WRTAETKSIKDAAEKR----GFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCH----HHHHHHHHHHHHHHhc----CCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 48999994 333 3333333444443332 44444 456666766666677778887887764 454443333
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCc--cccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~--~g~~~~~~l~~ 186 (938)
.....+...++|+|.+....+. ....+++.++.+++...+...++.+... +-++++++..+.. ......+.+.+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 71 PVLKEAKAAGIPVILVDRGVDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHHHCCCCEEEEecCcCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 3445567789999987643211 1112456778889888899999988776 8889999975432 23345678889
Q ss_pred HHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++. +.++... .... ....+....+.++.+. .+++| ++.+...+..+++++++.|+..++-+-+.
T Consensus 149 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~ii 218 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGD--FTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIV 218 (273)
T ss_pred HHHHCCCCEEeec--cCCc--ccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEE
Confidence 99886 4544321 1111 1233334445555433 34544 33344555678888999998655444444
No 135
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.75 E-value=0.0023 Score=67.80 Aligned_cols=202 Identities=10% Similarity=0.045 Sum_probs=120.2
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||+++|.. ..+-.....+++-+.++. |+.+.+. .+..++..-.+....++..++.+||-..+. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~-~~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILS--NSDNDKEKELKVLNNLLAKQVDGIIFMGGK-ISEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhcCCEEEEeCCC-CcHH
Confidence 478888864 332233344444444332 4555444 344456555556666777788777732111 1123
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---ccccchHHHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDKL 188 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~---~~g~~~~~~l~~~l 188 (938)
+...+...++|+|.+....+ ....+ .+.+++...++.+++++...|-++++++..+. ..+......+.+.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 44456677999998754321 11222 35677788888899988888999999998433 35667788999999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHHcCCCCCCeE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 254 (938)
++.|+.+.....+... .+.......++++.+.. +++|+. ++...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di 207 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDF 207 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccce
Confidence 9988654221111111 11223334555555444 667665 444557789999999998655433
No 136
>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=97.69 E-value=0.0099 Score=63.22 Aligned_cols=202 Identities=10% Similarity=0.025 Sum_probs=117.8
Q ss_pred EEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002309 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (938)
Q Consensus 34 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~ 111 (938)
||++.|.. ..+-.....+++-+.++....+ .| +.+.+.+...++.........++.+++.+|| .|........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY---PD--VEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC---CC--eEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 78888643 4343455667777766664432 23 4455567666665555555557777777665 4444333233
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-ccccchHHHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDKL 188 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~l~~~l 188 (938)
....+...+||+|.+....+ ... .....+.++....+...++++... +.++|+++.... .......+.+.+.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 33445678999998754321 111 112236677777788888887765 788999997433 23334567889999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
++.|+++... .... .+.......+.++-+. ++++|+.. +...+..+++++++.|..
T Consensus 153 ~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 153 AKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred hhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCC
Confidence 9888765432 2111 1223333444444322 35554443 444567788888888864
No 137
>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=97.69 E-value=0.0033 Score=66.53 Aligned_cols=198 Identities=11% Similarity=0.010 Sum_probs=116.5
Q ss_pred EEEEeeCCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 34 VGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 34 IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
||++.|..+ .+-.....+++-|.++ . |+.+ .+.|+..++.........+...+|.++|......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~----~----g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE----A----GYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH----c----CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 788888643 2223344444444444 2 4444 4567777776666666667777888877532222212 2
Q ss_pred HHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHHHHHHHhh
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLAE 190 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~l~~~l~~ 190 (938)
.... ..++|+|......+ . +.+..+..++...+...++++...|.++++++..+ +..+....+.|.+++++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2333 34999997642211 1 22334667778888889998888899999999753 33556677889999998
Q ss_pred cceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCC
Q 002309 191 RRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 191 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 252 (938)
.|+.+......... .+.++....+.++-+. .+++|+.. +...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p~ 204 (267)
T cd06284 144 AGLPADEELIQEGD--FSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRVPE 204 (267)
T ss_pred cCCCCCcceEEeCC--CChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCcc
Confidence 88543211111111 1123333445554332 35665554 445567788999998875433
No 138
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.65 E-value=0.015 Score=63.78 Aligned_cols=209 Identities=11% Similarity=0.029 Sum_probs=111.5
Q ss_pred CCeeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCC
Q 002309 28 RPAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC 105 (938)
Q Consensus 28 ~~~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~ 105 (938)
...+.+||++.|.. ..+-.....+++-+.++ .+ +. .+++.++..++....+....++.++|.++|= |..
T Consensus 21 ~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~---~g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~ 91 (330)
T PRK15395 21 AAADTRIGVTIYKYDDNFMSVVRKAIEKDAKA---AP----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLVD 91 (330)
T ss_pred hcCCceEEEEEecCcchHHHHHHHHHHHHHHh---cC----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeccC
Confidence 44578999999743 32222334444444433 22 22 3444566656655555556677778887663 333
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------------CCcEEEEEEEc
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------------GWNAVSVIFVD 173 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------------~w~~vaii~~d 173 (938)
+.........+...++|+|.+....+...-...+....+..++...+..+++++.+. +-.++++|...
T Consensus 92 ~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~ 171 (330)
T PRK15395 92 PAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGE 171 (330)
T ss_pred HHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecC
Confidence 332333334566789999998653211000111223345667777777666654432 33344545432
Q ss_pred --CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC----CceEEEEEeChhhHHHHHHHHHHcC
Q 002309 174 --NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM----ESRVIVLHVSPSLGFQVFSVAKYLG 247 (938)
Q Consensus 174 --~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~----~~~viv~~~~~~~~~~~l~~a~~~g 247 (938)
..........+.+++++.|+.+.... .... ..+..+....++++-+. .+++|+ +++...+..+++++++.|
T Consensus 172 ~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~-~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~G 248 (330)
T PRK15395 172 PGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTA-MWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAHN 248 (330)
T ss_pred CCCchHHHHHHHHHHHHHhcCCCeeeee-cccC-CcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhcC
Confidence 22334457788999998887654321 2111 01223333445555332 345444 445566778999999988
Q ss_pred C
Q 002309 248 M 248 (938)
Q Consensus 248 ~ 248 (938)
+
T Consensus 249 l 249 (330)
T PRK15395 249 K 249 (330)
T ss_pred C
Confidence 7
No 139
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.65 E-value=0.025 Score=61.45 Aligned_cols=203 Identities=12% Similarity=0.050 Sum_probs=116.8
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHH-
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVA- 109 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~- 109 (938)
+||++.|.. .++-.....+++-+.++ .|+.+.+...+...+...-......++.+++.+||- |..+...
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKT--------LGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHH--------cCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 899999864 33223334444444433 256666554454556655566666777778877653 3333322
Q ss_pred HHHHHhhccCCccEEEcccCCCC--CCCCCCCceEEecCCchHHHHHHHHHHHh-cCC--cEEEEEEEcC--ccccchHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPT--LSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW--NAVSVIFVDN--EYGRNGVS 182 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~--l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w--~~vaii~~d~--~~g~~~~~ 182 (938)
..+.. +...+||++.+....+. +.........-+..+....+...++++.. .|- ++++++..+. .......+
T Consensus 98 ~~l~~-~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~ 176 (311)
T PRK09701 98 MPVAR-AWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRN 176 (311)
T ss_pred HHHHH-HHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHH
Confidence 33333 45679999987543221 11111112334677878888888988754 454 7999886433 33455678
Q ss_pred HHHHHHhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 183 ALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 183 ~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
.+++.+++.| +.+.... ... ....+....++++-+. ++++ |++.+...+..+++++++.|..
T Consensus 177 Gf~~al~~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 177 GATEAFKKASQIKLVASQ--PAD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred HHHHHHHhCCCcEEEEec--CCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC
Confidence 8899998887 6654321 111 1223334455555333 3554 3455556777889999998874
No 140
>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=97.64 E-value=0.0095 Score=64.47 Aligned_cols=208 Identities=7% Similarity=0.033 Sum_probs=115.2
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|.. ..+-.....+++-+.++.+ .| +.+.+.+...++..-.+....++.+++.+|| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~------~g--~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENG------GK--VEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhC------CC--eeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589999854 3332344556665555541 13 3455567777777666667778888887655 455544334
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCc---------E--EEEEEEcC--c
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWN---------A--VSVIFVDN--E 175 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~---------~--vaii~~d~--~ 175 (938)
.+...+...++|+|......+...-+..+-+..+.+++...+...++++... +-+ + ++++..+. .
T Consensus 73 ~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 73 TVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 4445567789999987543221111112224456677777777777776543 221 2 34454332 2
Q ss_pred cccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHh-cC--CceEEEEEeChhhHHHHHHHHHHcCCCCC
Q 002309 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-LM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (938)
Q Consensus 176 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk-~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 251 (938)
........+.+++++.|..+......... .+.+.....++++- +. ++++|+. .+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTAN--WDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCC--CCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcC
Confidence 23345677889998888764322111111 12233333445443 32 2455443 444556678888888887654
No 141
>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=97.60 E-value=0.013 Score=61.95 Aligned_cols=195 Identities=13% Similarity=0.127 Sum_probs=115.4
Q ss_pred EEEEEeeCCCc-chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002309 33 NVGALFTLDST-IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~~-~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~ 110 (938)
.||++.|.... +-.....+++.+.++ . |+.+ .+.++..++....+....++++++.++|- |..+....
T Consensus 1 ~i~~~~~~~~~~~~~~~~~~i~~~~~~----~----g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~ 70 (267)
T cd06322 1 VIGASLLTQQHPFYIELANAMKEEAKK----Q----KVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIR 70 (267)
T ss_pred CeeEeecCcccHHHHHHHHHHHHHHHh----c----CCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhH
Confidence 37888886532 222334444444432 2 4444 44566667776677777788888887764 44433323
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-ccccchHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDK 187 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~l~~~ 187 (938)
.....+...++|+|.+....+ ..+.+..+.+++...+...++++... |-+++++++..+ .......+.++++
T Consensus 71 ~~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~ 145 (267)
T cd06322 71 AAIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEA 145 (267)
T ss_pred HHHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHH
Confidence 333446678999998743211 11223346677777788888887765 788999997432 2334456888899
Q ss_pred Hhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 188 l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
+++. |+.+... ... ...+.....+.++... ++++| ++++...+..+++++++.|.
T Consensus 146 ~~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 146 LADYPNIKIVAV---QPG--ITRAEALTAAQNILQANPDLDGI-FAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHhCCCcEEEEe---cCC--CChHHHHHHHHHHHHhCCCCCEE-EEcCCcHHHHHHHHHHHCCC
Confidence 9988 8876421 111 1123333444444322 35543 34445566778889999887
No 142
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.59 E-value=0.0034 Score=66.46 Aligned_cols=202 Identities=11% Similarity=0.045 Sum_probs=119.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||++.|.. ..+-.....+++.+.++. |+++ .+.++..++..-.+....++++++.++|...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTV--FLANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 478898864 333344556666665542 4444 33455556665556666777778888876443332223
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l~ 189 (938)
....+...++|+|......+. ... -.+.+++...+..+++.+...|-++|+++..+. .......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~~---~~~---~~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVAG---APF---DYVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCCC---CCC---CEEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 445667789999987433211 112 235667777888888888878999999987432 345566788999998
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCe
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 253 (938)
+.|..+.....+... .+.+.....++++-.. .+++|+ +.+...+..+++++++.|+..++-
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~d 207 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRD 207 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 887432211111111 1122333444444333 345544 334455667889999988865433
No 143
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.57 E-value=0.021 Score=62.36 Aligned_cols=211 Identities=11% Similarity=0.105 Sum_probs=131.9
Q ss_pred eeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEE-EcCCChhH
Q 002309 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAI-IGPQCSTV 108 (938)
Q Consensus 30 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~av-iGp~~s~~ 108 (938)
...+||++.+.... .+..++.-++++.-+.- |....+...|...|+..-.+...+++.+++.+| |.|.++..
T Consensus 32 ~~~~i~~~~~~~~~---~f~~~~~~g~~~~a~~~----g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~ 104 (322)
T COG1879 32 AGKTIGVVVPTLGN---PFFQAVRKGAEAAAKKL----GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDA 104 (322)
T ss_pred cCceEEEEeccCCC---hHHHHHHHHHHHHHHHc----CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 34889999987632 23444444444443332 225667778888888888888999998899766 58888888
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCC-cEEEEEEEc--CccccchHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGW-NAVSVIFVD--NEYGRNGVSAL 184 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w-~~vaii~~d--~~~g~~~~~~l 184 (938)
......-+...+||+|++....+.- ......+..+....+...++++.+ ++- -+++++... ..........+
T Consensus 105 ~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~ 180 (322)
T COG1879 105 LTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGF 180 (322)
T ss_pred hHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhH
Confidence 8889999999999999875543322 123334444666666666776543 322 346666633 33445567889
Q ss_pred HHHHhhcce--EEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHHHcCCCCCCeEEEE
Q 002309 185 NDKLAERRC--RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 185 ~~~l~~~g~--~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
.+.+++.+. .+... ...+ .+.+.-......+-...+++-.+++... .+.-..+++++.|... .+.+.
T Consensus 181 ~~~l~~~~~~~~v~~~--~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 181 RDALKEHPPDIEVVDV--QTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred HHHHHhCCCcEEEeec--cCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEE
Confidence 999998874 43322 2222 2244444555666566677766655544 4445556666677644 34444
No 144
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=97.54 E-value=0.0073 Score=63.92 Aligned_cols=203 Identities=12% Similarity=0.104 Sum_probs=117.0
Q ss_pred EEEEeeCC-----CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChh
Q 002309 34 VGALFTLD-----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCST 107 (938)
Q Consensus 34 IG~i~~~~-----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~ 107 (938)
||+++|.. ..+-.....+++.+.++ .|+.+.+...+.. ....+.+.+++.+ ++.++|...+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE--------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH--------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78999862 33333444555444433 2566666554433 2233445566554 688777533322
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~ 185 (938)
.... ...+...++|+|.+....+ +..+++ +.+++...+..+++++...|-++++++.... ..+....+.+.
T Consensus 71 ~~~~-~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDPR-VALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CChH-HHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 2222 3445678999998743321 122343 4467777788888888888999999997433 23445678899
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.+++.|..+.....+... .+.......++++-+. .+++|+.. +...+..+++++++.|+..++.+-+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 9999888654221111111 1223334445554332 35665554 45566778899999998765444443
No 145
>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=97.51 E-value=0.018 Score=61.55 Aligned_cols=212 Identities=8% Similarity=-0.001 Sum_probs=114.2
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC--CChHHHHHHHHHHHhcCcEEEEcCCChh-HH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMETDIVAIIGPQCST-VA 109 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~--~~~~~a~~~a~~li~~~V~aviGp~~s~-~~ 109 (938)
+||+++|..... .....+.-.+++.=++. |+.+.+...++. .++..-......++.++|.+||=...+. ..
T Consensus 1 ~Igvi~~~~~~~--~~~~~~~~~i~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQIS--DYWVRNIASFTARLEEL----NIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccHH--HHHHHHHHHHHHHHHHc----CCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhH
Confidence 589999863210 11122222333332232 455666544433 2444445555567777888776432222 22
Q ss_pred HHHHHhhccCCccEEEccc-CCCCCCCCCCCceEEecCCchHHHHHHHHHHHh--cCCcEEEEEEEc-CccccchHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGV-TDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWNAVSVIFVD-NEYGRNGVSALN 185 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~-~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~--~~w~~vaii~~d-~~~g~~~~~~l~ 185 (938)
..+..+. ..++|.+.... ..+.-.....+..-.+.+++...+..+++.+.. .|.++++++... ........+.++
T Consensus 75 ~~~~~l~-~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~ 153 (280)
T cd06303 75 KLIERVL-ASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFI 153 (280)
T ss_pred HHHHHHH-hCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHH
Confidence 3344433 45667665422 222100000122344667777778888888776 799999999743 233345567889
Q ss_pred HHHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++++. |+.+... +... .+..+....+.++-+.. +++| ++++...+..+++++++.|+. .+...++
T Consensus 154 ~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~nd~~A~g~l~al~~~G~~-~dv~vvg 222 (280)
T cd06303 154 DCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFI-YACSTDIALGASDALKELGRE-DDILING 222 (280)
T ss_pred HHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEE-EECCcHHHHHHHHHHHHcCCC-CCcEEEe
Confidence 999887 7664322 2212 22333344555554333 4544 455556777899999999985 3444444
No 146
>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=97.51 E-value=0.005 Score=65.23 Aligned_cols=203 Identities=9% Similarity=0.031 Sum_probs=119.9
Q ss_pred EEEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
.||+++|.. +.+-.....+++.+.++ . |+.+.+ .++..++..-......+...++.++|-........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~----~----g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAARE----H----GYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHREV 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHH----C----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChh
Confidence 489999874 33333455566555544 1 454433 44544554444555567677787777533321111
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~l 188 (938)
.......++|++......+. .. +..+.+++...+..+++++...|-++++++..+.. ......+.+.+.+
T Consensus 71 --~~~~~~~~ipvv~~~~~~~~---~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 --TLPPELLSVPTVLLNCYDAD---GA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred --HHHHHhcCCCEEEEecccCC---CC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 12234578999986543221 12 23466788888899999888779999999975432 3345678889999
Q ss_pred hhcceEEEE--EeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEe
Q 002309 189 AERRCRISY--KSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (938)
Q Consensus 189 ~~~g~~v~~--~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 258 (938)
++.|+.+.. ...... +..+....++++.+. .+++|+ +.+...+..+++++++.|+..++-+.+.+
T Consensus 143 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 143 AEAGIPFDPDLVVHGDW----SADDGYEAAAALLDLDDRPTAIF-CGNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHcCCCCCHHHeEeCCC----ChHHHHHHHHHHHhCCCCCCEEE-EeCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 988865321 111111 122333445555433 356664 45556677888999999986555455543
No 147
>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=97.50 E-value=0.0076 Score=66.11 Aligned_cols=202 Identities=9% Similarity=0.042 Sum_probs=119.7
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE--cCCCh
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCS 106 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi--Gp~~s 106 (938)
..-.||+++|.. +++-.....+++-+.++ .|+.+.+ .++..++..-......+..+++.+|| ++..+
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i--~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~ 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIIL--SNSDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 356899999853 33323344444444333 1455544 34444444444445556667777665 33222
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--c-cccchHHH
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E-YGRNGVSA 183 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~-~g~~~~~~ 183 (938)
..+...+...++|+|......+ ...++ .+..++...+..+++.+...|.++++++..+. . .+....+.
T Consensus 128 ---~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 128 ---EKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred ---hHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 2334455667999997643221 11222 35667777788888888888999999996432 2 24667788
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCe
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 253 (938)
|.+++++.|+.+......... .+..+....++++.+..+++|+. .+...+..+++++++.|+..++-
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~d 265 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPED 265 (329)
T ss_pred HHHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCc
Confidence 999999998764321111111 11233344556665556777665 44467788999999999865543
No 148
>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=97.48 E-value=0.017 Score=61.93 Aligned_cols=213 Identities=8% Similarity=0.031 Sum_probs=118.1
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~ 110 (938)
+||++.|.. .++-.....+++.+.++. |+++. +.++. ++..-......++..++.+||= |..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK--------GFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc--------CCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 588888854 333344556666666542 45544 45555 5555455556677777876653 33333344
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHH----hcCC--cEEEEEE-E--cCccccchH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVS----YYGW--NAVSVIF-V--DNEYGRNGV 181 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~----~~~w--~~vaii~-~--d~~~g~~~~ 181 (938)
.....+...++|+|.+....+....+..+.+-.+..+....+...++++. ..|+ +++++|. . +........
T Consensus 70 ~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~ 149 (289)
T cd01540 70 AIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRT 149 (289)
T ss_pred HHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHH
Confidence 55566778999999864332211100112233455677766666666544 3577 7888875 2 223456678
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceE-EEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRV-IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~v-iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.+.+++++.|+............ .+.+.....++++... +++. .|++.+...+..+++++++.|...++...++
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig 227 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVG 227 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEe
Confidence 889999998886532111111110 1112222344444333 3454 4555566678888999999998633434443
No 149
>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=97.47 E-value=0.0052 Score=65.42 Aligned_cols=204 Identities=9% Similarity=0.019 Sum_probs=127.2
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||+++|.-+. .+-..+..++++.=+.. |+.+-+ .++..++..- +....|.+++|.++|=.........+
T Consensus 3 ~IGvivp~~~n---pff~~ii~gIe~~a~~~----Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~l 72 (279)
T PF00532_consen 3 TIGVIVPDISN---PFFAEIIRGIEQEAREH----GYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEEL 72 (279)
T ss_dssp EEEEEESSSTS---HHHHHHHHHHHHHHHHT----TCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHHH
T ss_pred EEEEEECCCCC---cHHHHHHHHHHHHHHHc----CCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHHH
Confidence 69999998642 22333333444433332 565544 5566666555 56666667788777643222233556
Q ss_pred HHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcE-EEEEEEcCcc--ccchHHHHHHHHh
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNA-VSVIFVDNEY--GRNGVSALNDKLA 189 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~-vaii~~d~~~--g~~~~~~l~~~l~ 189 (938)
..+.+. ++|+|......... ...|+ +..++..-+...++.+...|-++ |+++..+... .....+.+.++++
T Consensus 73 ~~~~~~-~iPvV~~~~~~~~~--~~~~~---V~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al~ 146 (279)
T PF00532_consen 73 RRLIKS-GIPVVLIDRYIDNP--EGVPS---VYIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDALK 146 (279)
T ss_dssp HHHHHT-TSEEEEESS-SCTT--CTSCE---EEEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHc-CCCEEEEEeccCCc--ccCCE---EEEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHHH
Confidence 666666 99999864432111 12333 34566777888888899999999 9999975443 4556678999999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceE-EEEEeChhhHHHHHHHHHHcC-CCCCCeE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV-IVLHVSPSLGFQVFSVAKYLG-MMGNGYV 254 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~v-iv~~~~~~~~~~~l~~a~~~g-~~~~~~~ 254 (938)
+.|+++......... .+..+-...++++-+..|++ .|++++...+..+++.+++.| +..+.-+
T Consensus 147 ~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 147 EAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 999865443332222 23444456666676666662 345556677888999999999 7666544
No 150
>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=97.47 E-value=0.021 Score=60.53 Aligned_cols=205 Identities=10% Similarity=0.010 Sum_probs=119.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||+++|.. +.+=.....+++-+.++. |..+.+.+.++..++..-......++.+++.++| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999864 333234555666666554 2234455566666766555555666777776553 444333223
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC-ccccchHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN-EYGRNGVSALNDK 187 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~l~~~ 187 (938)
.....+...++|+|......+ + ....+..++...++.+++++... |.++++++.... .......+.+.++
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~----~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G----ADATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C----ccceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333445567999999754322 1 11246678888889999988777 999999997532 2334556788888
Q ss_pred Hhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEe
Q 002309 188 LAER-RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (938)
Q Consensus 188 l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 258 (938)
+++. +++..... .... .+...-...+.++-+. .+++|+. .+...+..+++++++.|+ .+..+++.
T Consensus 146 ~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~ 213 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSV 213 (271)
T ss_pred HHhCCCcEEEeee-cCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEe
Confidence 8887 56432111 1111 1122222344444333 3565444 445567778899999887 34445543
No 151
>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=97.43 E-value=0.0088 Score=63.37 Aligned_cols=205 Identities=7% Similarity=0.004 Sum_probs=118.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~ 110 (938)
.||++.|.. +.+-.....+++.+.++. |+.+. +.++..++..-.+....+..+++.+||= |... ...
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~ 69 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLI--LCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEY-DQP 69 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCC-ChH
Confidence 378899864 333344555666555541 44443 4555556666566666777777776653 2222 222
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~l~~~l 188 (938)
.+..+....++|+|......+ +..++ .+..++...++.+++.+...|-++++++... +.......+.+.+.+
T Consensus 70 ~~~~l~~~~~ipvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (269)
T cd06275 70 LLAMLERYRHIPMVVMDWGPE---DDFAD---KIQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAM 143 (269)
T ss_pred HHHHHHhcCCCCEEEEecccC---CCCCC---eEeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHH
Confidence 223333456999998754321 11223 2556677778888898888899999999743 233445567888999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++.|+.+......... .+.......++++.+.. +++|+ +++...+..+++.+++.|...++-+-+.
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 144 AEAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAVF-CGNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred HHcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEEE-ECChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8888764311111111 12233444555554433 45433 4445666678888898887655444444
No 152
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.42 E-value=0.011 Score=62.48 Aligned_cols=205 Identities=11% Similarity=0.057 Sum_probs=117.5
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||++.|.. ..+-.....+++.+.++ . |+.+.+ .++..++..-.+....++.+++.+||--..... ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEA----A----GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ER 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHH----c----CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 378999864 22222334455444443 2 455444 444445555555666677778877764222111 22
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l~ 189 (938)
....+...++|+|......+ . +....+..+....+..+++.+...|-++++++..+. .........+.+.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 33345567999998643211 1 122345667788888899998888999999998553 344455678899999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|............ .........+.++-+. .+++|+. ++...+..+++.+++.|...++.+-++
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di~vi 210 (268)
T cd01575 144 AAGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDIAIA 210 (268)
T ss_pred HcCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcceEEE
Confidence 888632211111111 1123344455555433 4566554 445567778999999887655444333
No 153
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=97.42 E-value=0.011 Score=63.37 Aligned_cols=185 Identities=13% Similarity=0.128 Sum_probs=112.6
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||++...+.+.-.....|++-++++. |+.. ..+++.+.+.++|+..+.+.+.++...++.+|+- .++.++..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~----g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~-~gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL----GYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIA-IGTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT----T--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEE-ESHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc----CCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEE-eCcHHHHHH
Confidence 588888887654455677777777655 3323 5788889999999999888888887777666654 334556666
Q ss_pred HHhhccCCccEEEcccCCCCCCC----CCCC--ceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCcc-ccchHHH
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSS----LQYP--FFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNEY-GRNGVSA 183 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~----~~~p--~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~~-g~~~~~~ 183 (938)
+...... +|+|-.+.++|.... ...| ++.-+. +.......+++++++ +-++++++|+++.- +....+.
T Consensus 75 ~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~ 151 (294)
T PF04392_consen 75 AKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQ 151 (294)
T ss_dssp HHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHH
T ss_pred HHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHH
Confidence 6655544 999987776765433 2233 444433 445566677777765 56899999976543 4566788
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~ 233 (938)
+++.+++.|+++... .++ +..++...+.++.. +.+++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~-~v~-----~~~~~~~~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP-----SSEDLEQALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES-----SGGGHHHHHHHHCT-T-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEE-ecC-----cHhHHHHHHHHhhc-cCCEEEEECCc
Confidence 888899999987643 232 26788888888854 57888876554
No 154
>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=97.42 E-value=0.022 Score=60.33 Aligned_cols=207 Identities=9% Similarity=0.058 Sum_probs=118.9
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|.. .++-.....+++-+.++ .+ |+.+. +.++..++..-......++.+++.+|| .|.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~---~~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASN---YP----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHh---cC----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 488888753 33223334444333332 22 45553 456656666666666667777777664 343333222
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCc--cccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~--~g~~~~~~l~~ 186 (938)
.....+...++|+|.+....+ +. .+...+..++...+...++++.+. |-++++++..... ......+.+.+
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 333345568999998753221 11 223346678888888888887775 8899999974332 23445788899
Q ss_pred HHhhc-ceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 187 KLAER-RCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 187 ~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
++++. |+++.... .. . ....+....+.++-+ .++++| ++.+...+..+++++++.|+. .+...++-|
T Consensus 147 ~l~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPKIKIVAQQ-DG-D--WLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCCCEEEEec-CC-C--ccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 99988 87754321 11 1 112222333444422 235654 444556777899999999986 444555443
No 155
>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=97.39 E-value=0.013 Score=61.62 Aligned_cols=200 Identities=14% Similarity=0.053 Sum_probs=122.9
Q ss_pred EEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 34 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
||++.|.- +++-.....+++.+.++. |+++.+ .++..++..-.....+++.+++.++|....... ..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888753 333345566666666542 455544 455566666666677787888888875333222 334
Q ss_pred HHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc-C--ccccchHHHHHHHHh
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-N--EYGRNGVSALNDKLA 189 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d-~--~~g~~~~~~l~~~l~ 189 (938)
...+...++|+|......+ ....+.++....+..+++++...+-++++++... . ..+....+.+++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~--------~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP--------GISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC--------CCCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 4556667999998743221 1223667778888999999888899999998632 2 233456788999999
Q ss_pred hcce-EEEEEeecCCCCCCChhhHHHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEEe
Q 002309 190 ERRC-RISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIAT 258 (938)
Q Consensus 190 ~~g~-~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~ 258 (938)
+.|. .+. ..... .+.......+.++.+.. +++|+.. +...+..+++.+++.|+..++-+.+.+
T Consensus 143 ~~~~~~~~--~~~~~---~~~~~~~~~~~~~l~~~~~~~i~~~-~d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 143 EHGICPPN--IVETD---FSYESAYEAAQELLEPQPPDAIVCA-TDTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HcCCChHH--eeecc---CchhhHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 8886 211 11111 11223344455554333 5655544 456677889999999987655555553
No 156
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.35 E-value=0.053 Score=59.36 Aligned_cols=202 Identities=8% Similarity=-0.017 Sum_probs=118.1
Q ss_pred CeeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCCh
Q 002309 29 PAVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCS 106 (938)
Q Consensus 29 ~~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s 106 (938)
++..+||++.|.. +.+-.....+++-+.++. |+.+. +.++..++..-.+....+++++|.++| .|...
T Consensus 23 ~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~--i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~ 92 (330)
T PRK10355 23 AKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVF--VQSANGNEETQMSQIENMINRGVDVLVIIPYNG 92 (330)
T ss_pred CCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 4589999999854 443344455555554432 34444 456666776666666677777887775 33332
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc---CccccchHHH
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSA 183 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~ 183 (938)
.........+...++|+|...... ... +....+.+++...+..+++++...+-++++++... ........+.
T Consensus 93 ~~~~~~l~~~~~~~iPvV~id~~~---~~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~g 167 (330)
T PRK10355 93 QVLSNVIKEAKQEGIKVLAYDRMI---NNA--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAG 167 (330)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCC---CCC--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHH
Confidence 222334455677899999874321 111 12235778888899999999888788887765432 2233445677
Q ss_pred HHHHHhhc---c-eEEEEEeecCCCCCCChhhHHHHHHHHh-c--CCceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 184 LNDKLAER---R-CRISYKSGIPPESGVNTGYVMDLLVKVA-L--MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 184 l~~~l~~~---g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk-~--~~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
+++.+++. | +.+....... . .+..+....++++- + ..+++ |++.+...+..+++.+++.|+.
T Consensus 168 f~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 168 QMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 77777763 4 4432221111 1 11223334444442 2 23565 4444556677899999999975
No 157
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=97.35 E-value=0.017 Score=61.52 Aligned_cols=206 Identities=11% Similarity=0.067 Sum_probs=112.6
Q ss_pred EEEEEEeeCCC----cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHH-hcCcEEEEc-CCC
Q 002309 32 VNVGALFTLDS----TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFM-ETDIVAIIG-PQC 105 (938)
Q Consensus 32 i~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li-~~~V~aviG-p~~ 105 (938)
=.||++.|... .....+...+.-++++.-+.. |+++.+...+.. . ...+.+.+ .+++.+||- +..
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~v~~~~~~--~---~~~~~~~l~~~~~dgiii~~~~ 74 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER----GYDLLLSFVSSP--D---RDWLARYLASGRADGVILIGQH 74 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHHc----CCEEEEEeCCch--h---HHHHHHHHHhCCCCEEEEeCCC
Confidence 46899998521 111222333333333333322 566666544332 1 12334444 457776652 222
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSA 183 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~ 183 (938)
.. . .....+...++|+|.+....+. +.+..+.+++...+...++++...|.++++++..+.. .+....+.
T Consensus 75 ~~-~-~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 146 (275)
T cd06295 75 DQ-D-PLPERLAETGLPFVVWGRPLPG------QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLEG 146 (275)
T ss_pred CC-h-HHHHHHHhCCCCEEEECCccCC------CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHHH
Confidence 22 2 2234556789999987543221 2233466778888999999888889999999975432 34456688
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
|.+.+++.|..+......... .+..+....+.++-+. .+++|+.. +...+..+++.+++.|...++-+.+.
T Consensus 147 f~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~ii 219 (275)
T cd06295 147 YREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAVV 219 (275)
T ss_pred HHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEEE
Confidence 999998887543211111111 1123333445444333 35655554 34556678888888887544434333
No 158
>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=97.33 E-value=0.017 Score=61.06 Aligned_cols=205 Identities=12% Similarity=0.037 Sum_probs=116.5
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||+++|.. +.+-.....+++-+.++. |+.+. +.++..++..-......++..++.+||--........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTI--IGNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEE--EEeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 489999853 333344556666665542 34444 3444556555455556677778887763222222233
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l~ 189 (938)
...+...++|+|......+ ....++ ...++...+...++.+...|-++|+++.... .........+.++++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREIT---GSPIPF---VTSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccC---CCCCCE---EEECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 3455567999998654322 122333 3345555566677777777999999996432 234455678899998
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|..+......... ....+....+.++-+..+++|+. ++...+..+++.+++.|+..++-+.+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 144 SLGLEVNEDLVVLGG--YSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HCCCCCChHhEEecC--cchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 888543211111111 11223334555554444776444 455667788899999898655434444
No 159
>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=97.31 E-value=0.021 Score=60.29 Aligned_cols=205 Identities=10% Similarity=0.035 Sum_probs=119.0
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||++.|.. +.+-.....+++-|.++. |+.+. +.+...++..-......++..++.+||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378888864 333334555666555532 34443 3455556655555666777777776653221212223
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc-c--ccchHHHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-Y--GRNGVSALNDKL 188 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~-~--g~~~~~~l~~~l 188 (938)
+ ..+...++|+|.+....+ .. .+..+..++...+..+++.+...|-++++++..... . .......+.+.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---EL---GVDTVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---CC---CCCEEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 445677999998754321 11 123355677778899999988889999999974432 1 124567888898
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++.|............ .+..+....++++.+.. +++|+.. +...+..+++.+++.|+..++-+-+.
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v~ 211 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGLI 211 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEE
Confidence 8887432211111111 11344455666664443 4555444 45566778899999998655444444
No 160
>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=97.30 E-value=0.035 Score=60.08 Aligned_cols=207 Identities=15% Similarity=0.090 Sum_probs=120.5
Q ss_pred EEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc--CcEEEEc-CCChhH
Q 002309 34 VGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET--DIVAIIG-PQCSTV 108 (938)
Q Consensus 34 IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~--~V~aviG-p~~s~~ 108 (938)
||+++|.. ..+-.....+++.+.++. |+.+.+ .++..+...-......++++ +|.+||= |... .
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~--~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEV--LYAERDRFLMLQQARTILQRPDKPDALIFTNEKS-V 70 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEE--EeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-c
Confidence 78888764 222233445555554431 455544 45556666666677788888 8887653 3322 2
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCC-----C--CCC-CceEEecCCchHHHHHHHHHHHhcCCcE--------EEEEEE
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLS-----S--LQY-PFFVRTTQSDSYQMTAVAEMVSYYGWNA--------VSVIFV 172 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~-----~--~~~-p~~~r~~ps~~~~~~ai~~~l~~~~w~~--------vaii~~ 172 (938)
.......+...++|+|.+....+... . ..+ +++-...+++...++.+++.+...+.++ ++++..
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~ 150 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISG 150 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeC
Confidence 33344566778999998764432211 0 111 2344577888888999999887777664 776663
Q ss_pred c--CccccchHHHHHHHHhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcC
Q 002309 173 D--NEYGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLG 247 (938)
Q Consensus 173 d--~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g 247 (938)
+ ..........+++++++.| ..+.. .+... ....+....+.++-+. ++++|+ +.+...+..+++++++.|
T Consensus 151 ~~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g 225 (305)
T cd06324 151 DPTTPAAILREAGLRRALAEHPDVRLRQ--VVYAG--WSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAG 225 (305)
T ss_pred CCCChHHHHHHHHHHHHHHHCCCceEee--eecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcC
Confidence 2 2334456778899999887 33322 12211 1233344455555332 356554 445566778999999999
Q ss_pred CCCCCeEEE
Q 002309 248 MMGNGYVWI 256 (938)
Q Consensus 248 ~~~~~~~wi 256 (938)
+..++-+-+
T Consensus 226 ~~vp~di~v 234 (305)
T cd06324 226 RKPGRDVLF 234 (305)
T ss_pred CCcCCCEEE
Confidence 865443333
No 161
>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=97.29 E-value=0.041 Score=59.02 Aligned_cols=199 Identities=8% Similarity=0.046 Sum_probs=113.8
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||+++|.. ..+-.....+++-+.++. |+. +.+.++..++..-.+...+++.+++.+|| .|..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~--------g~~--~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL--------GAE--VIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc--------CCE--EEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHH
Confidence 489999853 333234445555554442 344 34456666776666667778887887665 444333333
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc------CCcEEEEEEEcCc--cccchHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY------GWNAVSVIFVDNE--YGRNGVS 182 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~------~w~~vaii~~d~~--~g~~~~~ 182 (938)
.....+...++|+|......+. ...++ .+..++...+..+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 4444566789999987544321 11222 24456666677777776555 8889999975332 3334567
Q ss_pred HHHHHHhhcc----eEEEEEeecCCCCCCChhhHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHHcCCCC
Q 002309 183 ALNDKLAERR----CRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMG 250 (938)
Q Consensus 183 ~l~~~l~~~g----~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~ 250 (938)
.|.+++++.+ +.+... ..... .+..+....+.++-+. .+++|+.. +...+..+++++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~I~~~-~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPD--WDPETAQKRMENALTANYNKVDGVLAA-NDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCC--CCHHHHHHHHHHHHHhCCCCccEEEeC-CcHHHHHHHHHHHHcCCCC
Confidence 7888998887 544322 11111 1122233444444332 34444433 4456677888999888754
No 162
>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=97.27 E-value=0.026 Score=59.60 Aligned_cols=205 Identities=10% Similarity=0.038 Sum_probs=117.7
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~~ 111 (938)
.||+++|.... .+...+...+++.-+.. |+.+.+ .++..++..-.+....++.+++.+||- |..... ..
T Consensus 1 ~igvi~~~~~~---~~~~~~~~~~~~~~~~~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~ 70 (264)
T cd06274 1 TIGLIIPDLEN---RSFARIAKRLEALARER----GYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPD-DP 70 (264)
T ss_pred CEEEEeccccC---chHHHHHHHHHHHHHHC----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCch-HH
Confidence 37899986421 23333333444433332 455444 455556655556666777778887663 332222 22
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l~ 189 (938)
+. .+...++|+|.+....+ +...++ +..++...+..+++.+.+.|-++++++..+. .......+.+.+.++
T Consensus 71 ~~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (264)
T cd06274 71 YY-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALA 143 (264)
T ss_pred HH-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHH
Confidence 34 35668999998744322 112232 4566777778888888888999999997543 234556788999999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|..+......... .+.......+.++-+. .+++|+.. +...+..+++++++.|+..++-+-+.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 144 DAGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred HcCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 888543211111111 1123333445554332 35665544 55667788999999998655545444
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=97.26 E-value=0.048 Score=57.72 Aligned_cols=194 Identities=12% Similarity=0.009 Sum_probs=115.0
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC--CChHHHHHHHHHHHhcCcEEEE-cCCChhH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMETDIVAII-GPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~--~~~~~a~~~a~~li~~~V~avi-Gp~~s~~ 108 (938)
+||+++|.. ..+-.....+++.+.++. |+++.+ .+.. .+...-......+++.++.+|| .|.....
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~ 70 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKL--LEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDG 70 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhh
Confidence 589999863 333334455666655533 344444 4433 2344444556667777887765 3333322
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCC-----cEEEEEEEcC--ccccchH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW-----NAVSVIFVDN--EYGRNGV 181 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w-----~~vaii~~d~--~~g~~~~ 181 (938)
...+ ..+...++|+|......+ +. ...-.+..++...++.+++++.+.+- ++++++.... .......
T Consensus 71 ~~~~-~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~ 144 (268)
T cd06306 71 LNEI-LQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVE 144 (268)
T ss_pred HHHH-HHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHH
Confidence 2223 345678999998643211 11 11234667777888888898877665 8999997432 3345567
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
+.+.+++++.++++... .... .+.......++++-+ .++++|+. ....+..+++.+++.|+
T Consensus 145 ~g~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 145 KGFRDALAGSAIEISAI--KYGD--TGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHHHhhcCcEEeee--ccCC--ccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 88999999998876542 1111 123333445555432 34677653 36667778899999887
No 164
>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=97.26 E-value=0.014 Score=61.81 Aligned_cols=201 Identities=10% Similarity=0.010 Sum_probs=117.9
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||+++|.. +.+-.....+++.+.++. |+.+ .+.++..++....+....+...+|.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 489999853 433344556666555542 4443 44566667666556666676778877764222222234
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~l~~~l~ 189 (938)
+...+...++|+|......+ ...+ .+..++..-+...++.+...|-++++++... ...+....+.+.++++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~----~~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG----GGAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC----CCCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566678999998754432 1122 3455666666777787777799999998643 2233455688889999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCeE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 254 (938)
+.|+.+.....+... . .......+.++-+ ..+++|+ +.+...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv 206 (269)
T cd06281 144 AAGLPPDPALVRLST--P-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDL 206 (269)
T ss_pred HcCCCCCHHHeecCc--H-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 888654211111111 1 1222334444432 3467765 3455566678899999998655433
No 165
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=97.25 E-value=0.039 Score=58.15 Aligned_cols=202 Identities=11% Similarity=0.075 Sum_probs=115.9
Q ss_pred EEEEEeeCCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002309 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~ 110 (938)
.||+++|... ..-.....+++-+.++ . |+.+.+...+. .++..-.+....++++++.++|- +......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~----~----~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~- 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAARE----A----GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD- 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHH----C----CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-
Confidence 3889998543 2223344444444444 2 45555543322 23344445555666777887763 3322222
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCcc--ccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~--g~~~~~~l~~~l 188 (938)
.+... ...++|+|...... . +.+-.+..++...++.+++.+...|-++|+++..+... .....+.+.+++
T Consensus 71 ~~~~~-~~~~ipvv~~~~~~-~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALAA-APADVPVVFVDGSP-S------PRVSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHHH-HhcCCCEEEEeccC-C------CCCCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 33333 46789999875432 1 12234667778889999999888899999999754332 234557888888
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC-ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALME-SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~-~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++.|+.+.... ... .+..+....+.++.+.. +++|+. ++...+..+++++++.|...++-+-++
T Consensus 143 ~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~~i~ii 207 (264)
T cd01574 143 EAAGIAPPPVL--EGD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPDDVSVV 207 (264)
T ss_pred HHCCCCcceee--ecC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCccceEEe
Confidence 88887654221 111 11233344455554333 555444 455667788999998887544433333
No 166
>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=97.25 E-value=0.036 Score=58.67 Aligned_cols=205 Identities=9% Similarity=0.006 Sum_probs=117.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
+||++.|.. ..+-.....+++-+.+ . .|+.+.+. ++..++..-......+...++.+||--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~----~----~gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEAD----A----RGLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHH----H----CCCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 478998853 3332334444444444 2 25556443 44445555455555666667887774322212223
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~l~ 189 (938)
+..+. ..++|+|......+. .. .-.+.+++...+..+++.+...|-++++++..+.. ......+.+.++++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~---~~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AK---VPKVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CC---CCEEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 347999987543221 11 22366788888999999988889999999974333 23345688999999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|..+.....+... .+.++....+.++-+ ..+++|+.. +...+..+++.+++.|...++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEE
Confidence 888643211111111 112333344555432 345655544 55667778899999997655545544
No 167
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.24 E-value=0.024 Score=59.93 Aligned_cols=197 Identities=15% Similarity=0.094 Sum_probs=115.8
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
.||+++|.. .++-.....++.-+.++. |+++. +.++..++..-......+...++.+|| .|... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-DDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-ChH
Confidence 489999863 332233344444444432 45553 345555665555555566777887665 44332 223
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l 188 (938)
.+ ..+...++|++.+....+ .++ .+..++...+...++.+...|-++++++..+. ..+....+.+.+.+
T Consensus 70 ~~-~~~~~~~iPvv~~~~~~~-----~~~---~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 FL-DELTRRGVPFVLVLRHAG-----TSP---AVTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred HH-HHHHHcCCCEEEEccCCC-----CCC---EEEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 33 345667999998754321 223 24567777788888888888999999997533 24556678889999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCC
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 252 (938)
++.|..+.....+... .+.......++++.+. .+++| ++.+...+..+++.+++.|+..++
T Consensus 141 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~ 203 (265)
T cd06285 141 AEAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTAI-FAVNDFAAIGVMGAARDRGLRVPD 203 (265)
T ss_pred HHcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCc
Confidence 9888754321111111 1223333445555333 34554 444556777899999999986544
No 168
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.23 E-value=0.059 Score=57.20 Aligned_cols=171 Identities=9% Similarity=0.066 Sum_probs=105.5
Q ss_pred CCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecC
Q 002309 68 GTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ 146 (938)
Q Consensus 68 g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~p 146 (938)
|+.+. +.++..++..-......++.++|.+|| -|..+......-..+...+||+|.+....+ ....+.+..+.+
T Consensus 29 G~~~~--~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVT--WYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAP 103 (272)
T ss_pred CCEEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECC
Confidence 45444 456666777777777788888887665 344433333333445567999998754322 111122344678
Q ss_pred CchHHHHHHHHHHHhc--CCcEEEEEEEcCc--cccchHHHHHHHHhhcc-eEEEEEeecCCCCCCChhhHHHHHHHHhc
Q 002309 147 SDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDKLAERR-CRISYKSGIPPESGVNTGYVMDLLVKVAL 221 (938)
Q Consensus 147 s~~~~~~ai~~~l~~~--~w~~vaii~~d~~--~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~lk~ 221 (938)
++...+..+++++... +.++++++..+.. ......+.+.+.+++.+ .++... .... .+.......++++.+
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~ 179 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLT 179 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHH
Confidence 8888889999987766 8899999975432 23456788999998875 555431 1111 223334455555543
Q ss_pred CC--ceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 222 ME--SRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 222 ~~--~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
.. +++ +++.+...+..+++.+++.|+
T Consensus 180 ~~~~~~a-i~~~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 180 KYPQLDG-AFCHNDSMALAAYQIMKAAGR 207 (272)
T ss_pred hCCCCCE-EEECCCcHHHHHHHHHHHcCC
Confidence 33 454 334455667778899999887
No 169
>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=97.22 E-value=0.029 Score=59.25 Aligned_cols=191 Identities=10% Similarity=0.012 Sum_probs=109.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||++.|.. +++-.....++.-+. +. .|+++.+...++ +. ...+....++.++|.++|--.+.... .
T Consensus 1 ~I~~i~~~~~~~~~~~~~~~i~~~~----~~----~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~ 68 (266)
T cd06278 1 LIGVVVADLDNPFYSELLEALSRAL----QA----RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSS-E 68 (266)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHH----HH----CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCH-H
Confidence 378888864 332223334433332 22 256666555443 22 23344456667788777642222222 2
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l~ 189 (938)
....+...++|+|.+....+ + +.+..+.+++...+..+++.+...|-++|+++..+. .......+.+.+.++
T Consensus 69 ~~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 142 (266)
T cd06278 69 LAEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALA 142 (266)
T ss_pred HHHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHH
Confidence 34556678999998754322 1 223457778888899999998888999999998543 344556788899998
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHc
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYL 246 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~ 246 (938)
+.|..+... ..... +..+....+.++.+. .+++|+.. +...+..+++.+++.
T Consensus 143 ~~~~~~~~~-~~~~~---~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~ 196 (266)
T cd06278 143 AAGVPVVVE-EAGDY---SYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQE 196 (266)
T ss_pred HcCCChhhh-ccCCC---CHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHh
Confidence 888764321 11111 123334444554433 35555444 444566677777765
No 170
>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=97.18 E-value=0.033 Score=58.90 Aligned_cols=200 Identities=13% Similarity=0.008 Sum_probs=115.4
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||+++|.. +++-.....+++-+.++. |+++.+. ++..++..-......++.++|.+||--.+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIIT--AGHHSAEKEREAIEFLLERRCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEE--eCCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHH
Confidence 378999864 333334455555555442 4555543 34445544445555677777877764222111111
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~l~ 189 (938)
-..+...++|+|.+....+ ...++ .+..++...+..+++++...|-+++++|..+.. ......+.+.+.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 -LIELAAQVPPLVLINRHIP---GLADR---CIWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred -HHHHhhCCCCEEEEeccCC---CCCCC---eEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3344567999998754322 11222 256778888999999988889999999975322 23345677889998
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCC
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 252 (938)
+.|+.+.....+... .+..+....++++-+.. +++|+ +++...+..+++.+++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 144 EAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 888654211111111 12334445555554433 45544 44455667788999998875443
No 171
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.17 E-value=0.029 Score=61.88 Aligned_cols=208 Identities=8% Similarity=0.034 Sum_probs=117.1
Q ss_pred eEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 31 ~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
.-+||+++|.. ..+-.....+++-+.++. |+.+. +.++..++..-.+....+..+++.+||--......
T Consensus 59 ~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~ 128 (341)
T PRK10703 59 TKSIGLLATSSEAPYFAEIIEAVEKNCYQK--------GYTLI--LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYPE 128 (341)
T ss_pred CCeEEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCH
Confidence 45899999864 222233344444444422 34443 34555566555555566777777776531111122
Q ss_pred HHHHHhhcc-CCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE--cCccccchHHHHHH
Q 002309 110 HIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV--DNEYGRNGVSALND 186 (938)
Q Consensus 110 ~~va~~~~~-~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~--d~~~g~~~~~~l~~ 186 (938)
..+ ..+.. .++|+|.+....+ +..++. ...++....+...++.+...|-+++++|.. +........+.|.+
T Consensus 129 ~~~-~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 129 PLL-AMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred HHH-HHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 223 33444 6999998753321 111122 244555566788888877779999999964 33345556788999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++.|+.+......... ....+....+.++.+. .+++|+. ++...+..+++++++.|...++-+.++
T Consensus 203 ~l~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 203 AMEEANIKVPEEWIVQGD--FEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHcCCCCChHHeEeCC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999998765321111111 1123344455554333 4566554 455666788999999997655444444
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=97.17 E-value=0.081 Score=56.88 Aligned_cols=203 Identities=11% Similarity=0.010 Sum_probs=113.5
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~ 111 (938)
|||++.|.-.. .+...+..++++.-+.. |+.+.+. .++..++..-.+....++.+++.+|| .|........
T Consensus 1 ~i~~i~~~~~~---~~~~~~~~gi~~~a~~~----g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSGS---DWSNAQVRGAKDEFAKL----GIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCCC---hHHHHHHHHHHHHHHHc----CCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 58888874321 23334444444433332 4555432 35566776666667777777877664 4443332233
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCc--cccchHHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE--YGRNGVSALNDK 187 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~--~g~~~~~~l~~~ 187 (938)
+...+...++|+|.+....+..... -+++.-+..++...+...++++... +-++++++..+.+ ......+.+.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~~-~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEHG-KDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCcccccC-cceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 4445667899999875543222210 1223346667777788888887765 7899999975333 334456788888
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
+++.+..+....... . .........++++-. ..+++|+. .+...+..+++.+++.|+
T Consensus 152 l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~ 210 (294)
T cd06316 152 IKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR 210 (294)
T ss_pred HHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC
Confidence 876653221111111 1 101222334444432 23455444 445668889999999887
No 173
>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=97.14 E-value=0.084 Score=56.28 Aligned_cols=200 Identities=12% Similarity=0.055 Sum_probs=114.0
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|.. ..+-.....+++.+.++. |+.+ .+.++..++..-.+....++.+++.+|| .+..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 588898864 222233444555444431 4444 4456666766666666677777877665 343333223
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCc--EEEEEEEc--CccccchHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWN--AVSVIFVD--NEYGRNGVSALN 185 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~--~vaii~~d--~~~g~~~~~~l~ 185 (938)
.....+...++|+|.+....+. ..+.+-.+..++...+..+++.+-. .|-+ +++++..+ ...+....+.++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~----~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSINL----EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCCC----CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 3334556789999987542211 0122345677778888888888755 6755 88888743 344566778899
Q ss_pred HHHhhcceE------EEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 186 DKLAERRCR------ISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 186 ~~l~~~g~~------v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
+.+++.|.. +......... .+..+....+.++-.. ++++|+. .+...+..+++++++.|+.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC
Confidence 999888642 1111001111 1122333444444322 3454443 4445667788999999974
No 174
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.12 E-value=0.063 Score=58.80 Aligned_cols=206 Identities=12% Similarity=0.030 Sum_probs=117.8
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~ 107 (938)
..-.||+++|.. ..+-.....+++.+.++ .|+.+.+. ++..++..-......+...++.+||= |....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 356899999853 32222334444444432 25655543 34445544444555566668887763 22222
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~ 185 (938)
....+. .+...++|+|......+ ...++ .+..++...+..+++.+-..|-++|+++.... ..+....+.+.
T Consensus 130 ~~~~~~-~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHPFYQ-RLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChHHHH-HHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 222233 34567999998643221 12223 34567777788888888888999999997433 23455678899
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++++.|+.+... .... .+..+-...++++-+. .+++|+.. +...+..+++++.+.|+..++-+-++
T Consensus 203 ~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~vP~disv~ 271 (328)
T PRK11303 203 QALKDDPREVHYL--YANS--FEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGELPSDLAIA 271 (328)
T ss_pred HHHHHcCCCceEE--EeCC--CChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999998754321 1111 1122333445554333 46665554 44567778899899998655444333
No 175
>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=97.12 E-value=0.037 Score=58.19 Aligned_cols=201 Identities=11% Similarity=0.016 Sum_probs=118.5
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|.. ..+-.....+++.+.++. |+.+.+ .++..++.........+...+|.+|| -|.... ..
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~ 69 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH--------GYKVVL--LQTNYDKEKELEYLELLKTKQVDGLILCSREND-WE 69 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 478888864 444445566666666542 455544 45555665555555666677887665 333222 23
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~l~~~l 188 (938)
.+..+.+ .+ |++......+ ...+ .+.+++...+..+++.+...|-++++++..+ +.......+.+.+.+
T Consensus 70 ~~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l 140 (260)
T cd06286 70 VIEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDAL 140 (260)
T ss_pred HHHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHH
Confidence 3444443 34 8887543221 1222 3667778888889998888899999999753 234455678899999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWI 256 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi 256 (938)
++.|+.+.....+... .+..+....+.++.+. .+++|+ +++...+..+++.+++.|+..++-+-+
T Consensus 141 ~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~di~v 207 (260)
T cd06286 141 EEYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPEDLAI 207 (260)
T ss_pred HHcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCcceEE
Confidence 9988654211111111 1123334455555433 456544 555567778999999999855443333
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=97.09 E-value=0.059 Score=57.15 Aligned_cols=206 Identities=14% Similarity=0.085 Sum_probs=119.3
Q ss_pred EEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE--cCCChh--H
Q 002309 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCST--V 108 (938)
Q Consensus 34 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi--Gp~~s~--~ 108 (938)
||++.|.. +.+-.....+++.+.++ . |+.+. +.++..++..-.+....+..+++.++| ++.... .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQ----Y----GYTVL--LCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHH----C----CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 78999864 33323344454444444 2 45554 345555666656666777777887765 322121 1
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~ 186 (938)
.......+...++|+|......+. ....+ .+..++...+..+++.+...|-++++++.... .......+.+.+
T Consensus 72 ~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 72 DHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred hhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 122223456779999987543321 01223 35667888889999988888999999987432 234456788899
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++.|+.......+... .+.......+.++....+++|+ +++...+..+++.+++.|+..++-+-+.
T Consensus 147 ~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 147 ALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 999888542111111111 1122333444454434477655 4455667778899999887655444444
No 177
>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=97.08 E-value=0.039 Score=58.45 Aligned_cols=205 Identities=13% Similarity=0.051 Sum_probs=117.6
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
.||++.|.. +.+-.....+++.+.++ . |+++.+ .++..++..-.+....++.+++.++| .|.....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-- 68 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAA----A----GYDVVL--SESGRRTSPERQWVERLSARRTDGVILVTPELTS-- 68 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHH----c----CCeEEE--ecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh--
Confidence 378888863 44334455555555544 1 455544 45555554444455566677787765 3333222
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALNDKL 188 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~~l 188 (938)
.....+...++|+|.+...... ...++ ...+++...+...++.+...|.++++++..+. .......+.|.+++
T Consensus 69 ~~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 69 AQRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred HHHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 2345567789999987543211 11223 36677788888888888888999999997432 23445678888999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCe-EEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY-VWIA 257 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~-~wi~ 257 (938)
++.|+.+......... ...+.....+.++.+. .+++|+ +.+...+..+++.+++.|...++- ..+.
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~~ 212 (270)
T cd06296 144 AEAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVVG 212 (270)
T ss_pred HHcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEEE
Confidence 8887654221111111 1123333444444332 345544 445566778889999999764443 3444
No 178
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.05 E-value=0.048 Score=60.12 Aligned_cols=202 Identities=6% Similarity=-0.007 Sum_probs=116.7
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~ 107 (938)
..-.||+++|.. ..+-.....+++-+.++ . |+.+-+ .++..++..-......+..+++.+||= |.. .
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~-~ 131 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAA-G 131 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCC-C
Confidence 356899999853 33333344555544432 2 344433 344445555455555666777877763 222 2
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~ 185 (938)
........+...++|+|...... .....+ .+..++...+..++++|...|.++++++..+.. ......+.+.
T Consensus 132 ~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~ 205 (342)
T PRK10014 132 SSDDLREMAEEKGIPVVFASRAS---YLDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYC 205 (342)
T ss_pred CcHHHHHHHhhcCCCEEEEecCC---CCCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHH
Confidence 22344455667899999864321 112223 256777788888899988889999999964332 2334567889
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCC
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 251 (938)
+++++.|+.+.....+... .........+.++-+. .+++|+ +.+...+..+++.+.+.|+..+
T Consensus 206 ~al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 206 ATLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 9999988754321111111 1122333444444333 355554 4455667778888888887554
No 179
>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=97.05 E-value=0.033 Score=59.11 Aligned_cols=207 Identities=15% Similarity=0.124 Sum_probs=120.7
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChh---H
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCST---V 108 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~---~ 108 (938)
.||+++|... ..+...+..++++.-++. |+.+ .+.++..++....+....++..+|.++| -|..+. .
T Consensus 1 ~igvv~~~~~---~~~~~~~~~gi~~~~~~~----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 1 NIGVITTYIS---DYIFPSIIRGIESVLSEK----GYSL--LLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred CeEEEeCCcc---chhHHHHHHHHHHHHHHc----CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 3788887532 122334444444443332 4445 4456666777777777788888888776 333221 1
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-ccccchHHHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDK 187 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~l~~~ 187 (938)
.......+...++|+|......+. +-+..+..++...+..+++.+...|.++++++...+ ..+....+.+.+.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~------~~~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE------LNFPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC------CCCCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 112223356679999987543211 112346778888889999998888999999887432 2344556778889
Q ss_pred HhhcceEEEEE--eecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 188 LAERRCRISYK--SGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 188 l~~~g~~v~~~--~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++.|..+... ..+... .........++++-+. .+++| ++.+...+..+++++++.|+..++-+-|.
T Consensus 146 l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 146 YREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 98888643211 111111 1112334445554332 35654 44555667779999999998655544444
No 180
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.04 E-value=0.074 Score=58.22 Aligned_cols=206 Identities=8% Similarity=0.035 Sum_probs=115.8
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCC-h
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQC-S 106 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~-s 106 (938)
..-.||+++|.. ..+-.....+++-+.++ . |+.+.+ .++..++..-......+.+.+|.+||= |.. +
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE----R----GYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH----c----CCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence 356899999864 33323344555544443 2 455544 444555555445555666777776652 322 2
Q ss_pred hHHHHHHHhhcc-CCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHH
Q 002309 107 TVAHIVSYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSA 183 (938)
Q Consensus 107 ~~~~~va~~~~~-~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~ 183 (938)
.... ..... .++|+|...... ....+ .....++..-+..+++.+...|-+++++|..+ ........+.
T Consensus 125 ~~~~---~~l~~~~~iPvV~i~~~~---~~~~~---~~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~G 195 (327)
T PRK10423 125 QPSR---EIMQRYPSVPTVMMDWAP---FDGDS---DLIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEG 195 (327)
T ss_pred hhhH---HHHHhcCCCCEEEECCcc---CCCCC---CEEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHH
Confidence 2111 12223 489999874321 11111 12445555667888888888899999999643 2344556788
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.+++++.|+.+.....+... .........+.++.+. .++.|+. ++...+..+++.+++.|+..++-+-++
T Consensus 196 f~~al~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 196 YRAAMKRAGLNIPDGYEVTGD--FEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999998754221111111 1122233444554333 3555444 455667789999999998765544444
No 181
>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=97.04 E-value=0.044 Score=57.95 Aligned_cols=202 Identities=11% Similarity=0.081 Sum_probs=112.0
Q ss_pred EEEEEeeC------CCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 002309 33 NVGALFTL------DSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQC 105 (938)
Q Consensus 33 ~IG~i~~~------~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~ 105 (938)
.||+++|. +.++-.....+++-+.++. |+++.+. +... +..-.....+++.. ++.+||-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 37889985 2333234445555554432 4555543 3332 23334455555544 5776554221
Q ss_pred hhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCcc--ccchHHH
Q 002309 106 STVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEY--GRNGVSA 183 (938)
Q Consensus 106 s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~--g~~~~~~ 183 (938)
... ......+...++|+|.+....+. .+.+..+..++...++.+++.+...|-++++++.....+ .....+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~~-----~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPEDD-----KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCCC-----CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 111 23334456789999987542211 112233556777778888888877799999999744332 3345678
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeE
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYV 254 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~ 254 (938)
|.+++++.|+.+......... .+..+....+.++-+.. +++|+. .+...+..+++++++.|+..++-+
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv 213 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLD--FSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDL 213 (270)
T ss_pred HHHHHHHcCCCCCcceEEecC--CchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcce
Confidence 899999888532111111111 11233444555554333 555544 455677889999999998654433
No 182
>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=97.03 E-value=0.13 Score=54.69 Aligned_cols=208 Identities=12% Similarity=0.026 Sum_probs=112.3
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|.. ..+-.....+++-+.++.+-. ...+..... ...++..-.+....+.. ++.++| .|.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~~-~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHFV-ESFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEEc-cCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 588888864 333334455555555554221 122322222 23445444444555556 777664 444433323
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CC--cEEEEEEEcCc--cccchHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GW--NAVSVIFVDNE--YGRNGVSALN 185 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w--~~vaii~~d~~--~g~~~~~~l~ 185 (938)
.....+...++|+|.+....+. ... +..+..++...+...++++... |. ++++++..... ......+.+.
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3345555689999987432211 111 2235566667777777776654 53 69999875432 3345567889
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++++.+..+......... .+..+....++++.+ .++++|+...+. +..+++.+++.|+. .+...++
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg 217 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVG 217 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEE
Confidence 9998877544322222211 122333445555432 346676666543 46889999999975 3444444
No 183
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.03 E-value=0.28 Score=53.72 Aligned_cols=199 Identities=11% Similarity=-0.013 Sum_probs=106.2
Q ss_pred EEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHH
Q 002309 32 VNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVA 109 (938)
Q Consensus 32 i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~ 109 (938)
.+|+++.... .++-.....+++-+.++. |+++.+. ..+..++..-.+....++.++|.+|+ .|..+...
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al 94 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGL 94 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHH
Confidence 3788888654 333334455555555432 4555442 23444555555667788888887765 45555544
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecC-CchHHHHHHHHHHHhc---CCcEEEEEEEcCc--cccchHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMVSYY---GWNAVSVIFVDNE--YGRNGVSA 183 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~p-s~~~~~~ai~~~l~~~---~w~~vaii~~d~~--~g~~~~~~ 183 (938)
.....-+...+||+|++.+..+. + .. .+-+.. ++...+..+++++.+. +-.+|+++..... ......+.
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~--~~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--E--CR-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--c--cc-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 56666677889999997543221 1 11 122222 3345666666665542 4468888874322 12233456
Q ss_pred HHHHHhh--cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHHHHcCC
Q 002309 184 LNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVAKYLGM 248 (938)
Q Consensus 184 l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~a~~~g~ 248 (938)
+.+.+++ .+++++... +. . .+...-...++.+-+..+++=.+.+... .+...++++++.|.
T Consensus 170 ~~~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 170 AKAKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCC
Confidence 6666644 356665332 21 1 1233333445555444454433333333 33457778887775
No 184
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=96.99 E-value=0.22 Score=52.77 Aligned_cols=203 Identities=10% Similarity=0.098 Sum_probs=111.0
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhH-HH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTV-AH 110 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~-~~ 110 (938)
+||++...+.++-.....+++.+.++ . |+.+.+.. ++..++..-......++.++|.++| .|..... ..
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKE----L----GVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHH----c----CCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 47888765543323334444444433 1 45544432 2334555555556667777887765 4444332 23
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcC--ccccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDN--EYGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~l~~ 186 (938)
.+..+ .. ++|+|......+. . +.+--+..++...+..+++++.+. +-.+++++.... .......+.+++
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~~--~---~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAPD--S---GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCCc--c---ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 9999987432211 1 112235567777788888887654 345666666432 234566788999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++.|+++... ... . ....+....++++-+. .++.|+. .+...+..+++.+++.|+. .+...++
T Consensus 145 ~~~~~~~~~~~~-~~~-~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~al~~~g~~-~di~vig 211 (271)
T cd06314 145 AIKDSKIEIVDT-RGD-E--EDFAKAKSNAEDALNAHPDLKCMFG-LYAYNGPAIAEAVKAAGKL-GKVKIVG 211 (271)
T ss_pred HHhcCCcEEEEE-ecC-c--cCHHHHHHHHHHHHHhCCCccEEEe-cCCccHHHHHHHHHHcCCC-CceEEEE
Confidence 999999876532 111 1 1223344455555433 3455543 3445555678888888875 3333443
No 185
>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=96.92 E-value=0.061 Score=56.76 Aligned_cols=200 Identities=10% Similarity=0.005 Sum_probs=111.5
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~ 111 (938)
+||+++|.... .+...+..++++.-++. |+.+.+ .++..++..-......+.++++.++| .|.... ...
T Consensus 1 ~i~vi~~~~~~---~~~~~~~~gi~~~~~~~----gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~~ 70 (265)
T cd06290 1 TIGVLTQDFAS---PFYGRILKGMERGLNGS----GYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLP-EEE 70 (265)
T ss_pred CEEEEECCCCC---chHHHHHHHHHHHHHHC----CCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCC-hHH
Confidence 47888885321 22233333444433332 455544 44445655444455566677787775 333211 122
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~l~~~l~ 189 (938)
+..+ . .++|+|......+ +...+ .+..++...+..+++.+...|-++++++..+ ........+.+.+.+.
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HHHH-h-cCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 2323 3 4899998754322 11122 3556777788888888877799999999743 2334456678888888
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCe
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGY 253 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~ 253 (938)
+.|+.+.....+... .+.......++++.+. .+++|+ +++...+..+++.+++.|+..++-
T Consensus 143 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~d 205 (265)
T cd06290 143 EAGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPED 205 (265)
T ss_pred HcCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 887654211111111 1122233445555433 356544 456667778889999989765443
No 186
>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=96.90 E-value=0.084 Score=57.78 Aligned_cols=205 Identities=9% Similarity=0.036 Sum_probs=116.9
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChh
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCST 107 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~ 107 (938)
..-.||+++|.. ..+-.....+++-+.++ .|+.+.+. ++..++..-......+..++|.++| -|....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCC
Confidence 356899999853 33323334444444332 25666543 3444554444455566677887765 333221
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~ 185 (938)
....+ ..+...++|+|......+ +..++ .+.+++...+..+++.+...|.++++++.... .......+.+.
T Consensus 129 ~~~~~-~~l~~~~iPvV~~~~~~~---~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 EDAYY-QKLQNEGLPVVALDRSLD---DEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred ChHHH-HHHHhcCCCEEEEccccC---CCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22223 344567999998654322 11223 35567777777888888888999999997433 23455678889
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++++.|+.+... +... ...++-...+.++.+. .+++|+.. +...+..+++++++.| ..++-+-++
T Consensus 202 ~al~~~~~~~~~~--~~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dvsvi 270 (327)
T TIGR02417 202 QALKQATLEVEWV--YGGN--YSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQLHLA 270 (327)
T ss_pred HHHHHcCCChHhE--EeCC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcceEE
Confidence 9999988753211 1111 1122333445555432 35665554 4466778899999999 655444333
No 187
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=96.90 E-value=0.1 Score=56.97 Aligned_cols=204 Identities=8% Similarity=0.033 Sum_probs=128.8
Q ss_pred eeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 30 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
..-.||+++|.-.. ..-..+..++++.=+.. |+.+- +.++..++..-......+..++|.+||=-. ....
T Consensus 57 ~s~~Ig~i~p~~~~---~~~~~i~~gi~~~~~~~----gy~~~--l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~~ 126 (333)
T COG1609 57 RTKTIGLVVPDITN---PFFAEILKGIEEAAREA----GYSLL--LANTDDDPEKEREYLETLLQKRVDGLILLG-ERPN 126 (333)
T ss_pred CCCEEEEEeCCCCC---chHHHHHHHHHHHHHHc----CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEec-CCCC
Confidence 46789999994322 22333333444333332 44444 445555666655566667777888877433 3333
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc--CccccchHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD--NEYGRNGVSALNDK 187 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~l~~~ 187 (938)
......+...++|+|......+ + +.+-.+..++..-+..+++.+-..|.+++++|... ...+....+.+.++
T Consensus 127 ~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a 200 (333)
T COG1609 127 DSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRAA 200 (333)
T ss_pred HHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHHH
Confidence 4455666777999998755443 2 22335667888889999999999999999999964 45567778999999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC---ceEEEEEeChhhHHHHHHHHHHcCCCCCC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME---SRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~---~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 252 (938)
+++.|+... ...+.... .+..+-...+.++.... ++. +++++...|..+++++++.|+..++
T Consensus 201 l~~~~~~~~-~~~i~~~~-~~~~~g~~~~~~ll~~~~~~ptA-if~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 201 LREAGLPIN-PEWIVEGD-FSEESGYEAAERLLARGEPRPTA-IFCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHCCCCCC-cceEEecC-CChHHHHHHHHHHHhcCCCCCcE-EEEcCcHHHHHHHHHHHHcCCCCCC
Confidence 999998751 11111110 11334444455554322 555 4455667888899999999987664
No 188
>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=96.89 E-value=0.094 Score=55.40 Aligned_cols=196 Identities=12% Similarity=0.012 Sum_probs=104.6
Q ss_pred EEEEEeeCC----CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002309 33 NVGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~ 108 (938)
+||++.|.. .++-.....+++.+.++ . |+.+.+. +.. ++..-.+....+.+.+|.+||--... .
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~----~----gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~~-~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE----L----GIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGFL-L 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH----c----CCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCcc-h
Confidence 589999852 22222334444444443 2 4555553 332 33333444556667788888752221 2
Q ss_pred HHHHHHhhccC-CccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh-cCCcEEEEEEEcCccccch-HHHHH
Q 002309 109 AHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY-YGWNAVSVIFVDNEYGRNG-VSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~-~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~-~~~l~ 185 (938)
..........+ ++|++......+. .+.+-.+..+...-+...+.++.. .|-++++++..+....... .+.+.
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~-----~~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDD-----PPNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCC-----CCcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23445555555 8999986432211 011223444555555555566664 3899999997432212222 36788
Q ss_pred HHHhhcc---eEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcC
Q 002309 186 DKLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (938)
Q Consensus 186 ~~l~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g 247 (938)
+.+++.| ..+......... ..+..+-...++++.+.++++|+.. +...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGS-FNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCc-ccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHHHHHHHhcC
Confidence 8888888 543322111111 0112233345556554457864444 5567778889999887
No 189
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.87 E-value=0.1 Score=55.08 Aligned_cols=198 Identities=12% Similarity=0.042 Sum_probs=109.1
Q ss_pred EEEEeeCC----CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 34 VGALFTLD----STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 34 IG~i~~~~----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
||+++|.. ..+-.....+++-+.++ . |+.+.+...|.. ...-......+.+.++.+||-......
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~----~----g~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKK----Y----GYNLILKFVSDE--DEEEFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHH----c----CCEEEEEeCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 78899872 32223334444444333 2 566666655533 222222233355668887774222222
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDK 187 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~ 187 (938)
.....+...++|+|......+ +...++ +..++...+...++++...|.++++++..+.. ......+.|.+.
T Consensus 71 -~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~ 143 (268)
T cd06277 71 -EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKA 143 (268)
T ss_pred -HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHH
Confidence 224456677999998754322 112222 45566667777788887789999999975543 234456788999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCCCCCC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~ 252 (938)
+++.|+.+.....+... ......+...+.++. ..+++|+ +++...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai~-~~~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 144 LLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAFF-CSNDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEEE-ECCcHHHHHHHHHHHHcCCCCCC
Confidence 99888764321111100 011233444443322 2356544 44555667788888888875443
No 190
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=96.86 E-value=0.084 Score=55.68 Aligned_cols=199 Identities=14% Similarity=0.042 Sum_probs=111.7
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
+||++.|.. ..+-.....++ ++.-+.. |+++.+ .++..++..-......+...++.++| .|....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi----~~~~~~~----g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAV----EKELYKK----GYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHH----HHHHHHC----CCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 478888743 33223333444 4433332 455543 44545555544555556666777665 333222
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC---ccccchHHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN---EYGRNGVSALNDK 187 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~---~~g~~~~~~l~~~ 187 (938)
. ..+...++|+|......+ ...+ .+.+++...+..+++++...|.++++++.... .......+.+.+.
T Consensus 68 -~-~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 -I-EEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -H-HHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 1 234567999998755432 1223 35666677788888888888999999997432 3344566889999
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++.|+.+.... .... .+..+....+.++-.. .+++|+. ++...+..+++.+++.|...++-+-++
T Consensus 139 l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~di~v~ 206 (265)
T cd06291 139 LKENGLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPEDLQII 206 (265)
T ss_pred HHHcCCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEe
Confidence 998887542211 1111 1122223344444333 3455444 344567788899999887644433333
No 191
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=96.85 E-value=0.0082 Score=65.32 Aligned_cols=112 Identities=21% Similarity=0.280 Sum_probs=63.8
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHHH---hcccccccc-cccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSRL-VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 763 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 763 (938)
.+|.+++||. |++|++..++..+.++.. ..+.+...+ ..+.++.+...++.+ |++|+++...++......
T Consensus 119 s~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~----G~vDa~~~~ep~~~~~~~ 192 (314)
T PRK11553 119 SPIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQ----GNVDAWAIWDPYYSAALL 192 (314)
T ss_pred CCCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHc----CCCCEEEEcCcHHHHHHh
Confidence 4678999998 888999888766665533 223322222 123466678899999 899999887777665544
Q ss_pred cCC-cEEEeCccccccceEeeecCC--CcchhhHHHHHHhhhccC
Q 002309 764 SQC-SFRIVGQEFTKSGWGFAFPRD--SPLAVDLSSAILELAENG 805 (938)
Q Consensus 764 ~~~-~l~~~~~~~~~~~~~~~~~k~--spl~~~i~~~il~l~e~G 805 (938)
+.. ++...+..+...+..+.+... ....+.+++.+..+.+..
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~l~a~~~A~ 237 (314)
T PRK11553 193 QGGVRVLKDGTDLNQTGSFYLAARPYAEKNGAFIQQVLATLTEAD 237 (314)
T ss_pred cCCcEEeecCcccCcCceEEEEcHHHHHHCHHHHHHHHHHHHHHH
Confidence 432 333333333333323333321 124455555555555443
No 192
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=96.84 E-value=0.26 Score=53.05 Aligned_cols=199 Identities=7% Similarity=-0.040 Sum_probs=112.1
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~~~ 110 (938)
+||++.|.. .++-.....+++-+.++ . |+++.+. .++..++....+....++.+++.+||= +.......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~----~----g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE----L----GVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH----h----CCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 588888753 33323444555555554 2 4444432 244456666666666777777877663 33333333
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CC-cEEEEEEEcCc--cccchHHHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GW-NAVSVIFVDNE--YGRNGVSALND 186 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w-~~vaii~~d~~--~g~~~~~~l~~ 186 (938)
.....+...++|+|.+....+. . . ..+....+++...+..+++++... +- ++++++..+.. ......+.+++
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~-~--~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP-D--N-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC-C--c-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 4444566789999987532211 0 0 123334567777888888887665 44 69999874332 23445678899
Q ss_pred HHhhcc---eEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 187 KLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 187 ~l~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
++++.| +++.. .+... .+.......++++-+. .+++|+. .+...+..+++.+++.|+.
T Consensus 148 ~l~~~g~~~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 148 YQKEKYYPMLELVD--RQYGD--DDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHhhcCCCCeEEeC--cccCC--CCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC
Confidence 999887 23211 11111 1222333344444322 3444443 4456778899999999975
No 193
>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=96.82 E-value=0.095 Score=55.16 Aligned_cols=199 Identities=10% Similarity=-0.031 Sum_probs=107.3
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||+++|... ....+...+..++++.-+.. |+.+.+ .++. ++....+....+...+|.+||=.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~----gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL----GVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc----CceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 5899998511 11233444444555543332 455444 4444 44444455556666678876542222 22334
Q ss_pred HHhhcc-CCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc-CCcEEEEEEEcC-ccccchHHHHHHHHh
Q 002309 113 SYVSNE-LQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY-GWNAVSVIFVDN-EYGRNGVSALNDKLA 189 (938)
Q Consensus 113 a~~~~~-~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~-~w~~vaii~~d~-~~g~~~~~~l~~~l~ 189 (938)
...... .++|++......+. +...+ .+..++..-+...+.++... |-+++++|..+. .......+.|.++++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 455543 37898876442211 01112 23345554555556666655 889999997532 233445678899999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcC
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g 247 (938)
+.|..+......... ..+..+....++++.+..+++| ++.+...+..+++++++.|
T Consensus 147 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGS-FFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecC-ccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 888643321111111 0112233445566554557765 5566667778899999888
No 194
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=96.80 E-value=0.26 Score=53.02 Aligned_cols=194 Identities=12% Similarity=0.020 Sum_probs=107.6
Q ss_pred EEEEEeeCCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhH-H
Q 002309 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTV-A 109 (938)
Q Consensus 33 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~-~ 109 (938)
+||++.|... ++-.....+++-+.++ .|+.+.+...+...+...-......+++++|.+|| .|..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKH--------LGVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHH--------hCCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 5899998542 2112223344433332 25555554333333554555566667777888775 3432222 2
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCC------cEEEEEEEcC--ccccchH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGW------NAVSVIFVDN--EYGRNGV 181 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w------~~vaii~~d~--~~g~~~~ 181 (938)
..+..+ . .++|+|.+..... .. ..+-.+..++..-+..+++++.. +- .+++++.... .......
T Consensus 73 ~~l~~~-~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~-~~~~~~g~~~I~~i~g~~~~~~~~~R~ 144 (295)
T TIGR02955 73 HDLAQL-T-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQ-RHPKGSGPTTLAWLPGPKNRGGTKPVT 144 (295)
T ss_pred HHHHHH-h-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHH-hcccCCCCeeEEEEeCCCcCCchhHHH
Confidence 333433 3 4899987532211 11 12334666777778888887665 33 4699997433 3345567
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
..+++++++.|+++... .... .+..+-...++++-+ .++++| +++...+..+++++++.|.
T Consensus 145 ~Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 145 QGFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 88999999988876532 1211 122333344555433 235654 4455567778888888776
No 195
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=96.79 E-value=0.085 Score=55.51 Aligned_cols=200 Identities=16% Similarity=0.101 Sum_probs=110.8
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI 111 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~ 111 (938)
.||++.|.. ..+-.....+++.+.+ .. |+.+.+...+ +... ....+...++.++|-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~----~~----g~~~~~~~~~---~~~~---~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAIS----KN----GYNMNVSITP---SLAE---AEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHH----Hc----CCEEEEEecc---cHHH---HHHHHHHcCcCEEEEeCCCCChHH
Confidence 478899864 2222333444444443 22 4555555443 2222 223455557776652222222222
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHHHHHh
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALNDKLA 189 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~~~l~ 189 (938)
+ ..+...++|+|......+ ..++ .+..++...+..+++.+...|-++++++..... ........+.+.++
T Consensus 67 ~-~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 Y-LYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred H-HHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2 344578899998644322 1222 356777888889999888889999999975432 33445678889999
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|+.+......... .+.......+.++-+.. +++ |++++...+..+++.+++.|+..++-+-+.
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~vv 205 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIEII 205 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 888643211111111 11223334455554333 455 444555667788899999998655444333
No 196
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=96.78 E-value=0.12 Score=56.96 Aligned_cols=207 Identities=11% Similarity=0.054 Sum_probs=113.7
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV 108 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~ 108 (938)
..-.||+++|.- ..+-.....+++.+.++ . |+.+ .+.++..++..-......++.++|.++|--.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~----~----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYH----T----GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHH----c----CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 357899999842 33222333444433332 2 3443 34455555554445555667777877663211111
Q ss_pred HHHHHHhhccCCcc-EEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHH
Q 002309 109 AHIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~~iP-~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~ 185 (938)
...+..+.. ++| ++......+ +...+ .+.+++...+..+++.+...|.+++++|.... .......+.|.
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~---~V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENR---CIALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 222333333 677 666533211 11122 25567777778888888888999999997433 23455678899
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++++.|+.+......... .+...-...++++.+. .+++|+ +.+...+..+++++++.|+..++-+-|.
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 200 DALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 9999998754321111111 1122223344454333 356554 4455677789999999998665444443
No 197
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.76 E-value=0.086 Score=55.64 Aligned_cols=201 Identities=11% Similarity=0.048 Sum_probs=112.3
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||++.|.+..+-.....+++-+.++. + |+.+.+. +. +. .+....+...+|.++|-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~--~~--~~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLE--PR--GL---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEe--cc--cc---hhhhhhccccccceEEEECCCH---HH
Confidence 489999965544444455555444443 2 4554442 22 11 2233344455788777432222 12
Q ss_pred HHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc-cccchHHHHHHHHhhc
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAER 191 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~-~g~~~~~~l~~~l~~~ 191 (938)
...+...++|+|......+. +.+-.+..++...+..+++.+...|-++++++..... ......+.+++++++.
T Consensus 64 ~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~ 137 (265)
T cd01543 64 AEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEA 137 (265)
T ss_pred HHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHc
Confidence 23445679999987543221 2233577888888898999888889999999874332 2234467889999998
Q ss_pred ceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCC-eEEEE
Q 002309 192 RCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNG-YVWIA 257 (938)
Q Consensus 192 g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~-~~wi~ 257 (938)
|..+............+..+....+.++-+. .+++ |++++...+..+++.+++.|+..++ ...++
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vig 205 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIAVPEEVAVLG 205 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCCCCCceEEEe
Confidence 8765211111000000112223344444322 3554 4444556777788899988875443 34444
No 198
>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=96.71 E-value=0.13 Score=54.28 Aligned_cols=200 Identities=12% Similarity=0.107 Sum_probs=115.4
Q ss_pred EEEEEeeCCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHH
Q 002309 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~ 110 (938)
.||+++|... .+-.....+++.++++ .|+++.+ .++..++..-......+..+++.++| .|......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVIL--CNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 4889998753 2223345555555554 1566644 44445555444444556666676554 33322222
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc-CccccchHHHHHHHHh
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-NEYGRNGVSALNDKLA 189 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d-~~~g~~~~~~l~~~l~ 189 (938)
... ....++|+|......+ ...+++ +..++...+..+++.+...|-++++++..+ ..........+.++++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 222 3466899998754332 222343 346777778888899888899999998743 2233455678889998
Q ss_pred hcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 190 ERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 190 ~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.|+..... ..... ..+....+.++-.. .+++| ++.+...+..+++.+++.|+..++-+.+.
T Consensus 142 ~~~~~~~~~-~~~~~----~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~ii 205 (263)
T cd06280 142 RHGLAPDAR-FVAPT----AEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLALA 205 (263)
T ss_pred HcCCCCChh-hcccC----HHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 888654221 11111 22323344444332 35554 44556667889999999998655544444
No 199
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.70 E-value=0.12 Score=54.64 Aligned_cols=201 Identities=8% Similarity=-0.034 Sum_probs=112.9
Q ss_pred EEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHH-HHhcCcEEEEcCCChhHHH
Q 002309 33 NVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALR-FMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 33 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~-li~~~V~aviGp~~s~~~~ 110 (938)
.||++.|.. .++-.....++..+.++ .|+.+.+...+. + ........+ +...+|.+||=-..... .
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~ 68 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-E 68 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-h
Confidence 378898864 33323344455544444 156666644432 2 122233333 44556776653222112 2
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--c------cccchHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--E------YGRNGVS 182 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~------~g~~~~~ 182 (938)
.....+...++|+|...... ...++ +.+++...+...++.+... .++++++..+. . .+....+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~-----~~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~ 139 (269)
T cd06297 69 RLAERRLPTERPVVLVDAEN-----PRFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRA 139 (269)
T ss_pred HHHHHHhhcCCCEEEEccCC-----CCCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHH
Confidence 34445667899999875422 11232 4567777788888887766 89999986432 2 3445678
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
.+++++++.|+++.....+... .+..+....+.++-+. .+++|+.. +...+..+++.+++.|...++-+-+.
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8999999988764321111111 1123344556665433 34554444 45577789999999998665555444
No 200
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.66 E-value=0.14 Score=54.63 Aligned_cols=196 Identities=14% Similarity=0.081 Sum_probs=110.9
Q ss_pred EEEEEeeCC------CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh
Q 002309 33 NVGALFTLD------STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS 106 (938)
Q Consensus 33 ~IG~i~~~~------~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s 106 (938)
.||++.|.. .++-.....+++-+.++ . |+.+.+...+. .. .....+...++.++|--...
T Consensus 1 ~igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~----~----g~~~~~~~~~~---~~---~~~~~~~~~~~dgiii~~~~ 66 (283)
T cd06279 1 AVGVVLTDSLSYAFSDPVASQFLAGVAEVLDA----A----GVNLLLLPASS---ED---SDSALVVSALVDGFIVYGVP 66 (283)
T ss_pred CEEEEeCCcccccccCccHHHHHHHHHHHHHH----C----CCEEEEecCcc---HH---HHHHHHHhcCCCEEEEeCCC
Confidence 388999862 22223344444433333 1 46665544332 11 23334556688877753222
Q ss_pred hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC------------
Q 002309 107 TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN------------ 174 (938)
Q Consensus 107 ~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~------------ 174 (938)
... .....+...++|+|......+ +.+-.+..++...+...++++...|-++++++..+.
T Consensus 67 ~~~-~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~ 138 (283)
T cd06279 67 RDD-PLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDE 138 (283)
T ss_pred CCh-HHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCcccccccccccccc
Confidence 222 334445678999998744321 122346678888899999999888999999997532
Q ss_pred -------ccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHH
Q 002309 175 -------EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 175 -------~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~ 245 (938)
.......+.+.+++++.|++......+... ..+..+....++++-.+. +++|+ +++...+..+++.+++
T Consensus 139 ~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~ 216 (283)
T cd06279 139 RLASATFSVARERLEGYLEALEEAGIDISDVPIWEIP-ENDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVARE 216 (283)
T ss_pred cccccccccHHHHHHHHHHHHHHcCCCCChheEEecC-CCchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHH
Confidence 123345678888998888543211111111 012334445555554333 45544 4455667778999999
Q ss_pred cCCCCCC
Q 002309 246 LGMMGNG 252 (938)
Q Consensus 246 ~g~~~~~ 252 (938)
.|+..++
T Consensus 217 ~g~~ip~ 223 (283)
T cd06279 217 LGLRVPE 223 (283)
T ss_pred cCCCCCC
Confidence 9986544
No 201
>PRK09526 lacI lac repressor; Reviewed
Probab=96.63 E-value=0.31 Score=53.70 Aligned_cols=204 Identities=11% Similarity=0.071 Sum_probs=115.0
Q ss_pred eEEEEEEeeCCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE--cCCChh
Q 002309 31 VVNVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCST 107 (938)
Q Consensus 31 ~i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi--Gp~~s~ 107 (938)
.-.||+++|... .+-.....+++-+.++ .|+.+.+...+.. ++..-......+..++|.+|| +|..+.
T Consensus 63 ~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~~-~~~~~~~~l~~l~~~~vdGiii~~~~~~~ 133 (342)
T PRK09526 63 SLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVERS-GVEACQAAVNELLAQRVSGVIINVPLEDA 133 (342)
T ss_pred CceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCCC-hHHHHHHHHHHHHhcCCCEEEEecCCCcc
Confidence 457999998542 2222344444444432 2566665433321 222323444566677887766 344332
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALN 185 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~ 185 (938)
....+. ....++|++..... + ... +-.+..++...+..+++++...|.++++++..+. .........+.
T Consensus 134 ~~~~~~--~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf~ 204 (342)
T PRK09526 134 DAEKIV--ADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGWL 204 (342)
T ss_pred hHHHHH--hhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHHH
Confidence 222221 12358999976432 1 111 2235667777788888988888999999997432 23345567889
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+++++.|+.+.... ... .+..+-...+.++-.. .+++|+ +++...+..+++.+++.|+..++-+-|+
T Consensus 205 ~al~~~gi~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~disvi 273 (342)
T PRK09526 205 EYLTDYQLQPIAVR--EGD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQISVI 273 (342)
T ss_pred HHHHHcCCCcceEE--eCC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 99999987643211 111 1122223344444332 356544 4455667789999999998765544443
No 202
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.60 E-value=0.21 Score=54.66 Aligned_cols=206 Identities=9% Similarity=0.005 Sum_probs=115.7
Q ss_pred eEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 31 ~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
.-.||++.|.- .++-.....+++-+.++ .|+++.+ .+...++..-......++.++|.+||-......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~- 131 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT- 131 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-
Confidence 45899999853 33323344444444432 2455544 444445544444445566667877763211111
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC-ccccchHHHHHHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDKL 188 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~l~~~l 188 (938)
......+...++|+|...... .+ .... .+.+++..-+..+++.+...|.++++++.... .........+.+++
T Consensus 132 ~~~~~~l~~~~iPvV~~~~~~---~~-~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 132 PRTLKMIEVAGIPVVELMDSQ---SP-CLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred HHHHHHHHhCCCCEEEEecCC---CC-CCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 222334567799999753211 01 1111 36677778888888988889999999996432 22334568889999
Q ss_pred hhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 189 AERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 189 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++.|+... ...+... ....+-...++++.+. .+++|+ +++...+..+++++++.|+..++-+-|.
T Consensus 206 ~~~g~~~~-~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 206 LDAGLVPY-SVMVEQS--SSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHcCCCcc-ceeecCC--CChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 99886311 1111111 1112223344554333 356554 4455677788999999998766555444
No 203
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=96.56 E-value=0.015 Score=60.66 Aligned_cols=121 Identities=20% Similarity=0.308 Sum_probs=73.9
Q ss_pred CCCCChHHhhhCCCCeeEEeCchH-----HHHHH-Hhcccccc---cccccCCHHHHHHHHhcCCCCCceEEEEecchhH
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFA-----EYYLS-QELNISKS---RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 758 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~-----~~~~~-~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 758 (938)
.+|++++||. |++|++...+.. -.... ++.++... ..+...+.+..+.+|.+ |+.|+.+......
T Consensus 95 s~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~----G~~Da~~~~~~~~ 168 (243)
T PF12974_consen 95 SPITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLN----GKADAAAIPSDAF 168 (243)
T ss_dssp SS--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHT----TSSSEEEEEHHHH
T ss_pred CCCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHc----CCccEEEEechhH
Confidence 5789999998 999998754422 22222 23333321 22345678889999999 8999888887776
Q ss_pred HHHHhcC----CcEEEeCccccccceEeeecCCCc--chhhHHHHHHhhhccCcHHHHHHhh
Q 002309 759 ELFLSSQ----CSFRIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILELAENGDLQRIHDKW 814 (938)
Q Consensus 759 ~~~~~~~----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~il~l~e~G~~~~l~~~w 814 (938)
+-+.... .+++++...-......++..++-| .++.|-.+++.+..+-.-.++.+.+
T Consensus 169 ~~~~~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 169 ERLEAEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HHHHHH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HHHHHccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 6665542 357776554333445677777755 8999999999999864334444444
No 204
>PRK09492 treR trehalose repressor; Provisional
Probab=96.48 E-value=0.26 Score=53.59 Aligned_cols=191 Identities=13% Similarity=0.022 Sum_probs=111.9
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCC-Chh
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQ-CST 107 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~-~s~ 107 (938)
..-+||++.|.- .++-.....++ .+++++. |+.+ .+.++..++.........+...+|.++|-.. ...
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i---~~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTM---LPAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHH---HHHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 346899999853 32222333333 3444433 4544 4455656665555555556666888777532 221
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc---CccccchHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSAL 184 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~l 184 (938)
.. ......++|++...... +.+-.+.+++...+..+++.+...|-++++++... ...+....+.+
T Consensus 131 ~~----~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf 198 (315)
T PRK09492 131 TE----EMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAY 198 (315)
T ss_pred cH----HHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHH
Confidence 22 22334467777653211 11224556777778888888888899999999632 22345677899
Q ss_pred HHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
.+++++.|+.+... ... .+.......++++.+.++++|+.. +...+..+++.+++.|+
T Consensus 199 ~~al~~~g~~~~~~--~~~---~~~~~~~~~~~~~l~~~~~ai~~~-~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 199 LAFCKQHKLTPVAA--LGG---LSMQSGYELVAKVLTPETTALVCA-TDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHcCCCceee--cCC---CCchHHHHHHHHHhhcCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 99999999865321 111 112222334455544567877644 45677788999999987
No 205
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.32 E-value=0.36 Score=53.25 Aligned_cols=206 Identities=8% Similarity=-0.042 Sum_probs=112.5
Q ss_pred eEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 31 ~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
.-.||+++|.. ..+-.....+++-+.++. |+.+ .+.++..++..-......+..+++.++|--......
T Consensus 59 ~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~~ 128 (346)
T PRK10401 59 SDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYV--LIGNSYHEAEKERHAIEVLIRQRCNALIVHSKALSD 128 (346)
T ss_pred CCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEE--EEEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCh
Confidence 46799999854 332233344444444332 3443 334454455444444555666677766532111111
Q ss_pred HHHHHhhccCCcc-EEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcC--ccccchHHHHHH
Q 002309 110 HIVSYVSNELQVP-LLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDN--EYGRNGVSALND 186 (938)
Q Consensus 110 ~~va~~~~~~~iP-~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~l~~ 186 (938)
..+..+.. ++| ++......+. ..++ .+..++..-+...++++...|-+++++|.... ..+....+.+.+
T Consensus 129 ~~~~~~~~--~~p~vV~i~~~~~~---~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~ 200 (346)
T PRK10401 129 DELAQFMD--QIPGMVLINRVVPG---YAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMS 200 (346)
T ss_pred HHHHHHHh--cCCCEEEEecccCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHH
Confidence 22333443 355 6654432211 1122 25567777778888888888999999997432 334566788999
Q ss_pred HHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 187 KLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 187 ~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
++++.|+.+......... .....-...+.++.+. .+++|+ +.+...+..+++.+++.|+..++-+-++
T Consensus 201 al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 201 ALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999998754321111111 1122222344444332 356655 4456677789999999998765444443
No 206
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.25 E-value=0.33 Score=52.55 Aligned_cols=207 Identities=10% Similarity=-0.001 Sum_probs=115.8
Q ss_pred eeEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChh
Q 002309 30 AVVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST 107 (938)
Q Consensus 30 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~ 107 (938)
.+-+||++.|.. ..+-.....+++-+.++. |+.+.+ .+...+...-......+...+|.+||= |....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~ 103 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSRLP 103 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 346899999853 433344455555555542 344433 344445544444555666677877663 22211
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc--cccchHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE--YGRNGVSALN 185 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~l~ 185 (938)
..... .......|++......+. ..++ .+..++...+...++.+...|-+++++|..... ......+.|+
T Consensus 104 -~~~~~-~~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 104 -FDASK-EEQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred -hHHHH-HHHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 11111 122222367654332221 1223 355677888888889888889999999974332 2345678889
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
+.+++.|+++.....+... .........+.++.+. .+++|+. ++...+..+++++++.|+..++-+.++
T Consensus 176 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 176 QALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 9999888764321111111 1233344555665443 3666664 455666678889999887554444444
No 207
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=96.13 E-value=0.054 Score=58.48 Aligned_cols=70 Identities=21% Similarity=0.247 Sum_probs=47.3
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHH---Hhcccccc--cccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHH
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLS---QELNISKS--RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFL 762 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~---~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~ 762 (938)
..|++++||. |++||+..++..+.++. +..+++.. .++.+ .+.+...++.+ |++||++...++.....
T Consensus 90 s~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~----G~vDa~~~~~p~~~~~~ 162 (300)
T TIGR01729 90 SGIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL-KPPQIVAAWQR----GDIDAAYVWPPALSELL 162 (300)
T ss_pred CCCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec-CcHHHHHHHHc----CCcCEEEEecHHHHHHH
Confidence 4689999998 99999987765444332 22333322 22222 46678899999 89999998888766554
Q ss_pred hc
Q 002309 763 SS 764 (938)
Q Consensus 763 ~~ 764 (938)
..
T Consensus 163 ~~ 164 (300)
T TIGR01729 163 KS 164 (300)
T ss_pred hc
Confidence 43
No 208
>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=96.01 E-value=0.43 Score=50.44 Aligned_cols=197 Identities=9% Similarity=0.034 Sum_probs=109.2
Q ss_pred EEEEEeeCCC--cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE--cCCChhH
Q 002309 33 NVGALFTLDS--TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCSTV 108 (938)
Q Consensus 33 ~IG~i~~~~~--~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi--Gp~~s~~ 108 (938)
+||++.+.+. ..+..+...+..++++.-++. |+.+.+... ..+. ....++|.++| ++. +.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~--~~~~--------~~~~~~vdgii~~~~~-~~- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFR--DDDL--------LEILEDVDGIIAIGKF-SQ- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEec--cchh--------HHhccCcCEEEEecCC-CH-
Confidence 5899998542 222334444444555544442 555555433 2211 12344666554 333 22
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCc-------cccchH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNE-------YGRNGV 181 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~-------~g~~~~ 181 (938)
.....+...++|++...... .+..++ .+..++...+..+++.+.+.|-++++++..... ......
T Consensus 65 --~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~ 136 (270)
T cd01544 65 --EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRE 136 (270)
T ss_pred --HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHH
Confidence 33344556789999864321 122233 366778888888899888889999999985432 334457
Q ss_pred HHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHh-cC---CceEEEEEeChhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 182 SALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-LM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 182 ~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk-~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
..+.+++.+.|.. .....+... .+..+....++++- +. .+++| ++++...+..+++.+++.|+..++-+-|.
T Consensus 137 ~gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~v~ 212 (270)
T cd01544 137 TAFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTAF-FIASDPMAIGALRALQEAGIKVPEDVSVI 212 (270)
T ss_pred HHHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 7888999888841 100011111 11222233444433 22 24544 44566778889999999998655444443
No 209
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=95.77 E-value=2.7 Score=45.23 Aligned_cols=198 Identities=7% Similarity=-0.011 Sum_probs=99.2
Q ss_pred EEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHH
Q 002309 34 VGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHI 111 (938)
Q Consensus 34 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~ 111 (938)
||++.|.. ..+-.....+++-+.++. |....+...++..++..-.+....++++++.+|| -|..+.....
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~ 72 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL--------GSVYIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVP 72 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh--------CCeeEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 57777653 322233445555555443 2211122223455666666677777777777654 3444443334
Q ss_pred HHHhhccCCccEEEcccCCCCCCCCCCCceEEecC-CchHHHHHHHHHH-Hhc-CCcEEEEEEEcCcc--ccchHHHHHH
Q 002309 112 VSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQ-SDSYQMTAVAEMV-SYY-GWNAVSVIFVDNEY--GRNGVSALND 186 (938)
Q Consensus 112 va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~p-s~~~~~~ai~~~l-~~~-~w~~vaii~~d~~~--g~~~~~~l~~ 186 (938)
....+...+||+|.+....+. + +....+.. +....++..++.+ +++ +-.+|++|..+... .....+.+.+
T Consensus 73 ~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~ 147 (302)
T TIGR02637 73 ALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKK 147 (302)
T ss_pred HHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHH
Confidence 445566789999986543211 1 12233433 3333444444443 332 23699998754321 1223466777
Q ss_pred HHhhcc---eEEEEEeecCCCCCCChhhHHHHHHHHhcCC--ceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 187 KLAERR---CRISYKSGIPPESGVNTGYVMDLLVKVALME--SRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 187 ~l~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~--~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
.+++.| .++.... ... ...++....++++-+.. +++|+. .....+..+++++++.|..
T Consensus 148 ~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~L~~~~~~~ai~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 148 ELKDPKYPKVKLVATV--YGD--DDAQKSYQEAQGLLKSYPNLKGIIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred HHhhccCCCCEEEeee--cCC--chHHHHHHHHHHHHHhCCCccEEEe-CCCchHHHHHHHHHhcCCC
Confidence 776643 3432211 111 12233344455543333 445554 3345666778888888864
No 210
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=95.62 E-value=1.6 Score=46.99 Aligned_cols=198 Identities=8% Similarity=-0.048 Sum_probs=109.3
Q ss_pred EEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE-cCCChhHHHHH
Q 002309 34 VGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII-GPQCSTVAHIV 112 (938)
Q Consensus 34 IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi-Gp~~s~~~~~v 112 (938)
||++.|.- +......+..++++.=+.. |+.+ .+.++..++..-.+....++.++|.+|| .|.........
T Consensus 1 ig~~~~~~---~~~~~~~~~~~i~~~a~~~----g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~ 71 (302)
T TIGR02634 1 IGVSIDDL---RLERWQKDRDIFVAAAESL----GAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNA 71 (302)
T ss_pred CeeecCcc---chhhHHHHHHHHHHHHHhc----CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHH
Confidence 56666532 1223333333444442222 4544 4456766776666667777777777664 34333333444
Q ss_pred HHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCc-EEEEEEEcC--ccccchHHHHHHHHh
Q 002309 113 SYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDN--EYGRNGVSALNDKLA 189 (938)
Q Consensus 113 a~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~-~vaii~~d~--~~g~~~~~~l~~~l~ 189 (938)
...+...++|+|.+....+ ..+....+..+....+..+++++...+-+ +++++..+. .........+++.++
T Consensus 72 l~~~~~~~iPvV~~d~~~~-----~~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~ 146 (302)
T TIGR02634 72 VQEAKDEGIKVVAYDRLIN-----DADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQ 146 (302)
T ss_pred HHHHHHCCCeEEEecCcCC-----CCCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHh
Confidence 4556778999998744321 11223346677778888889988777655 788776432 223334567777777
Q ss_pred hc----ceEEEEEeecCCCCCCChhhHHHHHHHHhc---CCceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 190 ER----RCRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 190 ~~----g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~---~~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
+. ++.+.... +... ....+....++++-. ..+++|+. ++...+..+++++++.|+.
T Consensus 147 ~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 147 PAIDSGDIKIVGDQ-WVDG--WLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhccCCCeEEecCc-CCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 63 35543221 1111 123334455555432 23565444 3445566788999998874
No 211
>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=95.55 E-value=0.048 Score=45.24 Aligned_cols=57 Identities=25% Similarity=0.426 Sum_probs=50.0
Q ss_pred cccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 002309 620 KRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILT 682 (938)
Q Consensus 620 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt 682 (938)
..+..+++||++.++..-| +++..|.+..+|++.+.+.++++.+.....+.+++.++
T Consensus 22 ~~~~~da~yfs~~t~tTvG------yGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVG------YGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---------SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhccc------CCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5678999999999999888 67889999999999999999999999999999999875
No 212
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=95.45 E-value=1.6 Score=47.33 Aligned_cols=190 Identities=12% Similarity=0.004 Sum_probs=107.5
Q ss_pred eEEEEEEeeCC-CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChhH
Q 002309 31 VVNVGALFTLD-STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCSTV 108 (938)
Q Consensus 31 ~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~~ 108 (938)
.-.||+++|.- ..+-.....++.- ...+. |+.+-+ .++..++.........+...+|.++|- |.....
T Consensus 59 ~~~Ig~i~~~~~~~~~~~~~~~i~~---~~~~~-----gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~~ 128 (311)
T TIGR02405 59 DKVVAVIVSRLDSPSENLAVSGMLP---VFYTA-----GYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGCD 128 (311)
T ss_pred CCEEEEEeCCcccccHHHHHHHHHH---HHHHC-----CCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCCC
Confidence 45799999852 2221122233332 22222 455433 445455544444444455557777663 222111
Q ss_pred HHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc---CccccchHHHHH
Q 002309 109 AHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD---NEYGRNGVSALN 185 (938)
Q Consensus 109 ~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~l~ 185 (938)
.. .....++|++...... ...+ .+.+++..-+..+++++...|-+++++|..+ ...+....+.+.
T Consensus 129 ~~----~l~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~ 196 (311)
T TIGR02405 129 EE----ILESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYL 196 (311)
T ss_pred HH----HHHhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHH
Confidence 12 2234577888764321 1122 3567777778888888888899999999732 234556678899
Q ss_pred HHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 186 DKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 186 ~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
+++++.|+.... .... .+..+....++++-+.+++.|+ +++...+..+++.+++.|.
T Consensus 197 ~a~~~~gi~~~~---~~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 197 AYCESANLEPIY---QTGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHcCCCcee---eeCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 999999986321 1111 1122333444444334577664 5566677888999999886
No 213
>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=95.32 E-value=0.77 Score=48.10 Aligned_cols=195 Identities=13% Similarity=-0.011 Sum_probs=101.7
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||+++|-. .....+..+...+++++.+.. |.++.+ .+...++........++++++..+||+. +.....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~~--~e~~~~~~~~~~~i~~~~~~g~dlIi~~-g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVTY--VENVPEGADAERVLRELAAQGYDLIFGT-SFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEEE--EecCCchHhHHHHHHHHHHcCCCEEEEC-chhhhHHH
Confidence 578888733 111234444455666665543 444444 4444466677777888888899999983 33444555
Q ss_pred HHhhccC-CccEEEcccCCCCCCCCCCCceEEecCCch---HHHHHHHHHHHhcCCcEEEEEEEcC-ccccchHHHHHHH
Q 002309 113 SYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDS---YQMTAVAEMVSYYGWNAVSVIFVDN-EYGRNGVSALNDK 187 (938)
Q Consensus 113 a~~~~~~-~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~---~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~l~~~ 187 (938)
..++..+ ++.++...+.. . .|++........ ..+-.++..+.. -.+|++|.... +........|.+.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~---~---~~Nv~~~~~~~~e~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G 144 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYK---T---APNVGSYFARIYEGRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALG 144 (258)
T ss_pred HHHHHHCCCCEEEECCCCC---C---CCCeeeEechhhHHHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHH
Confidence 5555554 44444332211 1 133333322222 223333333333 35899987432 2233445666666
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcC
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLG 247 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g 247 (938)
++..+-.+.....+.-. -.+...-......+...++|+|+-.+ .....+++|++.|
T Consensus 145 ~~~~~p~~~v~~~~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 145 ARSVNPDATVKVIWTGS-WFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred HHHHCCCcEEEEEEecC-CCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 65443322222222211 01233335555666678999888877 2345788888866
No 214
>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=95.06 E-value=2.9 Score=44.37 Aligned_cols=202 Identities=10% Similarity=0.003 Sum_probs=102.5
Q ss_pred EEEEEeeCCC-cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEc-CCChh-HH
Q 002309 33 NVGALFTLDS-TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIG-PQCST-VA 109 (938)
Q Consensus 33 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviG-p~~s~-~~ 109 (938)
+||++.|... ++-.....+++.+.++. |+.+ .+.++..++..-.+....++.++|.+||= +.... ..
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 5888888532 22122333443333322 3443 44556566666556666677777776653 22212 22
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCC-ceEEecCCchHHHHHHHHHHHhc--CCcEEEEEEEcCc-ccc---chHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYP-FFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIFVDNE-YGR---NGVS 182 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p-~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~~d~~-~g~---~~~~ 182 (938)
..+. .+...++|+|......+. .....+ .+-.+..++...+..++++|... |-++++++..... ... ...+
T Consensus 72 ~~~~-~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~ 149 (280)
T cd06315 72 AELE-LAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMK 149 (280)
T ss_pred HHHH-HHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHH
Confidence 3333 345679999987542111 000011 13446677778888899987766 8899999863321 111 2333
Q ss_pred HHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC---CceEEEEEeChhhHHHHHHHHHHcCCCCC
Q 002309 183 ALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM---ESRVIVLHVSPSLGFQVFSVAKYLGMMGN 251 (938)
Q Consensus 183 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~---~~~viv~~~~~~~~~~~l~~a~~~g~~~~ 251 (938)
.+.+++++.++ ......... .........++++-.. .+++ |++++...+..+++.+++.|+..+
T Consensus 150 ~~~~a~~~~~~--~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 150 EIIEACKGCTV--LSIEDVPIS--RTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHhCCCCEE--EEecccCcc--hhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 34443333332 111111111 1111111233333222 2554 445555677788899999998654
No 215
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily. This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA bin
Probab=95.03 E-value=0.89 Score=44.24 Aligned_cols=70 Identities=20% Similarity=0.310 Sum_probs=45.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..++++.+.++.+ ++++.+.. .....++..|.+|++|+++..... ....++ ..++....+++++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecC
Confidence 345677777777764 25566654 346789999999999999864432 222333 345666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 216
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=94.82 E-value=0.55 Score=49.77 Aligned_cols=110 Identities=22% Similarity=0.261 Sum_probs=73.9
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHH------HHHHhccccc---ccccccC-CHHHHHHHHhcCCCCCceEEEEecchh
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEY------YLSQELNISK---SRLVALR-TPEDYAKALKDGPGKGGVAAVVDERPY 757 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~------~~~~~~~~~~---~~~~~~~-~~~~~~~~l~~~~~~g~~~a~i~~~~~ 757 (938)
++|++++||. |+++++..-+.... ++.++.+.+. -.-+.+. .-+.++.+|.+ |.+|+.......
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~n----G~vDva~~~~~~ 207 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVAN----GQVDVAAVNSSA 207 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHc----CCceEEeccHHH
Confidence 7899999999 99999975433222 2322222221 1112233 47889999999 899988877665
Q ss_pred HHHHHhcC-----CcEEEeCccccccceEeeecCCCc--chhhHHHHHHhhhc
Q 002309 758 VELFLSSQ-----CSFRIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILELAE 803 (938)
Q Consensus 758 ~~~~~~~~-----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~il~l~e 803 (938)
...+.... .++.++...-......++++++.| +++.+..+++.+.+
T Consensus 208 ~~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 208 RGLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred HhhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 55444432 257777655444556788888866 99999999999986
No 217
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=94.76 E-value=0.12 Score=54.18 Aligned_cols=74 Identities=22% Similarity=0.278 Sum_probs=48.0
Q ss_pred CCCCChHHhhh-----CCCCeeE-EeCchHHHHHH---Hhccccc---ccccccCCHHHHHHHHhcCCCCCceEEEEecc
Q 002309 688 SPINGIESLRK-----SDDPIGY-QEGSFAEYYLS---QELNISK---SRLVALRTPEDYAKALKDGPGKGGVAAVVDER 755 (938)
Q Consensus 688 ~~i~s~~dL~~-----~~~~i~~-~~~s~~~~~~~---~~~~~~~---~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~ 755 (938)
+.+++++||.+ .|++|++ ..++.....+. ++.++.. .+++.++. .+...++.+ |++|+++...
T Consensus 104 ~~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~----g~iDa~~~~e 178 (252)
T PF13379_consen 104 SDIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRA----GEIDAAVLWE 178 (252)
T ss_dssp STTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHT----TS-SEEEEET
T ss_pred CCccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhC----CCcCEEEecC
Confidence 47899999932 3778998 45554433332 3444443 34445555 889999999 8999999999
Q ss_pred hhHHHHHhcCC
Q 002309 756 PYVELFLSSQC 766 (938)
Q Consensus 756 ~~~~~~~~~~~ 766 (938)
++......+.-
T Consensus 179 P~~~~~~~~g~ 189 (252)
T PF13379_consen 179 PFASQAEAKGI 189 (252)
T ss_dssp THHHHHHHTTS
T ss_pred CHHHHHHhccC
Confidence 98877766654
No 218
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=94.66 E-value=4.5 Score=42.05 Aligned_cols=204 Identities=10% Similarity=0.073 Sum_probs=112.0
Q ss_pred CCCCeeEEEEEEeeCC--CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcE-EEEc
Q 002309 26 SARPAVVNVGALFTLD--STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIV-AIIG 102 (938)
Q Consensus 26 ~~~~~~i~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~-aviG 102 (938)
+...++..||+..|.- ..+- .-..++.-+.+.+ |.+ +.+.+-.++...=......++++|+. .||+
T Consensus 20 aa~~~d~~IGis~~d~~~eRW~-~D~~~~~~~~e~~--------g~k--~~~q~A~~~~~~Q~~qien~i~qg~~vlvi~ 88 (341)
T COG4213 20 AAAAKDGVIGISMPDLRSERWI-KDRDAFVKKAEAL--------GAK--VDVQSADGDEEKQLAQIENMINQGVKVLVIG 88 (341)
T ss_pred hhhccCCeEEEEcCChhHhhhh-hhhHHHHHHHHhc--------cch--hhhhhhccChhHHHHHHHHHHhcCCCEEEEE
Confidence 4456678999998864 2221 2233444344333 333 33455556666667788899999874 5679
Q ss_pred CCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCc----hHHHHHHHHHHHhcC---CcEEEEEE-E-c
Q 002309 103 PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSD----SYQMTAVAEMVSYYG---WNAVSVIF-V-D 173 (938)
Q Consensus 103 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~----~~~~~ai~~~l~~~~---w~~vaii~-~-d 173 (938)
|..+.+...+-+.+...+||+|+|.- ...+..+.|.. +.+. ..|+.++++-++... -..+.++. + +
T Consensus 89 a~d~~~l~~~i~~A~~~gikViaYDR---lI~n~dvd~Yv--sFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~ 163 (341)
T COG4213 89 AIDGGVLSNAVEKAKSEGIKVIAYDR---LINNADVDFYV--SFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPD 163 (341)
T ss_pred eccchhHHHHHHHHHHcCCeEEEeec---ccccCCccEEE--EecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCC
Confidence 99999998888999999999999833 33333333333 2333 345666666555443 33344444 2 2
Q ss_pred Cc---cccch-HHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc---CCceEEEEEeChhhHHHHHHHHHHc
Q 002309 174 NE---YGRNG-VSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL---MESRVIVLHVSPSLGFQVFSVAKYL 246 (938)
Q Consensus 174 ~~---~g~~~-~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~---~~~~viv~~~~~~~~~~~l~~a~~~ 246 (938)
|. +-..+ ..-++.+...-.+.++.....+.. ..+..+..+..+-. .+.+.|+-.-+ ..+.-++..++..
T Consensus 164 DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~W---~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~ 239 (341)
T COG4213 164 DNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDGW---LPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQ 239 (341)
T ss_pred CcchHHHHhcHHHHHHHHhhCCceEEeeecccccc---CHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhc
Confidence 22 22223 333333333334566554444432 23333344433322 23334333322 4556678888888
Q ss_pred CCC
Q 002309 247 GMM 249 (938)
Q Consensus 247 g~~ 249 (938)
|+-
T Consensus 240 Gl~ 242 (341)
T COG4213 240 GLA 242 (341)
T ss_pred ccC
Confidence 885
No 219
>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=94.33 E-value=1.7 Score=43.26 Aligned_cols=196 Identities=18% Similarity=0.205 Sum_probs=121.6
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
++||||+... + ...+-.+++..+.+..+- +++.+.. ++...+++.|.+|++|+++...
T Consensus 6 ~~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~P~-i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 63 (209)
T PF03466_consen 6 GTLRIGASPS--F------------ASSLLPPLLAEFRERHPN-IRIEIRE-------GDSDELIEALRSGELDLAITFG 63 (209)
T ss_dssp EEEEEEEEHH--H------------HHHTHHHHHHHHHHHSTT-EEEEEEE-------ESHHHHHHHHHTTSSSEEEESS
T ss_pred eEEEEEEEhH--H------------HHHHHHHHHHHHHHHCCC-cEEEEEe-------ccchhhhHHHhcccccEEEEEe
Confidence 5688888741 1 123456788888887763 5566665 5578999999999999998654
Q ss_pred eeecCceeeeeeccceecccEEEEEeccCCCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccch
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRKLNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVI 624 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 (938)
.. ....+. ..|+....+++++++..+...
T Consensus 64 ~~---~~~~~~-~~~l~~~~~~~~~~~~~pl~~----------------------------------------------- 92 (209)
T PF03466_consen 64 PP---PPPGLE-SEPLGEEPLVLVVSPDHPLAQ----------------------------------------------- 92 (209)
T ss_dssp SS---SSTTEE-EEEEEEEEEEEEEETTSGGGT-----------------------------------------------
T ss_pred ec---cccccc-cccccceeeeeeeeccccccc-----------------------------------------------
Confidence 43 222222 356778888888876551100
Q ss_pred hhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCee
Q 002309 625 TILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIG 704 (938)
Q Consensus 625 ~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~ 704 (938)
..++ +++||. +.++.
T Consensus 93 --------------------------------------------------------------~~~i-~~~dL~--~~~~i 107 (209)
T PF03466_consen 93 --------------------------------------------------------------KKPI-TLEDLA--DYPLI 107 (209)
T ss_dssp --------------------------------------------------------------TSSS-SGGGGT--TSEEE
T ss_pred --------------------------------------------------------------cccc-hhhhhh--hcccc
Confidence 1344 889998 56544
Q ss_pred EEe-CchHHHHHHH---hcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCc-cccccc
Q 002309 705 YQE-GSFAEYYLSQ---ELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQ-EFTKSG 779 (938)
Q Consensus 705 ~~~-~s~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~-~~~~~~ 779 (938)
... +......+.+ ..+.........++.......+.. |..-+++-+.....+..........+.+ .+. ..
T Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~-~~ 182 (209)
T PF03466_consen 108 LLSPGSPYRDQLDRWLREHGFSPNIVIEVDSFESILSLVAS----GDGIAILPDSLAQDELESGELVFLPLPDPPLP-RP 182 (209)
T ss_dssp EESTTTSHHHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHT----TSEBEEEEHHHHHHHHHCTTEEEEEESSSTEE-EE
T ss_pred ccccccccccccccccccccccccccccccchhhhcccccc----ccceeecCcccccccccCCCEEEEECCCCCCc-eE
Confidence 433 3334444422 233333344557899999999998 6666776655444444222333334444 444 78
Q ss_pred eEeeecCCCcchhhHHHHHHhhhc
Q 002309 780 WGFAFPRDSPLAVDLSSAILELAE 803 (938)
Q Consensus 780 ~~~~~~k~spl~~~i~~~il~l~e 803 (938)
++++.+++.+....+...+..+++
T Consensus 183 ~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 183 IYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp EEEEEETTGTTHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCCHHHHHHHHHHHH
Confidence 899999988777777766665544
No 220
>cd08468 PBP2_Pa0477 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold. LysR-type transcriptional regulator Pa0477 is related to DntR, which controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their spec
Probab=94.04 E-value=1.8 Score=42.99 Aligned_cols=73 Identities=14% Similarity=0.192 Sum_probs=47.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. ++...+++.|.+|++|+++........-...+.+ .+......++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIEE-RDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEEE-EEEecCcEEEEEeC
Confidence 456788888888874 24566664 5678999999999999998633221000122333 46677777877766
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 54
No 221
>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=94.01 E-value=0.29 Score=53.08 Aligned_cols=69 Identities=20% Similarity=0.287 Sum_probs=49.1
Q ss_pred CCCChHHhhhCCCCeeEEeCchHHHHHHH---hccccc--ccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002309 689 PINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISK--SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 763 (938)
Q Consensus 689 ~i~s~~dL~~~~~~i~~~~~s~~~~~~~~---~~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 763 (938)
+|+|++||. |++|++..++..+.++.+ ..+++. .+++.+ .+.+...++.+ |.+||.+...++......
T Consensus 97 ~i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~----G~VDAa~~~eP~~s~~~~ 169 (328)
T TIGR03427 97 GGKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFIT----KDVTAVVTWNPQLSEIKA 169 (328)
T ss_pred CCCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhc----CCCcEEEEcCchHHHHHh
Confidence 389999999 999999998876655533 233332 233444 45678899999 899999988888665544
Q ss_pred c
Q 002309 764 S 764 (938)
Q Consensus 764 ~ 764 (938)
+
T Consensus 170 ~ 170 (328)
T TIGR03427 170 Q 170 (328)
T ss_pred C
Confidence 3
No 222
>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=93.84 E-value=2.8 Score=41.21 Aligned_cols=72 Identities=19% Similarity=0.214 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. .+...+..+|.+|++|+++...... .....+. +.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCC
Confidence 445677888888775 35566654 4578899999999999998532111 1112233 255666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 43
No 223
>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=93.79 E-value=1.8 Score=42.78 Aligned_cols=70 Identities=17% Similarity=0.125 Sum_probs=46.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+- +++.+.. ++.+.+...|.+|++|+++..... ....+. +.|.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAPG-VRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCCC-CeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEEcC
Confidence 3456788888887752 4566654 446688999999999999853221 122333 457777888888775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 224
>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=93.77 E-value=3.4 Score=40.28 Aligned_cols=70 Identities=16% Similarity=0.147 Sum_probs=45.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..+++..+.++.+- +++.+.. ++...++..+.+|++|+++... ......+. ..+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYPK-VDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRLE-QEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCCC-ceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCcE-EEEeecCcEEEEecC
Confidence 4567888888888752 4566654 4577899999999999987532 22222222 345666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 43
No 225
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=93.76 E-value=0.87 Score=48.54 Aligned_cols=71 Identities=21% Similarity=0.300 Sum_probs=46.9
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHHH---hcccccccc-cccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHh
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLSQ---ELNISKSRL-VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLS 763 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~ 763 (938)
.+|++++||. |++|++..++.....+.. ..+.+...+ ....+..+...++.+ |++++++...++......
T Consensus 91 ~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~----g~vda~~~~~p~~~~~~~ 164 (288)
T TIGR01728 91 SPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAA----GQVDAWAIWEPWGSALVE 164 (288)
T ss_pred CCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHC----CCCCEEEeccchHhHHhh
Confidence 4788999998 888998777644443322 223332222 122456778889998 899999988777765544
Q ss_pred c
Q 002309 764 S 764 (938)
Q Consensus 764 ~ 764 (938)
+
T Consensus 165 ~ 165 (288)
T TIGR01728 165 E 165 (288)
T ss_pred c
Confidence 4
No 226
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=93.68 E-value=2.6 Score=45.37 Aligned_cols=83 Identities=12% Similarity=0.146 Sum_probs=54.6
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++|++... -..++-..++..+.+..+- +++.+.. .+-+.++++|.+|++|+++...
T Consensus 91 g~l~i~~~~~--------------~~~~~~~~~l~~~~~~~P~-v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (305)
T PRK11151 91 GPLHIGLIPT--------------VGPYLLPHIIPMLHQTFPK-LEMYLHE-------AQTHQLLAQLDSGKLDCAILAL 148 (305)
T ss_pred ceEEEEecch--------------hHHHHHHHHHHHHHHHCCC-cEEEEEe-------CCHHHHHHHHHcCCccEEEEec
Confidence 4688888751 1123455677777776542 5566654 4568899999999999998633
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... ...+ .+.|+....+++++++..
T Consensus 149 ~~~---~~~l-~~~~l~~~~~~~~~~~~h 173 (305)
T PRK11151 149 VKE---SEAF-IEVPLFDEPMLLAVYEDH 173 (305)
T ss_pred CCC---CCCe-EEEEeccCcEEEEecCCC
Confidence 221 1122 347888888888887654
No 227
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=93.64 E-value=5.6 Score=41.93 Aligned_cols=153 Identities=11% Similarity=0.026 Sum_probs=89.9
Q ss_pred hcCcEEEEc-CCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE
Q 002309 94 ETDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV 172 (938)
Q Consensus 94 ~~~V~aviG-p~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~ 172 (938)
..+|.++|- +... ....+. .+...++|+|......+. ...++ .+..++...+..+++.+...|-+++++|..
T Consensus 54 ~~~vdgiIi~~~~~-~~~~~~-~l~~~~iPvV~i~~~~~~--~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~i~~ 126 (269)
T cd06287 54 ALDIDGAILVEPMA-DDPQVA-RLRQRGIPVVSIGRPPGD--RTDVP---YVDLQSAATARMLLEHLRAQGARQIALIVG 126 (269)
T ss_pred ccCcCeEEEecCCC-CCHHHH-HHHHcCCCEEEeCCCCCC--CCCCC---eEeeCcHHHHHHHHHHHHHcCCCcEEEEeC
Confidence 447776552 2221 112233 345569999987543210 11223 345677777888888888889999999964
Q ss_pred c--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 173 D--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 173 d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
. ..........+.+++++.|+..... ..... .+.++....++++.+. .+++|+ +.+...+..+++.+++.|+
T Consensus 127 ~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl 202 (269)
T cd06287 127 SARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEA--GGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGR 202 (269)
T ss_pred CcccccHHHHHHHHHHHHHHcCCCccee-EecCC--CChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCC
Confidence 2 2334456778899999888753211 11111 1123333455555433 356555 4466778889999999998
Q ss_pred CCCCeEEEE
Q 002309 249 MGNGYVWIA 257 (938)
Q Consensus 249 ~~~~~~wi~ 257 (938)
..+.-+=|+
T Consensus 203 ~vP~dvsvi 211 (269)
T cd06287 203 AVPDQLRVV 211 (269)
T ss_pred CCCCceEEE
Confidence 766544443
No 228
>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=93.64 E-value=4.8 Score=39.45 Aligned_cols=70 Identities=20% Similarity=0.263 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .+++.+.. ++...++..|.+|++|+++... ......+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (198)
T cd08421 13 EFLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVVVPR 80 (198)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEEeCC
Confidence 345678888888764 24566654 4577899999999999988532 22223333 356777788877765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (198)
T cd08421 81 DH 82 (198)
T ss_pred CC
Confidence 44
No 229
>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=93.48 E-value=1.4 Score=45.13 Aligned_cols=91 Identities=9% Similarity=0.088 Sum_probs=72.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCC-----CCChhhHHHHHHHHhcCCceE
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVALMESRV 226 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~d~~~~l~~lk~~~~~v 226 (938)
+.|+.+.++++|-++++++. +|-.+.-+.+.+.+++.|++|+....+.... ..+.+.+...+.++...++|.
T Consensus 108 ~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDA 184 (239)
T TIGR02990 108 SSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADA 184 (239)
T ss_pred HHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCE
Confidence 68889999999999999996 4777788999999999999998765444321 123566777777777789999
Q ss_pred EEEEeChhhHHHHHHHHHH
Q 002309 227 IVLHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 227 iv~~~~~~~~~~~l~~a~~ 245 (938)
|++.|..-....++.++.+
T Consensus 185 ifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 185 LFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred EEEeCCCchhHHHHHHHHH
Confidence 9999999888999888864
No 230
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=93.30 E-value=0.3 Score=53.14 Aligned_cols=60 Identities=25% Similarity=0.268 Sum_probs=39.7
Q ss_pred CCCCChHHhhhCCCCeeEEe-CchHH----HHHHHhccccccc--ccccCCHHHHHHHHhcCCCCCceEEEEec
Q 002309 688 SPINGIESLRKSDDPIGYQE-GSFAE----YYLSQELNISKSR--LVALRTPEDYAKALKDGPGKGGVAAVVDE 754 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~-~s~~~----~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~g~~~a~i~~ 754 (938)
.++++++||. ++++++.. ++... .++ +..+..... .+.+.+..+...++.+ |++|+++.+
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l-~~~G~~~~~~~~v~~~~~~~~~~al~~----G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVL-KAAGLTYDDVKKVEYLGYAEAADALKD----GKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHH-HHcCCCHHHccchhcCCHHHHHHHHHC----CCccEEEEe
Confidence 4678999998 77777753 33222 233 333433222 3456778889999998 899999987
No 231
>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=93.19 E-value=4.6 Score=40.12 Aligned_cols=72 Identities=11% Similarity=0.167 Sum_probs=47.7
Q ss_pred EeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 491 ~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
..+-.+++..+.++.+- +++.+... ++...+++.|.+|++|+++..... ....+++ .|+.+...+++++
T Consensus 12 ~~~~~~~l~~~~~~~P~-~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~~-~~l~~~~~~lv~~ 80 (203)
T cd08463 12 ALFLPELVARFRREAPG-ARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLHL-SPLFSDEIVCLMR 80 (203)
T ss_pred HHHhHHHHHHHHHHCCC-CEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcEE-eEeecCceEEEEe
Confidence 35667888999887752 45666531 236789999999999999863211 1122332 5677778888887
Q ss_pred ccC
Q 002309 571 FRK 573 (938)
Q Consensus 571 ~~~ 573 (938)
+..
T Consensus 81 ~~h 83 (203)
T cd08463 81 ADH 83 (203)
T ss_pred CCC
Confidence 654
No 232
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.09 E-value=4.1 Score=43.87 Aligned_cols=86 Identities=17% Similarity=0.195 Sum_probs=53.9
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
+++|||+... . ...+-.+++..+.+..+- +++.+.. +....++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~--~------------~~~~~~~~l~~~~~~~P~-v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQT--T------------GTYLMPRLIGLFRQRYPQ-INVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCc--c------------hHhHHHHHHHHHHHHCCC-ceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 4689988851 1 123456777777777542 4455543 4578899999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.........+ ...++....++++++...
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 1111111122 346777788888887654
No 233
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=93.07 E-value=5.2 Score=38.93 Aligned_cols=70 Identities=17% Similarity=0.246 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. .+...+.+.+.+|++|+++.... .....+. +.++.+...++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEP---EADPDLE-FEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCC---CCCCCee-EEEeecccEEEEecC
Confidence 455778888888765 34566654 45788999999999999885322 2222232 246667777877765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 44
No 234
>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=92.82 E-value=2.2 Score=42.06 Aligned_cols=70 Identities=19% Similarity=0.227 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. .+...+...|.+|++|+++... ......+. ..|+....++++++.
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVF---PELPPGLR-SQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeec---ccCCCccc-hhhhhcCceEEEecC
Confidence 445677778877764 24455543 4578899999999999998532 22222232 357777888888775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 44
No 235
>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=92.68 E-value=6.4 Score=38.55 Aligned_cols=70 Identities=14% Similarity=0.164 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .+++.+.. .+-..+...|.+|++|+++... ......+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEecC
Confidence 445677888888765 34566654 3456889999999999987522 2222222 2356777777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 44
No 236
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=92.66 E-value=4.4 Score=43.84 Aligned_cols=116 Identities=13% Similarity=0.074 Sum_probs=64.7
Q ss_pred CChHHhhhCCCC-eeEEeCchHHHHHH---HhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC
Q 002309 691 NGIESLRKSDDP-IGYQEGSFAEYYLS---QELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC 766 (938)
Q Consensus 691 ~s~~dL~~~~~~-i~~~~~s~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~ 766 (938)
-+++||. +.+ +.+..++.....+. +..+.........++.+...+.+.. |...+++.+.. ..... ..
T Consensus 184 i~~~dL~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~Gv~~lp~~~-~~~~~--~~ 254 (313)
T PRK12684 184 LTLEDLA--QYPLITYDFAFAGRSKINKAFALRGLKPDIVLEAIDADVIKTYVEL----GLGVGIVADMA-FDPER--DR 254 (313)
T ss_pred cCHHHHh--cCCcEecCCCCcHHHHHHHHHHHcCCCCCeEEEeCCHHHHHHHHHh----CCceEEeehhh-ccccc--cC
Confidence 3678887 444 44444443333222 2233332333456788888889988 55556665432 22221 22
Q ss_pred cEEEeC--ccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 767 SFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 767 ~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
++..+. .......++++.+++.++...+...+..+++. +..++.++-+.
T Consensus 255 ~l~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~f~~~l~~~-~~~~~~~~~~~ 305 (313)
T PRK12684 255 NLRAIDAGHLFGSSTTRLGLRRGAYLRGYVYTFIELFAPT-LNRKLVEQALK 305 (313)
T ss_pred CeEEEECCCCCcceeEEEEEECCCcCCHHHHHHHHHHHHH-hCHHHHHHHhc
Confidence 444443 23334568899999988877777777665543 44455444443
No 237
>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=92.60 E-value=7.9 Score=37.71 Aligned_cols=70 Identities=19% Similarity=0.271 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..+++..+.+..+ .+++.+.. ++...++..|.+|++|+++..... ....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 456788888888865 34566654 457789999999999999853222 122232 245667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 44
No 238
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=92.52 E-value=6.3 Score=38.48 Aligned_cols=70 Identities=16% Similarity=0.193 Sum_probs=45.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. ++-..++.+|.+|++|+++...... ...+. +.+.....+.+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecC
Confidence 455678888888764 24455554 4467889999999999988643221 22222 356667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 44
No 239
>cd08412 PBP2_PAO1_like The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily. This family includes the C-terminal substrate domain of a putative LysR-type transcriptional regulator from the plant pathogen Pseudomonas aeruginosa PAO1and its closely related homologs. The LysR-type transcriptional regulators (LTTRs) are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controll
Probab=92.23 E-value=6.9 Score=38.19 Aligned_cols=71 Identities=14% Similarity=0.150 Sum_probs=47.2
Q ss_pred EeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 491 ~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
..+-.+++..+.++.+ ++++.+.. ++...++.+|.+|++|+++... ......+. +.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYD---LDLPEDIA-FEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcC---CCCCcccc-eeeeeccceEEEec
Confidence 3556788888888875 24566654 4577899999999999988532 11222232 36777777777776
Q ss_pred ccC
Q 002309 571 FRK 573 (938)
Q Consensus 571 ~~~ 573 (938)
...
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 544
No 240
>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=92.16 E-value=0.76 Score=46.66 Aligned_cols=59 Identities=31% Similarity=0.468 Sum_probs=38.1
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHH---Hhccccccccccc-CCHHHHHHHHhcCCCCCceEEEE
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLS---QELNISKSRLVAL-RTPEDYAKALKDGPGKGGVAAVV 752 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~---~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~g~~~a~i 752 (938)
..|++++||. |++|++..++....++. +..+++...+... -+..+...++.+ |++||.+
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~----g~vDa~~ 145 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLS----GQVDAAI 145 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHT----TSSSEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhc----CCCCEEE
Confidence 4699999998 99999988765444332 3344443333322 235666679998 8999888
No 241
>cd08461 PBP2_DntR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=92.12 E-value=4.7 Score=39.52 Aligned_cols=70 Identities=14% Similarity=0.091 Sum_probs=45.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .+++.+.. ++...+...+.+|++|+++... ......+. +.++....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTP---EYAPDGLR-SRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecC---ccCCccce-eeeeecCcEEEEEcC
Confidence 455778888888765 24455543 3356789999999999987532 11122232 456777778877765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 44
No 242
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=92.04 E-value=7.3 Score=41.63 Aligned_cols=83 Identities=12% Similarity=0.091 Sum_probs=55.0
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
.+++||++.. -...+-.+++..+.++.+ .+.+.+.. .....++..|.+|++|+++...
T Consensus 91 ~~i~I~~~~~--------------~~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTPT--------------FTAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEeccc--------------hhhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 4689888741 123445678888888764 45566654 4577899999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
+.....+ .+.++....+++++++..
T Consensus 149 ---~~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 ---PVHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred ---CCCCcce-eEEEeeeccEEEEEcCCC
Confidence 2222333 346777788888877654
No 243
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=91.70 E-value=9.4 Score=41.36 Aligned_cols=116 Identities=10% Similarity=0.060 Sum_probs=69.6
Q ss_pred CChHHhhhCCCC-eeEEeCch----HHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC
Q 002309 691 NGIESLRKSDDP-IGYQEGSF----AEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ 765 (938)
Q Consensus 691 ~s~~dL~~~~~~-i~~~~~s~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~ 765 (938)
-+++||. +.+ +.+..+.. ...++. ..+.........++.....+.+.. |...+++-... ... . +.
T Consensus 184 i~~~~L~--~~~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~s~~~~~~~v~~----g~Gi~~lp~~~-~~~-~-~~ 253 (316)
T PRK12679 184 LTLESIA--KWPLITYRQGITGRSRIDDAFA-RKGLLADIVLSAQDSDVIKTYVAL----GLGIGLVAEQS-SGE-Q-EE 253 (316)
T ss_pred CCHHHHh--CCCeEEecCCCcHHHHHHHHHH-HcCCCceEEEEeccHHHHHHHHHc----CCcEEEecccc-ccc-c-cC
Confidence 3778887 444 33333332 233342 233332334456788888888888 65566665543 222 1 33
Q ss_pred CcEEEeC--ccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhhcC
Q 002309 766 CSFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKWLM 816 (938)
Q Consensus 766 ~~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w~~ 816 (938)
.++..+. .......++++.+++.+..+.+...+..+.+.--++.+.++-+.
T Consensus 254 ~~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 254 SNLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred CcEEEEECcccCCCceEEEEEeCCchhhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 3455443 23345678999999988888888888877776666777666544
No 244
>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=91.58 E-value=10 Score=36.98 Aligned_cols=72 Identities=17% Similarity=0.228 Sum_probs=45.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ ++++.+.. ++...+..++.+|++|+++.... ...+...+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~ 82 (201)
T cd08435 13 VLLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARP 82 (201)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeC
Confidence 345677788877765 34565553 45678999999999999885321 111122232 356777788888776
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 83 ~~ 84 (201)
T cd08435 83 GH 84 (201)
T ss_pred CC
Confidence 54
No 245
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=91.57 E-value=11 Score=41.20 Aligned_cols=208 Identities=12% Similarity=-0.043 Sum_probs=98.2
Q ss_pred CeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEcc-CCC-ChHHHHHHHHHHHhcCcEEEEcCCCh
Q 002309 29 PAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQS-SNC-SGFIGMVEALRFMETDIVAIIGPQCS 106 (938)
Q Consensus 29 ~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D-~~~-~~~~a~~~a~~li~~~V~aviGp~~s 106 (938)
....+++++.+-. ...+..-...-.+++.+-... |.+++....+ ... +.....+...++.+++...|+|....
T Consensus 33 ~~~~~~~~~~~g~-~~D~s~n~~~~~g~~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~gf~ 107 (345)
T COG1744 33 GKKKKVAVIDVGG-IDDKSFNQSAYEGLLKAKKEL----GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGTGFA 107 (345)
T ss_pred ccceEEEEEecCC-CCccchhHHHHHHHHHHHHHh----CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEeccc
Confidence 3345555555433 222233344444444443333 3334442222 222 34555556667777777777774443
Q ss_pred hHHHHHHHhhccC-CccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEE-EcCccccchHHHH
Q 002309 107 TVAHIVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF-VDNEYGRNGVSAL 184 (938)
Q Consensus 107 ~~~~~va~~~~~~-~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~-~d~~~g~~~~~~l 184 (938)
...++..++.++ ++.++-..+.-+.- ++-..+.||..-.... +-.++..+.+ -.+++.|. .+-+--...+..|
T Consensus 108 -~~d~~~~va~~~Pd~~F~iid~~~~~~-~Nv~s~~f~~~egayL-~G~~AA~~sk--~~~vG~vgg~~~p~v~~f~~gF 182 (345)
T COG1744 108 -FSDALEKVAAEYPDVKFVIIDGVVKKE-DNVASYVFREYEGAYL-AGVAAAKMSK--SGKVGFVGGMDIPEVNRFINGF 182 (345)
T ss_pred -hhhHHHHHHHHCCCCEEEEecCccCCC-CceEEEEeccccHHHH-HHHHHHHhhc--CCceeEEecccchhhHHHHHHH
Confidence 445555555555 44443322211111 0223456665433222 2222222222 33455554 2333334556666
Q ss_pred HHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
...++..+-.+.....+...- .+...-......+...++|||+-++.+.....+ .+|++.|.
T Consensus 183 ~~Gak~~np~i~v~v~~~gsf-~D~~k~k~~a~~li~~GaDVI~~~ag~~~~gv~-~~A~~~~~ 244 (345)
T COG1744 183 LAGAKSVNPDIKVKVVYVGSF-SDPAKGKEAANALIDQGADVIYPAAGGTGVGVF-QAAKELGA 244 (345)
T ss_pred HHHHHhhCCCccEEEEEecCc-cChHHHHHHHHHHHhcCCCEEEecCCCCcchHH-HHHHHhCC
Confidence 666665543322222221110 123334447778888999999988776554433 26666664
No 246
>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=91.52 E-value=8.8 Score=37.24 Aligned_cols=70 Identities=21% Similarity=0.302 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-..++..+.++.+- +++.... +....++.++.+|++|+++.... .....+. +.++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYPN-VTFELHQ-------GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCCC-eEEEEec-------CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecC
Confidence 4456677888877642 4455553 44678899999999999875322 2223333 346777778877765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 44
No 247
>cd08466 PBP2_LeuO The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold. LeuO, a LysR-type transcriptional regulator, was originally identified as an activator of the leucine synthesis operon (leuABCD). Subsequently, LeuO was found to be not a specific regulator of the leu gene but a global regulator of unrelated various genes. LeuO activates bglGFB (utilization of beta-D-glucoside) and represses cadCBA (lysine decarboxylation) and dsrA (encoding a regulatory small RNA for translational control of rpoS and hns). LeuO also regulates the yjjQ-bglJ operon which coding for a LuxR-type transcription factor. In Salmonella enterica serovar Typhi, LeuO is a positive regulator of ompS1 (encoding an outer membrane), ompS2 (encoding a pathogenicity determinant), and assT, while LeuO represses the expression of OmpX and Tpx. Both osmS1 and osmS2 influence virulence in the mouse mo
Probab=91.28 E-value=6 Score=38.84 Aligned_cols=70 Identities=16% Similarity=0.136 Sum_probs=46.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++++.. ++...+..+|.+|++|+++... ......+. +.|+....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSFK-SELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEecc---cCCCCCce-eeeecccceEEEEeC
Confidence 445677888888765 25566654 5577899999999999998532 11122232 356777888888876
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 248
>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=91.25 E-value=8.2 Score=37.84 Aligned_cols=70 Identities=13% Similarity=0.212 Sum_probs=44.5
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. ++...++..|.+|++|+++.... .....+. ..++.+...+++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 81 (200)
T cd08411 14 YLLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALP---VDEPGLE-EEPLFDEPFLLAVPK 81 (200)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEecc---CCCCCce-EEEeeccceEEEecC
Confidence 356677888888764 24566654 45788999999999999985321 1112222 245666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~~ 83 (200)
T cd08411 82 DH 83 (200)
T ss_pred CC
Confidence 43
No 249
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=91.15 E-value=6.1 Score=42.44 Aligned_cols=86 Identities=10% Similarity=0.155 Sum_probs=55.8
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
...|+|+++.. -...+-.+++..+.+..+ .+++.+.. ++..+++.+|.+|++|+++..
T Consensus 94 ~g~l~I~~~~~--------------~~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGAS--------------IARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEechH--------------HHHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 35799998852 123445677888887765 34555553 457899999999999998752
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccC
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.... .....+.+ .|+....+++++++..
T Consensus 152 ~~~~-~~~~~~~~-~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFTF-EKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-ccccceeE-EEeccceEEEEEcCCC
Confidence 1111 11223433 6788888888887654
No 250
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=91.05 E-value=5.9 Score=42.67 Aligned_cols=68 Identities=18% Similarity=0.160 Sum_probs=42.9
Q ss_pred eeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEecc
Q 002309 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 493 ~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
+..+++..+.++.+ .+++.+.. +....+...|.+|++|+++..-. .....+ ...|+.+..++++++..
T Consensus 106 ~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 106 LTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIYEH---SPVAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEcCC---cCCCCc-EEEEEeeeeEEEEEcCc
Confidence 44567888888764 24555554 44678899999999999985321 111222 23467777777776643
No 251
>cd08462 PBP2_NodD The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold. The nodulation (nod) genes in soil bacteria play important roles in the development of nodules. nod genes are involved in synthesis of Nod factors that are required for bacterial entry into root hairs. Thirteen nod genes have been identified and are classified into five transcription units: nodD, nodABCIJ, nodFEL, nodMNT, and nodO. NodD is negatively auto-regulates its own expression of nodD gene, while other nod genes are inducible and positively regulated by NodD in the presence of flavonoids released by plant roots. This substrate-binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. T
Probab=90.83 E-value=7 Score=38.53 Aligned_cols=68 Identities=18% Similarity=0.217 Sum_probs=43.7
Q ss_pred eeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEecc
Q 002309 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 493 ~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
+-..++..+.++.+ .+++.+.. ++. .+++.|.+|++|+++..-.. ....+. ..|+....++++++..
T Consensus 14 ~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~ 80 (200)
T cd08462 14 LLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERF---MSDGHP-SEPLFEEEFVCVVWAD 80 (200)
T ss_pred HHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCC---CCCCce-eeeeeccceEEEEcCC
Confidence 34567777777765 24555553 334 89999999999999863211 112233 3467777888877655
Q ss_pred C
Q 002309 573 K 573 (938)
Q Consensus 573 ~ 573 (938)
.
T Consensus 81 h 81 (200)
T cd08462 81 N 81 (200)
T ss_pred C
Confidence 4
No 252
>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=90.69 E-value=13 Score=36.22 Aligned_cols=70 Identities=11% Similarity=0.092 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. ++...++..+.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecC
Confidence 345677888887764 24555554 446789999999999999853221 112232 356777788888765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 44
No 253
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=90.58 E-value=9 Score=41.31 Aligned_cols=84 Identities=15% Similarity=0.118 Sum_probs=53.8
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||+... ....+-.+++..+.+..+ .+++.+.. ++-+.++..|.+|++|+++..-
T Consensus 93 g~l~Ig~~~~--------------~~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (309)
T PRK12682 93 GTLTIATTHT--------------QARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATE 150 (309)
T ss_pred CeEEEeeCch--------------HHHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecC
Confidence 4689888841 112445677888888765 24455543 4467899999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.. .....++ +.|+.....+++++...
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 151 SL--ADDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred cc--cCCCcce-EEEeeeeeEEEEecCCC
Confidence 21 1112233 35777788888887654
No 254
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=90.48 E-value=7.1 Score=42.50 Aligned_cols=85 Identities=18% Similarity=0.095 Sum_probs=53.5
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.+.||||+... + ...+-.+++..+.+..+ ++++.+.. ++.+.++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~ 149 (324)
T PRK12681 92 KGSLYIATTHT--Q------------ARYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIAT 149 (324)
T ss_pred CCeEEEEechh--H------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 35799998851 1 12345667778877765 35566654 568899999999999999863
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccC
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.. ......+.+ .|+.....+++++...
T Consensus 150 ~~--~~~~~~l~~-~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 EA--LHLYDDLIM-LPCYHWNRSVVVPPDH 176 (324)
T ss_pred Cc--ccCCCCeEE-EEeccceeEEEeCCCC
Confidence 21 111222322 4666667777776543
No 255
>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=90.47 E-value=13 Score=36.17 Aligned_cols=71 Identities=17% Similarity=0.187 Sum_probs=47.4
Q ss_pred EeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 491 ~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
..+..+++..+.+..+ .+++.+.. +....+..++.+|++|+++..... ....+ .+.|+.....+++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~ 79 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL---DHPGL-ESEPLASGRAVCVLP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC---CCCcc-eeeeecccceEEEEc
Confidence 3456788888888764 24566654 457789999999999999853221 12222 345677777887776
Q ss_pred ccC
Q 002309 571 FRK 573 (938)
Q Consensus 571 ~~~ 573 (938)
+..
T Consensus 80 ~~~ 82 (196)
T cd08415 80 PGH 82 (196)
T ss_pred CCC
Confidence 543
No 256
>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=90.43 E-value=11 Score=37.08 Aligned_cols=71 Identities=15% Similarity=0.133 Sum_probs=47.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+- +++.+.. +....+.+.|.+|++|+++..... .....+. +.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYPK-VKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCCc-eEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecC
Confidence 4556788888888753 4566654 457889999999999999852211 1112233 356777788888775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 54
No 257
>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=90.37 E-value=14 Score=36.30 Aligned_cols=72 Identities=17% Similarity=0.141 Sum_probs=47.5
Q ss_pred EeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 491 ~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
.++-.+++..+.++.+ .+++.... ++...+++.|.+|++|+++..-.. .....+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~ 80 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVP 80 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEec
Confidence 3556778888888865 24566654 557789999999999998852211 111223 245677777888877
Q ss_pred ccC
Q 002309 571 FRK 573 (938)
Q Consensus 571 ~~~ 573 (938)
+..
T Consensus 81 ~~h 83 (198)
T cd08444 81 VGH 83 (198)
T ss_pred CCC
Confidence 654
No 258
>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=90.33 E-value=11 Score=37.05 Aligned_cols=70 Identities=10% Similarity=0.096 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+- +++.+.. +....+++.|.+|++|+++.... .. ...+. ..+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P~-i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~--~~-~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAPG-LDLRLCP-------IGDDLAERGLEQGTIDLAVGRFA--VP-PDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCCC-CEEEEec-------CCcccHHHHhhCCCcCEEEecCC--CC-Cccce-eEEeeeccEEEEEcC
Confidence 4556788888887652 4566654 44668999999999999885321 11 22233 356777788887765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 44
No 259
>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=90.10 E-value=17 Score=35.25 Aligned_cols=70 Identities=16% Similarity=0.179 Sum_probs=45.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..+++..+.++.+ .+++.+.. +....+..++.+|++|+++...... ...+ .+.++....++++++.
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEecC
Confidence 345677888888764 24566654 4577889999999999998532211 1112 2356777777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 43
No 260
>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=89.92 E-value=4.4 Score=39.98 Aligned_cols=70 Identities=23% Similarity=0.245 Sum_probs=46.4
Q ss_pred EeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 491 ~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
..+-.+++..+.++.+ .+++.... ++. .+++.|.+|++|+++..... ....+. ..|+.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVR 78 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEe
Confidence 3556778888888875 34566653 335 78899999999999863221 112233 36777788888887
Q ss_pred ccC
Q 002309 571 FRK 573 (938)
Q Consensus 571 ~~~ 573 (938)
...
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 654
No 261
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=89.86 E-value=11 Score=40.54 Aligned_cols=105 Identities=12% Similarity=0.091 Sum_probs=58.4
Q ss_pred CChHHhhhCCCC-eeEEeCchHHHHHH---HhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC
Q 002309 691 NGIESLRKSDDP-IGYQEGSFAEYYLS---QELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC 766 (938)
Q Consensus 691 ~s~~dL~~~~~~-i~~~~~s~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~ 766 (938)
-+++||. +.+ +.+..++.....+. ...+.........++.+...+.+.. |..-+++-.. ..... ...
T Consensus 184 ~~~~~L~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~Gi~~lp~~-~~~~~--~~~ 254 (309)
T PRK12683 184 LTLEAIA--EYPIITYDQGFTGRSRIDQAFAEAGLVPDIVLTALDADVIKTYVEL----GMGVGIVAAM-AYDPQ--RDT 254 (309)
T ss_pred cCHHHHh--cCCeEeccCCCcHHHHHHHHHHHCCCCceeEEEeccHHHHHHHHHh----CCCeEEeehh-hcccc--CCC
Confidence 4678887 444 44444433333221 2333332333456778888888888 5555666543 22211 123
Q ss_pred cEEEeC--ccccccceEeeecCCCcchhhHHHHHHhhhcc
Q 002309 767 SFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSAILELAEN 804 (938)
Q Consensus 767 ~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~ 804 (938)
++..+. +......++++.+|+.++.......+..+.+.
T Consensus 255 ~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~fi~~l~~~ 294 (309)
T PRK12683 255 GLVALDTDHLFEANTTRVGLRRGAYLRGYAYRFIELFAPH 294 (309)
T ss_pred ceEEEeCCCCcccceEEEEEECCCcCCHHHHHHHHHHHhh
Confidence 455543 23334578899999988777777766665554
No 262
>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=89.78 E-value=8.6 Score=41.22 Aligned_cols=86 Identities=17% Similarity=0.249 Sum_probs=54.9
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.+.++||++.. -...+-.+++..+.++.+ .+++.+.. .+...++.++.+|++|++++.
T Consensus 92 ~~~l~I~~~~~--------------~~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (300)
T TIGR02424 92 GPTVRIGALPT--------------VAARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGR 149 (300)
T ss_pred CceEEEecccH--------------HHHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEe
Confidence 45799988741 112345667778887776 35566654 457789999999999999853
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccC
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... ......+. ..|......++++++..
T Consensus 150 ~~~-~~~~~~~~-~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 150 LGA-PETMQGLS-FEHLYNEPVVFVVRAGH 177 (300)
T ss_pred cCC-ccccccee-eeeecCCceEEEEcCCC
Confidence 322 11122232 34677778888776544
No 263
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=89.71 E-value=19 Score=38.23 Aligned_cols=83 Identities=12% Similarity=0.086 Sum_probs=51.7
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||+... ....+-.+++..+.+..+- +++.... +....++..|.+|++|+++...
T Consensus 89 g~l~i~~~~~--------------~~~~~~~~~l~~~~~~~P~-i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~ 146 (290)
T PRK10837 89 GALRIYASST--------------IGNYILPAMIARYRRDYPQ-LPLELSV-------GNSQDVINAVLDFRVDIGLIEG 146 (290)
T ss_pred CeEEEEecch--------------hHhhhhHHHHHHHHHHCCC-ceEEEEE-------CCHHHHHHHHHhCCceEEEecC
Confidence 4688888851 1123456677888877642 4455554 4577899999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... ...+. ..|+....+++++++..
T Consensus 147 ~~~---~~~~~-~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 147 PCH---SPELI-SEPWLEDELVVFAAPDS 171 (290)
T ss_pred CCC---CCcee-EEEeecceEEEEEcCCC
Confidence 211 12222 24666677777776544
No 264
>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=89.42 E-value=12 Score=36.38 Aligned_cols=72 Identities=17% Similarity=0.180 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .+++.+.. ++.+.+++.+.+|++|+++..-.. ......+ .+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~-~~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPP-FPLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCC-CccccCc-eEEEcccCcEEEEECC
Confidence 455677888887774 24566654 457899999999999999853211 0101223 2356677777877765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 44
No 265
>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=89.41 E-value=21 Score=34.77 Aligned_cols=69 Identities=14% Similarity=0.148 Sum_probs=43.8
Q ss_pred eeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEecc
Q 002309 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 493 ~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
+-..++..+.++.+- +++.+.. +....+...|.+|++|+++..-.. ....+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCC
Confidence 446778888887753 4555554 456789999999999999853211 112222 3456666777776654
Q ss_pred C
Q 002309 573 K 573 (938)
Q Consensus 573 ~ 573 (938)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 3
No 266
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=89.33 E-value=12 Score=36.52 Aligned_cols=91 Identities=18% Similarity=0.110 Sum_probs=65.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCC-----CCChhhHHHHHHHHhcCCceE
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKVALMESRV 226 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~d~~~~l~~lk~~~~~v 226 (938)
+.|+++-++.++-+++.++. +|-.+.-+...+.+++.|++|+....+.... ..+....-+..+++...++|.
T Consensus 106 s~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Da 182 (238)
T COG3473 106 STAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADA 182 (238)
T ss_pred hHHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCe
Confidence 35778889999999999986 4555667788889999999998655443321 112333445666777789999
Q ss_pred EEEEeChhhHHHHHHHHHH
Q 002309 227 IVLHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 227 iv~~~~~~~~~~~l~~a~~ 245 (938)
|++.|..-....++....+
T Consensus 183 iFiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 183 IFISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEEeeccccHHHHHHHHH
Confidence 9999887777777766554
No 267
>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=89.19 E-value=11 Score=36.75 Aligned_cols=70 Identities=13% Similarity=0.132 Sum_probs=44.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
++-..++..+.++.+ .+++.+.. ++...++..|.+|++|+++.... .....+. +.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVFG---ELPAWLK-REVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecCC---CCcccce-eeeecccceEEEEeC
Confidence 455677888887764 24566654 44667889999999999985321 1122232 356667777777654
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 43
No 268
>cd08448 PBP2_LTTR_aromatics_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=89.18 E-value=17 Score=35.18 Aligned_cols=70 Identities=10% Similarity=0.063 Sum_probs=46.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++++.. ++..++...+.+|++|+++... ......+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGLS-ARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCce-EEEEecCcEEEEeeC
Confidence 455778888888774 24566654 5578899999999999987522 22222332 356777777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 43
No 269
>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=89.14 E-value=18 Score=34.95 Aligned_cols=71 Identities=17% Similarity=0.145 Sum_probs=45.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ ++.+.+.. ++...+...+.+|++|+++..... .....+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecC
Confidence 455677888887764 34565554 446789999999999999853222 1222232 345666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 44
No 270
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=89.12 E-value=25 Score=38.21 Aligned_cols=149 Identities=9% Similarity=0.042 Sum_probs=84.0
Q ss_pred cCcEEEEc-CCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc
Q 002309 95 TDIVAIIG-PQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD 173 (938)
Q Consensus 95 ~~V~aviG-p~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d 173 (938)
.+|.++|- |..+. .....+...++|++......+ ...++ .+..++...+..+++.+...|.++++++..+
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 46666553 22222 233445566899987643221 12223 3666777777888888888899999999643
Q ss_pred C--ccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc--CCceEEEEEeChhhHHHHHHHHHHcCCC
Q 002309 174 N--EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL--MESRVIVLHVSPSLGFQVFSVAKYLGMM 249 (938)
Q Consensus 174 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~--~~~~viv~~~~~~~~~~~l~~a~~~g~~ 249 (938)
. .........+.+++++.|+ +.....+... ....+....++++.+ ..+++| ++++...+..+++++++.|+.
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~~ 259 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQV-VREEDIWRGG--FSSSSGYELAKQMLAREDYPKAL-FVASDSIAIGVLRAIHERGLN 259 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCC-CChhheeecC--cChhHHHHHHHHHHhCCCCCCEE-EECCcHHHHHHHHHHHHcCCC
Confidence 2 2334456678888888776 1110111111 112223334444433 235554 444556777899999999986
Q ss_pred CCCeEEE
Q 002309 250 GNGYVWI 256 (938)
Q Consensus 250 ~~~~~wi 256 (938)
.++-+-|
T Consensus 260 vP~di~v 266 (327)
T PRK10339 260 IPQDISL 266 (327)
T ss_pred CCCceEE
Confidence 5543333
No 271
>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=88.92 E-value=24 Score=34.59 Aligned_cols=72 Identities=18% Similarity=0.152 Sum_probs=46.8
Q ss_pred EeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 491 QGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 491 ~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
..+-.+++..+.++.+ .+++.+.. ++...+...+.+|++|+++..-. ......+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEA--LHDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEecc--ccccCCce-EeeeeeceEEEEEc
Confidence 4556778888888764 24555554 45678999999999999985211 11122233 35677777777776
Q ss_pred ccC
Q 002309 571 FRK 573 (938)
Q Consensus 571 ~~~ 573 (938)
...
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 544
No 272
>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=88.59 E-value=13 Score=36.70 Aligned_cols=70 Identities=9% Similarity=0.096 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
++-.+++..+.++.+ .+++.... ++...++++|.+|++|+++...... ...+.. .+..+..+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 455677888877654 35565554 5688999999999999998632211 122333 45667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 43
No 273
>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold. MleR, a transcription activator of malolactic fermentation system, is found in gram-positive bacteria and belongs to the lysR family of bacterial transcriptional regulators. The mleR gene is required for the expression and induction of malolactic fermentation. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase dom
Probab=88.22 E-value=22 Score=34.65 Aligned_cols=72 Identities=7% Similarity=0.068 Sum_probs=46.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++++.. .+...+++.|.+|++|+++.... .......+. ..++.+...+++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~~~~~ 82 (198)
T cd08437 13 YYFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGSL-TPLENSALH-SKIIKTQHFMIIVSK 82 (198)
T ss_pred HHhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecCC-CCCCcccce-EEEeecceEEEEecC
Confidence 345677888888865 35566654 45788999999999999985321 111222333 356777777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 83 ~h 84 (198)
T cd08437 83 DH 84 (198)
T ss_pred CC
Confidence 44
No 274
>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=88.06 E-value=26 Score=33.91 Aligned_cols=72 Identities=14% Similarity=0.029 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-..++..+.++.+ .+++.+.. .....++..|.+|++|+++....... +...+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 456678888888764 35566654 45788999999999999985322110 112222 245666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 43
No 275
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=88.02 E-value=17 Score=39.24 Aligned_cols=85 Identities=15% Similarity=0.255 Sum_probs=54.2
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||++.. . ...+-.+++..+.+... .+++.+.. +....++.+|.+|++|+++...
T Consensus 97 ~~l~ig~~~~--~------------~~~~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 154 (312)
T PRK10341 97 VDVSFGFPSL--I------------GFTFMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTL 154 (312)
T ss_pred eEEEEEechH--H------------hHhhHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecC
Confidence 4688888741 1 12344577888887765 25566665 4578999999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... .....+ ...|+....+++++++..
T Consensus 155 ~~~-~~~~~l-~~~~l~~~~~~lv~~~~~ 181 (312)
T PRK10341 155 SNE-MKLQDL-HVEPLFESEFVLVASKSR 181 (312)
T ss_pred Ccc-cccCCe-eEEEEecccEEEEEcCCC
Confidence 211 111222 345777788888887654
No 276
>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=87.96 E-value=24 Score=34.28 Aligned_cols=70 Identities=13% Similarity=0.121 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+...++..+.++.+ .+++.+.. .....+...|.+|++|+++... ......+. ..++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEecC
Confidence 345678888888765 35566654 4467889999999999998532 22222232 356677777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 54
No 277
>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=87.87 E-value=19 Score=34.88 Aligned_cols=70 Identities=11% Similarity=0.068 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .+++.+.. +....+++++.+|++|+++.... .....+. +.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTL---HEPPGIE-RERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecC---CCCCCee-EEEeeccCeEEEecC
Confidence 456678888888875 35566664 45678899999999999885321 1122222 346666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 278
>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=87.87 E-value=2.4 Score=44.38 Aligned_cols=86 Identities=14% Similarity=0.046 Sum_probs=68.2
Q ss_pred EEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHH
Q 002309 33 NVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIV 112 (938)
Q Consensus 33 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~v 112 (938)
+||.|.++..+.-.....|+...++..| |+.++...+..+-.|+..+.+.+..|+++++.+|++.. + ...+
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~-~--~~g~ 192 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHT-D--SPGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecC-C--ChHH
Confidence 7999998876655667789999999888 45677777777788999999999999999999888765 2 2345
Q ss_pred HHhhccCCccEEEcc
Q 002309 113 SYVSNELQVPLLSFG 127 (938)
Q Consensus 113 a~~~~~~~iP~Is~~ 127 (938)
...+...++..|.+.
T Consensus 193 ~~aa~~~g~~~IG~d 207 (258)
T cd06353 193 IQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHhCCEEEeec
Confidence 566667889999764
No 279
>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=87.79 E-value=37 Score=35.14 Aligned_cols=145 Identities=8% Similarity=-0.002 Sum_probs=87.6
Q ss_pred HHHHhcCcEEEE--cCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHh--cCCc
Q 002309 90 LRFMETDIVAII--GPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSY--YGWN 165 (938)
Q Consensus 90 ~~li~~~V~avi--Gp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~--~~w~ 165 (938)
.+.+..+|.++| ++..+. ..........++|++......+. ...++ .+..++..-+..+++.+.. .|-+
T Consensus 46 ~~~~~~~vdGvIi~~~~~~~--~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~ 118 (247)
T cd06276 46 ISNTKGKYSGYVVMPHFKNE--IQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYK 118 (247)
T ss_pred HHHHhcCCCEEEEecCCCCc--HHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCC
Confidence 333445666555 332121 22344555578999986543211 11223 3556777778888888888 8999
Q ss_pred EEEEEEEcC-ccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 166 AVSVIFVDN-EYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 166 ~vaii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
++++|.... ..+....+.+.+++++.|+.... .. . ..+ .. + .++++ |++++...+..+++.++
T Consensus 119 ~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~----~~~--~~---~--~~~~a-i~~~~d~~A~g~~~~l~ 182 (247)
T cd06276 119 KLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D----YEN--RE---I--EKGDL-YIILSDTDLVFLIKKAR 182 (247)
T ss_pred EEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c----cch--hh---c--cCCcE-EEEeCHHHHHHHHHHHH
Confidence 999997433 34556678899999999976431 11 1 000 00 0 12344 55667778888999999
Q ss_pred HcCCCCCCeEEEE
Q 002309 245 YLGMMGNGYVWIA 257 (938)
Q Consensus 245 ~~g~~~~~~~wi~ 257 (938)
+.|+..+.-+=+.
T Consensus 183 ~~g~~iP~disvi 195 (247)
T cd06276 183 ESGLLLGKDIGII 195 (247)
T ss_pred HcCCcCCceeEEE
Confidence 9998666444333
No 280
>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=87.69 E-value=25 Score=34.81 Aligned_cols=71 Identities=13% Similarity=0.176 Sum_probs=44.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .++++... ++...++..|.+|++|+++........-...+ ...|+.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 445677888877764 35566664 66899999999999999885322111100112 2346777777666543
No 281
>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=87.12 E-value=2.3 Score=40.59 Aligned_cols=98 Identities=10% Similarity=0.126 Sum_probs=63.0
Q ss_pred HHHHHhcCCcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHH-HHhcCCceEEEEEeC
Q 002309 156 AEMVSYYGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLV-KVALMESRVIVLHVS 232 (938)
Q Consensus 156 ~~~l~~~~w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~-~lk~~~~~viv~~~~ 232 (938)
++.+...|.+++++|.. +..+.....+.+.+++++.|+........... ...+...... .+++..+++|++ ++
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii~-~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAIIC-SN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEEE-SS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEEE-cC
Confidence 45677889999999993 34455667788999999999885543333322 2223322222 344346776555 67
Q ss_pred hhhHHHHHHHHHHcCCCCCCeEEEE
Q 002309 233 PSLGFQVFSVAKYLGMMGNGYVWIA 257 (938)
Q Consensus 233 ~~~~~~~l~~a~~~g~~~~~~~wi~ 257 (938)
...+..+++.+.+.|+..++-+-+.
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEE
Confidence 7888899999999998655433333
No 282
>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=87.09 E-value=39 Score=34.76 Aligned_cols=208 Identities=9% Similarity=0.023 Sum_probs=114.0
Q ss_pred eEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCC--CChHHHHHHHHHHHhc-CcEEEEcC-CCh
Q 002309 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSN--CSGFIGMVEALRFMET-DIVAIIGP-QCS 106 (938)
Q Consensus 31 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~--~~~~~a~~~a~~li~~-~V~aviGp-~~s 106 (938)
.++||++....+. +....+|++..+++.-.. .|.-.++-+. ....+.+.....|.++ .|-|||=. .-.
T Consensus 2 ~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVSQ-SEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TTT--HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCccc-ChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 5899999986543 345567777777766433 5555555333 3566677777777766 67666532 223
Q ss_pred hHHHHHHHhhc-cCCccEEEcccCCC-CCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccch----
Q 002309 107 TVAHIVSYVSN-ELQVPLLSFGVTDP-TLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNG---- 180 (938)
Q Consensus 107 ~~~~~va~~~~-~~~iP~Is~~~~~~-~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~---- 180 (938)
..+.+...+=+ +-+|..|+-....+ ..-..... +-+.++....+..++...+.+|-++++.+.-...-+...
T Consensus 74 Gt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~R 151 (275)
T PF12683_consen 74 GTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARR 151 (275)
T ss_dssp --HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHH
T ss_pred chHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHH
Confidence 44555555543 44777776433321 11111112 345577888899999999999999999886544444433
Q ss_pred HHHHHHHHhhcceEEEEEeecCCCCCCChhhHHH-----HHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 181 VSALNDKLAERRCRISYKSGIPPESGVNTGYVMD-----LLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 181 ~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~-----~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
.+.+++.-++.|++.+....-.|....+....++ .-+.+++-+.++-+.+++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 3456667778899987665554442112222222 2245566799999999999999999999998774
No 283
>TIGR00035 asp_race aspartate racemase.
Probab=86.55 E-value=5.4 Score=40.88 Aligned_cols=87 Identities=13% Similarity=0.133 Sum_probs=50.4
Q ss_pred ChHHHHHHHHHHH-hcCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH
Q 002309 81 SGFIGMVEALRFM-ETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (938)
Q Consensus 81 ~~~~a~~~a~~li-~~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l 159 (938)
++...+..+.+.+ +.|+.+|+=|..+.... +..+-+..++|+|+. .++.++.+
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------~~~~~~~~ 112 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM-------------------------IEETAEAV 112 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech-------------------------HHHHHHHH
Confidence 3444444444444 34898887766664443 445656678999863 23344444
Q ss_pred HhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEE
Q 002309 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRIS 196 (938)
Q Consensus 160 ~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (938)
+..+.++|+++...... ....+++.+++.|+++.
T Consensus 113 ~~~~~~~VgvLaT~~T~---~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 113 KEDGVKKAGLLGTKGTM---KDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHcCCCEEEEEecHHHH---HhHHHHHHHHHCCCEEE
Confidence 55577888888644322 12335667777776654
No 284
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=86.37 E-value=23 Score=38.09 Aligned_cols=83 Identities=13% Similarity=0.083 Sum_probs=49.7
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||++.. ....+-.+++..+.+..+ ++++.... .+-..+...|.+|++|+++...
T Consensus 94 g~l~I~~~~~--------------~~~~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~ 151 (309)
T PRK11013 94 GQLSIACLPV--------------FSQSLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTET 151 (309)
T ss_pred CcEEEEEcHH--------------HHHhhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcC
Confidence 4688887741 112356677888888764 24566654 3456788999999999988532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... ...+. ..++......++++...
T Consensus 152 ~~~---~~~~~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK11013 152 LHT---PAGTE-RTELLTLDEVCVLPAGH 176 (309)
T ss_pred CCC---CCCce-eeeecceeEEEEEcCCC
Confidence 211 11222 23555556666666544
No 285
>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=86.25 E-value=20 Score=35.90 Aligned_cols=70 Identities=11% Similarity=0.092 Sum_probs=46.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..+++..+.++.+ .+++.+.. .+...+.+.|.+|++|+++.... .....+. ..|......+++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (221)
T cd08469 13 VLLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRK 80 (221)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeC
Confidence 345677787877765 24555554 45678999999999999986322 2223343 357777788888775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (221)
T cd08469 81 DH 82 (221)
T ss_pred CC
Confidence 54
No 286
>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=86.16 E-value=30 Score=33.88 Aligned_cols=70 Identities=11% Similarity=0.083 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.. ++++.... ++...+++.|.+|++|+++.... . ....+. +.++....+.++++.
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~--~-~~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF--P-RHPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC--C-CCCceE-EEEEeeccEEEEecC
Confidence 445677888888774 35566654 56889999999999999985321 1 112232 345666777887775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 44
No 287
>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=86.08 E-value=34 Score=33.12 Aligned_cols=71 Identities=17% Similarity=0.164 Sum_probs=46.0
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++++.. +++..++.+|.+|++|+++...... ....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~ 81 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPN 81 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeC
Confidence 456778889999885 24566654 5578899999999999988532111 112232 345666677777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~~ 83 (199)
T cd08430 82 IA 83 (199)
T ss_pred Cc
Confidence 44
No 288
>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=85.62 E-value=37 Score=33.06 Aligned_cols=73 Identities=15% Similarity=0.134 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+ .+++.+.. +....+..+|.+|++|+++............+ -+.|.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEEC
Confidence 355677888887764 24566654 45678999999999999875321111011222 2456667777777775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 289
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=85.60 E-value=25 Score=38.13 Aligned_cols=82 Identities=7% Similarity=0.087 Sum_probs=53.3
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
.++++||+... . ...+-..++..+.+..+ ++++... .+++++..|.+|++|+++..
T Consensus 116 ~~~l~Ig~~~~--~------------~~~~l~~~l~~f~~~~P-~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~ 171 (317)
T PRK11482 116 QRTITIATTPS--V------------GALVMPVIYQAIKTHYP-QLLLRNI---------PISDAENQLSQFQTDLIIDT 171 (317)
T ss_pred CceEEEEecHH--H------------HHHHHHHHHHHHHHHCC-CCEEEEe---------cchhHHHHHHCCCcCEEEec
Confidence 35799998851 1 12345667788887775 3444432 25688999999999999864
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccC
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... ....+.+ .|+....++++++...
T Consensus 172 ~~~---~~~~~~~-~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 172 HSC---SNRTIQH-HVLFTDNVVLVCRQGH 197 (317)
T ss_pred cCC---CCCceEE-EEEecCcEEEEEeCCC
Confidence 322 2233433 5777888888887655
No 290
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=85.34 E-value=37 Score=36.89 Aligned_cols=84 Identities=13% Similarity=0.055 Sum_probs=55.9
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
+.+|||+... ....+-.++++.+.++.+- +++.+.. +..+.++.+|.+|++|+++...
T Consensus 93 g~lrIg~~~~--------------~~~~~l~~~l~~f~~~~P~-v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~ 150 (327)
T PRK12680 93 GQLTLTTTHT--------------QARFVLPPAVAQIKQAYPQ-VSVHLQQ-------AAESAALDLLGQGDADIAIVST 150 (327)
T ss_pred eEEEEEecch--------------hHHHhhHHHHHHHHHHCCC-cEEEEEe-------CChHHHHHHHHCCCCcEEEEec
Confidence 5799999852 1223456788888888763 4566654 5578999999999999988532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.. ....... ..|+.....+++++...
T Consensus 151 ~~--~~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 151 AG--GEPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred CC--CCCCcce-EEEeeccceEEEEeCCC
Confidence 11 1111222 46778888888887654
No 291
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=85.21 E-value=33 Score=37.10 Aligned_cols=83 Identities=12% Similarity=0.107 Sum_probs=52.0
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
++++||+... . ...+-.+++..+.++.+ .+++++.. ..-..+...|.+|++|+++..-
T Consensus 89 g~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~ 146 (317)
T PRK15421 89 TRLRIAIECH--S------------CIQWLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSD 146 (317)
T ss_pred eeEEEEeccc--c------------hHHHHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecC
Confidence 4689988741 1 11234567777877754 34565554 3356788999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
......+.+ .++....++++++...
T Consensus 147 ---~~~~~~~~~-~~l~~~~~~lv~~~~h 171 (317)
T PRK15421 147 ---ILPRSGLHY-SPMFDYEVRLVLAPDH 171 (317)
T ss_pred ---cccCCCceE-EEeccceEEEEEcCCC
Confidence 222233433 6677778888876554
No 292
>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=85.00 E-value=39 Score=32.74 Aligned_cols=70 Identities=13% Similarity=0.218 Sum_probs=46.1
Q ss_pred eeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEecc
Q 002309 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 493 ~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
+..++++.+.++.+ .+++.+.. ++...+...+.+|++|+++...... ....+ .+.++....++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCC
Confidence 56678888888875 24566654 4578899999999999998532211 11222 23567777788777654
Q ss_pred C
Q 002309 573 K 573 (938)
Q Consensus 573 ~ 573 (938)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 293
>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=84.85 E-value=15 Score=35.71 Aligned_cols=100 Identities=9% Similarity=-0.006 Sum_probs=66.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEE
Q 002309 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI 227 (938)
Q Consensus 150 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~vi 227 (938)
.....+.+.+...++ +++++..+.+ ..+.+.+.+++. |+.|+... ++. .+..+....++.|+++++|+|
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~--~g~--f~~~~~~~i~~~I~~~~pdiv 105 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYH--HGY--FDEEEEEAIINRINASGPDIV 105 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEec--CCC--CChhhHHHHHHHHHHcCCCEE
Confidence 345666666655555 7888875554 456666666665 66666533 222 236788899999999999999
Q ss_pred EEEeChhhHHHHHHHHHHcCCCCCCeEEEEeCcc
Q 002309 228 VLHVSPSLGFQVFSVAKYLGMMGNGYVWIATDWL 261 (938)
Q Consensus 228 v~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~~~ 261 (938)
++.+..+.-..++.+.++.. ..+ +|+..++.
T Consensus 106 ~vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~~ 136 (172)
T PF03808_consen 106 FVGLGAPKQERWIARHRQRL--PAG-VIIGVGGA 136 (172)
T ss_pred EEECCCCHHHHHHHHHHHHC--CCC-EEEEECch
Confidence 99988887777777666532 223 67766543
No 294
>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=84.72 E-value=42 Score=32.87 Aligned_cols=70 Identities=17% Similarity=0.282 Sum_probs=46.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..+++..+.++.+ .+++.+.. ++...++..|.+|++|++++..... ...+. +.|+....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeC
Confidence 456778888888765 24565554 4578899999999999998532211 12232 346677777887775
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 44
No 295
>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=84.52 E-value=41 Score=32.69 Aligned_cols=70 Identities=11% Similarity=0.124 Sum_probs=44.9
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++++.. ++...+...|.+|++|+++...... ...+. +.++.+...+++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAGD---YPGLT-TEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccCC---CCCce-EEEeccCceEEEecC
Confidence 345678888888875 34566654 4467789999999999988532211 12222 246667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 296
>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=84.39 E-value=30 Score=33.56 Aligned_cols=73 Identities=15% Similarity=0.113 Sum_probs=46.1
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeee--cCceeeeeeccceecccEEEEE
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIV--TNRTKIVDFSQPYAASGLVVVV 569 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t--~~r~~~v~fs~p~~~~~~~~lv 569 (938)
.+-.+++..+.+..+ .+++.+.. ++...+...+.+|++|+++...... ......+ .+.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~ 83 (200)
T cd08423 13 ALLPPALAALRARHP-GLEVRLRE-------AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVL 83 (200)
T ss_pred HhhhHHHHHHHHhCC-CCeEEEEe-------CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEe
Confidence 345677888888875 34566654 4467889999999999988532110 1122223 24567777788777
Q ss_pred eccC
Q 002309 570 PFRK 573 (938)
Q Consensus 570 ~~~~ 573 (938)
+...
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 6544
No 297
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=84.13 E-value=5.6 Score=43.19 Aligned_cols=67 Identities=22% Similarity=0.230 Sum_probs=44.6
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHH---Hhcccccccc--cccCCHHHHHHHHhcCCCCCceEEEEecchhHHHH
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLS---QELNISKSRL--VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF 761 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~---~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~ 761 (938)
+.|++++||. |++|++..++....++. +..+++...+ +.+ .+.+...++.+ |.+||++...++....
T Consensus 112 ~~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~Al~~----G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 112 KTISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNL-QPPAIIAAWQR----GDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEEC-CcHHHHHHHHc----CCcCEEEEcchHHHHH
Confidence 3699999998 99999976664433321 3344443332 233 46778899998 8999988777765443
No 298
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=83.80 E-value=50 Score=33.04 Aligned_cols=76 Identities=17% Similarity=0.206 Sum_probs=51.1
Q ss_pred HHHhcCcEEEEcCCChhHHHHHHHhh-ccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEE
Q 002309 91 RFMETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSV 169 (938)
Q Consensus 91 ~li~~~V~aviGp~~s~~~~~va~~~-~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vai 169 (938)
.|-..|...|+=|. .+++.+++-. ..-+||+|+ ..++.++-+++-|-++|++
T Consensus 70 ~Le~~GAd~i~l~~--NT~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ik~~g~kkvgL 122 (230)
T COG1794 70 KLERAGADFIVLPT--NTMHKVADDIQKAVGIPLLH-------------------------IIDATAKAIKAAGAKKVGL 122 (230)
T ss_pred HHHhcCCCEEEEeC--CcHHHHHHHHHHhcCCCeeh-------------------------HHHHHHHHHHhcCCceeEE
Confidence 33334888888655 4456666544 477999996 2566777788889999999
Q ss_pred EEEcCccccchHHHHHHHHhhcceEEE
Q 002309 170 IFVDNEYGRNGVSALNDKLAERRCRIS 196 (938)
Q Consensus 170 i~~d~~~g~~~~~~l~~~l~~~g~~v~ 196 (938)
+.....- .....++.+.++|++++
T Consensus 123 LgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 123 LGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred eeccchH---HhHHHHHHHHHCCceEe
Confidence 8754432 12334678888887765
No 299
>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=83.79 E-value=35 Score=35.60 Aligned_cols=119 Identities=13% Similarity=0.081 Sum_probs=66.0
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHH----HHHhcccc--------------------cccccccCCHHHHHHHHhcCC
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYY----LSQELNIS--------------------KSRLVALRTPEDYAKALKDGP 743 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~----~~~~~~~~--------------------~~~~~~~~~~~~~~~~l~~~~ 743 (938)
..+++++||. .|.+|++.++...... | +..++. ..+++.+ ...+...++.+
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L-~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~-- 180 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLL-QKQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDD-- 180 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHH-HHcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhc--
Confidence 6899999995 3788999876543322 3 332221 1222333 34556678888
Q ss_pred CCCceEEEEecchhHHHHHhcC--CcEEEeCccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhh
Q 002309 744 GKGGVAAVVDERPYVELFLSSQ--CSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKW 814 (938)
Q Consensus 744 ~~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w 814 (938)
|.+|+.+...+++.-..... ..+.. ...-.+.--.++++++..=.+.+...+..++....-+.|.++|
T Consensus 181 --g~vDaa~v~~~~~~~agl~~~~~~i~~-e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 181 --PKVDLAVINTTYAGQVGLNPQDDGVFV-EDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred --ccccEEEEChHHHHHcCCCcCcCceee-cCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 88999988877664431211 11222 1111122245666665445566666666666665555555554
No 300
>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=82.86 E-value=48 Score=32.12 Aligned_cols=72 Identities=13% Similarity=0.121 Sum_probs=45.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
++-.+++..+.++.+ .+++.+.. +....+...+.+|++|+++..... ......+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~v~~~ 82 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFLAVPA 82 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEEEECC
Confidence 456778888888874 24565654 446778999999999999863211 0011222 2356667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 44
No 301
>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=82.78 E-value=48 Score=32.12 Aligned_cols=70 Identities=20% Similarity=0.230 Sum_probs=44.4
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. +.-..+...|.+|++|+++.... .....+. ..++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADGP---LEERQGF-LIETRSLPAVVAVPM 80 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEeccC---CCCCCcE-EEEeccCCeEEEeeC
Confidence 456778888888875 34566654 33568889999999999885322 1122222 245666677777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (196)
T cd08457 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 302
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=82.72 E-value=5.6 Score=44.37 Aligned_cols=89 Identities=13% Similarity=0.078 Sum_probs=64.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
...+.+.++.+|.+++.+++.......+..+.+.+.|++.|+.+..-..+.++ .+.+++...+..+++.++|+||-.+
T Consensus 19 ~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~n--p~~~~v~~~~~~~~~~~~D~IiaiG 96 (383)
T PRK09860 19 LTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPN--PTTENVAAGLKLLKENNCDSVISLG 96 (383)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 35567788899999999998544334457789999999999876443344444 4577888999999999999999765
Q ss_pred Ch--hhHHHHHHH
Q 002309 232 SP--SLGFQVFSV 242 (938)
Q Consensus 232 ~~--~~~~~~l~~ 242 (938)
.+ -++...+..
T Consensus 97 GGS~iD~AK~ia~ 109 (383)
T PRK09860 97 GGSPHDCAKGIAL 109 (383)
T ss_pred CchHHHHHHHHHH
Confidence 44 355555544
No 303
>PRK10537 voltage-gated potassium channel; Provisional
Probab=82.57 E-value=2.6 Score=46.81 Aligned_cols=60 Identities=18% Similarity=0.253 Sum_probs=47.5
Q ss_pred CccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 002309 618 PPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTV 683 (938)
Q Consensus 618 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~ 683 (938)
+...++.+++||++.++...| +++..|.+..+|++.+++.++++.+..+..+.++..+..
T Consensus 164 ~~~~s~~dA~y~svvt~tTvG------yGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~i~ 223 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVG------YGDIVPVSESARLFTISVIILGITVFATSISAIFGPVIR 223 (393)
T ss_pred cCCCCHHHHHHhhheeeeccc------CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344579999999999887766 557789999999999999999988877666666654443
No 304
>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=82.13 E-value=50 Score=31.83 Aligned_cols=70 Identities=16% Similarity=0.198 Sum_probs=45.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+..+++..+.+..+ .+++.+.. ++...+...|.+|++|+++..... ....+. ..|+....++++++.
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPP---DPPGLA-SRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCC---CCCCee-EEEEeeccEEEEecC
Confidence 345677778877764 24455553 456789999999999999853221 122232 356777788887765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 44
No 305
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=81.82 E-value=7.4 Score=42.65 Aligned_cols=92 Identities=10% Similarity=-0.026 Sum_probs=71.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.+|++++.||.+..-...+..+.+.+.|++.|+.+..-..+.++ .+.+.....+..+++.++|.||-.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 46677778899999999999777667778999999999999776655556655 4577888888999999999999875
Q ss_pred Ch--hhHHHHHHHHHH
Q 002309 232 SP--SLGFQVFSVAKY 245 (938)
Q Consensus 232 ~~--~~~~~~l~~a~~ 245 (938)
.+ -++...+.-..+
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 54 456665544443
No 306
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=81.40 E-value=36 Score=36.43 Aligned_cols=85 Identities=13% Similarity=0.071 Sum_probs=52.2
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
+.++||+... + ...+..+++..+.++..- +++.... ++...++..|.+|++|++++..
T Consensus 92 g~l~Ig~~~~--~------------~~~~l~~~l~~~~~~~p~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~ 149 (300)
T PRK11074 92 GQLSIAVDNI--V------------RPDRTRQLIVDFYRHFDD-VELIIRQ-------EVFNGVWDALADGRVDIAIGAT 149 (300)
T ss_pred ceEEEEEcCc--c------------chhHHHHHHHHHHHhCCC-ceEEEEe-------hhhhHHHHHHHCCCCCEEEecC
Confidence 5799998752 1 123345777777777663 4455554 4467899999999999998632
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... .....+ -+.++....+++++++..
T Consensus 150 ~~~-~~~~~l-~~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 150 RAI-PVGGRF-AFRDMGMLSWACVVSSDH 176 (300)
T ss_pred ccC-Cccccc-ceeecccceEEEEEcCCC
Confidence 111 111122 234566677777776544
No 307
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=81.32 E-value=23 Score=38.19 Aligned_cols=84 Identities=8% Similarity=0.101 Sum_probs=54.9
Q ss_pred CceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEecc
Q 002309 464 GKLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGD 543 (938)
Q Consensus 464 g~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~ 543 (938)
++.++|++.. + ...++-.+++..+.++.+- +++.+.. ++...++.+|.+|++|+++..
T Consensus 111 ~~~i~i~~~~--~------------~~~~~l~~~l~~f~~~~P~-i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~ 168 (314)
T PRK09508 111 ERVFNLCICS--P------------LDIRLTSQIYNRIEQIAPN-IHVVFKS-------SLNQNIEHQLRYQETEFVISY 168 (314)
T ss_pred ccEEEEEech--h------------HHHHHHHHHHHHHHHhCCC-cEEEEEe-------CcchhHHHHHhcCCccEEEec
Confidence 4568888763 1 1124567888888888752 4566654 456789999999999999864
Q ss_pred EeeecCceeeeeeccceecccEEEEEeccC
Q 002309 544 ITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 544 ~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.. .....+.+ .++....++++++...
T Consensus 169 ~~---~~~~~l~~-~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 169 EE---FDRPEFTS-VPLFKDELVLVASKNH 194 (314)
T ss_pred CC---CCccccce-eeeecCceEEEEcCCC
Confidence 32 11223333 3666778888877654
No 308
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=81.26 E-value=6.7 Score=43.87 Aligned_cols=89 Identities=9% Similarity=-0.025 Sum_probs=63.9
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.+|.+++.++.+..-...+..+.+.+.|++.|+.+..-..+.++ .+.+.+...++..++.++|+||-.+
T Consensus 37 ~~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--P~~~~v~~~~~~~r~~~~D~IiavG 114 (395)
T PRK15454 37 VSSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGE--PCITDVCAAVAQLRESGCDGVIAFG 114 (395)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 35566778889998888887544444566888999999999886543344444 3467788889999999999999876
Q ss_pred Chh--hHHHHHHH
Q 002309 232 SPS--LGFQVFSV 242 (938)
Q Consensus 232 ~~~--~~~~~l~~ 242 (938)
.+. ++...+..
T Consensus 115 GGS~iD~AKaia~ 127 (395)
T PRK15454 115 GGSVLDAAKAVAL 127 (395)
T ss_pred ChHHHHHHHHHHH
Confidence 653 45544433
No 309
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=81.00 E-value=2.1 Score=47.68 Aligned_cols=91 Identities=15% Similarity=0.225 Sum_probs=74.8
Q ss_pred hhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHH
Q 002309 587 PLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVV 666 (938)
Q Consensus 587 ~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~ 666 (938)
...|..-++.+++.++++|+.|.-...|-.+....+.-.++||..-+++.-| +++..|..+.+|++..+..+++
T Consensus 234 iTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIG------YGDk~P~TWlGr~laa~fslig 307 (654)
T KOG1419|consen 234 ITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIG------YGDKTPQTWLGRLLAACFSLIG 307 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeec------cCCcCcccchhHHHHHHHHHHH
Confidence 3568888888889999999999875554444445578899999999998877 6799999999999999999999
Q ss_pred HHHHhhhhhhhhhhhhc
Q 002309 667 LIINSSYTASLTSILTV 683 (938)
Q Consensus 667 lil~s~Yta~L~s~Lt~ 683 (938)
+-+.+.=.+.|.|=++.
T Consensus 308 iSFFALPAGILGSGfAL 324 (654)
T KOG1419|consen 308 ISFFALPAGILGSGFAL 324 (654)
T ss_pred HHHHhcccccccchhhh
Confidence 88888877888776665
No 310
>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=80.64 E-value=3.3 Score=43.40 Aligned_cols=103 Identities=17% Similarity=0.122 Sum_probs=63.5
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHH-HhcCC
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF-LSSQC 766 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~-~~~~~ 766 (938)
.+|++++||. |+++.+..++.....++ ..+. ..+ ..+..|...+|++ |.+|+.+........+ ..+..
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~-~~Ga---~~v-~~~~~e~~~aL~~----G~vDg~~~~~~~~~~~~~~ev~ 194 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFK-ALGA---NPE-PMAFSEVYTALQT----GVVDGQENPLSNVYSSKFYEVQ 194 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHH-HcCC---ccc-ccCHHHHHHHHHc----CCcccccCCHHHHhhcchhhhc
Confidence 6799999998 99999887776677774 3432 222 4567889999999 8999988764433211 12223
Q ss_pred cEEEeCccccccceEeeecCCC--cchhhHHHHHHhhh
Q 002309 767 SFRIVGQEFTKSGWGFAFPRDS--PLAVDLSSAILELA 802 (938)
Q Consensus 767 ~l~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~il~l~ 802 (938)
++..... .......+.+.++. .|-+....+|.+..
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a~ 231 (257)
T TIGR00787 195 KYLSMTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEAA 231 (257)
T ss_pred chheecC-CcccceEEEEeHHHHhcCCHHHHHHHHHHH
Confidence 3333222 23345567777752 25555555555443
No 311
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=80.15 E-value=2.8 Score=52.07 Aligned_cols=69 Identities=13% Similarity=0.323 Sum_probs=54.8
Q ss_pred chhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhcc-----cccCCCCChHHhh
Q 002309 623 VITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTVQ-----QLYSPINGIESLR 697 (938)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~-----~~~~~i~s~~dL~ 697 (938)
...++||++.++..-| +++..|.+...|++.++|.++++++.++..+++++++... .+...++.+.+..
T Consensus 251 Yi~slYwai~TmtTVG------YGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~~~~~~~~f~~~~~~~~~ym 324 (823)
T PLN03192 251 YISAIYWSITTMTTVG------YGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVEGTRRTMEFRNSIEAASNFV 324 (823)
T ss_pred HHHHHHHHHHHHhhcc------CCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4558999999998877 5688899999999999999999999999999999987542 2333444444444
No 312
>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=80.09 E-value=45 Score=32.28 Aligned_cols=65 Identities=6% Similarity=0.067 Sum_probs=39.7
Q ss_pred eHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 494 ~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
...++..+.++ + .+++.+.. ++.+.+...+.+|++|+++..- ......+ .+.++.....+++++.
T Consensus 15 l~~~l~~f~~~-~-~v~l~l~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 79 (195)
T cd08428 15 FLPALAPVLKR-E-RILLDLIV-------DDEDRTHDLLRDGEVVGCISTQ---AQPMQGC-RSDYLGSMDYLLVASP 79 (195)
T ss_pred hHHHHHHHHhC-c-CeEEEEEe-------CCchhHHHHHHcCcceEEEEec---CCCCCCc-eeEEeeeeeEEEEECC
Confidence 44567777776 3 46666654 4567899999999999876421 1111222 2345666666666543
No 313
>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=79.63 E-value=14 Score=41.00 Aligned_cols=90 Identities=11% Similarity=0.047 Sum_probs=64.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.++-+++.+|++.........+.+.+.+++.|+.+..-..+.++ .+.+.+...+..+++.++|+||-.+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778888889999998655444446788999999999876544445444 4577788889999999999999765
Q ss_pred Ch--hhHHHHHHHH
Q 002309 232 SP--SLGFQVFSVA 243 (938)
Q Consensus 232 ~~--~~~~~~l~~a 243 (938)
.+ -++..++...
T Consensus 92 GGS~~D~aK~ia~~ 105 (374)
T cd08189 92 GGSVIDCAKAIAAR 105 (374)
T ss_pred CccHHHHHHHHHHH
Confidence 43 4666655444
No 314
>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=79.27 E-value=8.4 Score=43.47 Aligned_cols=88 Identities=11% Similarity=-0.045 Sum_probs=64.0
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.++++.++.+++.+|++...+.....+.+.+.|++.|+++..-..+.++ .+.+.+...++.+++.++|+||-.+
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35566778899999999998766555556788999999988876543334444 4467788888899999999999876
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++..++.
T Consensus 89 GGSviD~AKaia 100 (414)
T cd08190 89 GGSVIDTAKAAN 100 (414)
T ss_pred CccHHHHHHHHH
Confidence 55 34554443
No 315
>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=78.92 E-value=98 Score=33.25 Aligned_cols=203 Identities=12% Similarity=-0.003 Sum_probs=101.5
Q ss_pred EEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCC-ChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNC-SGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 32 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~-~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
.+++++.|-.-. ...+-.++..+++++.++. +|.+ +...+... ++........++.+++...||++. .....
T Consensus 2 ~~v~~~~~g~~~-D~g~n~~~~~G~~~~~~~~---~~i~--~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g-~~~~~ 74 (306)
T PF02608_consen 2 KKVALLDPGGIN-DKGFNQSAYEGLKRAEKEL---DGIE--IIYVENVPETDADYEEAIRQLADQGYDLIIGHG-FEYSD 74 (306)
T ss_dssp EEEEEESSS-CC-CSSHHHHHHHHHHHHHHHC---TTEE--EEEEES-S-TCHHHHHHHHHHHHTT-SEEEEES-GGGHH
T ss_pred eEEEEEECCCCC-CccHHHHHHHHHHHHHHHc---CCce--EEEEecCCccHHHHHHHHHHHHHcCCCEEEEcc-HHHHH
Confidence 356777766511 1223444445555555443 2344 44444433 455666666777788888888744 33445
Q ss_pred HHHHhhccC-CccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhc--CCcEEEEEE----EcCccccchHHH
Q 002309 111 IVSYVSNEL-QVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYY--GWNAVSVIF----VDNEYGRNGVSA 183 (938)
Q Consensus 111 ~va~~~~~~-~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~--~w~~vaii~----~d~~~g~~~~~~ 183 (938)
++..++..+ ++-++...+..... .|++....... .++.-++-++... +=.++++|. .+.+.-......
T Consensus 75 ~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~-~e~~fLaG~~Aa~~tkt~~vg~ig~i~G~~~p~~~~~~~g 149 (306)
T PF02608_consen 75 ALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFRE-EEASFLAGYLAALMTKTGKVGFIGDIGGMDIPPVNRFING 149 (306)
T ss_dssp HHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-H-HHHHHHHHHHHHHHHSSTEEEEEEEEES--SCTTHHHHHH
T ss_pred HHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccc-cchhHHHHHHHHHHhccCcccccccccCCCcHhHHHHHHH
Confidence 666777766 55555543322211 13444444433 2344444433211 235788877 334434455666
Q ss_pred HHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHHcCC
Q 002309 184 LNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 184 l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~~g~ 248 (938)
|...++..+-.+.....+... -.+...-......+-..++|||+-.+. .....++++|++.|.
T Consensus 150 F~~Ga~~~np~i~v~~~~~gs-~~D~~~~~~~a~~li~~GaDvI~~~ag-~~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 150 FIAGAKYVNPDIKVNVSYTGS-FNDPAKAKEAAEALIDQGADVIFPVAG-GSGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHTTTT-EEEEEE-SS-SS-HHHHHHHHHHHHHTT-SEEEEE-C-CCHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCceEEEEEcCC-cCchHHHHHHHHHHhhcCCeEEEECCC-CCchHHHHHHHHcCC
Confidence 777776554333222222221 023444555556666789999988555 455678888888774
No 316
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=78.84 E-value=9.1 Score=42.53 Aligned_cols=90 Identities=8% Similarity=-0.036 Sum_probs=64.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
...+.++++.++.+++.+|++.........+.+.+.|++.|+++..-..+.++ .+.+.+...+...++.++|.||-.+
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 89 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPN--PTEAAVEAGLAAYRAGGCDGVIAFG 89 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34567778888999999998655444446788999999989876543334444 4567888889999999999999765
Q ss_pred Ch--hhHHHHHHHH
Q 002309 232 SP--SLGFQVFSVA 243 (938)
Q Consensus 232 ~~--~~~~~~l~~a 243 (938)
.+ -++..++...
T Consensus 90 GGSviD~aK~ia~~ 103 (370)
T cd08192 90 GGSALDLAKAVALM 103 (370)
T ss_pred CchHHHHHHHHHHH
Confidence 43 4666655443
No 317
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=78.82 E-value=18 Score=35.79 Aligned_cols=106 Identities=21% Similarity=0.220 Sum_probs=64.0
Q ss_pred CCCCChHHhhhCCCCe-eEEeCchHHHHHHHh---cccccccccccC----CHHHHHHHHhcCCCCCceEEEEecchhHH
Q 002309 688 SPINGIESLRKSDDPI-GYQEGSFAEYYLSQE---LNISKSRLVALR----TPEDYAKALKDGPGKGGVAAVVDERPYVE 759 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i-~~~~~s~~~~~~~~~---~~~~~~~~~~~~----~~~~~~~~l~~~~~~g~~~a~i~~~~~~~ 759 (938)
..|++++||.+.+.++ -=.+||-++..|+.. .+.....+.-|. +-.....++.+ |+.|+=+.-...+
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~----G~AD~GvGlr~~A- 161 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVAS----GRADAGVGLRHAA- 161 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHc----CCCCccccHHHHH-
Confidence 4589999999554332 224577666666433 333334444443 34456667777 8998888744333
Q ss_pred HHHhcCC-cEEEeCccccccceEeeecCCCcchhhHHHHHHhhhccC
Q 002309 760 LFLSSQC-SFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENG 805 (938)
Q Consensus 760 ~~~~~~~-~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G 805 (938)
.++. +|.. +....|-|+.+|+.-=.+.+...+..|...+
T Consensus 162 ---~~~gL~Fip----l~~E~YD~virke~~~~~~vr~fi~~L~s~~ 201 (223)
T COG1910 162 ---EKYGLDFIP----LGDEEYDFVIRKERLDKPVVRAFIKALKSEG 201 (223)
T ss_pred ---HHcCCceEE----cccceEEEEEehhHccCHHHHHHHHHhcccc
Confidence 3332 5554 4456888999997665556666666666544
No 318
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=78.49 E-value=9.5 Score=42.57 Aligned_cols=88 Identities=10% Similarity=0.069 Sum_probs=63.0
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
...+.+.++.++.+++.+|++....-.+..+.+.+.+++.|+++..-..+.++ .+.++....+..+++.++|+||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 45567788889999999998655444457788999999999876543334444 3467788888889999999999765
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++..++.
T Consensus 96 GGS~iD~aK~ia 107 (382)
T PRK10624 96 GGSPQDTCKAIG 107 (382)
T ss_pred ChHHHHHHHHHH
Confidence 54 35555443
No 319
>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=78.14 E-value=68 Score=30.99 Aligned_cols=70 Identities=13% Similarity=0.136 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. +.+..+...|.+|++|+++.... .....+ -+.++....++++++.
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFY---PVEPDI-AVENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecC---CCCCCc-eeEEeeeccEEEEEeC
Confidence 345677888888775 35566654 56788999999999999985321 111222 2346667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 44
No 320
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=77.96 E-value=41 Score=35.90 Aligned_cols=84 Identities=14% Similarity=0.267 Sum_probs=49.4
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..|||++... ...++-.+++..+.++.+ .+++.... ++...+..+|.+|++|+++...
T Consensus 93 g~l~i~~~~~--------------~~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (296)
T PRK11062 93 LLFDVGVADA--------------LSKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDC 150 (296)
T ss_pred eEEEEEecch--------------hhHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 4689988741 123556677777776553 34455543 4578999999999999987532
Q ss_pred eeecCceeeeeeccceecccEEEEEec
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.........+ ...|+.....+++++.
T Consensus 151 ~~~~~~~~~l-~~~~l~~~~~~~~~~~ 176 (296)
T PRK11062 151 PVDSTQQEGL-FSKKLGECGVSFFCTN 176 (296)
T ss_pred CCccccccch-hhhhhhccCcceEecC
Confidence 1111111222 2345666666555544
No 321
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=77.85 E-value=9.9 Score=42.33 Aligned_cols=89 Identities=9% Similarity=0.012 Sum_probs=64.3
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
+.+.++++.++.+++.+|++......+..+.+.+.+++.|+.+..-..+.++ .+.+++...++.+++.++|.||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEAD--PPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888999999998655434456788999999999876533344444 45778889999999999999998765
Q ss_pred h--hhHHHHHHHH
Q 002309 233 P--SLGFQVFSVA 243 (938)
Q Consensus 233 ~--~~~~~~l~~a 243 (938)
+ -++..++...
T Consensus 93 Gs~iD~aK~ia~~ 105 (376)
T cd08193 93 GSSMDVAKLVAVL 105 (376)
T ss_pred chHHHHHHHHHHH
Confidence 4 3555555443
No 322
>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=77.82 E-value=12 Score=41.39 Aligned_cols=90 Identities=14% Similarity=0.080 Sum_probs=67.2
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.+| ++.+|+..........+.+.+.|++.|+.+..-..+... .+..++...+..+++.++|+||-.+
T Consensus 11 l~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 86 (366)
T PF00465_consen 11 LEELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPN--PTLEDVDEAAEQARKFGADCIIAIG 86 (366)
T ss_dssp GGGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS---BHHHHHHHHHHHHHTTSSEEEEEE
T ss_pred HHHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCC--CcHHHHHHHHHHHHhcCCCEEEEcC
Confidence 345666778887 999999763333447899999999999988655555555 5688999999999999999999887
Q ss_pred Chh--hHHHHHHHHHH
Q 002309 232 SPS--LGFQVFSVAKY 245 (938)
Q Consensus 232 ~~~--~~~~~l~~a~~ 245 (938)
.+. ++.+++.....
T Consensus 87 GGS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 87 GGSVMDAAKAVALLLA 102 (366)
T ss_dssp SHHHHHHHHHHHHHHT
T ss_pred CCCcCcHHHHHHhhcc
Confidence 764 56666655554
No 323
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=77.80 E-value=86 Score=33.29 Aligned_cols=81 Identities=20% Similarity=0.186 Sum_probs=54.4
Q ss_pred eEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEee
Q 002309 467 LKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITI 546 (938)
Q Consensus 467 lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~ 546 (938)
++||+... . ...+..+++..+.++.+ .+.+.+.. .+..+++..|.+|++|+++.....
T Consensus 92 l~Ig~~~~--~------------~~~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~ 149 (296)
T PRK09906 92 LTIGFVPS--A------------EVNLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHPV 149 (296)
T ss_pred EEEEEecc--h------------hhhHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCCC
Confidence 88888741 1 12345667777887765 35566654 446889999999999999863322
Q ss_pred ecCceeeeeeccceecccEEEEEeccC
Q 002309 547 VTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 547 t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
....+.+ .|+....+++++++..
T Consensus 150 ---~~~~l~~-~~l~~~~~~~v~~~~~ 172 (296)
T PRK09906 150 ---YSDEIDY-LELLDEPLVVVLPVDH 172 (296)
T ss_pred ---CCCCceE-EEEecccEEEEecCCC
Confidence 2333443 6888888888887654
No 324
>PRK10200 putative racemase; Provisional
Probab=77.73 E-value=22 Score=36.36 Aligned_cols=86 Identities=12% Similarity=0.059 Sum_probs=53.3
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH
Q 002309 81 SGFIGMVEALRFMET-DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (938)
Q Consensus 81 ~~~~a~~~a~~li~~-~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l 159 (938)
++........+.+.+ |+.+|+=|..+..+. ...+-+..++|+|+- .+++...+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~ 112 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAI 112 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHH
Confidence 566666666555554 898888777776655 455666778998862 23444445
Q ss_pred HhcCCcEEEEEEEcCccccchHHHHHHHHhhc-ceEE
Q 002309 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAER-RCRI 195 (938)
Q Consensus 160 ~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~-g~~v 195 (938)
+..+-++|+++......- ...+++.+.+. |+++
T Consensus 113 ~~~~~~~VglLaT~~Ti~---s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYTME---QDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHHHH---HhHHHHHHHHhcCCeE
Confidence 555777888887654322 23445555544 7665
No 325
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=77.07 E-value=76 Score=34.09 Aligned_cols=70 Identities=11% Similarity=0.163 Sum_probs=44.9
Q ss_pred eHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEeccC
Q 002309 494 CIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 494 ~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
-.+++..+.++.+. +++.+.. ++-..+.+.|.+|++|++++.. ........+. ..++....++++++...
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~~-~~~~~~~~l~-~~~l~~~~~~~v~~~~h 177 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGVT-GTEALANTFS-LDPLGSVQWRFVMAADH 177 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEecc-cCccccCCee-EEEecceeEEEEECCCC
Confidence 45778888887764 4566654 4467889999999999988621 1111122233 34677777777776543
No 326
>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=76.49 E-value=12 Score=41.49 Aligned_cols=90 Identities=9% Similarity=0.029 Sum_probs=64.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.++.+++.+|++...+.....+.+.+.+++.|+++..-..+..+ .+.+++...+..++..++|+||-.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35667778888999999998655444466788999999888876533334444 4578888999999989999999765
Q ss_pred Ch--hhHHHHHHHH
Q 002309 232 SP--SLGFQVFSVA 243 (938)
Q Consensus 232 ~~--~~~~~~l~~a 243 (938)
.+ -++..++...
T Consensus 89 GGs~~D~AK~va~~ 102 (370)
T cd08551 89 GGSVLDTAKAIALL 102 (370)
T ss_pred CchHHHHHHHHHHH
Confidence 54 4566655443
No 327
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=76.37 E-value=54 Score=34.15 Aligned_cols=83 Identities=13% Similarity=0.097 Sum_probs=51.7
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||++.. -...+..+++..+.+..+- +++.+.. ++-.+++..|.+|++|+++...
T Consensus 67 ~~l~I~~~~~--------------~~~~~~~~~l~~~~~~~p~-i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~ 124 (269)
T PRK11716 67 GELSLFCSVT--------------AAYSHLPPILDRFRAEHPL-VEIKLTT-------GDAADAVEKVQSGEADLAIAAK 124 (269)
T ss_pred ceEEEEecch--------------HHHHHHHHHHHHHHHHCCC-eEEEEEE-------CCHHHHHHHHHCCCccEEEEec
Confidence 4588887741 1123456788888887752 4566654 4567899999999999998532
Q ss_pred eeecCceeeeeeccceecccEEEEEecc
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
.. .....+. ..++....++++++..
T Consensus 125 ~~--~~~~~~~-~~~l~~~~~~~v~~~~ 149 (269)
T PRK11716 125 PE--TLPASVA-FSPIDEIPLVLIAPAL 149 (269)
T ss_pred CC--CCCcceE-EEEcccceEEEEEcCC
Confidence 11 1111122 2556667777776554
No 328
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=76.11 E-value=12 Score=41.56 Aligned_cols=88 Identities=10% Similarity=-0.025 Sum_probs=63.7
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
...+.+.++.++.+++.+|++...+..+..+.+.+.|++.|+++..-..+.++ .+.+++...+..+++.++|+||-.+
T Consensus 11 ~~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 88 (375)
T cd08194 11 VDETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSE--PTDESVEEGVKLAKEGGCDVIIALG 88 (375)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34556667777889999999655554446788999999999876544445554 4577888999999999999999765
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++..++.
T Consensus 89 GGS~~D~AKaia 100 (375)
T cd08194 89 GGSPIDTAKAIA 100 (375)
T ss_pred CchHHHHHHHHH
Confidence 54 35555544
No 329
>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=76.05 E-value=12 Score=41.82 Aligned_cols=88 Identities=9% Similarity=0.027 Sum_probs=62.8
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.++.+++.+|++....-.+..+.+.+.+++.|+++..-..+.++ .+.+.+......+++.++|+||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 44566778888999999998654443346788999999999876543334444 4567888888889999999999765
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++...+.
T Consensus 95 GGSviD~aKaia 106 (379)
T TIGR02638 95 GGSPIDTAKAIG 106 (379)
T ss_pred ChHHHHHHHHHH
Confidence 54 35555443
No 330
>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=74.95 E-value=46 Score=32.24 Aligned_cols=99 Identities=13% Similarity=0.004 Sum_probs=61.7
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceE
Q 002309 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (938)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~v 226 (938)
.+....+.+.+...+ .+|+++....+ .++.+.+.+++. |+.|+....-+. ...+-...+++|++++||+
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~----~~~~~~~i~~~I~~~~pdi 102 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYF----GPEEEEEIIERINASGADI 102 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCC----ChhhHHHHHHHHHHcCCCE
Confidence 344566666665554 57777775554 344445555544 677765322222 2444455899999999999
Q ss_pred EEEEeChhhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 227 IVLHVSPSLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 227 iv~~~~~~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
|++.+..+.-..++.+.++.. +.-+++..+
T Consensus 103 v~vglG~PkQE~~~~~~~~~l---~~~v~~~vG 132 (171)
T cd06533 103 LFVGLGAPKQELWIARHKDRL---PVPVAIGVG 132 (171)
T ss_pred EEEECCCCHHHHHHHHHHHHC---CCCEEEEec
Confidence 999988887777777766543 223455543
No 331
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=74.77 E-value=53 Score=34.54 Aligned_cols=120 Identities=11% Similarity=0.137 Sum_probs=61.6
Q ss_pred CCCCChHHhhhCCCCeeEEeCc-hHHHHH--HHhccc--------------------ccccccccCCHHHHHHHHhcCCC
Q 002309 688 SPINGIESLRKSDDPIGYQEGS-FAEYYL--SQELNI--------------------SKSRLVALRTPEDYAKALKDGPG 744 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s-~~~~~~--~~~~~~--------------------~~~~~~~~~~~~~~~~~l~~~~~ 744 (938)
..|+|++||. .|.+|++.... .....+ .+..++ ...+++++ ...+...++.+
T Consensus 119 ~~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~--- 193 (271)
T PRK11063 119 KKIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDD--- 193 (271)
T ss_pred cCCCCHHHhc-CCCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccc---
Confidence 5699999995 37789988632 222222 122111 11223333 45566777877
Q ss_pred CCceEEEEecchhHHHHHhcC--CcEEEeCccccccceEeeecCCCcchhhHHHHHHhhhccCcHHHHHHhh
Q 002309 745 KGGVAAVVDERPYVELFLSSQ--CSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAENGDLQRIHDKW 814 (938)
Q Consensus 745 ~g~~~a~i~~~~~~~~~~~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~G~~~~l~~~w 814 (938)
|.+|+++...+++....... ..+..-... .++--.++++++..=.+.+...+.-++....-+.|.++|
T Consensus 194 -g~vDaa~i~~~~a~~a~~~~~~~~l~~e~~~-~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 194 -AQIALAVINTTYASQIGLTPAKDGIFVEDKD-SPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred -ccccEEEEChHHHHHcCCCCCCCeeEECCCC-CCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 88999998888775432222 123221211 122235666665443444544554444444444454443
No 332
>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=73.62 E-value=62 Score=31.46 Aligned_cols=128 Identities=19% Similarity=0.179 Sum_probs=75.0
Q ss_pred CChHHHHHHHHHH-HhcCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHH
Q 002309 80 CSGFIGMVEALRF-METDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEM 158 (938)
Q Consensus 80 ~~~~~a~~~a~~l-i~~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~ 158 (938)
++-..++..+.++ ..+++.+||.-. .++.. +-+..++|+|.. .++.....+++...
T Consensus 17 ~~~e~~v~~a~~~~~~~g~dViIsRG--~ta~~---lr~~~~iPVV~I------------------~~s~~Dil~al~~a 73 (176)
T PF06506_consen 17 ASLEEAVEEARQLLESEGADVIISRG--GTAEL---LRKHVSIPVVEI------------------PISGFDILRALAKA 73 (176)
T ss_dssp --HHHHHHHHHHHHTTTT-SEEEEEH--HHHHH---HHCC-SS-EEEE---------------------HHHHHHHHHHC
T ss_pred ecHHHHHHHHHHhhHhcCCeEEEECC--HHHHH---HHHhCCCCEEEE------------------CCCHhHHHHHHHHH
Confidence 3456788888998 677999999522 23333 334458999973 23334445555543
Q ss_pred HHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHH
Q 002309 159 VSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQ 238 (938)
Q Consensus 159 l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~ 238 (938)
- .++ ++++++.-.+.. .....+.+.+ |..+.... + .+..++...+.+++..+.++|+-...
T Consensus 74 ~-~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~-----~~~~e~~~~i~~~~~~G~~viVGg~~------ 134 (176)
T PF06506_consen 74 K-KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYP-Y-----DSEEEIEAAIKQAKAEGVDVIVGGGV------ 134 (176)
T ss_dssp C-CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-E-----SSHHHHHHHHHHHHHTT--EEEESHH------
T ss_pred H-hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEE-E-----CCHHHHHHHHHHHHHcCCcEEECCHH------
Confidence 2 333 899998865543 2366666666 55554322 2 13779999999999999998876532
Q ss_pred HHHHHHHcCCC
Q 002309 239 VFSVAKYLGMM 249 (938)
Q Consensus 239 ~l~~a~~~g~~ 249 (938)
..+.|++.|+.
T Consensus 135 ~~~~A~~~gl~ 145 (176)
T PF06506_consen 135 VCRLARKLGLP 145 (176)
T ss_dssp HHHHHHHTTSE
T ss_pred HHHHHHHcCCc
Confidence 35667888874
No 333
>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=73.34 E-value=2.5 Score=45.15 Aligned_cols=102 Identities=17% Similarity=0.113 Sum_probs=62.5
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHH-HHhcCC
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVEL-FLSSQC 766 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~-~~~~~~ 766 (938)
.+|++++||. |.++.+..+.....++ +..+.. -+. -...|...+|++ |.+|+.......... -..+.+
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~-~~lGa~---pv~-ip~~evy~aLq~----G~vDg~~~~~~~~~~~~~~ev~ 194 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFF-EALGAS---PVP-IPWSEVYQALQQ----GVVDGAENSASSIYSLGLYEVA 194 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHH-HHCTSE---EEE--TGGGHHHHHHT----TSSSEEEEEHHHHHHTTGGGTS
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHH-HHcCCe---eec-CcHHHHHHHHhc----CCcCeEecCHHHHHhcChhhhC
Confidence 6899999998 8888887666666666 455433 122 245678999999 899999987665522 223346
Q ss_pred cEEEeCccccccceEeeecCCCc--chhhHHHHHHhh
Q 002309 767 SFRIVGQEFTKSGWGFAFPRDSP--LAVDLSSAILEL 801 (938)
Q Consensus 767 ~l~~~~~~~~~~~~~~~~~k~sp--l~~~i~~~il~l 801 (938)
++..... +...++.+.+.+..- |-+....+|.+.
T Consensus 195 ~y~~~~~-~~~~~~~~~~n~~~w~~L~~e~q~~l~~~ 230 (286)
T PF03480_consen 195 KYFTDTN-HGWSPYAVIMNKDWWDSLPDEDQEALDDA 230 (286)
T ss_dssp SEEEEEE-EEEEEEEEEEEHHHHHHS-HHHHHHHHHH
T ss_pred CeeEeec-ccCcceEEEEcHHHHhcCCHHHHHHHHHH
Confidence 6655444 445666777776532 444444444443
No 334
>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=72.92 E-value=1.3e+02 Score=31.53 Aligned_cols=69 Identities=13% Similarity=0.180 Sum_probs=44.4
Q ss_pred eeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEecc
Q 002309 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 493 ~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
+-.+++..+.++.+ .+++.... +....++..|.+|++|+++..-... ...+. ..|+....+++++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECCC
Confidence 45567777777665 24455554 4577899999999999998532222 12222 2566677788877655
Q ss_pred C
Q 002309 573 K 573 (938)
Q Consensus 573 ~ 573 (938)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 4
No 335
>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=72.67 E-value=93 Score=29.90 Aligned_cols=70 Identities=19% Similarity=0.218 Sum_probs=45.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+- +++.+.. ++...++..|.+|++|+++..... . ...+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHPD-LDVELSS-------LFSPQLAEALMRGKLDVAFMRPEI--Q-SDGID-YQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCCC-cEEEEEe-------cChHHHHHHHhcCCccEEEEeCCC--C-CCCcE-EEEEEccceEEEecC
Confidence 4556788888887752 4566654 456789999999999998853211 1 12222 356667777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 44
No 336
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=72.56 E-value=1e+02 Score=35.49 Aligned_cols=140 Identities=12% Similarity=0.120 Sum_probs=78.9
Q ss_pred EEcCCChhHHHHHHHhhc-cCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccc-
Q 002309 100 IIGPQCSTVAHIVSYVSN-ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYG- 177 (938)
Q Consensus 100 viGp~~s~~~~~va~~~~-~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g- 177 (938)
|++|.+.....++..+.+ ..++=+|.++. .| ++|- +.....+...+..+...-+++.|+|. +.||
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H-G~---------i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~-S~~Gn 264 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH-GV---------VWRD--NPTQIVELYLKWAADYQEDRITIFYD-TMSNN 264 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC-Cc---------eEeC--CHHHHHHHHHHHhhccCcCcEEEEEE-CCccH
Confidence 788888876777777665 34555666533 21 3442 22223333344444434578999993 3344
Q ss_pred -cchHHHHHHHHhhc--ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh------hhHHHHHHHHHHcCC
Q 002309 178 -RNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGM 248 (938)
Q Consensus 178 -~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~------~~~~~~l~~a~~~g~ 248 (938)
+..++.+.+.+++. |+.+... .+. ..+...++..+ .+++.|++.+.. +....++.......+
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~-~v~------~~~~~~i~~~~--~~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l 335 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIF-NVA------RSDKNEILTNV--FRSKGVLVGSSTMNNVMMPKIAGLLEEITGLRF 335 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEE-ECC------CCCHHHHHhHH--hhCCEEEEECCccCCcchHHHHHHHHHhhccCc
Confidence 56678889999876 4554322 222 23344445554 357788877653 345567777666665
Q ss_pred CCCCeEEEEeCcc
Q 002309 249 MGNGYVWIATDWL 261 (938)
Q Consensus 249 ~~~~~~wi~~~~~ 261 (938)
.++....+++.+|
T Consensus 336 ~gK~~~vFGSygw 348 (479)
T PRK05452 336 RNKRASAFGSHGW 348 (479)
T ss_pred CCCEEEEEECCCc
Confidence 5444445555444
No 337
>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=71.94 E-value=34 Score=33.90 Aligned_cols=103 Identities=18% Similarity=0.155 Sum_probs=63.3
Q ss_pred CCCCChHHhhhCCCCeeE-EeCchHHHHHHHhc---ccccccccc----cCCHHHHHHHHhcCCCCCceEEEEecchhHH
Q 002309 688 SPINGIESLRKSDDPIGY-QEGSFAEYYLSQEL---NISKSRLVA----LRTPEDYAKALKDGPGKGGVAAVVDERPYVE 759 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~-~~~s~~~~~~~~~~---~~~~~~~~~----~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~ 759 (938)
..|++++||.+.+.++.- ..||-...+|+... ++....+.. ..+..+...++.. |..|+-+.-.....
T Consensus 81 ~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~----G~AD~G~g~~~~A~ 156 (193)
T PF12727_consen 81 KGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVAS----GKADAGIGIRAAAE 156 (193)
T ss_pred ccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHc----CCCCEEeehHHHHH
Confidence 479999999866655333 45777777775433 233333333 3566778888888 88888887544442
Q ss_pred HHHhcCCcEEEeCccccccceEeeecCCCcchhhHHHHHHh
Q 002309 760 LFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILE 800 (938)
Q Consensus 760 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~ 800 (938)
.+ ..-++.-+ ....|-+++++..-..+.+...|.-
T Consensus 157 ~~--~gL~Fvpl----~~E~~dlv~~~~~~~~~~vq~ll~~ 191 (193)
T PF12727_consen 157 EF--YGLDFVPL----AEERYDLVIRREDLEDPAVQALLDF 191 (193)
T ss_pred hh--cCCCcEEc----cccceEEEEEhhHcCCHHHHHHHHH
Confidence 11 12234433 3357889999877666666665543
No 338
>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=71.82 E-value=11 Score=39.32 Aligned_cols=78 Identities=14% Similarity=0.161 Sum_probs=58.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEE-eChhhHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH-VSPSLGFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~-~~~~~~~~~l~~a 243 (938)
|++|.. ++.|.......+++++++.|+.+... .+.. .+.......++++...++|.|++. ..+.....+++++
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 456653 56688888999999999999987764 2222 335666677788878899999887 4455677899999
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99886
No 339
>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=71.35 E-value=19 Score=40.05 Aligned_cols=87 Identities=13% Similarity=-0.032 Sum_probs=61.3
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.++++.++.+++.+|++.........+.+.+.+++.|+.+..-..+.++ .+..++...+..+++.++|+||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 45566778888989999998654433346788999999888876543334433 3467788888889999999999875
Q ss_pred Ch--hhHHHHH
Q 002309 232 SP--SLGFQVF 240 (938)
Q Consensus 232 ~~--~~~~~~l 240 (938)
.+ -++...+
T Consensus 94 GGsviD~AK~i 104 (377)
T cd08188 94 GGSPIDCAKGI 104 (377)
T ss_pred CchHHHHHHHH
Confidence 54 3555444
No 340
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=71.15 E-value=29 Score=36.73 Aligned_cols=95 Identities=16% Similarity=0.033 Sum_probs=72.2
Q ss_pred CCCceEEecCCchHHHHHH----HHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhH
Q 002309 137 QYPFFVRTTQSDSYQMTAV----AEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYV 212 (938)
Q Consensus 137 ~~p~~~r~~ps~~~~~~ai----~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~ 212 (938)
..++-|-+.||....++.+ .+-++..|.+++-+|.+.+.--.......++.|++.|+.+..-..+.++ .+..++
T Consensus 39 ~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s~ 116 (465)
T KOG3857|consen 39 MMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGSV 116 (465)
T ss_pred cceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--CchhhH
Confidence 3466677777776665544 3447889999999999777766677888999999999987654444444 347788
Q ss_pred HHHHHHHhcCCceEEEEEeCh
Q 002309 213 MDLLVKVALMESRVIVLHVSP 233 (938)
Q Consensus 213 ~~~l~~lk~~~~~viv~~~~~ 233 (938)
...+.-.|+...|.+|..+.+
T Consensus 117 ~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHhcccceEEEEcCc
Confidence 899999999999998887654
No 341
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=70.89 E-value=18 Score=38.97 Aligned_cols=89 Identities=16% Similarity=0.049 Sum_probs=62.7
Q ss_pred EEEEEe---eCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHH
Q 002309 33 NVGALF---TLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVA 109 (938)
Q Consensus 33 ~IG~i~---~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~ 109 (938)
++|.+. ....+.-.....|+...++.+| |+.++...+..+-.|+..+.+.+..|+++|+.+|.. ......
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~-~ag~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFP-VAGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEE-E-CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEE-CCCCCc
Confidence 455555 6655544677899999999999 577888888888889999999999999999988886 333445
Q ss_pred HHHHHhhccCCcc--EEEccc
Q 002309 110 HIVSYVSNELQVP--LLSFGV 128 (938)
Q Consensus 110 ~~va~~~~~~~iP--~Is~~~ 128 (938)
..+.+.+...+.. .|....
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d~ 221 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVDS 221 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEES
T ss_pred hHHHHHHHHcCCceEEEEecc
Confidence 5566677777777 776533
No 342
>PRK07475 hypothetical protein; Provisional
Probab=70.31 E-value=21 Score=36.87 Aligned_cols=122 Identities=15% Similarity=0.087 Sum_probs=66.8
Q ss_pred ChHHHHHHHH-HHHhcCcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH
Q 002309 81 SGFIGMVEAL-RFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV 159 (938)
Q Consensus 81 ~~~~a~~~a~-~li~~~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l 159 (938)
++......+. +|...|+.+|+.+. .........+.+..+||+++. +.+.+..+
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~l 115 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVATS-------------------------SLLQVPLI 115 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHHH
Confidence 4444444444 44445999999865 333444556667789999951 22333344
Q ss_pred Hhc--CCcEEEEEEEcCccccchHHHHHHHHhhcceEE-EEEeec---CC----------CCC-CC----hhhHHHHHHH
Q 002309 160 SYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRI-SYKSGI---PP----------ESG-VN----TGYVMDLLVK 218 (938)
Q Consensus 160 ~~~--~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v-~~~~~~---~~----------~~~-~~----~~d~~~~l~~ 218 (938)
++. +-++|+++..+... -..+.+++.|+.. +....+ .. ... .+ ..++.+.+++
T Consensus 116 ~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~~~~~~~~~~g~e~~~~~~~~I~~~~~~~d~~~~~~~l~~~~~~ 189 (245)
T PRK07475 116 QALLPAGQKVGILTADASS------LTPAHLLAVGVPPDTSSLPIAGLEEGGEFRRNILENRGELDNEAAEQEVVAAARA 189 (245)
T ss_pred HHhccCCCeEEEEeCCchh------hhHHHHHhCCCCCCCccccccCcccchHHHHHHhcccccccHHHHHHHHHHHHHH
Confidence 433 36899999866542 1246677788751 100000 00 000 01 2356666666
Q ss_pred Hhc--CCceEEEEEeChh
Q 002309 219 VAL--MESRVIVLHVSPS 234 (938)
Q Consensus 219 lk~--~~~~viv~~~~~~ 234 (938)
+.+ .++++|++.|..-
T Consensus 190 l~~~~~~~daIvL~CTeL 207 (245)
T PRK07475 190 LLERHPDIGAIVLECTNM 207 (245)
T ss_pred HHhhCCCCCEEEEcCcCh
Confidence 653 4788888876643
No 343
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=70.03 E-value=11 Score=38.00 Aligned_cols=87 Identities=13% Similarity=0.156 Sum_probs=42.9
Q ss_pred CCCeeEEeCchHHHHHHHhcccccc--cccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEe--Cc--
Q 002309 700 DDPIGYQEGSFAEYYLSQELNISKS--RLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIV--GQ-- 773 (938)
Q Consensus 700 ~~~i~~~~~s~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~--~~-- 773 (938)
|.+||+-..|..+..+.+.. .... .+++. +..++++.+.+ |.+||.|.+.... . .+.-++... ..
T Consensus 114 GmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Vei-~Y~q~~~~l~~----g~IDA~IWN~d~i--~-~~~~~l~~~~l~~~~ 184 (232)
T PF14503_consen 114 GMRVGIDPSSIDQKILTEAE-FEGKNVEFVEI-PYNQLLELLRS----GEIDAAIWNYDEI--E-DKNFGLKYVPLKDDP 184 (232)
T ss_dssp --EEEE-TT-HHHHHHHHHH-HTTS--EEEE---HHHHHHHHHH----TS--EEEEE--HH--C-CHHCTEEEEE--SSC
T ss_pred eeEeecCCCCccHHHHHHHH-hCCCceEEEEe-cHHHHHHHHHC----CCccEEEECCccc--c-cccCCeeEEeCCchH
Confidence 77899998887777774422 2222 23332 56789999999 9999999987621 1 111233332 22
Q ss_pred -cccccceEeeecCCCc-chhhHH
Q 002309 774 -EFTKSGWGFAFPRDSP-LAVDLS 795 (938)
Q Consensus 774 -~~~~~~~~~~~~k~sp-l~~~i~ 795 (938)
....+.-.+.++|+.+ +...++
T Consensus 185 ~~~~~seAVivi~~~~~~i~~ll~ 208 (232)
T PF14503_consen 185 MSKDASEAVIVIRKDNEPIKALLR 208 (232)
T ss_dssp HHHHTT-EEEEEETT-HHHHHHHH
T ss_pred HHHhcCeeEEEEeCCCHHHHHHHH
Confidence 1123445788888876 444444
No 344
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=69.66 E-value=21 Score=39.77 Aligned_cols=87 Identities=9% Similarity=-0.005 Sum_probs=61.7
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCcc-ccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEY-GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
..+.+.++.++ +++.+|++.... .....+.+.+.+++.|+++..-..+.++ .+.+++...+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPN--PTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45566777777 899999865442 4567788999999999876533344444 4577788888889999999999765
Q ss_pred Ch--hhHHHHHHH
Q 002309 232 SP--SLGFQVFSV 242 (938)
Q Consensus 232 ~~--~~~~~~l~~ 242 (938)
.+ -++..++..
T Consensus 92 GGS~iD~aK~ia~ 104 (380)
T cd08185 92 GGSSMDTAKAIAF 104 (380)
T ss_pred CccHHHHHHHHHH
Confidence 44 455555544
No 345
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=69.65 E-value=27 Score=38.05 Aligned_cols=73 Identities=21% Similarity=0.224 Sum_probs=49.1
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHH-HHH---Hhccccccccc-ccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHH
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEY-YLS---QELNISKSRLV-ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFL 762 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~-~~~---~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~ 762 (938)
.+|++++||. |+++|+..++...+ ++. ...++...... ..-.+.+...++.. |.+||+..-.++.....
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~----g~vda~~~~ep~~~~~~ 199 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAA----GQVDAFVVWEPWNAAAE 199 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhc----CCcceEEecCCchhhhh
Confidence 6788999998 99999988764233 221 33444433332 22344578888888 89999888888776665
Q ss_pred hcCC
Q 002309 763 SSQC 766 (938)
Q Consensus 763 ~~~~ 766 (938)
.+..
T Consensus 200 ~~~~ 203 (335)
T COG0715 200 GEGG 203 (335)
T ss_pred ccCC
Confidence 5544
No 346
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=69.62 E-value=32 Score=35.60 Aligned_cols=101 Identities=15% Similarity=0.126 Sum_probs=57.5
Q ss_pred HHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh
Q 002309 154 AVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (938)
Q Consensus 154 ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~ 233 (938)
.+.+++++++.+++.+|++...|. ..-+.+.+.++..|+++......... .+..+......+++..++++|+-.+.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~~-~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTYK-AAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHHH-HHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHHH-HHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 456778888889999999766543 34467888899999888743222222 235566666777766788988888776
Q ss_pred hhHHHHHHHHHHcCCCCCCeEEEEeCc
Q 002309 234 SLGFQVFSVAKYLGMMGNGYVWIATDW 260 (938)
Q Consensus 234 ~~~~~~l~~a~~~g~~~~~~~wi~~~~ 260 (938)
...-..=..|.++| ..|+-+-|..
T Consensus 86 ~i~D~~K~~A~~~~---~p~isVPTa~ 109 (250)
T PF13685_consen 86 TIIDIAKYAAFELG---IPFISVPTAA 109 (250)
T ss_dssp HHHHHHHHHHHHHT-----EEEEES--
T ss_pred HHHHHHHHHHHhcC---CCEEEecccc
Confidence 53322223445555 3566666643
No 347
>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=69.27 E-value=45 Score=33.57 Aligned_cols=70 Identities=9% Similarity=-0.036 Sum_probs=39.3
Q ss_pred cCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCcc-ccccceEeeecCCCcchhhHHHHHHhhhc
Q 002309 729 LRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQE-FTKSGWGFAFPRDSPLAVDLSSAILELAE 803 (938)
Q Consensus 729 ~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~k~spl~~~i~~~il~l~e 803 (938)
..+..+..+.+.+ |+.++.+......... ........++.. .....+++++.|+++-.+.-...|..+..
T Consensus 135 ~~~~~~~~~~~~~----Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s 205 (216)
T TIGR01256 135 GEDVRQALQFVET----GNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKS 205 (216)
T ss_pred cCcHHHHHHHHHc----CCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHcC
Confidence 3455677888888 8888776544322111 122333334432 22345789999988865555555555443
No 348
>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=68.95 E-value=35 Score=34.72 Aligned_cols=111 Identities=13% Similarity=0.069 Sum_probs=61.1
Q ss_pred CCCCChHHhhhCCCCeeEEeCc------hHHHHHHHhcc---cc---ccccc-ccCCHHHHHHHHhcCCCCCceEEEEec
Q 002309 688 SPINGIESLRKSDDPIGYQEGS------FAEYYLSQELN---IS---KSRLV-ALRTPEDYAKALKDGPGKGGVAAVVDE 754 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s------~~~~~~~~~~~---~~---~~~~~-~~~~~~~~~~~l~~~~~~g~~~a~i~~ 754 (938)
..+.+++||.+.+.+|++.... .....+.+ .+ .- ..++. ..++..+....+.+ |..++.+..
T Consensus 91 ~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~-~g~~~~~~~l~~~~~~~~~~~~~~~~~v~~----g~~d~~~~~ 165 (230)
T PF13531_consen 91 KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAA-AGGQELLDALQKNIVQYVPSTSQVLSAVAS----GEADAGIVY 165 (230)
T ss_dssp TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHH-HTHCHHHHHHHHTEEEEESSHHHHHHHHHT----TSSSEEEEE
T ss_pred cccCCHHHHhhccCEEEecCcccChhhHHHHHHHHH-cccHHHHHHHHHhCcccccchHHHHHHHHc----CCCcceeeH
Confidence 3567788888666677776521 12222221 11 00 11232 34667888888888 788888875
Q ss_pred chhHHHHHhcCCc--EEEeCcccc--ccceEeeecCCCcchhhHHHHHHhhhcc
Q 002309 755 RPYVELFLSSQCS--FRIVGQEFT--KSGWGFAFPRDSPLAVDLSSAILELAEN 804 (938)
Q Consensus 755 ~~~~~~~~~~~~~--l~~~~~~~~--~~~~~~~~~k~spl~~~i~~~il~l~e~ 804 (938)
.....+. ....+ +...++... ...+.+++.++++-.+.-...+..|...
T Consensus 166 ~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s~ 218 (230)
T PF13531_consen 166 ESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFLLSP 218 (230)
T ss_dssp HHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHHTSH
T ss_pred HHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHHCCH
Confidence 5544322 22223 334444444 3557888888887666666666666554
No 349
>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=68.94 E-value=24 Score=39.00 Aligned_cols=86 Identities=7% Similarity=0.039 Sum_probs=60.6
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccc-cchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
+.+.++++.++ +++.+|++...+- .+..+.+.+.+++.|+++..-..+.++ .+.+++...++.+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEEN--PSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34556778888 8998888655433 335678999999999876543344444 4577888889999999999999876
Q ss_pred Chh--hHHHHHH
Q 002309 232 SPS--LGFQVFS 241 (938)
Q Consensus 232 ~~~--~~~~~l~ 241 (938)
.+. ++...+.
T Consensus 92 GGSviD~aK~ia 103 (357)
T cd08181 92 GGSPLDAAKAIA 103 (357)
T ss_pred CchHHHHHHHHH
Confidence 653 4555443
No 350
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=68.68 E-value=20 Score=39.95 Aligned_cols=88 Identities=13% Similarity=0.085 Sum_probs=62.0
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
...+.+.++.++-+++.+|++...+.....+.+.+.|++.|+.+..-..+.++ .+.+.+...++.+++.++|.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 16 IKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred HHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566778888888998887544333356788999999888876543334444 4567788888899999999999766
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++.+++.
T Consensus 94 GGS~iD~aK~ia 105 (377)
T cd08176 94 GGSPHDCAKAIG 105 (377)
T ss_pred CcHHHHHHHHHH
Confidence 54 35555443
No 351
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=68.30 E-value=36 Score=32.72 Aligned_cols=122 Identities=13% Similarity=0.207 Sum_probs=68.1
Q ss_pred HHHHHhc--CcEEEEcCCChh---HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC
Q 002309 89 ALRFMET--DIVAIIGPQCST---VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG 163 (938)
Q Consensus 89 a~~li~~--~V~aviGp~~s~---~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~ 163 (938)
+.+++.+ +.+.++|..... ....+.++++..++|+++...+...|.++. ..|. ......+..+++.-+
T Consensus 27 aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kg------v~~~-~~~lg~lg~~~~~p~ 99 (171)
T PRK00945 27 AAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKG------VDAK-YINLHELTNYLKDPN 99 (171)
T ss_pred HHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCC------ccCC-cccHHHHHhhccCch
Confidence 3444544 799999987654 667789999999999998555444555432 1122 223455666666555
Q ss_pred CcEE---------EEEEEcCccccchHHHHHHHHhhcceE-EEEEeecCCCC-----CCChhhHHHHHHHHh
Q 002309 164 WNAV---------SVIFVDNEYGRNGVSALNDKLAERRCR-ISYKSGIPPES-----GVNTGYVMDLLVKVA 220 (938)
Q Consensus 164 w~~v---------aii~~d~~~g~~~~~~l~~~l~~~g~~-v~~~~~~~~~~-----~~~~~d~~~~l~~lk 220 (938)
|.-+ .++..+..+....+..++.-.. ++ |.....+.++. ....+++...|+++-
T Consensus 100 ~e~~~g~~~~DlvlfvG~~~~~~~~~l~~lk~f~~---~~~~~~~~~y~~~a~~s~~~~~~~~~~~~l~~li 168 (171)
T PRK00945 100 WKGLDGNGNYDLVIFIGVTYYYASQGLSALKHFSP---LKTITIDRYYHPNADMSFPNLSKEEYLEYLDELI 168 (171)
T ss_pred hhhhcCCCCcCEEEEecCCchhHHHHHHHHhhcCC---ceEEEecCCcCCCCceecCCCCHHHHHHHHHHHH
Confidence 5444 4444566555555554443222 22 33233343331 124566677776653
No 352
>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=68.13 E-value=1.6e+02 Score=31.17 Aligned_cols=64 Identities=11% Similarity=0.073 Sum_probs=39.7
Q ss_pred HHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEecc
Q 002309 496 DVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 496 dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
.++..+.++. .+++.... ++-..+++.|.+|++|+++..... ....+. +.|+.+...++++++.
T Consensus 107 ~~l~~~~~~~--~i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQE--GVLLDLVV-------EDQDHTAELLRSGEVLGAVTTQAK---PVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCC--CceEEEEe-------CcchhHHHHHhCCCceEEEecCCC---CCCCce-EEecCCceEEEEECch
Confidence 4566666653 35566654 345577899999999998853221 122333 3577777777777643
No 353
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=68.02 E-value=20 Score=39.56 Aligned_cols=85 Identities=9% Similarity=-0.006 Sum_probs=60.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
..+.++++.++ +++.+|+....+. ...+.+.+.+++.|+.+.+. .+.++ .+.+++...++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGE--CTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCc--CCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 44566677776 8998998544444 67788999999999887543 34444 45678888888889999999998765
Q ss_pred hh--hHHHHHHH
Q 002309 233 PS--LGFQVFSV 242 (938)
Q Consensus 233 ~~--~~~~~l~~ 242 (938)
+. ++..++..
T Consensus 87 GS~iD~aK~ia~ 98 (351)
T cd08170 87 GKTLDTAKAVAD 98 (351)
T ss_pred chhhHHHHHHHH
Confidence 43 45555543
No 354
>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=67.60 E-value=86 Score=31.48 Aligned_cols=121 Identities=12% Similarity=0.118 Sum_probs=71.2
Q ss_pred hcCcEEEEcCCChhHHHHHHHhh-ccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEE
Q 002309 94 ETDIVAIIGPQCSTVAHIVSYVS-NELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFV 172 (938)
Q Consensus 94 ~~~V~aviGp~~s~~~~~va~~~-~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~ 172 (938)
+.++.+|+-+.++. ...+..+- ...++|+++. .++.+.-+.+ +-++|+++..
T Consensus 63 ~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~vl~t 115 (216)
T PF01177_consen 63 KAGVDAIVIACNSA-HPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIGVLTT 115 (216)
T ss_dssp HTTESEEEESSHHH-HHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEEEEES
T ss_pred hCCCCEEEEcCCch-hhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEEEEec
Confidence 34888888644443 23333444 6669998863 2333444555 8999999985
Q ss_pred cCccccchHHHHHHHHhhc-ce--EEEEEe--ecC----CCCCCChh---hHHHHHHHH-hcCCceEEEEEeChhhHH-H
Q 002309 173 DNEYGRNGVSALNDKLAER-RC--RISYKS--GIP----PESGVNTG---YVMDLLVKV-ALMESRVIVLHVSPSLGF-Q 238 (938)
Q Consensus 173 d~~~g~~~~~~l~~~l~~~-g~--~v~~~~--~~~----~~~~~~~~---d~~~~l~~l-k~~~~~viv~~~~~~~~~-~ 238 (938)
++......+.+.+++. |+ ++.... ... .+ ..+.. .+...++++ +..++++|++.|..-... .
T Consensus 116 ---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~-~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~~~ 191 (216)
T PF01177_consen 116 ---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELG-DIPPEQIEILAEAARELIKEDGADAIILGCTHLPLLLG 191 (216)
T ss_dssp ---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTT-CTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGGHH
T ss_pred ---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhh-cCCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHHHH
Confidence 3334556677777887 87 554321 111 11 01222 344445554 478999999988875544 5
Q ss_pred HHHHHHH
Q 002309 239 VFSVAKY 245 (938)
Q Consensus 239 ~l~~a~~ 245 (938)
..+.+.+
T Consensus 192 ~~~~l~~ 198 (216)
T PF01177_consen 192 AIEALEE 198 (216)
T ss_dssp HHHHHHH
T ss_pred HHHhhcc
Confidence 6666554
No 355
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=67.58 E-value=1.1e+02 Score=29.50 Aligned_cols=71 Identities=14% Similarity=0.077 Sum_probs=44.6
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+- +++.+.. .+.+.++.+|.+|++|+++..... .....+ .+.++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNKA-TRIRLSE-------EVLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCCC-CceEEEE-------eccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEEcC
Confidence 4567888888888752 4566654 346688999999999998752111 111122 2345566667777665
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 82 ~h 83 (195)
T cd08431 82 NH 83 (195)
T ss_pred CC
Confidence 43
No 356
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=67.15 E-value=95 Score=32.80 Aligned_cols=77 Identities=19% Similarity=0.179 Sum_probs=42.8
Q ss_pred CcEEEEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCch-HHHHHHHHHHH-----hcCCcEEEE
Q 002309 96 DIVAIIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDS-YQMTAVAEMVS-----YYGWNAVSV 169 (938)
Q Consensus 96 ~V~aviGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~-~~~~ai~~~l~-----~~~w~~vai 169 (938)
.-+.|||..- +++..........|+++. |..-++. .-++-++.+++ .|+-.++++
T Consensus 77 d~VLIIGGp~-AVs~~yE~~Lks~GitV~------------------RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvv 137 (337)
T COG2247 77 DLVLIIGGPI-AVSPNYENALKSLGITVK------------------RIGGANRYETAEKVAKFFREDYPNAFKNVKVVV 137 (337)
T ss_pred ceEEEECCCC-cCChhHHHHHHhCCcEEE------------------EecCcchHHHHHHHHHHHHhhchhhhcCeEEEE
Confidence 4555665332 233444455556666555 3333333 33666677775 344457777
Q ss_pred EEEcCccccchHHHHHHHHhhcceEEEE
Q 002309 170 IFVDNEYGRNGVSALNDKLAERRCRISY 197 (938)
Q Consensus 170 i~~d~~~g~~~~~~l~~~l~~~g~~v~~ 197 (938)
+|- .+....+.+++++ |++.+.
T Consensus 138 v~G-----wDy~~~~~e~~k~-~~~p~~ 159 (337)
T COG2247 138 VYG-----WDYADALMELMKE-GIVPVI 159 (337)
T ss_pred Eec-----cccHHHHHHHHhc-CcceeE
Confidence 762 2223378888888 887654
No 357
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=66.89 E-value=1e+02 Score=32.82 Aligned_cols=81 Identities=12% Similarity=0.108 Sum_probs=50.5
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||++.. . ...+-..++..+.++- .+++++.. +.-..++..+.+|++|+++..-
T Consensus 90 g~l~I~~~~~--~------------~~~~l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~ 146 (294)
T PRK03635 90 LTLSIAVNAD--S------------LATWFLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTE 146 (294)
T ss_pred eEEEEeecch--h------------HHHHHHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEecc
Confidence 4689998741 1 1122344666777653 45666654 4456789999999999987532
Q ss_pred eeecCceeeeeeccceecccEEEEEecc
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFR 572 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~ 572 (938)
. .....+ .+.|+.+..++++++..
T Consensus 147 ~---~~~~~l-~~~~l~~~~~~lv~~~~ 170 (294)
T PRK03635 147 P---QPVQGC-RVDPLGAMRYLAVASPA 170 (294)
T ss_pred C---CCCCCc-eeeecccceEEEEEcch
Confidence 1 222223 45677888888887654
No 358
>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=66.68 E-value=28 Score=38.87 Aligned_cols=87 Identities=13% Similarity=0.109 Sum_probs=59.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
..+.++++.++ +++.+|++...+.....+.+.+.+++.|+++..-..+.+. .+..+....+...++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPD--LPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44667788888 8998888544433467788999999999876433333322 23566777777788889999998755
Q ss_pred h--hhHHHHHHH
Q 002309 233 P--SLGFQVFSV 242 (938)
Q Consensus 233 ~--~~~~~~l~~ 242 (938)
+ -++..++..
T Consensus 89 GS~iD~aK~ia~ 100 (386)
T cd08191 89 GSCIDLAKIAGL 100 (386)
T ss_pred chHHHHHHHHHH
Confidence 4 355555544
No 359
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=66.02 E-value=1.8e+02 Score=30.70 Aligned_cols=162 Identities=14% Similarity=0.121 Sum_probs=92.7
Q ss_pred eEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 31 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
.=.|+.||.-++. ..+.+++.|+-+.-... +-+--.|.+-.-...++-..+.+.+=+.+|.-=..+ -.
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~qlGg~~-------~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~--~~ 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQLGGHA-------IYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFS--HE 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHcCCCe-------EEeCCCccccCCCCcHHHHHHHHHhhhheEEEeccc--HH
Confidence 4579999998874 57889999998874433 333333333211222223333444434455422222 23
Q ss_pred HHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH---HhcC---CcEEEEEEEcCccccchHHHH
Q 002309 111 IVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV---SYYG---WNAVSVIFVDNEYGRNGVSAL 184 (938)
Q Consensus 111 ~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l---~~~~---w~~vaii~~d~~~g~~~~~~l 184 (938)
.+..+++...||+|.- |++...| .+++++++ .++| -.+++.+.+. .+....+
T Consensus 112 ~ve~lA~~s~VPViNg------LtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVING------LTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG----NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEcc------cccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc----chHHHHH
Confidence 6788999999999963 4443333 57777774 3554 4566666533 6678888
Q ss_pred HHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHH-hcCCceEEEE
Q 002309 185 NDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKV-ALMESRVIVL 229 (938)
Q Consensus 185 ~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~l-k~~~~~viv~ 229 (938)
..+....|+.+.... |.+ .....++....+++ +++++.+.+.
T Consensus 170 ~~~~a~~G~dv~ia~--Pk~-~~p~~~~~~~a~~~a~~~g~~i~~t 212 (310)
T COG0078 170 LLAAAKLGMDVRIAT--PKG-YEPDPEVVEKAKENAKESGGKITLT 212 (310)
T ss_pred HHHHHHhCCeEEEEC--CCc-CCcCHHHHHHHHHHHHhcCCeEEEe
Confidence 888888998765432 222 11244555555554 4444444443
No 360
>PF15179 Myc_target_1: Myc target protein 1
Probab=65.72 E-value=13 Score=35.30 Aligned_cols=38 Identities=11% Similarity=0.160 Sum_probs=28.9
Q ss_pred cccccccchhhHHHH-HHHHHHHHHHHHHHHHHHHhhhc
Q 002309 829 SDRLHLSSFWGLFLI-CGVACFIALVIYFLQIMQQLCKS 866 (938)
Q Consensus 829 ~~~l~l~~~~g~f~i-l~~g~~la~~vf~~e~~~~~~~~ 866 (938)
.+.++.+++...|-+ +++|++|+.+||++-.+..++|.
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~LltwlSRRRA 51 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALLTWLSRRRA 51 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 345667788888855 68899999999988877666554
No 361
>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=64.76 E-value=1.4e+02 Score=28.93 Aligned_cols=69 Identities=10% Similarity=0.080 Sum_probs=42.7
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .+++.+.. ++-+.++.+|.+|++|+++...... ...+. +.++....+.++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCC
Confidence 345677778877654 34565654 4567899999999999988632111 12222 345666666666554
Q ss_pred c
Q 002309 572 R 572 (938)
Q Consensus 572 ~ 572 (938)
.
T Consensus 82 ~ 82 (198)
T cd08485 82 S 82 (198)
T ss_pred C
Confidence 3
No 362
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=64.63 E-value=47 Score=36.18 Aligned_cols=100 Identities=11% Similarity=0.073 Sum_probs=64.7
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
..+.+.++.++.+++.+|++...+. ...+.+.+.+++. +.+.......++ .+.+++...+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPN--PTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 3456677888889999998544433 6677888888876 554433233333 34778888888888889999997655
Q ss_pred h--hhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 233 P--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 233 ~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
+ -+...++......+ ..++-|-|.
T Consensus 88 Gs~~D~aK~ia~~~~~~---~p~i~iPTt 113 (332)
T cd07766 88 GSTLDTAKAVAALLNRG---LPIIIVPTT 113 (332)
T ss_pred chHHHHHHHHHHHhcCC---CCEEEEeCC
Confidence 4 35555555443323 345555543
No 363
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=64.45 E-value=39 Score=36.73 Aligned_cols=104 Identities=13% Similarity=0.159 Sum_probs=63.7
Q ss_pred CCCCChHHhhhCCCCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC-
Q 002309 688 SPINGIESLRKSDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC- 766 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~- 766 (938)
.||.+.+||. |.++-++.......++ +.++.....+ ...|.+.+|+. |-+|+.-.....+ ...+..
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~-~a~GA~P~pm----~f~Evy~aLqt----GvVDGqEnp~~~i--~~~k~~E 223 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMF-KALGANPTPM----PFAEVYTALQT----GVVDGQENPLSNI--YSAKLYE 223 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHH-HHcCCCCCCC----CHHHHHHHHHc----CCcccccCCHHHH--hhccHHH
Confidence 5999999999 9999999888778887 4454432222 56788899999 7777766554332 212210
Q ss_pred --cEEEeCccccccceEeeecCCC--cchhhHHHHHHhhhccC
Q 002309 767 --SFRIVGQEFTKSGWGFAFPRDS--PLAVDLSSAILELAENG 805 (938)
Q Consensus 767 --~l~~~~~~~~~~~~~~~~~k~s--pl~~~i~~~il~l~e~G 805 (938)
++..... ....++.+.+.+.. .|-+...++|++..+..
T Consensus 224 Vqky~t~tn-H~~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 224 VQKYLTLTN-HIYLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred HhHHhhhcc-ccccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 1111111 12234556666642 27777777777666554
No 364
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=64.44 E-value=93 Score=34.06 Aligned_cols=75 Identities=16% Similarity=0.052 Sum_probs=61.6
Q ss_pred eEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHH
Q 002309 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAH 110 (938)
Q Consensus 31 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~ 110 (938)
.-+||.+.-+..+.-.....|+.+.++.+|.+ .++...+..+=.|+..+.+.+..|+++|+.+|.....+....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~------i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g 234 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD------IKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC------ccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 56788888888666677889999999999954 677788888888999999999999999999999766655444
Q ss_pred H
Q 002309 111 I 111 (938)
Q Consensus 111 ~ 111 (938)
.
T Consensus 235 v 235 (345)
T COG1744 235 V 235 (345)
T ss_pred H
Confidence 3
No 365
>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=64.24 E-value=31 Score=38.27 Aligned_cols=86 Identities=8% Similarity=-0.006 Sum_probs=60.0
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
..+.+.++.++.+++.+|++...+ ....+.+.+++.|+.+..-..+.++ .+.+.+...+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPN--PDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 456677888888999999865544 4466778888888765533344444 44677888888888899999997655
Q ss_pred h--hhHHHHHHHH
Q 002309 233 P--SLGFQVFSVA 243 (938)
Q Consensus 233 ~--~~~~~~l~~a 243 (938)
+ -++..++...
T Consensus 87 Gs~~D~aK~ia~~ 99 (367)
T cd08182 87 GSVLDTAKALAAL 99 (367)
T ss_pred cHHHHHHHHHHHH
Confidence 4 4566655543
No 366
>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=63.50 E-value=1.4e+02 Score=32.01 Aligned_cols=42 Identities=24% Similarity=0.167 Sum_probs=24.1
Q ss_pred CchhhHHHHHHHHHhhhhcccccccCCCCeeEEEEEEeeCCC
Q 002309 1 MKTIWFLPLVFLYFGLFSFGYCKSVSARPAVVNVGALFTLDS 42 (938)
Q Consensus 1 Mk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~~~ 42 (938)
|||..+++++.++++.+++++|......++.++||...+...
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Ig~~~~~~~ 42 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDGGEPTFVTIGTGGTGGV 42 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCCCCCceEEEEeCCCCCC
Confidence 777655444443332224444544345677899998876543
No 367
>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=63.27 E-value=31 Score=38.46 Aligned_cols=86 Identities=10% Similarity=0.083 Sum_probs=59.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCcc-ccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEY-GRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
+.+.+.++.++ +++.+|.....+ ..+..+.+.+.|++.|+++..-..+.++ .+.++....+..+++.++|+||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPN--PRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45566777774 898888754333 2345788999999999876543344444 4467888888999999999999765
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++..++.
T Consensus 95 GGS~iD~aK~ia 106 (382)
T cd08187 95 GGSVIDSAKAIA 106 (382)
T ss_pred ChHHHHHHHHHH
Confidence 54 35555443
No 368
>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=62.90 E-value=30 Score=36.18 Aligned_cols=77 Identities=6% Similarity=0.048 Sum_probs=53.6
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC-hhhHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~-~~~~~~~l~~a 243 (938)
|+++.. ++.|.......+.+++++.|+++.... . . .+.......++.+...+.|.||+... .......++.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~-~--~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~ 76 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYD--A-G--GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRA 76 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEEC--C-C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHH
Confidence 566664 566777888999999999999877532 1 1 22444556777777778999998653 33345677888
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
++.|+
T Consensus 77 ~~~~i 81 (273)
T cd06305 77 LDAGI 81 (273)
T ss_pred HHcCC
Confidence 87775
No 369
>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=62.68 E-value=33 Score=38.28 Aligned_cols=88 Identities=9% Similarity=0.078 Sum_probs=60.9
Q ss_pred HHHHHHHHhc---CCcEEEEEEEcCccc-cchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEE
Q 002309 153 TAVAEMVSYY---GWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (938)
Q Consensus 153 ~ai~~~l~~~---~w~~vaii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv 228 (938)
+.+.++++.+ +.+++.+|++..... .+..+.+.+.+++.|+++..-..+.++ .+.+++...++.+++.++|+||
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPN--PTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCEEE
Confidence 4456667776 778999998544433 334688899999999876543334444 4567888889999999999999
Q ss_pred EEeCh--hhHHHHHHH
Q 002309 229 LHVSP--SLGFQVFSV 242 (938)
Q Consensus 229 ~~~~~--~~~~~~l~~ 242 (938)
-.+.+ -+...++..
T Consensus 90 aiGGGS~iD~aK~ia~ 105 (383)
T cd08186 90 AIGGGSPIDSAKSAAI 105 (383)
T ss_pred EeCCccHHHHHHHHHH
Confidence 76543 455655544
No 370
>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=62.59 E-value=32 Score=37.76 Aligned_cols=87 Identities=17% Similarity=0.082 Sum_probs=59.2
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
+-+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+.+..-..+.++ .+.+++....+..++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGE--STYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCC--CCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 44566677777 898888865444 345677888898888876543344444 34677788888888889999997765
Q ss_pred h--hhHHHHHHHH
Q 002309 233 P--SLGFQVFSVA 243 (938)
Q Consensus 233 ~--~~~~~~l~~a 243 (938)
+ -++..++...
T Consensus 88 Gs~~D~aK~ia~~ 100 (345)
T cd08171 88 GKAIDTVKVLADK 100 (345)
T ss_pred cHHHHHHHHHHHH
Confidence 4 3555555443
No 371
>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=62.06 E-value=93 Score=29.78 Aligned_cols=64 Identities=9% Similarity=-0.011 Sum_probs=38.0
Q ss_pred eeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 493 FCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 493 ~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
+...++..+.+..+ .+++.+.. ++ .+.++.+|++|+++... +.....+ .+.++....+++++++
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~~~~---------~~-~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 77 (194)
T cd08432 14 WLIPRLARFQARHP-DIDLRLST---------SD-RLVDFAREGIDLAIRYG---DGDWPGL-EAERLMDEELVPVCSP 77 (194)
T ss_pred HHHHHhHHHHHHCC-CeEEEEEe---------cC-CccccccccccEEEEec---CCCCCCc-ceEEccCCcEEEecCH
Confidence 34566777777765 35566653 12 46778999999988522 1111222 2456667777777654
No 372
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=61.74 E-value=7.2 Score=43.26 Aligned_cols=64 Identities=14% Similarity=0.289 Sum_probs=50.1
Q ss_pred HHHhhhheeecccCCCCCCCccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhh
Q 002309 599 VVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSS 672 (938)
Q Consensus 599 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~ 672 (938)
+.+.++|+.|+-.+ .+...++.-++||+.-+|..-| +++-.|++.++|++...-.++++++++.
T Consensus 358 iFStlvY~~Ek~~~----~~~FtSIPa~~WWaiVTMTTVG------YGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 358 IFSTLVYFAEKDEP----DTKFTSIPAGFWWAVVTMTTVG------YGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHhhhcCC----CCCCccccchhheeeEEEeeec------ccCccccccchHHHHHHHHHHhHHHhhc
Confidence 33455677776433 3335678999999999998887 6788999999999999999998887765
No 373
>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=60.80 E-value=1.6e+02 Score=28.35 Aligned_cols=70 Identities=14% Similarity=0.151 Sum_probs=45.2
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.++.+ .++++... +....+..+|.+|++|+++.. .......+. +.++....+.++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~~ 80 (197)
T cd08452 13 EFLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLALPK 80 (197)
T ss_pred hHHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEEeC
Confidence 345678888888765 24566654 457889999999999998852 122222333 346666777777765
Q ss_pred cC
Q 002309 572 RK 573 (938)
Q Consensus 572 ~~ 573 (938)
..
T Consensus 81 ~h 82 (197)
T cd08452 81 QH 82 (197)
T ss_pred CC
Confidence 43
No 374
>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=60.15 E-value=71 Score=30.50 Aligned_cols=121 Identities=12% Similarity=0.205 Sum_probs=65.7
Q ss_pred HHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCc
Q 002309 90 LRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWN 165 (938)
Q Consensus 90 ~~li~~--~V~aviGp~~s--~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~ 165 (938)
.+++.+ +++.++|+... .....+..+++..++|+++.......+.++. .. ..| .....+..++..-+|.
T Consensus 21 a~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kg---v~-~~~---~~lg~~g~~~~~p~~e 93 (162)
T TIGR00315 21 AMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAG---IE-SEE---MNLHEITQFLADPSWE 93 (162)
T ss_pred HHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCC---ee-cCC---CCHHHHHHhccCchhh
Confidence 344444 89999998764 6778889999999999997543333344322 11 112 1234566666665665
Q ss_pred EE---------EEEEEcCccccchHHHHHHHHhhcceE-EEEEeecCCCC-----CCChhhHHHHHHHHh
Q 002309 166 AV---------SVIFVDNEYGRNGVSALNDKLAERRCR-ISYKSGIPPES-----GVNTGYVMDLLVKVA 220 (938)
Q Consensus 166 ~v---------aii~~d~~~g~~~~~~l~~~l~~~g~~-v~~~~~~~~~~-----~~~~~d~~~~l~~lk 220 (938)
-+ .++..+..++...+..++.-. .++ |.....+.++. ....+++...|+++.
T Consensus 94 ~~~g~g~~DlvlfvG~~~y~~~~~ls~lk~f~---~~~~i~l~~~y~pnA~~Sf~n~~~~~~~~~l~~~~ 160 (162)
T TIGR00315 94 GFDGEGNYDLVLFLGIIYYYLSQMLSSLKHFS---HIVTIAIDKYYQPNADYSFPNLSKDEYLDYLRKLL 160 (162)
T ss_pred hccCCCCcCEEEEeCCcchHHHHHHHHHHhhc---CcEEEEecCCCCCCCceeccccCHHHHHHHHHHHh
Confidence 54 334445544444444444322 222 33333344331 123556677776653
No 375
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=59.12 E-value=2.4e+02 Score=29.73 Aligned_cols=85 Identities=14% Similarity=0.113 Sum_probs=52.8
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
+.++||+... -...+..+++..+.++.+ .+++.... .+-+.++.+|.+|++|+++...
T Consensus 97 ~~l~I~~~~~--------------~~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 154 (294)
T PRK09986 97 GRIEIGIVGT--------------ALWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM 154 (294)
T ss_pred ceEEEEEehH--------------HhHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 4689988741 112334667777777765 24455553 3457889999999999987421
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
. .......+.+ .|+....+.+++++..
T Consensus 155 ~-~~~~~~~l~~-~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 A-DLEPNPGFTS-RRLHESAFAVAVPEEH 181 (294)
T ss_pred C-ccCCCCCeEE-EEeecccEEEEEcCCC
Confidence 1 0122233443 5667788888887655
No 376
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=58.94 E-value=41 Score=36.78 Aligned_cols=82 Identities=12% Similarity=0.101 Sum_probs=57.9
Q ss_pred CCcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh-hhHHHH
Q 002309 163 GWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQV 239 (938)
Q Consensus 163 ~w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~-~~~~~~ 239 (938)
.-.+++++.. +++|.......+++++++.|+++.... +.. .+...-...++.+...+++.|++.... ......
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 4568888884 567888888899999999998886432 222 223333466777778899999986543 334668
Q ss_pred HHHHHHcCC
Q 002309 240 FSVAKYLGM 248 (938)
Q Consensus 240 l~~a~~~g~ 248 (938)
+++|.+.|.
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 899988875
No 377
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=58.66 E-value=37 Score=37.59 Aligned_cols=85 Identities=11% Similarity=0.015 Sum_probs=59.5
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
...+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+++.+. .+..+ .+.+.+...+..+++.++|+||-.+
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~e--p~~~~v~~~~~~~~~~~~d~IIavG 92 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGE--CSDNEIDRLVAIAEENGCDVVIGIG 92 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCC--CCHHHHHHHHHHHHhcCCCEEEEec
Confidence 344566778888 899999854444 336688888898888876443 34444 4467788888888888999999876
Q ss_pred Ch--hhHHHHHH
Q 002309 232 SP--SLGFQVFS 241 (938)
Q Consensus 232 ~~--~~~~~~l~ 241 (938)
.+ -++..++.
T Consensus 93 GGsv~D~aK~iA 104 (366)
T PRK09423 93 GGKTLDTAKAVA 104 (366)
T ss_pred ChHHHHHHHHHH
Confidence 54 35555554
No 378
>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=58.60 E-value=1.5e+02 Score=28.77 Aligned_cols=86 Identities=10% Similarity=0.002 Sum_probs=56.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhc--ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEE
Q 002309 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAER--RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVI 227 (938)
Q Consensus 150 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~vi 227 (938)
+.+..+.+....-+ .+|.++....+ .++.+.+.+++. |++|+... .. ...++-...+++|.++++|++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~~--g~---f~~~~~~~i~~~I~~s~~dil 104 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGAF--GP---LEPEERKAALAKIARSGAGIV 104 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCCEEEEEC--CC---CChHHHHHHHHHHHHcCCCEE
Confidence 45566666665556 47777765444 455555555554 67776541 11 224455678999999999999
Q ss_pred EEEeChhhHHHHHHHHHH
Q 002309 228 VLHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 228 v~~~~~~~~~~~l~~a~~ 245 (938)
++.+..+.-..++.+.++
T Consensus 105 ~VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 105 FVGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEEcCCcHhHHHHHHhHH
Confidence 999887777777665533
No 379
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=58.55 E-value=32 Score=35.52 Aligned_cols=76 Identities=14% Similarity=0.084 Sum_probs=54.1
Q ss_pred EEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|+++..+ +.|.......+++++++.|+.+.... .+ .+.+.....++++...+++.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCN---SD--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 5666643 77888888999999999998876431 12 22445567777888889999998776655555 77777
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7675
No 380
>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=58.26 E-value=30 Score=35.72 Aligned_cols=78 Identities=10% Similarity=0.152 Sum_probs=52.9
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a 243 (938)
+++++.+. ..+.......+++++++.|+.+..... . .+.+.....++++...+++.||+..........++.+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---Q--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 36777754 667888889999999999988764321 1 1244566777777777899988865544443356666
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.+.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66554
No 381
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=58.18 E-value=1.5e+02 Score=31.47 Aligned_cols=102 Identities=6% Similarity=-0.075 Sum_probs=51.2
Q ss_pred CChHHhhhCCCCeeE-EeCchHHHHHHHhcccc---cccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC
Q 002309 691 NGIESLRKSDDPIGY-QEGSFAEYYLSQELNIS---KSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC 766 (938)
Q Consensus 691 ~s~~dL~~~~~~i~~-~~~s~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~ 766 (938)
-+++||. +.++.. ..+.....++.+ .+.. ......+++.+...+.+.. |...+++.+.....+. ....
T Consensus 181 i~~~dL~--~~p~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~lp~~~~~~~~-~~~~ 252 (297)
T PRK11139 181 KTPEDLA--RHTLLHDDSREDWRAWFRA-AGLDDLNVQQGPIFSHSSMALQAAIH----GQGVALGNRVLAQPEI-EAGR 252 (297)
T ss_pred CCHHHhh--cCceEeecCcccHHHHHHH-hCCCCcCcccceeeCCHHHHHHHHHh----CCCeEecchhhhHHHH-HCCc
Confidence 4788887 555433 222334455532 3321 1112346777777888887 5555665544333232 2221
Q ss_pred cEEEeCccc-cccceEeeecCCCcchhhHHHHHHh
Q 002309 767 SFRIVGQEF-TKSGWGFAFPRDSPLAVDLSSAILE 800 (938)
Q Consensus 767 ~l~~~~~~~-~~~~~~~~~~k~spl~~~i~~~il~ 800 (938)
-...+.+.. ....+.++.+|+.+....+...+..
T Consensus 253 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~ 287 (297)
T PRK11139 253 LVCPFDTVLPSPNAFYLVCPDSQAELPKVAAFRQW 287 (297)
T ss_pred eecccccCcCCCccEEEEeccccccChhHHHHHHH
Confidence 111122221 2356888888876655555544443
No 382
>PF14851 FAM176: FAM176 family
Probab=58.10 E-value=22 Score=33.29 Aligned_cols=25 Identities=16% Similarity=0.566 Sum_probs=14.4
Q ss_pred hhHHHHHH--HHHHHHHHHHHHHHHHH
Q 002309 838 WGLFLICG--VACFIALVIYFLQIMQQ 862 (938)
Q Consensus 838 ~g~f~il~--~g~~la~~vf~~e~~~~ 862 (938)
.++|++++ +|+++.+++++..+.++
T Consensus 22 ~aLYFv~gVC~GLlLtLcllV~risc~ 48 (153)
T PF14851_consen 22 FALYFVSGVCAGLLLTLCLLVIRISCR 48 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhheee
Confidence 56666654 45555566666555553
No 383
>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=58.03 E-value=35 Score=35.63 Aligned_cols=78 Identities=6% Similarity=0.115 Sum_probs=54.7
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhh-cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~ 241 (938)
+|++|.++ +.|.......+.+++++ .|+.+..... . .+.......++++...+.|.|++..... ....+++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA---K--NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC---C--CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 46777753 66778888899999999 8988775422 1 2245566778888888999998865443 3456777
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
++.+.|.
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 384
>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=58.03 E-value=35 Score=35.70 Aligned_cols=79 Identities=9% Similarity=0.083 Sum_probs=53.5
Q ss_pred EEEEEEEc---CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHH
Q 002309 166 AVSVIFVD---NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFS 241 (938)
Q Consensus 166 ~vaii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~ 241 (938)
+|++|..+ +.|.......+.+++++.|..+.....-. .+.......++++...++|.|++..... .....++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~~~----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGPET----FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECCCC----CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 46777743 46777888999999999998876432211 1244556777778788999998865433 2345677
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 385
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=57.62 E-value=36 Score=35.62 Aligned_cols=80 Identities=10% Similarity=0.042 Sum_probs=52.7
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVA 243 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a 243 (938)
+|++|..+ +.|.......+.+++++.|..+.....-. . .+.......++.+...++|.|++..........++.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 36777753 56777888899999999998876532211 1 1133455677777788999999876443332256777
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77665
No 386
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=57.10 E-value=1.7e+02 Score=27.50 Aligned_cols=123 Identities=12% Similarity=0.165 Sum_probs=75.6
Q ss_pred HHHHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcC
Q 002309 88 EALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYG 163 (938)
Q Consensus 88 ~a~~li~~--~V~aviGp~~s--~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~ 163 (938)
.+..++++ +...|+||..- ..-+.+..+.+..++|.+..+++...+.+.+ .-+.....+++..+++.-+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~-------i~~~~~~lh~it~~l~Dp~ 99 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRG-------IGSEYINLHAITQYLTDPN 99 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcc-------cccchhHHHHHHHHhcCCC
Confidence 33445555 79999999877 3445677899999999997666555555533 1145566888999999876
Q ss_pred Cc---------EEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCC-----CCChhhHHHHHHHH
Q 002309 164 WN---------AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPES-----GVNTGYVMDLLVKV 219 (938)
Q Consensus 164 w~---------~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~-----~~~~~d~~~~l~~l 219 (938)
|. -|.++..-..|....+..++.... =.+|.....|.++. +...+++-+.|+++
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs~--i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~el 167 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFSN--IKTIAIDRYYQPNADYSFPNLSKDEYLAYLDEL 167 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhhc--ceEEEeccccCcCccccCCCcCHHHHHHHHHHH
Confidence 64 355555555566555555554431 12344444444432 13345566666655
No 387
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=56.70 E-value=1.9e+02 Score=31.96 Aligned_cols=142 Identities=9% Similarity=0.044 Sum_probs=0.0
Q ss_pred EEcCCChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEE-EcCcccc
Q 002309 100 IIGPQCSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF-VDNEYGR 178 (938)
Q Consensus 100 viGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~-~d~~~g~ 178 (938)
+++|.......++-.+-. .+|=+|.|+.+- ++|-.| ....++..+..+...-++|.++| +...+.+
T Consensus 195 lm~p~~~~v~~~l~~~~~-l~i~~IaP~HG~----------i~~~~~--~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~ 261 (388)
T COG0426 195 LMAPNARLVLWALKKIKL-LKIEMIAPSHGP----------IWRGNP--KEIVEAYRDWAEGQPKGKVDLIYDSMYGNTE 261 (388)
T ss_pred hhcccHHHHHHHHhhhcc-cCccEEEcCCCc----------eeeCCH--HHHHHHHHHHHccCCcceEEEEEecccCCHH
Q ss_pred chHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh------hhHHHHHHHHHHcCCCCCC
Q 002309 179 NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMMGNG 252 (938)
Q Consensus 179 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~------~~~~~~l~~a~~~g~~~~~ 252 (938)
..++.+.+.+.+.|+.|. .+... ..+.+.+++.+ .+++.+++.+.+ +.+..++-....+....+.
T Consensus 262 ~ma~aiaegl~~~gv~v~---~~~~~----~~~~~eI~~~i--~~a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k~ 332 (388)
T COG0426 262 KMAQAIAEGLMKEGVDVE---VINLE----DADPSEIVEEI--LDAKGLVVGSPTINGGAHPPIQTALGYVLALAPKNKL 332 (388)
T ss_pred HHHHHHHHHhhhcCCceE---EEEcc----cCCHHHHHHHH--hhcceEEEecCcccCCCCchHHHHHHHHHhccCcCce
Q ss_pred eEEEEeCcchh
Q 002309 253 YVWIATDWLAY 263 (938)
Q Consensus 253 ~~wi~~~~~~~ 263 (938)
-..+++-+|..
T Consensus 333 ~~vfgS~GW~g 343 (388)
T COG0426 333 AGVFGSYGWSG 343 (388)
T ss_pred EEEEeccCCCC
No 388
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=55.87 E-value=2e+02 Score=30.14 Aligned_cols=83 Identities=11% Similarity=0.056 Sum_probs=55.3
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccE
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDI 544 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~ 544 (938)
..++||+... ....+-.+++..+.+...- +++.+.. +....+++.|.+|++|+++...
T Consensus 89 ~~l~Ig~~~~--------------~~~~~l~~~l~~f~~~~P~-v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 146 (275)
T PRK03601 89 NELSIGASAS--------------LWECMLTPWLGRLYQNQEA-LQFEARI-------AQRQSLVKQLHERQLDLLITTE 146 (275)
T ss_pred ceEEEeccHH--------------HHHHHHHHHHHHHHHhCCC-cEEEEEE-------CChHHHHHHHHcCCCCEEEEcC
Confidence 5688888841 1234566778888776542 4566554 5577899999999999998643
Q ss_pred eeecCceeeeeeccceecccEEEEEeccC
Q 002309 545 TIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 545 ~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
... . ..+ ...|+....++++++...
T Consensus 147 ~~~--~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 147 APK--M-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCc--c-CCc-cEEEecceeEEEEecCch
Confidence 222 1 223 345788888888887554
No 389
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=55.57 E-value=81 Score=32.48 Aligned_cols=87 Identities=9% Similarity=0.026 Sum_probs=55.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhh-cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEE
Q 002309 150 YQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAE-RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (938)
Q Consensus 150 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv 228 (938)
+....+.+.....+ .+|.++..+.+ .++.+.+.+++ .|+.|+.... .- .+.++....+++|.++++|+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~--Gy--f~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQD--GY--FTPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeC--CC--CCHHHHHHHHHHHHhcCCCEEE
Confidence 34566666666656 67888865554 34444444433 3677664321 11 1244566789999999999999
Q ss_pred EEeChhhHHHHHHHHHH
Q 002309 229 LHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 229 ~~~~~~~~~~~l~~a~~ 245 (938)
+.+..+.-..++...++
T Consensus 163 VglG~PkQE~~~~~~~~ 179 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRL 179 (243)
T ss_pred EECCCcHHHHHHHHHHH
Confidence 99887776666665544
No 390
>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=54.89 E-value=1.1e+02 Score=29.15 Aligned_cols=64 Identities=11% Similarity=0.051 Sum_probs=36.1
Q ss_pred ccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEe--CccccccceEeeecCCCcchhhHHHH
Q 002309 728 ALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIV--GQEFTKSGWGFAFPRDSPLAVDLSSA 797 (938)
Q Consensus 728 ~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~k~spl~~~i~~~ 797 (938)
.+++.....+.+.. |..-+++-+.....+. . ...+... .+......++++.+++.+....+...
T Consensus 125 ~~~~~~~~~~~v~~----g~Gi~~~p~~~~~~~~-~-~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 190 (194)
T cd08481 125 RFEQFSMLAQAAVA----GLGVALLPRFLIEEEL-A-RGRLVVPFNLPLTSDKAYYLVYPEDKAESPPVQAF 190 (194)
T ss_pred EeccHHHHHHHHHh----CCCeEEecHHHHHHHH-H-CCCEEeecCccccCCCeEEEEeCcccccCHHHHHH
Confidence 35677788888888 5656666654433332 2 2233322 12223457888888877655554443
No 391
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=54.73 E-value=55 Score=36.42 Aligned_cols=83 Identities=8% Similarity=0.033 Sum_probs=58.1
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
..+.++++.++ +++.+|++.... ..+.+.+.|++.|+.+..-. +.++ .+.+++...+..+++.++|+||-.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGE--PSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCC--cCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44566677774 899988854443 66778888999998764332 3334 44677888888899999999998765
Q ss_pred h--hhHHHHHHH
Q 002309 233 P--SLGFQVFSV 242 (938)
Q Consensus 233 ~--~~~~~~l~~ 242 (938)
+ -++..++..
T Consensus 85 GS~~D~aK~ia~ 96 (374)
T cd08183 85 GSVIDAGKAIAA 96 (374)
T ss_pred chHHHHHHHHHH
Confidence 5 355555543
No 392
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=54.65 E-value=2.8e+02 Score=29.22 Aligned_cols=104 Identities=10% Similarity=0.027 Sum_probs=54.8
Q ss_pred CChHHhhhCCCCe-eEEeCch-HHHHHHHhccccc--ccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCC
Q 002309 691 NGIESLRKSDDPI-GYQEGSF-AEYYLSQELNISK--SRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQC 766 (938)
Q Consensus 691 ~s~~dL~~~~~~i-~~~~~s~-~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~ 766 (938)
-+++||. +.++ .+..+.. ...++....+... ......++.....+.+.+ |...+++-+.....+. . ..
T Consensus 180 v~~~~l~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~----g~gi~~lp~~~~~~~~-~-~~ 251 (294)
T PRK13348 180 LTRHSAL--KAPAVAFNRKDTLQDSFLEQLFGLPVGAYPRHYVPSTHAHLAAIRH----GLGYGMVPELLIGPLL-A-AG 251 (294)
T ss_pred CCHHHHc--CCCEEEecCCchHHHHHHHHHHhccccccceEEeCcHHHHHHHHHc----CCeeEeCCHHHHHHHH-h-cC
Confidence 3578887 5553 3333332 2344432222111 112245777888888888 5555555544433222 2 23
Q ss_pred cEEEeCccccccceEeeecCCCcchhhHHHHHHhhhc
Q 002309 767 SFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAE 803 (938)
Q Consensus 767 ~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e 803 (938)
.+..+... ....++++.+|+.+....+...+..+.+
T Consensus 252 ~l~~l~~~-~~~~~~l~~~~~~~~~~~~~~~~~~i~~ 287 (294)
T PRK13348 252 RLVDLAPG-HPVDVALYWHHWEVESPTMEALSQRVVE 287 (294)
T ss_pred eeeecCCC-CCCCceeEEeeccccChHHHHHHHHHHH
Confidence 44444433 2456788889987766666555554443
No 393
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=54.61 E-value=2.5e+02 Score=29.58 Aligned_cols=193 Identities=12% Similarity=0.094 Sum_probs=0.0
Q ss_pred HHHHHHHHHhC-CCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEeccC
Q 002309 495 IDVFTAAVNLL-PYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPFRK 573 (938)
Q Consensus 495 ~dll~~la~~l-~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~~~ 573 (938)
.++.+.+.++. |++ ++++.+ ..+.....+|.+|++|+.+..-..--+.... .--.-+...+..+++|..-
T Consensus 47 ~e~a~~~~k~~~G~~--Velv~f------sd~~~~n~AL~~G~ID~n~~qh~~yl~~~~~-~~g~~lv~~~~~~~~P~~~ 117 (272)
T PRK09861 47 AEVAKKVAKEKYGLD--VELVGF------SGSLLPNDATNHGELDANVFQHRPFLEQDNQ-AHGYKLVAVGNTFVFPMAG 117 (272)
T ss_pred HHHHHHHHHHcCCCe--EEEEec------CchhhHHHHHHcCCcceehhhhHHHHHHHHH-hcCCCeEEEeEEEEEeeec
Q ss_pred CCCCcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchhhhhHHHHHHHhhhhhhhhhhcccCcccc
Q 002309 574 LNTGAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVST 653 (938)
Q Consensus 574 ~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~ 653 (938)
T Consensus 118 -------------------------------------------------------------------------------- 117 (272)
T PRK09861 118 -------------------------------------------------------------------------------- 117 (272)
T ss_pred --------------------------------------------------------------------------------
Q ss_pred chhHHHHHHHHHHHHHHhhhhhhhhhhhhcccccCCCCChHHhhhCCCCeeEEe--CchHHHHHHHhc------------
Q 002309 654 LGRLVLIIWLFVVLIINSSYTASLTSILTVQQLYSPINGIESLRKSDDPIGYQE--GSFAEYYLSQEL------------ 719 (938)
Q Consensus 654 s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~--~s~~~~~~~~~~------------ 719 (938)
+...|+|++||.+ |.+|++.+ +...+.++.-+.
T Consensus 118 --------------------------------Ys~~iksl~DL~~-Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~ 164 (272)
T PRK09861 118 --------------------------------YSKKIKTVAQIKE-GATVAIPNDPTNLGRALLLLQKEKLITLKEGKGL 164 (272)
T ss_pred --------------------------------cccCCCCHHHcCC-CCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCC
Q ss_pred ---------ccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcC-CcEEEeCccccccceEeeecCCCc
Q 002309 720 ---------NISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQ-CSFRIVGQEFTKSGWGFAFPRDSP 789 (938)
Q Consensus 720 ---------~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~sp 789 (938)
+...-+++++ ...+...++.+ |.+|+++...+++.-.-.+. .+-......-.++...++++.+..
T Consensus 165 ~~t~~di~~np~~l~~ve~-~~~q~~~al~d----g~vD~a~i~~~~~~~ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~ 239 (272)
T PRK09861 165 LPTALDITDNPRHLQIMEL-EGAQLPRVLDD----PKVDVAIISTTYIQQTGLSPVHDSVFIEDKNSPYVNILVAREDNK 239 (272)
T ss_pred CCCHhHHhcCCCCCEEEEc-CHHHhHhhccC----cccCEEEEchhHHHHcCCCcccceeEEcCCCCCeEEEEEEcCCcc
Q ss_pred chhhHHHHHHhhhccCcHHHHHHhh
Q 002309 790 LAVDLSSAILELAENGDLQRIHDKW 814 (938)
Q Consensus 790 l~~~i~~~il~l~e~G~~~~l~~~w 814 (938)
=.+.+...+..++....-+.|.++|
T Consensus 240 ~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 240 NAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred CCHHHHHHHHHHcCHHHHHHHHHHc
No 394
>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=54.46 E-value=88 Score=28.22 Aligned_cols=67 Identities=15% Similarity=0.119 Sum_probs=42.9
Q ss_pred CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh----hHHHHHHHHHHcCC
Q 002309 174 NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS----LGFQVFSVAKYLGM 248 (938)
Q Consensus 174 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~----~~~~~l~~a~~~g~ 248 (938)
.+.-.-+..-+...++..|+++.+..... .....+..+.+.++++|.+++... .+..+++++++.+.
T Consensus 9 gd~H~lG~~~~~~~l~~~G~~vi~lG~~v--------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 9 LDGHDRGAKVIARALRDAGFEVIYTGLRQ--------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred CChhHHHHHHHHHHHHHCCCEEEECCCCC--------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 33334456677778888999887643322 223456666778899999876543 45556667777654
No 395
>PLN02245 ATP phosphoribosyl transferase
Probab=54.46 E-value=92 Score=34.42 Aligned_cols=105 Identities=10% Similarity=0.020 Sum_probs=57.3
Q ss_pred CCCChHHhhh-------CCCCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHH
Q 002309 689 PINGIESLRK-------SDDPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELF 761 (938)
Q Consensus 689 ~i~s~~dL~~-------~~~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~ 761 (938)
.+++++||.. ..++|+..-......||. +.++....++...-..|.. -.- |-.|++++=.....-+
T Consensus 178 ~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~-~~Gv~~v~Iv~l~GAvE~A--P~l----GlADaIvDIVsTGtTL 250 (403)
T PLN02245 178 NINSLKELAQMPQWTEERPLRVVTGFTYLGPKFMK-DNGFKHVTFSTADGALEAA--PAM----GIADAILDLVSSGTTL 250 (403)
T ss_pred ccCCHHHhcccccccccCceEEEeCCHHHHHHHHH-HcCCCeEEEEECcCceecc--ccc----CchhhhcchhccHHHH
Confidence 5788889873 115677766667788884 4555434555444333331 112 5556666544433332
Q ss_pred HhcCCcEEEeC-ccccccceEeeecCCCc-----chhhHHHHHHhhh
Q 002309 762 LSSQCSFRIVG-QEFTKSGWGFAFPRDSP-----LAVDLSSAILELA 802 (938)
Q Consensus 762 ~~~~~~l~~~~-~~~~~~~~~~~~~k~sp-----l~~~i~~~il~l~ 802 (938)
+..+|.+++ +.+....-.+...+++. -++.++..+.+++
T Consensus 251 --raNgLk~i~~~~Il~S~A~LIan~~sl~~~~~~~~~i~~ll~rl~ 295 (403)
T PLN02245 251 --RENNLKEIEGGVVLESQAVLVASRRALLERKGALEVVHEILERLE 295 (403)
T ss_pred --HHCCCEEccCceEEEEEEEEEEecchhhcchhHHHHHHHHHHHHH
Confidence 224677775 45555555666677654 2235555555543
No 396
>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=52.81 E-value=56 Score=35.90 Aligned_cols=84 Identities=17% Similarity=0.111 Sum_probs=56.2
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
..+.++++.++ +++.+|++...+- ...+.+.+.+++.|+.+.... +... .+.+.+...++.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44667788888 8888887544333 456788888988887653322 3333 23567788888888889999987655
Q ss_pred h--hhHHHHHH
Q 002309 233 P--SLGFQVFS 241 (938)
Q Consensus 233 ~--~~~~~~l~ 241 (938)
+ -+...++.
T Consensus 87 Gs~~D~aK~ia 97 (349)
T cd08550 87 GKTLDTAKAVA 97 (349)
T ss_pred cHHHHHHHHHH
Confidence 4 35555554
No 397
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=52.49 E-value=2.2e+02 Score=27.24 Aligned_cols=69 Identities=20% Similarity=0.193 Sum_probs=44.3
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEec
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVPF 571 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~~ 571 (938)
.+-.+++..+.+..+- +++.+.. ++...+...+.+|++|+++... ......+ .+.++.....+++++.
T Consensus 13 ~~l~~~l~~~~~~~P~-i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (198)
T cd08447 13 SFLPRLLAAARAALPD-VDLVLRE-------MVTTDQIEALESGRIDLGLLRP---PFARPGL-ETRPLVREPLVAAVPA 80 (198)
T ss_pred HHHHHHHHHHHHHCCC-eEEEEEe-------CCHHHHHHHHHcCCceEEEecC---CCCCCCe-eEEEeecCceEEEecC
Confidence 4566788888887752 4555543 4578899999999999998531 1111222 2245666677776654
Q ss_pred c
Q 002309 572 R 572 (938)
Q Consensus 572 ~ 572 (938)
.
T Consensus 81 ~ 81 (198)
T cd08447 81 G 81 (198)
T ss_pred C
Confidence 4
No 398
>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=52.44 E-value=1e+02 Score=31.50 Aligned_cols=117 Identities=15% Similarity=0.160 Sum_probs=63.7
Q ss_pred CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhH-HHHHHHhhccCC
Q 002309 42 STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTV-AHIVSYVSNELQ 120 (938)
Q Consensus 42 ~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~-~~~va~~~~~~~ 120 (938)
+..|+.-..++.-.+.++| |..+++.. +..-++. ...+++..+...||....+.. -..+...|...+
T Consensus 60 ~diG~~Kae~~~~~l~~in------P~~~V~~~--~~~i~~~----~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ 127 (231)
T cd00755 60 STVGKPKVEVMAERIRDIN------PECEVDAV--EEFLTPD----NSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRK 127 (231)
T ss_pred hhCCCcHHHHHHHHHHHHC------CCcEEEEe--eeecCHh----HHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhC
Confidence 3345544566666777777 44555443 3332322 334555556777877655544 455788999999
Q ss_pred ccEEEcccCCCCCCCCCCCceEEecCCchH----HHHHHHHHHHhcCCc-EEEEEEEcC
Q 002309 121 VPLLSFGVTDPTLSSLQYPFFVRTTQSDSY----QMTAVAEMVSYYGWN-AVSVIFVDN 174 (938)
Q Consensus 121 iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~----~~~ai~~~l~~~~w~-~vaii~~d~ 174 (938)
+|+|+..+....+. |.-+|+..-... .++.+-+-+++-+.+ .|-+||+..
T Consensus 128 ip~I~s~g~g~~~d----p~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 128 IPVISSMGAGGKLD----PTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred CCEEEEeCCcCCCC----CCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 99998655443332 555555432221 233333334444443 455666443
No 399
>PRK00865 glutamate racemase; Provisional
Probab=52.03 E-value=1.5e+02 Score=30.98 Aligned_cols=36 Identities=8% Similarity=0.163 Sum_probs=25.9
Q ss_pred HHHHhcCcEEEEcCCChhHHHHHHHhhccCCccEEE
Q 002309 90 LRFMETDIVAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (938)
Q Consensus 90 ~~li~~~V~aviGp~~s~~~~~va~~~~~~~iP~Is 125 (938)
..|.+.|+.+|+=+..+..+.++..+-+..++|+|.
T Consensus 61 ~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 61 EFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 334445898888777777666666676777999996
No 400
>cd08422 PBP2_CrgA_like The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain. This CD includes the substrate binding domain of LysR-type transcriptional regulator (LTTR) CrgA and its related homologs. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis further showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own
Probab=51.77 E-value=84 Score=30.10 Aligned_cols=66 Identities=14% Similarity=0.006 Sum_probs=36.9
Q ss_pred ccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCc--cccccceEeeecCCCcchhhHHHH
Q 002309 726 LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQ--EFTKSGWGFAFPRDSPLAVDLSSA 797 (938)
Q Consensus 726 ~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~k~spl~~~i~~~ 797 (938)
....++.....+.+.. |..-+++.+...... .. ...+..+.. ......++++.+|+.+....+...
T Consensus 126 ~~~~~~~~~~~~~v~~----g~gi~~~p~~~~~~~-~~-~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 193 (197)
T cd08422 126 RLVVNDGEALRAAALA----GLGIALLPDFLVAED-LA-SGRLVRVLPDWRPPPLPIYAVYPSRRHLPAKVRAF 193 (197)
T ss_pred cEEEccHHHHHHHHHc----CCcEEEecHHHHhhh-cc-CCeEEEecCcccCCCceEEEEEcccccCCHHHHHH
Confidence 3456788888889988 555566655432222 12 223333321 233466888888876655554443
No 401
>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=51.31 E-value=54 Score=34.23 Aligned_cols=80 Identities=10% Similarity=0.150 Sum_probs=52.0
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhH-HHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG-FQVFSV 242 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~-~~~l~~ 242 (938)
||++|..+ +.|-......+.+++++.|+.+.....-.. .+.......+.++...+.|.||+....... ...++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46777654 566777888999999999988765422111 123445566777777889998886443332 456677
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.|+
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 666554
No 402
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=51.22 E-value=1.4e+02 Score=26.40 Aligned_cols=85 Identities=11% Similarity=0.062 Sum_probs=45.0
Q ss_pred HHHhcCCcEEEEEEEcCc-cccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhH
Q 002309 158 MVSYYGWNAVSVIFVDNE-YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG 236 (938)
Q Consensus 158 ~l~~~~w~~vaii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~ 236 (938)
-++..|.+.|.-+-.|.+ -+......+.+++++.|+..... .+... ..+.+++....+.+.+....|.+.|.++..+
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~i-Pv~~~-~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHI-PVDGG-AITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE-----TT-T--HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEe-ecCCC-CCCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 345689999988887754 35556677889999999886532 22222 1345666666666666554555555566666
Q ss_pred HHHHHHHH
Q 002309 237 FQVFSVAK 244 (938)
Q Consensus 237 ~~~l~~a~ 244 (938)
..+...++
T Consensus 100 ~~l~~l~~ 107 (110)
T PF04273_consen 100 SALWALAQ 107 (110)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 55554443
No 403
>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=50.81 E-value=58 Score=33.63 Aligned_cols=78 Identities=8% Similarity=0.042 Sum_probs=52.1
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~ 242 (938)
+|++|..+ +.|.......+.+++++.|+.+..... . .+.......++++...+.+.|++..... .....++.
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDA---Q--NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777754 567788889999999999988764321 1 1244455777777777899988865433 33346666
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.+.
T Consensus 76 l~~~~i 81 (267)
T cd01536 76 ANAAGI 81 (267)
T ss_pred HHHCCC
Confidence 666553
No 404
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=50.58 E-value=32 Score=36.21 Aligned_cols=57 Identities=18% Similarity=0.164 Sum_probs=32.2
Q ss_pred CCeeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE
Q 002309 28 RPAVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII 101 (938)
Q Consensus 28 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi 101 (938)
..++|+||..-..+. ...+++.+.+-+. .|++++++..++...+..|+ .+..+.+..
T Consensus 29 ~~~~I~IG~~~~~~~-------~~~~~~~~~l~~~----~G~~Vel~~f~~~~~~~~AL------a~GdID~~~ 85 (271)
T PRK11063 29 DPNHIKVGVIVGAEQ-------QVAEVAQKVAKEK----YGLDVELVTFNDYVLPNEAL------SKGDIDANA 85 (271)
T ss_pred CCCcEEEEeCCCChH-------HHHHHHHHHHHHh----cCCeEEEEEecCcHHHHHHH------HcCCcceec
Confidence 345699999842111 1234444445444 26889999887655544443 244676643
No 405
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=50.54 E-value=2e+02 Score=28.01 Aligned_cols=128 Identities=15% Similarity=0.173 Sum_probs=62.1
Q ss_pred CcEEEEcCCChhHHHHHHHhhccC--CccE-EEcccCCCCCCC-CCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEE
Q 002309 96 DIVAIIGPQCSTVAHIVSYVSNEL--QVPL-LSFGVTDPTLSS-LQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIF 171 (938)
Q Consensus 96 ~V~aviGp~~s~~~~~va~~~~~~--~iP~-Is~~~~~~~l~~-~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~ 171 (938)
++.+++||.+++-......+++.. +... ++++.-.|...+ +.-.|.|-. . +.+-+.++.-..=...- |
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs----~---~~f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS----K---EEFERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------H---HHHHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe----e---chhhhhhccccEEEEee-e
Confidence 578999999998766666666654 2333 332222223322 233454431 1 22222222211111111 4
Q ss_pred EcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHHH
Q 002309 172 VDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 172 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~~ 245 (938)
.++.||.. ...+.+.+++...++... .+ .-+..++....+.++++..++....+-+.+.+
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il~~---~~----------~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~ 134 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCILDV---DP----------EGVKQLKKAGFNPIVIFIKPPSPEVLKRRLRR 134 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEEEE---TH----------HHHHHHHHCTTTEEEEEEEESSHHHHHHHHHT
T ss_pred cchhhhhc-cchhhHhhhcCCcEEEEc---cH----------HHHHHHHhcccCceEEEEEccchHHHHHHHhc
Confidence 45667754 467777777777766532 11 22344554455555555444444444444443
No 406
>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=50.51 E-value=60 Score=33.68 Aligned_cols=77 Identities=12% Similarity=0.094 Sum_probs=51.4
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|.. .+.|.......+.+++++.|+++... ... .+.......++.+.+.++|.|++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLA---NSG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEe---cCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 456664 45677778888899999999887532 111 12344556777787788999888765444445777777
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7665
No 407
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=50.22 E-value=19 Score=42.88 Aligned_cols=70 Identities=14% Similarity=0.207 Sum_probs=55.9
Q ss_pred chhhhhHHHHHHHhhhhhhhhhhcccCccccchhHHHHHHHHHHHHHHhhhhhhhhhhhhc-----ccccCCCCChHHhh
Q 002309 623 VITILWFSLSTLFFAHIAIFVILAEENTVSTLGRLVLIIWLFVVLIINSSYTASLTSILTV-----QQLYSPINGIESLR 697 (938)
Q Consensus 623 ~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R~~~~~w~~~~lil~s~Yta~L~s~Lt~-----~~~~~~i~s~~dL~ 697 (938)
...++||++++|..-| .+...+.+....++.++.+++++++.+.--+|+++++.. ..+...+..+++-.
T Consensus 295 Y~~aLyw~l~tLstvG------~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~iqs~tsR~~~~r~k~rd~e~~m 368 (727)
T KOG0498|consen 295 YVYALYWGLSTLSTVG------YGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALLQSLTSRTEEMRDKMRDAEQWM 368 (727)
T ss_pred HHHHHHHHhhHhhhcc------CCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhHHHHhHHHHHHHHHHHHHHHHH
Confidence 5688999999987666 447789999999999999999999999999999999853 33444455555555
Q ss_pred h
Q 002309 698 K 698 (938)
Q Consensus 698 ~ 698 (938)
+
T Consensus 369 ~ 369 (727)
T KOG0498|consen 369 S 369 (727)
T ss_pred H
Confidence 3
No 408
>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=50.03 E-value=84 Score=35.28 Aligned_cols=79 Identities=13% Similarity=0.012 Sum_probs=55.9
Q ss_pred cCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh--hhHHHH
Q 002309 162 YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQV 239 (938)
Q Consensus 162 ~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~--~~~~~~ 239 (938)
.+.+++.+|++.........+.+.+.|++.|+++..-..+.++ .+.+.+...+..+++.++|+||-.+.+ -+...+
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~ 96 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPD--PSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKI 96 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 3568998888544344447788999999999876544345544 456778888889999999999976543 456655
Q ss_pred HHH
Q 002309 240 FSV 242 (938)
Q Consensus 240 l~~ 242 (938)
+..
T Consensus 97 iA~ 99 (398)
T cd08178 97 MWL 99 (398)
T ss_pred HHH
Confidence 543
No 409
>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=49.40 E-value=67 Score=33.37 Aligned_cols=78 Identities=6% Similarity=0.030 Sum_probs=49.9
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|+++.. ++.|.......+.+++++.|+.+.....- .. ........++.+...+.+.|++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCD-SG---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCC-CC---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 566664 46688888899999999999887654221 11 1224455566677778998888643322345566666
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 6554
No 410
>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=49.11 E-value=68 Score=33.19 Aligned_cols=77 Identities=9% Similarity=0.080 Sum_probs=51.6
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|+++.. ++.|.......+.+++++.|+.+..... . .+.......++++...++|.|++..........++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---D--YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---C--CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 456654 3566777888999999999988765322 1 12445556777777788999998643333334677777
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7675
No 411
>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=48.75 E-value=1.9e+02 Score=29.92 Aligned_cols=100 Identities=12% Similarity=0.260 Sum_probs=59.4
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHh---hcceEE-EEEeecCCCCCCChhhHHHHHHHHhcCCc
Q 002309 149 SYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA---ERRCRI-SYKSGIPPESGVNTGYVMDLLVKVALMES 224 (938)
Q Consensus 149 ~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~---~~g~~v-~~~~~~~~~~~~~~~d~~~~l~~lk~~~~ 224 (938)
....++.-++++.|+-..|..++--+.|..+.-..+.+.+. ...++. +....++ -..+.++++|+..+
T Consensus 16 ed~~r~Ae~l~~~Yg~~~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp--------Gt~~af~kIkekRp 87 (275)
T PF12683_consen 16 EDEYRGAEELIKKYGDVMIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP--------GTAEAFRKIKEKRP 87 (275)
T ss_dssp HHHHHHHHHHHHHHHHHEEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-----------HHHHHHHHHH-T
T ss_pred hHHHHHHHHHHHHhCcceEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc--------chHHHHHHHHhcCC
Confidence 34456666677777765555444344466666666666655 455653 3333433 24678899999999
Q ss_pred eEEEEEeCh--------------------hhHHHHHHHHHHcCCCCCCeEEEEe
Q 002309 225 RVIVLHVSP--------------------SLGFQVFSVAKYLGMMGNGYVWIAT 258 (938)
Q Consensus 225 ~viv~~~~~--------------------~~~~~~l~~a~~~g~~~~~~~wi~~ 258 (938)
|++++.+.+ .....+...|+++|- ..++.+.-
T Consensus 88 DIl~ia~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mGA--ktFVh~sf 139 (275)
T PF12683_consen 88 DILLIAGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMGA--KTFVHYSF 139 (275)
T ss_dssp TSEEEESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT---S-EEEEEE
T ss_pred CeEEEcCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcCC--ceEEEEec
Confidence 999988774 245567888999884 56777743
No 412
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=48.44 E-value=2.2e+02 Score=31.91 Aligned_cols=138 Identities=15% Similarity=0.176 Sum_probs=73.1
Q ss_pred EEcCCChhHHHHHHHhhc-cCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEc-Cccc
Q 002309 100 IIGPQCSTVAHIVSYVSN-ELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVD-NEYG 177 (938)
Q Consensus 100 viGp~~s~~~~~va~~~~-~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d-~~~g 177 (938)
+++|.+.....++..+.. ...+=+|.++. .| ++|- +.....+...+..+...-+++.|+|.. ...-
T Consensus 194 i~~p~~~~v~~~l~~l~~~~l~~~~i~p~H-G~---------i~~~--~~~~~~~~Y~~~~~~~~~~kv~IvY~S~~GnT 261 (394)
T PRK11921 194 ILTPFSPLVIKKIEEILSLNLPVDMICPSH-GV---------IWRD--NPLQIVEKYLEWAANYQENQVTILYDTMWNST 261 (394)
T ss_pred HHhhhHHHHHHHHHHHHhcCCCCCEEEcCC-cc---------EEeC--CHHHHHHHHHHHhhcCCcCcEEEEEECCchHH
Confidence 466776655555555553 22455565433 21 3442 222233334444444455889999932 3333
Q ss_pred cchHHHHHHHHh--hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh------hhHHHHHHHHHHcCCC
Q 002309 178 RNGVSALNDKLA--ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP------SLGFQVFSVAKYLGMM 249 (938)
Q Consensus 178 ~~~~~~l~~~l~--~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~------~~~~~~l~~a~~~g~~ 249 (938)
+..++.+.+.++ +.|+++... .+. ..+....+..+. .++.|++.+.. +....++......++.
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~-~~~------~~~~~~i~~~~~--~~d~ii~GspT~~~~~~~~~~~~l~~l~~~~~~ 332 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLY-NSA------KSDKNDIITEVF--KSKAILVGSSTINRGILSSTAAILEEIKGLGFK 332 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEE-ECC------CCCHHHHHHHHH--hCCEEEEECCCcCccccHHHHHHHHHhhccCcC
Confidence 466788888887 567766432 222 223444455554 47888887654 2345566666665554
Q ss_pred CCCeEEEEe
Q 002309 250 GNGYVWIAT 258 (938)
Q Consensus 250 ~~~~~wi~~ 258 (938)
++....+++
T Consensus 333 ~K~~a~FGs 341 (394)
T PRK11921 333 NKKAAAFGS 341 (394)
T ss_pred CCEEEEEec
Confidence 433334444
No 413
>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=48.30 E-value=63 Score=33.02 Aligned_cols=78 Identities=14% Similarity=0.172 Sum_probs=53.6
Q ss_pred EEEEEEEc---CccccchHHHHHHHHhh--cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHH
Q 002309 166 AVSVIFVD---NEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVF 240 (938)
Q Consensus 166 ~vaii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l 240 (938)
+|++|.++ +.++......+.+++++ .++++.... .. .+..+....++++...+++.|++.........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILAD---SQ--SDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 36777753 46777888889999998 777765432 12 2244667777788778899999877665555467
Q ss_pred HHHHHcCC
Q 002309 241 SVAKYLGM 248 (938)
Q Consensus 241 ~~a~~~g~ 248 (938)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77776664
No 414
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=48.28 E-value=1.6e+02 Score=30.87 Aligned_cols=105 Identities=11% Similarity=0.194 Sum_probs=58.0
Q ss_pred chhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCCh-hHHHHHHHhhccCCcc
Q 002309 44 IGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCS-TVAHIVSYVSNELQVP 122 (938)
Q Consensus 44 ~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s-~~~~~va~~~~~~~iP 122 (938)
.|..-..++.-.+.+|| |..++..+ +..-++. ...+++..+...||-...+ ..-..+...|...++|
T Consensus 81 vG~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip 148 (268)
T PRK15116 81 VGLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKIP 148 (268)
T ss_pred cChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCCC
Confidence 34433445566666666 44555443 3322322 2334555567778776666 4455688999999999
Q ss_pred EEEcccCCCCCCCCCCCceEEecCCch----HHHHHHHHHHHh-cCC
Q 002309 123 LLSFGVTDPTLSSLQYPFFVRTTQSDS----YQMTAVAEMVSY-YGW 164 (938)
Q Consensus 123 ~Is~~~~~~~l~~~~~p~~~r~~ps~~----~~~~ai~~~l~~-~~w 164 (938)
+|+.++....+. |.-+++.-=.. ..++.+-+.+++ +|.
T Consensus 149 ~I~~gGag~k~d----p~~~~~~di~~t~~~pla~~~R~~lr~~~~~ 191 (268)
T PRK15116 149 LVTTGGAGGQID----PTQIQVVDLAKTIQDPLAAKLRERLKSDFGV 191 (268)
T ss_pred EEEECCcccCCC----CCeEEEEeeecccCChHHHHHHHHHHHhhCC
Confidence 998655543333 55555443111 234444444554 454
No 415
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=47.96 E-value=75 Score=34.93 Aligned_cols=87 Identities=11% Similarity=0.088 Sum_probs=55.9
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
+.+.++++.++.+++.+|++...+.. ..+.+.+.+++.|+.+.......+....+.+.+...++.+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 44667788888899988884433322 257888899988886543222222111346677777777777 8999987655
Q ss_pred h--hhHHHHHH
Q 002309 233 P--SLGFQVFS 241 (938)
Q Consensus 233 ~--~~~~~~l~ 241 (938)
+ -++..++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 4 35555554
No 416
>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=47.42 E-value=49 Score=36.16 Aligned_cols=98 Identities=12% Similarity=0.040 Sum_probs=63.3
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
.+.+.+.++.++.+++.+|++...+-. ..+.+.+.+++.+..+ + ..+.++ .+.+.+...++.+++.++|.||-.+
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMH--TPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 355677888999999999985554443 6677888887765433 2 223333 3466788888888888999999765
Q ss_pred Ch--hhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 232 SP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 232 ~~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
.+ -+...++.... + .+++-|-|.
T Consensus 86 GGs~iD~aK~ia~~~--~---~p~i~IPTt 110 (337)
T cd08177 86 GGSTIDLAKAIALRT--G---LPIIAIPTT 110 (337)
T ss_pred CcHHHHHHHHHHHHh--c---CCEEEEcCC
Confidence 54 35555554332 2 345555554
No 417
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=47.15 E-value=71 Score=34.07 Aligned_cols=78 Identities=10% Similarity=0.077 Sum_probs=52.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~a 243 (938)
|++|.. ++.|-......+++++++.|+.+.... +.. .+.......++.+...++|.||+..... ....+++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~--~~~--~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVG--PTT--ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEEC--CCC--CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 565553 456777888899999999998876321 111 1244556777777778899999865332 335677788
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
++.|+
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77665
No 418
>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=47.10 E-value=56 Score=34.49 Aligned_cols=77 Identities=13% Similarity=0.124 Sum_probs=52.5
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~-~~~~~~l~~ 242 (938)
+|++|..+ +.|.....+.+.+++++.|+.+...... + .......++.+...++|.|++.... .....++++
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~ 74 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDVP--D----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAK 74 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccCC--C----HHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHH
Confidence 35666643 5577778889999999999887643211 2 3344567777778889999886543 344567888
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.|.
T Consensus 75 ~~~~~i 80 (289)
T cd01540 75 AKAYNM 80 (289)
T ss_pred HHhCCC
Confidence 887764
No 419
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=47.02 E-value=1.6e+02 Score=32.39 Aligned_cols=112 Identities=5% Similarity=-0.024 Sum_probs=67.7
Q ss_pred CceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEe--ecCCCCCCChhhHHHHH
Q 002309 139 PFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS--GIPPESGVNTGYVMDLL 216 (938)
Q Consensus 139 p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~d~~~~l 216 (938)
|+-+...+.. .+.+.+.++.++++++.+|++... .....+.+.+.+++.|+.+.... ...+. .+.+.+...+
T Consensus 9 ~~~v~~G~g~---~~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~--~~~~~v~~~~ 82 (358)
T PRK00002 9 SYPIIIGKGL---LSELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQY--KSLETLEKIY 82 (358)
T ss_pred CCcEEEeCCh---HHHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCC--CCHHHHHHHH
Confidence 4444444432 344566677778899999985544 33567788888988887654211 12222 3467788888
Q ss_pred HHHhcCCc---eEEEEEeCh--hhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 217 VKVALMES---RVIVLHVSP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 217 ~~lk~~~~---~viv~~~~~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
+.+++.++ |.||..+.+ -++..++......| ..++-|-|.
T Consensus 83 ~~~~~~~~~r~d~IIavGGGsv~D~aK~iA~~~~~g---ip~i~IPTT 127 (358)
T PRK00002 83 DALLEAGLDRSDTLIALGGGVIGDLAGFAAATYMRG---IRFIQVPTT 127 (358)
T ss_pred HHHHHcCCCCCCEEEEEcCcHHHHHHHHHHHHhcCC---CCEEEcCch
Confidence 88877655 888876554 45665655444334 244555443
No 420
>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=46.88 E-value=2.8e+02 Score=27.49 Aligned_cols=102 Identities=9% Similarity=0.118 Sum_probs=58.7
Q ss_pred HHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHH
Q 002309 108 VAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDK 187 (938)
Q Consensus 108 ~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~ 187 (938)
....+..+++..+||++.... + ++.....+.+.+.++...-+.+-.|...+.+...-...+.+.
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~-~---------------~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~ 109 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEI-S---------------GEEEDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERV 109 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeC-C---------------CCchHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHH
Confidence 345566788889999875422 1 111222345555444332112333333444444566777788
Q ss_pred HhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh
Q 002309 188 LAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP 233 (938)
Q Consensus 188 l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~ 233 (938)
..+.|++... |.- ..+-..+++++-+.+-+++|+....
T Consensus 110 ~~~~gl~~~~----PLW----~~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 110 CERLGLEPLA----PLW----GRDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHHcCCEEEe----ccc----CCCHHHHHHHHHHcCCeEEEEEecc
Confidence 8888887654 322 2344567888888889988876554
No 421
>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=46.71 E-value=68 Score=33.64 Aligned_cols=77 Identities=6% Similarity=-0.010 Sum_probs=51.8
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l~~a 243 (938)
|+++.. .+.|.......+.+++++.|..+..... . .+.......+..+...++|.|++...... ....++.+
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~ 76 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---Q--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA 76 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH
Confidence 566654 3567777888999999999988764321 1 12344456788888889999998654332 24567777
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|.
T Consensus 77 ~~~~i 81 (282)
T cd06318 77 KAAGV 81 (282)
T ss_pred HHCCC
Confidence 77664
No 422
>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=46.61 E-value=98 Score=32.12 Aligned_cols=75 Identities=15% Similarity=0.093 Sum_probs=48.7
Q ss_pred EEEEEEc-----CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHH
Q 002309 167 VSVIFVD-----NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (938)
Q Consensus 167 vaii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~ 241 (938)
|+++.++ +.|.......+.+++++.|..+.... .... .......+..+.+.++|.|++...... ..++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~-~~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKF-VSDE----DEEEFELPSFLEDGKVDGIILLGGIST--EYIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEe-CCCC----hHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHH
Confidence 5666655 66778888899999999998876542 1211 233344556666778999998764433 2366
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
.+.+.|.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 6766664
No 423
>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=46.26 E-value=89 Score=33.05 Aligned_cols=77 Identities=9% Similarity=0.047 Sum_probs=54.1
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC-hhhHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-PSLGFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~-~~~~~~~l~~a 243 (938)
|++|.. ++.|.....+.+.+++++.|+.+..... . .+.......++.+...++|.|++... .......++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNA---N--GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 567775 3567778889999999999998765322 1 12444567777777889999988754 33446678888
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 87664
No 424
>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=46.18 E-value=81 Score=32.65 Aligned_cols=76 Identities=13% Similarity=0.064 Sum_probs=52.6
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|.. +++|-....+.+.+++++.|+.+..... . .+.+.....++.+...+.|.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---D--ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 566665 4567778888999999999988765422 1 224455577888888899999987544333 3477887
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7664
No 425
>PF14981 FAM165: FAM165 family
Probab=45.52 E-value=49 Score=23.42 Aligned_cols=33 Identities=18% Similarity=0.046 Sum_probs=28.2
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 002309 834 LSSFWGLFLICGVACFIALVIYFLQIMQQLCKS 866 (938)
Q Consensus 834 l~~~~g~f~il~~g~~la~~vf~~e~~~~~~~~ 866 (938)
++++--++|||..-.++-++.|..-.+|++++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567778899999999999999999999988765
No 426
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=44.92 E-value=85 Score=32.55 Aligned_cols=77 Identities=10% Similarity=0.090 Sum_probs=51.6
Q ss_pred EEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHH
Q 002309 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSVA 243 (938)
Q Consensus 167 vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l~~a 243 (938)
|+++..+ +.|.......+.+++++.|+.+.... . . .+.......++++...++|.|++...... ....++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~--~-~--~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSI--A-N--QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEec--C-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4556544 56777888999999999998876432 1 1 12444566677777788999998654332 35567777
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77664
No 427
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=44.53 E-value=78 Score=32.71 Aligned_cols=47 Identities=17% Similarity=0.248 Sum_probs=31.0
Q ss_pred eeEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHH
Q 002309 30 AVVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMV 87 (938)
Q Consensus 30 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~ 87 (938)
.+|+||+.--.++ ...+..++-+.++ .|.+|+++..++-..|..|+.
T Consensus 29 ~~I~vg~~~~p~a---~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGATPGPHA---EILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeecCCchH---HHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 5899998743332 2333344444443 278999999998888887764
No 428
>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=44.33 E-value=72 Score=33.58 Aligned_cols=81 Identities=10% Similarity=0.153 Sum_probs=50.4
Q ss_pred EEEEEEEc---CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHH
Q 002309 166 AVSVIFVD---NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (938)
Q Consensus 166 ~vaii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~ 242 (938)
+|++|..+ ++|....+..+.+++++.|+.+......... ..+.......++.+.+.++|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 36777754 4577777888999999999876543211110 0113344566777778899999886543333455666
Q ss_pred HHHcC
Q 002309 243 AKYLG 247 (938)
Q Consensus 243 a~~~g 247 (938)
+.+.+
T Consensus 80 l~~~~ 84 (280)
T cd06303 80 VLASG 84 (280)
T ss_pred HHhCC
Confidence 66554
No 429
>KOG1545 consensus Voltage-gated shaker-like K+ channel KCNA [Inorganic ion transport and metabolism]
Probab=44.26 E-value=6.8 Score=41.19 Aligned_cols=89 Identities=11% Similarity=0.194 Sum_probs=56.1
Q ss_pred CCCcceeeccCchhhH-HHHHHHHHHHHhhhheeecc-cCCCCCCCccccchhhhhHHHHHHHhhhhhhhhhhcccCccc
Q 002309 575 NTGAWAFLRPFSPLMW-TVTACFFVVVGIVVWILEHR-INDEFRGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVS 652 (938)
Q Consensus 575 ~~~~~~~l~PF~~~vW-~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s 652 (938)
.+.+.++-+-+...+= ++++++|++++++++--.-+ .-.+-..+...++..+|||+..+|..-| +++-.|.+
T Consensus 344 SkGLQILGqTl~aSmrElgLLIFFlfIgviLFsSavYFAEade~~S~F~SIPdaFWwavVTMTTVG------YGDm~P~T 417 (507)
T KOG1545|consen 344 SKGLQILGQTLRASMRELGLLIFFLFIGVILFSSAVYFAEADEPESHFSSIPDAFWWAVVTMTTVG------YGDMVPVT 417 (507)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhceeeeeecCCCccCCCcCcccceEEEEEEEeec------cccceecc
Confidence 3333333333333332 34566666777766533222 1223344555678999999999988777 56888999
Q ss_pred cchhHHHHHHHHHHHHH
Q 002309 653 TLGRLVLIIWLFVVLII 669 (938)
Q Consensus 653 ~s~R~~~~~w~~~~lil 669 (938)
.-++++.....+.+++.
T Consensus 418 vgGKIVGslCAiaGVLT 434 (507)
T KOG1545|consen 418 VGGKIVGSLCAIAGVLT 434 (507)
T ss_pred cCceehhhHHhhhhheE
Confidence 99999988776666543
No 430
>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=43.90 E-value=36 Score=30.46 Aligned_cols=86 Identities=15% Similarity=0.144 Sum_probs=45.9
Q ss_pred cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHh--cCCceEEEEEeChhhHHHHHHH
Q 002309 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA--LMESRVIVLHVSPSLGFQVFSV 242 (938)
Q Consensus 165 ~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk--~~~~~viv~~~~~~~~~~~l~~ 242 (938)
|+|++|...+.-+.- ...+.+.+.+.|.+|... .+. ...-+=......+. -...|.++++..+.....++++
T Consensus 1 ksiAVvGaS~~~~~~-g~~v~~~l~~~G~~v~~V---np~--~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGKF-GYRVLRNLKAAGYEVYPV---NPK--GGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTSH-HHHHHHHHHHTT-EEEEE---STT--CSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCCh-HHHHHHHHHhCCCEEEEE---CCC--ceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHH
Confidence 567887744333322 244455555578776532 222 11100011222333 2578999999999999999999
Q ss_pred HHHcCCCCCCeEEEEeC
Q 002309 243 AKYLGMMGNGYVWIATD 259 (938)
Q Consensus 243 a~~~g~~~~~~~wi~~~ 259 (938)
+.++| .+.+|+.++
T Consensus 75 ~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 75 AAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcC---CCEEEEEcc
Confidence 99987 467899876
No 431
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=43.38 E-value=1.6e+02 Score=29.21 Aligned_cols=87 Identities=8% Similarity=-0.090 Sum_probs=53.0
Q ss_pred EEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC----hhhHHHHHH
Q 002309 166 AVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS----PSLGFQVFS 241 (938)
Q Consensus 166 ~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~----~~~~~~~l~ 241 (938)
+|.+....++.-.-+..-+...++..|++|.+-. .+ ......++.+++.++++|.+.+. ......+++
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG---~~-----vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~ 157 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG---RD-----VPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIND 157 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHH
Confidence 5544444445555566777778888888876432 11 12345566666778888887654 245666777
Q ss_pred HHHHcCCCCCCeEEEEeCc
Q 002309 242 VAKYLGMMGNGYVWIATDW 260 (938)
Q Consensus 242 ~a~~~g~~~~~~~wi~~~~ 260 (938)
++++.|....-.+|++...
T Consensus 158 ~l~~~~~~~~v~i~vGG~~ 176 (197)
T TIGR02370 158 KLKEEGYRDSVKFMVGGAP 176 (197)
T ss_pred HHHHcCCCCCCEEEEEChh
Confidence 7787776544456666433
No 432
>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=42.78 E-value=88 Score=32.63 Aligned_cols=80 Identities=9% Similarity=0.051 Sum_probs=51.0
Q ss_pred EEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHH
Q 002309 166 AVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSV 242 (938)
Q Consensus 166 ~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~-~~~~~~l~~ 242 (938)
++++|.. ++.|.......+.+++++.|+.+.....-.. .+...-...++++...+.+.|++.... ......++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSE---GDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCC---CCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 3566664 4567777888999999999988764322111 123334566777777889998876433 333456677
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.|.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 776664
No 433
>PRK09701 D-allose transporter subunit; Provisional
Probab=42.72 E-value=1.1e+02 Score=32.88 Aligned_cols=85 Identities=12% Similarity=0.074 Sum_probs=57.1
Q ss_pred hcCCcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHH
Q 002309 161 YYGWNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGF 237 (938)
Q Consensus 161 ~~~w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~ 237 (938)
.+.-.+|++|.. ++.|.....+.+.+++++.|+.+..... +.. .+.......++.+...++|.||+..... ...
T Consensus 21 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSE--GDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred hccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 455679999985 4667788889999999999988764321 111 1234455667777778899999876443 233
Q ss_pred HHHHHHHHcCC
Q 002309 238 QVFSVAKYLGM 248 (938)
Q Consensus 238 ~~l~~a~~~g~ 248 (938)
..+.++.+.|+
T Consensus 98 ~~l~~~~~~gi 108 (311)
T PRK09701 98 MPVARAWKKGI 108 (311)
T ss_pred HHHHHHHHCCC
Confidence 45666776664
No 434
>PRK10481 hypothetical protein; Provisional
Probab=42.70 E-value=2.2e+02 Score=28.91 Aligned_cols=75 Identities=17% Similarity=0.076 Sum_probs=48.7
Q ss_pred HHHHHhc-CCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh
Q 002309 156 AEMVSYY-GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS 234 (938)
Q Consensus 156 ~~~l~~~-~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~ 234 (938)
..++..+ +-++++++....+. .+...+.+.+.|..+.....-|.. .....+....++++..++|+|++.|.+-
T Consensus 120 ~~lv~Al~~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~--~~~~~l~~aa~~L~~~gaD~Ivl~C~G~ 193 (224)
T PRK10481 120 PPLVAAIVGGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYH--GSEEELIDAGKELLDQGADVIVLDCLGY 193 (224)
T ss_pred HHHHHHhcCCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCC--CCHHHHHHHHHHhhcCCCCEEEEeCCCc
Confidence 4444443 45899999876543 333444555558776654432222 2355778888889889999999998876
Q ss_pred hH
Q 002309 235 LG 236 (938)
Q Consensus 235 ~~ 236 (938)
..
T Consensus 194 ~~ 195 (224)
T PRK10481 194 HQ 195 (224)
T ss_pred CH
Confidence 55
No 435
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=42.07 E-value=1.8e+02 Score=29.52 Aligned_cols=92 Identities=16% Similarity=0.172 Sum_probs=49.0
Q ss_pred CCCChHHhhh--------CC--CCeeEEeCchHHHHHHHhcccccccccccCCHHHHHHHHhcCCCCCceEEEEecchhH
Q 002309 689 PINGIESLRK--------SD--DPIGYQEGSFAEYYLSQELNISKSRLVALRTPEDYAKALKDGPGKGGVAAVVDERPYV 758 (938)
Q Consensus 689 ~i~s~~dL~~--------~~--~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~ 758 (938)
.+++++||.. .+ .+|+..-......||. +.+.....++...-.-|..-.+ |-.|++++-....
T Consensus 110 ~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~-~~Gv~~~~Iv~l~GsvElaP~~------GlAD~IvDivsTG 182 (228)
T PRK13583 110 DVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLS-QKGVQDYRIVESLGATEGAPAN------GSAEIIVDITSTG 182 (228)
T ss_pred ccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHH-HcCCceeEEEECCCceeccccc------Ccchhhhhhhchh
Confidence 4667777751 12 4577666666778884 4454422455544333332111 4455665544433
Q ss_pred HHHHhcCCcEEEeC-ccccccceEeeecCCCc
Q 002309 759 ELFLSSQCSFRIVG-QEFTKSGWGFAFPRDSP 789 (938)
Q Consensus 759 ~~~~~~~~~l~~~~-~~~~~~~~~~~~~k~sp 789 (938)
.-+ +..+|.+++ +.+..+.-.+...+.|.
T Consensus 183 ~TL--r~NgL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 183 ETL--RANHLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred HHH--HHCCCEEecCceEEEEEEEEEEecccc
Confidence 332 234677776 34555556667777764
No 436
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=41.85 E-value=1.4e+02 Score=28.26 Aligned_cols=99 Identities=14% Similarity=0.050 Sum_probs=59.9
Q ss_pred ecCCchHHHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCC
Q 002309 144 TTQSDSYQMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALME 223 (938)
Q Consensus 144 ~~ps~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~ 223 (938)
..+.-..+++.+++.++..+..--.|+.+.-....+.++.+.+.+.. -..+.....+.+. ....++...++++...+
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~--~~~~~~~~~l~~~~~~~ 99 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPC--GDIGLVSDYLEALTNEG 99 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCC--CCHHHHHHHHHHHHhcC
Confidence 44455678999999988765543345555555444445544444321 1223323333333 34566777777776555
Q ss_pred ceEEEEEeChhhHHHHHHHHHH
Q 002309 224 SRVIVLHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 224 ~~viv~~~~~~~~~~~l~~a~~ 245 (938)
.+.+++++..+....++..+-.
T Consensus 100 ~~~vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 100 VASVLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred CCEEEEEeCCCCHHHHHHHHhC
Confidence 6778888888888888887753
No 437
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=41.53 E-value=2.5e+02 Score=24.90 Aligned_cols=48 Identities=13% Similarity=0.029 Sum_probs=26.9
Q ss_pred cccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 176 YGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 176 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
+-.-++..+...+++.|.++...... .+.....+.+++.++|+|.+.+
T Consensus 12 ~~~lGl~~la~~l~~~G~~v~~~d~~--------~~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 12 VHPLGLLYLAAYLRKAGHEVDILDAN--------VPPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp STSHHHHHHHHHHHHTTBEEEEEESS--------B-HHHHHHHHHHTTCSEEEEEE
T ss_pred chhHHHHHHHHHHHHCCCeEEEECCC--------CCHHHHHHHHhcCCCcEEEEEc
Confidence 33345666677777777776543211 1124445556666777777766
No 438
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=41.12 E-value=1e+02 Score=32.03 Aligned_cols=80 Identities=8% Similarity=0.040 Sum_probs=51.3
Q ss_pred EEEEEEE--cCccccchHHHHHHHHhhc---ceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHH
Q 002309 166 AVSVIFV--DNEYGRNGVSALNDKLAER---RCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQV 239 (938)
Q Consensus 166 ~vaii~~--d~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~ 239 (938)
||+++.. ++.|-......+.+++++. |.++..... ... .+.+.....++++...++|.||+...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 4566663 3556667788888999888 874322221 211 23455667888888889999999764433 3446
Q ss_pred HHHHHHcCC
Q 002309 240 FSVAKYLGM 248 (938)
Q Consensus 240 l~~a~~~g~ 248 (938)
+..+++.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 777777664
No 439
>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=41.01 E-value=1.1e+02 Score=31.67 Aligned_cols=77 Identities=9% Similarity=0.072 Sum_probs=50.8
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|.. ++.|-......+.+.+++.|..+..... . .+.......++.+.+.+.+.|++.........+++.++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---L--NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---C--CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 566664 4567777888899999999988764322 1 12344556777787788998888654333345666666
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.+.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 6553
No 440
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=40.97 E-value=1.6e+02 Score=28.25 Aligned_cols=66 Identities=11% Similarity=0.062 Sum_probs=44.8
Q ss_pred CCcEEEEEEEcCcccc---chHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHh-cCCceEEEEEeC
Q 002309 163 GWNAVSVIFVDNEYGR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVA-LMESRVIVLHVS 232 (938)
Q Consensus 163 ~w~~vaii~~d~~~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk-~~~~~viv~~~~ 232 (938)
...++++|...|+-+. .....+...+++.|.++.....++.+ .+.+...+++.. ..++|+|++.+.
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd----~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD----IYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 3457888765443222 23457778889999988876666643 677888887764 357899988654
No 441
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=40.91 E-value=1.1e+02 Score=33.50 Aligned_cols=81 Identities=7% Similarity=-0.029 Sum_probs=53.4
Q ss_pred CcEEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhH-HHHH
Q 002309 164 WNAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLG-FQVF 240 (938)
Q Consensus 164 w~~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~-~~~l 240 (938)
-+.|++|..+ +.|.....+.+.+++++.|..+.....-.. .+.......++.+...++|.|++....... ...+
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 3688888854 567777788999999999988765432111 123344566777777889999987644333 3445
Q ss_pred HHHHHcCC
Q 002309 241 SVAKYLGM 248 (938)
Q Consensus 241 ~~a~~~g~ 248 (938)
++.+.|.
T Consensus 123 -~~~~~gi 129 (343)
T PRK10936 123 -ELQAANI 129 (343)
T ss_pred -HHHHCCC
Confidence 6666664
No 442
>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=40.85 E-value=25 Score=32.45 Aligned_cols=56 Identities=16% Similarity=0.253 Sum_probs=39.5
Q ss_pred HHHHHHHhc--CcEEEEcCCCh--hHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceEE
Q 002309 87 VEALRFMET--DIVAIIGPQCS--TVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVR 143 (938)
Q Consensus 87 ~~a~~li~~--~V~aviGp~~s--~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r 143 (938)
+.+.+++.+ ++..++|.... .....+..+++..++|+++.... ...-+..+|+++-
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~-kg~i~~~hp~~~G 61 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG-KGVIPEDHPLFLG 61 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG-TTSSTTTSTTEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc-ccccCCCCchhcc
Confidence 345566655 79999997777 78889999999999999985443 3333345577765
No 443
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=40.74 E-value=1.3e+02 Score=32.15 Aligned_cols=78 Identities=23% Similarity=0.223 Sum_probs=44.7
Q ss_pred CCCCChHHhhhCCCCeeEEe-Cch----HHHHHHHhcccccccccc--cCCHHHHHHHHhcCCCCCceEEEEecch---h
Q 002309 688 SPINGIESLRKSDDPIGYQE-GSF----AEYYLSQELNISKSRLVA--LRTPEDYAKALKDGPGKGGVAAVVDERP---Y 757 (938)
Q Consensus 688 ~~i~s~~dL~~~~~~i~~~~-~s~----~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~g~~~a~i~~~~---~ 757 (938)
..|++++||. |++|.+.. ||- .+..| +..++....+.. .-...+..+++++ |.+||++.-.. .
T Consensus 127 ~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il-~a~Gi~~~~~~~~~~~~~a~~~~~l~~----g~iDA~~~~~G~p~~ 199 (321)
T COG2358 127 AGIKTIADLK--GKRVAIGPPGSGTEATARQIL-EALGITYDDYELDLGLGDAESADALKN----GTIDAAFYVAGVPNP 199 (321)
T ss_pred CCcceehhcC--CCEEeecCCCCccHHHHHHHH-HHcCCCCcchhhhhhcCchhhHHHhhC----CcccEEEEecCCCCc
Confidence 5799999999 99988753 332 22333 344444322221 1123344667777 89998887532 1
Q ss_pred HHHHHhcCCcEEEeC
Q 002309 758 VELFLSSQCSFRIVG 772 (938)
Q Consensus 758 ~~~~~~~~~~l~~~~ 772 (938)
.-..+...|++.+++
T Consensus 200 ai~el~~~~~i~lv~ 214 (321)
T COG2358 200 AISELATTCDIVLVP 214 (321)
T ss_pred cHHHHHhhCCeEEEe
Confidence 224445567766654
No 444
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=40.73 E-value=3e+02 Score=25.50 Aligned_cols=93 Identities=15% Similarity=-0.026 Sum_probs=55.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecC--CCCCCChhhH---HHHHHHHhcCCceEE
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIP--PESGVNTGYV---MDLLVKVALMESRVI 227 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~--~~~~~~~~d~---~~~l~~lk~~~~~vi 227 (938)
..+.+.+...+-....-+|.+.... .....+.++++..|+++....... .. ....|. ...++.+...+.+.|
T Consensus 27 ~~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~--~~~~D~~l~~d~~~~~~~~~~d~i 103 (149)
T cd06167 27 RKLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSG--KKGVDVALAIDALELAYKRRIDTI 103 (149)
T ss_pred HHHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCc--ccCccHHHHHHHHHHhhhcCCCEE
Confidence 3344444443223333444333211 456788899999999876544321 11 112232 333444445578999
Q ss_pred EEEeChhhHHHHHHHHHHcCC
Q 002309 228 VLHVSPSLGFQVFSVAKYLGM 248 (938)
Q Consensus 228 v~~~~~~~~~~~l~~a~~~g~ 248 (938)
++.+.-.+...+++.+++.|.
T Consensus 104 vLvSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 104 VLVSGDSDFVPLVERLRELGK 124 (149)
T ss_pred EEEECCccHHHHHHHHHHcCC
Confidence 999888899999999999764
No 445
>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=40.63 E-value=89 Score=33.14 Aligned_cols=79 Identities=6% Similarity=0.120 Sum_probs=50.7
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~ 242 (938)
||++|..+ +.|-......+.+++++.|+.+.... ... .+.......+..+...++|.|++..... .....+++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 46666643 45666677888899999998875321 111 2244445667777777899888864332 23567788
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 887775
No 446
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=40.43 E-value=65 Score=35.82 Aligned_cols=78 Identities=9% Similarity=-0.005 Sum_probs=53.7
Q ss_pred cCCcEEEEEEEcCccc-cchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh--hhHHH
Q 002309 162 YGWNAVSVIFVDNEYG-RNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQ 238 (938)
Q Consensus 162 ~~w~~vaii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~--~~~~~ 238 (938)
++.+++.+|++...+- ....+.+.+.+++.|+.+..-..+.++ .+.+.+...+..+++.++|.||-.+.+ -++..
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK 98 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGGSPIDAAK 98 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHH
Confidence 3458888887544333 345678889999889876543334444 456778888999999999999987654 35555
Q ss_pred HHH
Q 002309 239 VFS 241 (938)
Q Consensus 239 ~l~ 241 (938)
.+.
T Consensus 99 ~ia 101 (375)
T cd08179 99 AMW 101 (375)
T ss_pred HHH
Confidence 544
No 447
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=39.83 E-value=1.2e+02 Score=31.68 Aligned_cols=77 Identities=12% Similarity=0.017 Sum_probs=48.1
Q ss_pred CcEEEEEEEc---------CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh
Q 002309 164 WNAVSVIFVD---------NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS 234 (938)
Q Consensus 164 w~~vaii~~d---------~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~ 234 (938)
.+.|++|.++ +.|.....+.+.+.+++.|+.+.... .+ . . +.....+.+...++|.|++.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~---~~--~-~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSF---VS--S-P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEe---CC--c-h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 4678888752 34566677788899999998876432 11 1 1 233444555567899988865432
Q ss_pred hHHHHHHHHHHcCC
Q 002309 235 LGFQVFSVAKYLGM 248 (938)
Q Consensus 235 ~~~~~l~~a~~~g~ 248 (938)
. ...++.+.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 244677777665
No 448
>PRK07377 hypothetical protein; Provisional
Probab=39.79 E-value=64 Score=31.01 Aligned_cols=61 Identities=13% Similarity=0.223 Sum_probs=43.6
Q ss_pred ceeEEEecccccccceeeeccCCcceEeeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEec
Q 002309 465 KLLKIGVPNRASYREFVSKVRGSDMFQGFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVG 542 (938)
Q Consensus 465 ~~lrv~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~ 542 (938)
..+|+|+... . .+ .+...+-.++.++.+.++++.+ .+++++ .+-..+.+++.+|++|++.+
T Consensus 75 ~~~Rlgv~~~--~------~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEI--E------TE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEec--c------cc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEec
Confidence 4689988752 0 11 2223444677889999999965 666665 45889999999999998766
No 449
>PRK09801 transcriptional activator TtdR; Provisional
Probab=39.69 E-value=1.6e+02 Score=31.65 Aligned_cols=70 Identities=10% Similarity=-0.011 Sum_probs=44.5
Q ss_pred cccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEE-eCccccccceEeeecCCCcchhhHHHHHHhhh
Q 002309 727 VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRI-VGQEFTKSGWGFAFPRDSPLAVDLSSAILELA 802 (938)
Q Consensus 727 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~ 802 (938)
...++.+...+.+.. |..-+++-+....... .. ..+.. ..+......++++.+++.+....+...+..+.
T Consensus 223 ~~~~~~~~i~~~v~~----g~Gia~lp~~~~~~~~-~~-~~l~~~~~~~~~~~~~~lv~~~~~~~~~~~~~~i~~l~ 293 (310)
T PRK09801 223 LSSNSGEIVLQWALE----GKGIMLRSEWDVLPFL-ES-GKLVQVLPEYAQSANIWAVYREPLYRSMKLRVCVEFLA 293 (310)
T ss_pred EEECCHHHHHHHHHc----CCCEEecchhhHHHHH-hC-CCeEEeCCCCCCCCcEEEEEcCCCcCCHHHHHHHHHHH
Confidence 345788888899988 6656666654433332 22 23332 23333456789999999888888888777654
No 450
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=39.24 E-value=1.5e+02 Score=29.96 Aligned_cols=74 Identities=16% Similarity=0.068 Sum_probs=50.2
Q ss_pred cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh--hhHHHHHHH
Q 002309 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGFQVFSV 242 (938)
Q Consensus 165 ~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~--~~~~~~l~~ 242 (938)
.++++|....+ -.....+.++..+..+.+...-|-. .+.+++...-+++++.++|+|+++|-+ ...+.++++
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~--~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYE--GDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 79999997665 3344455566665555544333332 347889999999999999999998665 445556666
Q ss_pred HH
Q 002309 243 AK 244 (938)
Q Consensus 243 a~ 244 (938)
+.
T Consensus 200 ~~ 201 (221)
T PF07302_consen 200 AL 201 (221)
T ss_pred Hh
Confidence 54
No 451
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=39.12 E-value=1.6e+02 Score=31.92 Aligned_cols=79 Identities=9% Similarity=0.056 Sum_probs=53.7
Q ss_pred cEEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHH
Q 002309 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (938)
Q Consensus 165 ~~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~ 242 (938)
+.++++..+ +.|.......+.+++++.|..+.... . . .+.......++.+...+.|.||+..........++.
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~--~-~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 139 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQ--G-G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREM 139 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEe--C-C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHH
Confidence 578888853 56777788889999999998765321 1 1 123455677778888889999987544333456677
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.|.
T Consensus 140 l~~~~i 145 (342)
T PRK10014 140 AEEKGI 145 (342)
T ss_pred HhhcCC
Confidence 766554
No 452
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=38.86 E-value=2.4e+02 Score=34.04 Aligned_cols=169 Identities=15% Similarity=0.074 Sum_probs=0.0
Q ss_pred CccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCc-----------eeeeeeccceecccEEEEEeccCCCC
Q 002309 508 AVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNR-----------TKIVDFSQPYAASGLVVVVPFRKLNT 576 (938)
Q Consensus 508 ~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r-----------~~~v~fs~p~~~~~~~~lv~~~~~~~ 576 (938)
.+++.... .+...++++|.+|++|+++......... ...---+.|+.+..++++++...
T Consensus 440 ~v~i~v~~-------~~s~~vl~~L~~GeiDlai~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~d~lvlvvp~~h--- 509 (633)
T PRK14498 440 GLRLRSLH-------VGSMGGLMALKRGEADIAGIHLLDPETGEYNIPYIKKYLLGEDAVLVKGYRREQGLVVRKGN--- 509 (633)
T ss_pred CCceeEEe-------cCCHHHHHHHHcCCceEEEEcccCcccccccHHHHHhhcCCCCEEEEEEEEEeEEEEECCCC---
Q ss_pred CcceeeccCchhhHHHHHHHHHHHHhhhheeecccCCCCCCCccccchhhhhHHHHHHHhhhhhhhhhhcccCccccchh
Q 002309 577 GAWAFLRPFSPLMWTVTACFFVVVGIVVWILEHRINDEFRGPPKRQVITILWFSLSTLFFAHIAIFVILAEENTVSTLGR 656 (938)
Q Consensus 577 ~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~s~s~R 656 (938)
T Consensus 510 -------------------------------------------------------------------------------- 509 (633)
T PRK14498 510 -------------------------------------------------------------------------------- 509 (633)
T ss_pred --------------------------------------------------------------------------------
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhcccccC-CCCChHHhhhCCC--CeeEEeCc-----hHHHHHHHhccccccc---
Q 002309 657 LVLIIWLFVVLIINSSYTASLTSILTVQQLYS-PINGIESLRKSDD--PIGYQEGS-----FAEYYLSQELNISKSR--- 725 (938)
Q Consensus 657 ~~~~~w~~~~lil~s~Yta~L~s~Lt~~~~~~-~i~s~~dL~~~~~--~i~~~~~s-----~~~~~~~~~~~~~~~~--- 725 (938)
+ ..-+++||. ++ ++...... ..+..+ ...+.....
T Consensus 510 -------------------------------Pl~~isl~dL~--~~~~plI~~~~gs~~r~~le~~l-~~~Gi~~~~i~~ 555 (633)
T PRK14498 510 -------------------------------PKGIEGIEDLV--RKDVRFVNRQRGSGTRILLDYHL-KELAIDPERING 555 (633)
T ss_pred -------------------------------CCCCCCHHHhc--cCCcEEEecCCCchHHHHHHHHH-HHcCCCHHHCCC
Q ss_pred -ccccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeCccccccceEeeecCCCcchhhHHHHHHhhhcc
Q 002309 726 -LVALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVGQEFTKSGWGFAFPRDSPLAVDLSSAILELAEN 804 (938)
Q Consensus 726 -~~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~i~~~il~l~e~ 804 (938)
.....+.+.....+.. |..++-+.-.+.... ....+..+.+. .++++.+++......+...+..+.+.
T Consensus 556 ~~~e~~s~~~i~~~V~~----G~~d~Gi~i~~~~~~---~~l~~i~l~~~----~~~l~~~~~~~~s~a~~aFl~~l~~~ 624 (633)
T PRK14498 556 YDREEKTHMAVAAAVAQ----GRADAGLGIRAAAKA---LGLDFIPLAEE----EYDLLIPKERLEKPAVRAFLEALKSP 624 (633)
T ss_pred cccccCCHHHHHHHHHc----CCCcchHhHHHHHHH---cCCCCeeeeeE----EEEEEEEhhHccCHHHHHHHHHHcCH
Q ss_pred CcHHHHH
Q 002309 805 GDLQRIH 811 (938)
Q Consensus 805 G~~~~l~ 811 (938)
-.-..+.
T Consensus 625 ~~~~~~~ 631 (633)
T PRK14498 625 EFKAALE 631 (633)
T ss_pred HHHHHhh
No 453
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=38.67 E-value=1.5e+02 Score=31.17 Aligned_cols=79 Identities=10% Similarity=-0.027 Sum_probs=53.1
Q ss_pred cEEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHHH
Q 002309 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFS 241 (938)
Q Consensus 165 ~~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l~ 241 (938)
++|++|..+ +.|.......+.+++++.|..+.... . . .+.+.....++.+...+.|.||+...... ....++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~--~-~--~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILD--G-R--GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEEC--C-C--CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 467777754 55666778889999999998876432 1 1 22445567888888889999999754322 234556
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
.+.+.+.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666554
No 454
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=38.43 E-value=75 Score=34.65 Aligned_cols=78 Identities=9% Similarity=0.012 Sum_probs=51.0
Q ss_pred HhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh--hhHH
Q 002309 160 SYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP--SLGF 237 (938)
Q Consensus 160 ~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~--~~~~ 237 (938)
+.++.+++.+|++...+.....+.+.+.+++. +.+..-..+.++ .+.+.+...+..+++.++|.||-.+.+ -++.
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~a 94 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAA 94 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 44556899999854443334677888888775 544332233333 346778888888889999999976544 3555
Q ss_pred HHH
Q 002309 238 QVF 240 (938)
Q Consensus 238 ~~l 240 (938)
.++
T Consensus 95 Ka~ 97 (332)
T cd08180 95 KAI 97 (332)
T ss_pred HHH
Confidence 544
No 455
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=38.37 E-value=98 Score=30.17 Aligned_cols=28 Identities=21% Similarity=0.484 Sum_probs=25.3
Q ss_pred EEEEcCCChhHHHHHHHhhccCCccEEE
Q 002309 98 VAIIGPQCSTVAHIVSYVSNELQVPLLS 125 (938)
Q Consensus 98 ~aviGp~~s~~~~~va~~~~~~~iP~Is 125 (938)
+.|+||.+++-+.....+++.+++|+|+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hls 30 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLD 30 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence 5799999999888888899999999997
No 456
>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=38.35 E-value=82 Score=33.30 Aligned_cols=74 Identities=12% Similarity=0.066 Sum_probs=52.4
Q ss_pred cEEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHH
Q 002309 165 NAVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSV 242 (938)
Q Consensus 165 ~~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~ 242 (938)
+.+++|.++ +.|....+..+.+++++.|..+.....-. ..+....++.+.+.+.|.||+.+...+...+...
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~------~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~ 75 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD------DEEKEEYIELLLQRRVDGIILASSENDDEELRRL 75 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT------THHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC------chHHHHHHHHHHhcCCCEEEEecccCChHHHHHH
Confidence 467888864 66788889999999999999876433221 3333388889999999999998666653334333
Q ss_pred HH
Q 002309 243 AK 244 (938)
Q Consensus 243 a~ 244 (938)
.+
T Consensus 76 ~~ 77 (279)
T PF00532_consen 76 IK 77 (279)
T ss_dssp HH
T ss_pred HH
Confidence 33
No 457
>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=38.34 E-value=1.1e+02 Score=32.58 Aligned_cols=77 Identities=10% Similarity=0.136 Sum_probs=48.3
Q ss_pred EEEEE--cCccccchHHHHHHHHhhcce-EEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh-hhHHHHHHHH
Q 002309 168 SVIFV--DNEYGRNGVSALNDKLAERRC-RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP-SLGFQVFSVA 243 (938)
Q Consensus 168 aii~~--d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~-~~~~~~l~~a 243 (938)
++|.. ++.|.......+.+++++.|. .+.... +.. .+.......++.+...+++.|++.... ......++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~--~~~--~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~ 77 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTG--PTG--TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKA 77 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHH
Confidence 34443 356667778888899999984 343211 111 124445567777777889998886542 3345667888
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|.
T Consensus 78 ~~~gi 82 (302)
T TIGR02637 78 MKRGI 82 (302)
T ss_pred HHCCC
Confidence 77664
No 458
>cd00423 Pterin_binding Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=38.16 E-value=2.7e+02 Score=28.98 Aligned_cols=26 Identities=27% Similarity=0.213 Sum_probs=13.4
Q ss_pred ChHHHHHHHHHHHhcCcEEE-EcCCCh
Q 002309 81 SGFIGMVEALRFMETDIVAI-IGPQCS 106 (938)
Q Consensus 81 ~~~~a~~~a~~li~~~V~av-iGp~~s 106 (938)
++..+...+.++++.|...| ||..++
T Consensus 22 ~~~~~~~~a~~~~~~GAdiIDvG~~st 48 (258)
T cd00423 22 SLDKALEHARRMVEEGADIIDIGGEST 48 (258)
T ss_pred CHHHHHHHHHHHHHCCCCEEEECCCcC
Confidence 44555555555555555444 454443
No 459
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=37.75 E-value=1.7e+02 Score=31.45 Aligned_cols=80 Identities=9% Similarity=0.087 Sum_probs=51.4
Q ss_pred CcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHH
Q 002309 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (938)
Q Consensus 164 w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~ 241 (938)
-+.|+++.. ++.|.......+.+++++.|+.+..... .. +...-...+..+...+.|.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~--~~---~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACS--DD---QPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC--CC---CHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 357888875 3556667788899999999988765321 11 1333445667777778999888654322234566
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
.+.+.|.
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 6666554
No 460
>cd08479 PBP2_CrgA_like_9 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 9. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene a
Probab=37.30 E-value=1.8e+02 Score=27.91 Aligned_cols=64 Identities=8% Similarity=0.014 Sum_probs=36.8
Q ss_pred eeeHHHHHHHHHhCCCCccEEEEecCCCCCCCChhHHHHhhhcceecEEeccEeeecCceeeeeeccceecccEEEEEe
Q 002309 492 GFCIDVFTAAVNLLPYAVPYQFVAFGDGHKNPSYTQLVDSITTGVFDAVVGDITIVTNRTKIVDFSQPYAASGLVVVVP 570 (938)
Q Consensus 492 G~~~dll~~la~~l~f~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~D~~~~~~~~t~~r~~~v~fs~p~~~~~~~~lv~ 570 (938)
.+-..++..+.++.+ .+++.+.. + .....+.+|++|+++.. .......+. +.++.....+++++
T Consensus 14 ~~l~~~l~~f~~~~P-~i~i~~~~-------~---~~~~~l~~g~~Dl~i~~---~~~~~~~l~-~~~l~~~~~~~~~~ 77 (198)
T cd08479 14 RHIAPALSDFAKRYP-ELEVQLEL-------T---DRPVDLVEEGFDLDIRV---GDLPDSSLI-ARKLAPNRRILCAS 77 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------c---CccccccccCccEEEEc---CCCCCccce-eeeccCCceEEEEC
Confidence 456678888888876 34555543 1 12357889999998742 112222332 33555555555554
No 461
>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=37.30 E-value=6e+02 Score=27.97 Aligned_cols=105 Identities=10% Similarity=0.087 Sum_probs=61.3
Q ss_pred CcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHHHHHhhccCCc
Q 002309 42 STIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHIVSYVSNELQV 121 (938)
Q Consensus 42 ~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~va~~~~~~~i 121 (938)
..+|.....+.+++ +.++ +.+++.|.-.....+.....++-+.. .. .-|.--.....+.+.+.+.+|
T Consensus 6 Gf~gD~~~a~~~l~-----~~g~------~d~l~~d~LaE~tma~~~~~~~~~p~-~g-Y~~~~~~~L~~~L~~~~~~gI 72 (362)
T PF07287_consen 6 GFWGDRPDAAVRLA-----RGGD------VDYLVGDYLAERTMAILARAKRKDPT-KG-YAPDFVRDLRPLLPAAAEKGI 72 (362)
T ss_pred ccccCcHHHHHHHH-----hcCC------CCEEEEecHHHHHHHHHHHHHhhCCC-CC-chHHHHHHHHHHHHHHHhCCC
Confidence 34456666666665 2333 44888887655444444323322211 11 111222345566778888999
Q ss_pred cEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHHHhcCCc-EEEEEEEcCc
Q 002309 122 PLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMVSYYGWN-AVSVIFVDNE 175 (938)
Q Consensus 122 P~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l~~~~w~-~vaii~~d~~ 175 (938)
|+|+-++.. +....++.+.+++++.|.+ ||++|+.|+.
T Consensus 73 kvI~NaGg~----------------np~~~a~~v~eia~e~Gl~lkvA~V~gDd~ 111 (362)
T PF07287_consen 73 KVITNAGGL----------------NPAGCADIVREIARELGLSLKVAVVYGDDL 111 (362)
T ss_pred CEEEeCCCC----------------CHHHHHHHHHHHHHhcCCCeeEEEEECccc
Confidence 999843321 1233688888899887774 8999987665
No 462
>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=37.16 E-value=1.2e+02 Score=31.27 Aligned_cols=77 Identities=8% Similarity=0.060 Sum_probs=51.3
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l~~a 243 (938)
|++|.. ++.|.......+.+++++.|+.+... ... .+..+....++++...+++.|++...... ....++.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~---~~~--~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l 76 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVL---DAQ--NDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA 76 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEec---CCC--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH
Confidence 455553 46677888899999999999887642 212 23455667788887888999888643322 34567777
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 66554
No 463
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=37.08 E-value=1.3e+02 Score=30.81 Aligned_cols=87 Identities=14% Similarity=0.035 Sum_probs=53.0
Q ss_pred HHHHHHHHHHhc--CCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEE
Q 002309 151 QMTAVAEMVSYY--GWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIV 228 (938)
Q Consensus 151 ~~~ai~~~l~~~--~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv 228 (938)
.++.+++++... .-++|.++. |....+.+.+.|++.|..|.....|... ....+.......+++.+.++|+
T Consensus 103 ~~e~L~~~~~~~~~~~~~vL~~r-----g~~~r~~l~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~l~~~~~d~i~ 175 (240)
T PRK09189 103 DGVRLAETVAAALAPTARLLYLA-----GRPRAPVFEDRLAAAGIPFRVAECYDML--PVMYSPATLSAILGGAPFDAVL 175 (240)
T ss_pred CHHHHHHHHHHhcCCCCcEEEec-----cCcccchhHHHHHhCCCeeEEEEEEEee--cCCCChHHHHHHHhcCCCCEEE
Confidence 367777776542 456777775 3334567889999999887665555322 1112223344555556677766
Q ss_pred EEeChhhHHHHHHHHHH
Q 002309 229 LHVSPSLGFQVFSVAKY 245 (938)
Q Consensus 229 ~~~~~~~~~~~l~~a~~ 245 (938)
+. ++..+..|++....
T Consensus 176 f~-S~~~~~~f~~~~~~ 191 (240)
T PRK09189 176 LY-SRVAARRFFALMRL 191 (240)
T ss_pred Ee-CHHHHHHHHHHHhh
Confidence 65 45677778877643
No 464
>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=37.06 E-value=1.3e+02 Score=31.31 Aligned_cols=77 Identities=10% Similarity=0.041 Sum_probs=51.7
Q ss_pred EEEEEE---cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh-hHHHHHHH
Q 002309 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS-LGFQVFSV 242 (938)
Q Consensus 167 vaii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~-~~~~~l~~ 242 (938)
|++|.. ++.|.......+.+++++.|+.+..... . .+.+.....++.+...++|.|++..... .....++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---N--GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---C--cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 556663 4568888889999999999988765321 1 2244455667777778899998865433 23456777
Q ss_pred HHHcCC
Q 002309 243 AKYLGM 248 (938)
Q Consensus 243 a~~~g~ 248 (938)
+.+.|.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777664
No 465
>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=36.49 E-value=1.4e+02 Score=31.02 Aligned_cols=76 Identities=8% Similarity=0.131 Sum_probs=50.4
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
++++.. ++.|.......+.+.+++.|+++...... .+.......++.+.+.+.|.|++....... ..++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG-----RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALR 75 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC-----CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHh
Confidence 456654 46788888999999999999887643221 123345567777878889988876543332 3467776
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.+.
T Consensus 76 ~~~i 79 (270)
T cd06296 76 RTGI 79 (270)
T ss_pred cCCC
Confidence 6553
No 466
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=36.44 E-value=2e+02 Score=25.55 Aligned_cols=66 Identities=14% Similarity=0.049 Sum_probs=39.1
Q ss_pred CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC-h---hhHHHHHHHHHHcC
Q 002309 174 NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS-P---SLGFQVFSVAKYLG 247 (938)
Q Consensus 174 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~-~---~~~~~~l~~a~~~g 247 (938)
.+.-.-+...+...++..|+++.+-. .. . .....++.+.+.++++|.+.+. . ..+..+++++++.+
T Consensus 9 ~e~H~lG~~~~~~~l~~~G~~V~~lg---~~--~---~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 9 GDGHDIGKNIVARALRDAGFEVIDLG---VD--V---PPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CchhhHHHHHHHHHHHHCCCEEEECC---CC--C---CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 33334456677778888888875432 11 1 1234555566678888888765 2 34455666666654
No 467
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=36.42 E-value=1.4e+02 Score=32.59 Aligned_cols=98 Identities=10% Similarity=0.105 Sum_probs=60.1
Q ss_pred HHHHHHHHhcCC-cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEe-ecCCCCCCChhhHHHHHHHHhcCCceEEEEE
Q 002309 153 TAVAEMVSYYGW-NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKS-GIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (938)
Q Consensus 153 ~ai~~~l~~~~w-~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~-~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~ 230 (938)
..+.++++.++. +++.+|++...+... .+.+.+.+++.|+++.... ...++ .+.+.+...+..+++ ++++||-.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~~-~~~i~~~L~~~~~~~~i~~~~~~~~--p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKVA-GKEIIERLESNNFTKEVLERDSLLI--PDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHHH-HHHHHHHHHHcCCeEEEEecCCCCC--CCHHHHHHHHHHhhc-CCCEEEEE
Confidence 345566777776 788888865543332 3778888988887554211 12222 246677788888887 89998876
Q ss_pred eCh--hhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 231 VSP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 231 ~~~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
+.+ .++..++. ...| ..++-|-|.
T Consensus 88 GGGsv~D~aK~iA--~~~g---ip~I~VPTT 113 (332)
T cd08549 88 GSGTIIDLVKFVS--FKVG---KPFISVPTA 113 (332)
T ss_pred CCcHHHHHHHHHH--HHcC---CCEEEeCCC
Confidence 554 45555554 2223 345555543
No 468
>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=36.23 E-value=1.5e+02 Score=30.56 Aligned_cols=76 Identities=12% Similarity=0.041 Sum_probs=49.9
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|+++.. ++.|.......+.+++++.|..+... ... .+.......++++.+.+.+.|++..... ....++.++
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSG--YDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHH
Confidence 566664 45677778888999999999887652 212 2244456677788878899888764432 234556666
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 6553
No 469
>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=36.08 E-value=1.4e+02 Score=31.80 Aligned_cols=78 Identities=12% Similarity=0.162 Sum_probs=51.3
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhh--cceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe-ChhhHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAE--RRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV-SPSLGFQVF 240 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~-~~~~~~~~l 240 (938)
+|++|..+ +.|-......+.+++++ .|+.+.... .. .+.......+..+...+++.|++.. .+......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AK--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 35666643 55666777889999998 787765432 12 2234445667788888999988864 333345677
Q ss_pred HHHHHcCC
Q 002309 241 SVAKYLGM 248 (938)
Q Consensus 241 ~~a~~~g~ 248 (938)
+.+.+.|+
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 88877675
No 470
>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.
Probab=35.88 E-value=3.5e+02 Score=28.40 Aligned_cols=100 Identities=11% Similarity=-0.004 Sum_probs=60.1
Q ss_pred CchHHHHHHHHHHHhcCCcEEEEEEEcCcc---------------ccchHHHHHHHHhhcceEEEEEeecCCCC--CCCh
Q 002309 147 SDSYQMTAVAEMVSYYGWNAVSVIFVDNEY---------------GRNGVSALNDKLAERRCRISYKSGIPPES--GVNT 209 (938)
Q Consensus 147 s~~~~~~ai~~~l~~~~w~~vaii~~d~~~---------------g~~~~~~l~~~l~~~g~~v~~~~~~~~~~--~~~~ 209 (938)
......+..+++..++||..+.| |..| ....++.+.+..+++|+.|..=....... ..-.
T Consensus 29 ~~t~~~k~yIDfAa~~G~eYvlv---D~GW~~~~~~~~~d~~~~~~~~dl~elv~Ya~~KgVgi~lw~~~~~~~~~~~~~ 105 (273)
T PF10566_consen 29 ATTETQKRYIDFAAEMGIEYVLV---DAGWYGWEKDDDFDFTKPIPDFDLPELVDYAKEKGVGIWLWYHSETGGNVANLE 105 (273)
T ss_dssp SSHHHHHHHHHHHHHTT-SEEEE---BTTCCGS--TTT--TT-B-TT--HHHHHHHHHHTT-EEEEEEECCHTTBHHHHH
T ss_pred CCHHHHHHHHHHHHHcCCCEEEe---ccccccccccccccccccCCccCHHHHHHHHHHcCCCEEEEEeCCcchhhHhHH
Confidence 35667899999999999999887 6555 35668899999999997765433222200 0002
Q ss_pred hhHHHHHHHHhcCCceEEEEEeC---hhh----HHHHHHHHHHcCCC
Q 002309 210 GYVMDLLVKVALMESRVIVLHVS---PSL----GFQVFSVAKYLGMM 249 (938)
Q Consensus 210 ~d~~~~l~~lk~~~~~viv~~~~---~~~----~~~~l~~a~~~g~~ 249 (938)
.+....+.++++.+.+.|=+..- ... -..+++.|.+.+|+
T Consensus 106 ~~~~~~f~~~~~~Gv~GvKidF~~~d~Q~~v~~y~~i~~~AA~~~Lm 152 (273)
T PF10566_consen 106 KQLDEAFKLYAKWGVKGVKIDFMDRDDQEMVNWYEDILEDAAEYKLM 152 (273)
T ss_dssp CCHHHHHHHHHHCTEEEEEEE--SSTSHHHHHHHHHHHHHHHHTT-E
T ss_pred HHHHHHHHHHHHcCCCEEeeCcCCCCCHHHHHHHHHHHHHHHHcCcE
Confidence 23577777888877777766422 222 23356666666654
No 471
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=35.60 E-value=1.5e+02 Score=32.36 Aligned_cols=82 Identities=7% Similarity=-0.057 Sum_probs=55.0
Q ss_pred HHHHHHH-hcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeC
Q 002309 154 AVAEMVS-YYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVS 232 (938)
Q Consensus 154 ai~~~l~-~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~ 232 (938)
.+.++++ ..+.+++.+|++...+ ....+.+.+.+++.| .+... +.++ .+.+.+...++.+++.++|+||-.+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~--~~~~~v~~~~~~~~~~~~d~iIaiGG 87 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVED--ATYEEVEKVESSARDIGADFVIGVGG 87 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCC--CCHHHHHHHHHHhhhcCCCEEEEeCC
Confidence 3556666 4577899999854433 356678888888887 44322 2233 35778888888888889999997655
Q ss_pred h--hhHHHHHH
Q 002309 233 P--SLGFQVFS 241 (938)
Q Consensus 233 ~--~~~~~~l~ 241 (938)
+ -++..++.
T Consensus 88 Gs~~D~aK~~a 98 (339)
T cd08173 88 GRVIDVAKVAA 98 (339)
T ss_pred chHHHHHHHHH
Confidence 4 35555554
No 472
>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=35.51 E-value=1.2e+02 Score=31.48 Aligned_cols=77 Identities=9% Similarity=-0.010 Sum_probs=50.1
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFSVA 243 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l~~a 243 (938)
|++|.. ++.|.......+.+.+++.|+++... ... .+.......++++...++|.|++...... ....++.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~ 76 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVEL---SAE--NSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLA 76 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHH
Confidence 566654 46677778888999999999887542 111 12334456677777788999987654333 34567777
Q ss_pred HHcCC
Q 002309 244 KYLGM 248 (938)
Q Consensus 244 ~~~g~ 248 (938)
.+.|.
T Consensus 77 ~~~~i 81 (277)
T cd06319 77 AQAKI 81 (277)
T ss_pred HHCCC
Confidence 77664
No 473
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=35.03 E-value=1.6e+02 Score=31.23 Aligned_cols=80 Identities=5% Similarity=0.069 Sum_probs=54.1
Q ss_pred CcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHH
Q 002309 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVF 240 (938)
Q Consensus 164 w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l 240 (938)
-+.++++.+ ++.|-......+.+++++.|+.+..... . .+.......++++...+++.|++...... ....+
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~---~--~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l 100 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS---Q--NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAV 100 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 568888885 3567778888999999999988765321 1 12444556677777778998887644333 23567
Q ss_pred HHHHHcCC
Q 002309 241 SVAKYLGM 248 (938)
Q Consensus 241 ~~a~~~g~ 248 (938)
+.+++.|.
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 77776664
No 474
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=35.00 E-value=2.8e+02 Score=23.75 Aligned_cols=57 Identities=9% Similarity=0.121 Sum_probs=38.6
Q ss_pred hHHHHHHHHhhcce-EEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe--ChhhHHHHHHHHHHcC
Q 002309 180 GVSALNDKLAERRC-RISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV--SPSLGFQVFSVAKYLG 247 (938)
Q Consensus 180 ~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~--~~~~~~~~l~~a~~~g 247 (938)
....+++.++..|. .+.. ..+....+..+++..+++|++.. .......++++.++.+
T Consensus 10 ~~~~l~~~l~~~~~~~v~~-----------~~~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 10 IRELLEKLLERAGYEEVTT-----------ASSGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHTTEEEEEE-----------ESSHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHhCCCCEEEE-----------ECCHHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 45667777777887 4431 12345566667777899999874 4456777888888776
No 475
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=34.88 E-value=2e+02 Score=29.39 Aligned_cols=88 Identities=16% Similarity=0.200 Sum_probs=60.0
Q ss_pred cchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEEcCCChhHHHH-HHHhhccCCc
Q 002309 43 TIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAIIGPQCSTVAHI-VSYVSNELQV 121 (938)
Q Consensus 43 ~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~aviGp~~s~~~~~-va~~~~~~~i 121 (938)
.+|+.-..+++-.+..||-. .+ +...|+- -......+++..+...||-...+-.+++ +...|...++
T Consensus 80 ~iGk~Kv~vm~eri~~InP~------c~--V~~~~~f----~t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki 147 (263)
T COG1179 80 DIGKPKVEVMKERIKQINPE------CE--VTAINDF----ITEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNKI 147 (263)
T ss_pred hcccHHHHHHHHHHHhhCCC------ce--EeehHhh----hCHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcCC
Confidence 34666667888888888733 33 3334443 3344556777778999998888766544 7788999999
Q ss_pred cEEEcccCCCCCCCCCCCceEEecC
Q 002309 122 PLLSFGVTDPTLSSLQYPFFVRTTQ 146 (938)
Q Consensus 122 P~Is~~~~~~~l~~~~~p~~~r~~p 146 (938)
|+||..++...+. |.-+++.-
T Consensus 148 ~vIss~Gag~k~D----PTri~v~D 168 (263)
T COG1179 148 PVISSMGAGGKLD----PTRIQVAD 168 (263)
T ss_pred CEEeeccccCCCC----CceEEeee
Confidence 9999777665543 66666643
No 476
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=34.43 E-value=1.8e+02 Score=30.04 Aligned_cols=76 Identities=7% Similarity=0.010 Sum_probs=50.1
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|.. ++.|.......+.+++++.|+.+..... . .+.+.-...++.+...++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---H--HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---C--CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 455553 4667778889999999999998764322 1 123344567777777899999987643222 2367777
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 6664
No 477
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=34.40 E-value=1.8e+02 Score=29.93 Aligned_cols=77 Identities=6% Similarity=0.000 Sum_probs=47.8
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|.+ ++.|.......+.+++++.|+.+..... .. .+.......++.+.+.+.|.|++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSML--AE--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeC--CC--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 456664 4556677888999999999988764321 11 1134455677778778899998865443333 234444
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 77 ~~~i 80 (264)
T cd01574 77 PADV 80 (264)
T ss_pred hcCC
Confidence 5453
No 478
>cd08197 DOIS 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes neomycin, kanamycin, gentamicin, and ribostamycin. They are important antibacterial agents. DOIS is a homologue of the dehydroquinate synthase which catalyzes the cyclization of 3-deoxy-D-arabino-heputulosonate-7-phosphate to dehydroquinate (DHQ) in the shikimate pathway.
Probab=34.22 E-value=4e+02 Score=29.33 Aligned_cols=102 Identities=15% Similarity=0.069 Sum_probs=63.5
Q ss_pred HHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCC-CCCChhhHHHHHHHHhcCCce---EEE
Q 002309 153 TAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPE-SGVNTGYVMDLLVKVALMESR---VIV 228 (938)
Q Consensus 153 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~d~~~~l~~lk~~~~~---viv 228 (938)
.-+.++++.++-+++.+|++...+ ....+.+.+.+++.|+.+... .++.. ...+.+.+...+..+++.+++ +||
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~II 89 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVIV 89 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 335566777777899998865544 335678888998888764322 22211 113456788888888888887 777
Q ss_pred EEeCh--hhHHHHHHHHHHcCCCCCCeEEEEeC
Q 002309 229 LHVSP--SLGFQVFSVAKYLGMMGNGYVWIATD 259 (938)
Q Consensus 229 ~~~~~--~~~~~~l~~a~~~g~~~~~~~wi~~~ 259 (938)
..+.+ .++..++......| .+++.|-|.
T Consensus 90 AvGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 90 ALGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred EECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 66544 35555555443333 356666653
No 479
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=33.68 E-value=2.7e+02 Score=26.55 Aligned_cols=81 Identities=14% Similarity=0.057 Sum_probs=55.6
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHh-hcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEE
Q 002309 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLA-ERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVL 229 (938)
Q Consensus 151 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~-~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~ 229 (938)
.++.+....++++-+++.++- |..........+...+. -.|+++... +.++....+.+ +..+.+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVvd-D~vA~D~~~k~~lkma~~P~gvk~~i~---------sv~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVD-DVVANDDIQQKLMGITAETYGFGIRFF---------TIEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEc-chhcCCHHHHHHHHhcCCCCCCEEEEE---------EHHHHHHHHHh-ccCCceEEEE
Confidence 377778889999999988874 33333344555555444 567776532 14456666766 5566789999
Q ss_pred EeChhhHHHHHHH
Q 002309 230 HVSPSLGFQVFSV 242 (938)
Q Consensus 230 ~~~~~~~~~~l~~ 242 (938)
+-++.++..++++
T Consensus 86 ~~~~~da~~l~~~ 98 (158)
T PRK09756 86 CRTPQTVRKLVEG 98 (158)
T ss_pred ECCHHHHHHHHHc
Confidence 9999999988764
No 480
>cd08475 PBP2_CrgA_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 6. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene a
Probab=33.67 E-value=3.7e+02 Score=25.50 Aligned_cols=66 Identities=18% Similarity=0.061 Sum_probs=38.1
Q ss_pred cccCCHHHHHHHHhcCCCCCceEEEEecchhHHHHHhcCCcEEEeC--ccccccceEeeecCCCcchhhHHHHH
Q 002309 727 VALRTPEDYAKALKDGPGKGGVAAVVDERPYVELFLSSQCSFRIVG--QEFTKSGWGFAFPRDSPLAVDLSSAI 798 (938)
Q Consensus 727 ~~~~~~~~~~~~l~~~~~~g~~~a~i~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~i~~~i 798 (938)
...++.....+.+.. |..-+++-+.. +..... ...+..+. .......+.++.+++......+...+
T Consensus 129 ~~~~~~~~~~~~v~~----g~gi~~~p~~~-~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (199)
T cd08475 129 LQFDDGEAIADAALA----GLGIAQLPTWL-VADHLQ-RGELVEVLPELAPEGLPIHAVWPRTRHLPPKVRAAV 196 (199)
T ss_pred EEECCHHHHHHHHHh----CCCEEeeeHHH-HHhHhh-cCcEEEecCCCcCCCccEEEEeCCcccCCHHHHHHH
Confidence 446788888899988 55555555433 332222 23344332 22334568888888776665555444
No 481
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=33.63 E-value=2.1e+02 Score=26.99 Aligned_cols=63 Identities=17% Similarity=0.170 Sum_probs=41.5
Q ss_pred EEEEEEEcCc--ccc---chHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhc-CCceEEEEEeC
Q 002309 166 AVSVIFVDNE--YGR---NGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVAL-MESRVIVLHVS 232 (938)
Q Consensus 166 ~vaii~~d~~--~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~-~~~~viv~~~~ 232 (938)
++++|...++ .|+ .....+.+.+++.|.++.....++.+ .+++.+.+++..+ .++|+|+..+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD----KDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 5677665443 222 23456788899999988776666543 6777777776644 37899888654
No 482
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=33.54 E-value=1.6e+02 Score=30.29 Aligned_cols=75 Identities=12% Similarity=0.143 Sum_probs=49.4
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|+++.. ++.|.......+.+.+++.|+.+.... .. ... +....++++...+++.|++....... ..++.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~--~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLIN---TD--DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEc---CC--CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 455554 456777788889999999998876432 11 112 56667777778889988886543332 3477777
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 6664
No 483
>TIGR01744 XPRTase xanthine phosphoribosyltransferase. This model represent a xanthine-specific phosphoribosyltransferase of Bacillus subtilis and closely related proteins from other species, mostly from other Gram-positive bacteria. The adjacent gene is a xanthine transporter; B. subtilis can import xanthine for the purine salvage pathway or for catabolism to obtain nitrogen.
Probab=33.35 E-value=89 Score=30.87 Aligned_cols=70 Identities=16% Similarity=0.202 Sum_probs=47.9
Q ss_pred HHHHhcCCCCCCCCEEEEEE-ccCCCChHHHHHHHHHHHhc----CcEEEEcCCChhHHHHHHHhhccCCccEEEc
Q 002309 56 VKDVNSNSSILHGTKLNITM-QSSNCSGFIGMVEALRFMET----DIVAIIGPQCSTVAHIVSYVSNELQVPLLSF 126 (938)
Q Consensus 56 v~~iN~~~~il~g~~l~~~~-~D~~~~~~~a~~~a~~li~~----~V~aviGp~~s~~~~~va~~~~~~~iP~Is~ 126 (938)
.+.+|+.+-++||--|.... .|...||......+..+.+. ++.+|+|+-......+. .++...++|++-.
T Consensus 5 ~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la~-~lA~~Lg~p~v~v 79 (191)
T TIGR01744 5 KQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPAI-MTGLKLGVPVVFA 79 (191)
T ss_pred HHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHHH-HHHHHHCCCEEEE
Confidence 57789999999987777654 46666876555444444433 78999998777654433 3566678998864
No 484
>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=33.34 E-value=1.7e+02 Score=30.20 Aligned_cols=76 Identities=11% Similarity=0.020 Sum_probs=50.9
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|+++.+ ++.|.......+.+++++.|..+.... .. .+.....+.++.+...++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~---~~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVAN---TG--DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 566665 366777888899999999998875322 11 123455567778888899998887543332 3467777
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06285 76 RRGV 79 (265)
T ss_pred HcCC
Confidence 6554
No 485
>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=33.31 E-value=2.6e+02 Score=26.40 Aligned_cols=82 Identities=12% Similarity=0.127 Sum_probs=56.8
Q ss_pred HHHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEE
Q 002309 151 QMTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLH 230 (938)
Q Consensus 151 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~ 230 (938)
.++.+....++++-+++.++- |..-.......+...+.-.|+++... +.++....+.+-+..+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~lkma~P~gvk~~i~---------sve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVN-DDVANDEVRQTLMGIVAPTGFKVRFV---------SLEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEc-ccccCCHHHHHHHHhhCCCCCEEEEE---------EHHHHHHHHhCcCCCCceEEEEE
Confidence 367777788999999988774 44344445566666666678776532 14455555665455667999999
Q ss_pred eChhhHHHHHHH
Q 002309 231 VSPSLGFQVFSV 242 (938)
Q Consensus 231 ~~~~~~~~~l~~ 242 (938)
-++.++..+++.
T Consensus 83 k~~~da~~l~~~ 94 (151)
T TIGR00854 83 RNPQDVLTLVEG 94 (151)
T ss_pred CCHHHHHHHHHc
Confidence 999999988763
No 486
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.01 E-value=6.3e+02 Score=26.92 Aligned_cols=148 Identities=11% Similarity=0.103 Sum_probs=77.6
Q ss_pred CCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEE--cCC--ChhHHHHHHHhhccCCccEEEcccCCCCCCCCCCCceE
Q 002309 68 GTKLNITMQSSNCSGFIGMVEALRFMET-DIVAII--GPQ--CSTVAHIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFV 142 (938)
Q Consensus 68 g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~avi--Gp~--~s~~~~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~ 142 (938)
|.+.++.-.+...+.........++=++ .|.+|+ =|. .-........+.-..+|==+++............+.|.
T Consensus 60 Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id~~~i~~~I~p~KDVDGl~~~n~g~l~~~~~~~~~~ 139 (295)
T PRK14174 60 GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQIDEFAVTLAIDPAKDVDGFHPENLGRLVMGHLDKCFV 139 (295)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhcCCccccccccChhhHHHHhcCCCCCCcC
Confidence 4556665555555544444444444333 566665 232 22333333444445555444432221111111112222
Q ss_pred EecCCchHHHHHHHHHHHhcC----CcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHH
Q 002309 143 RTTQSDSYQMTAVAEMVSYYG----WNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVK 218 (938)
Q Consensus 143 r~~ps~~~~~~ai~~~l~~~~----w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~ 218 (938)
|- -..++.+++++|+ .+++++|.....-|+....-+.+.++..|..|..... .+.++...+
T Consensus 140 ---Pc---Tp~ail~ll~~y~i~l~Gk~vvViGrS~iVG~Pla~lL~~~~~~~~atVt~~hs-------~t~~l~~~~-- 204 (295)
T PRK14174 140 ---SC---TPYGILELLGRYNIETKGKHCVVVGRSNIVGKPMANLMLQKLKESNCTVTICHS-------ATKDIPSYT-- 204 (295)
T ss_pred ---CC---CHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHHHHhccccCCCEEEEEeC-------CchhHHHHH--
Confidence 22 2468899999875 5899999988888887777666555556666543221 133333332
Q ss_pred HhcCCceEEEEEeCh
Q 002309 219 VALMESRVIVLHVSP 233 (938)
Q Consensus 219 lk~~~~~viv~~~~~ 233 (938)
.++|++|.....
T Consensus 205 ---~~ADIvI~Avg~ 216 (295)
T PRK14174 205 ---RQADILIAAIGK 216 (295)
T ss_pred ---HhCCEEEEecCc
Confidence 358998887643
No 487
>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=32.98 E-value=2.6e+02 Score=30.11 Aligned_cols=80 Identities=6% Similarity=0.024 Sum_probs=52.0
Q ss_pred CcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHH
Q 002309 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFS 241 (938)
Q Consensus 164 w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~ 241 (938)
-+.|+++.. ++.|.......+.+.+++.|..+..... . .+.......+..+...+.|.||+..........++
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~-~----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 134 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS-D----DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQ 134 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHH
Confidence 357888875 3557777888999999999998764322 1 11333456677777788999888654332234566
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
.+.+.+.
T Consensus 135 ~l~~~~i 141 (327)
T TIGR02417 135 KLQNEGL 141 (327)
T ss_pred HHHhcCC
Confidence 6665553
No 488
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=32.93 E-value=1.9e+02 Score=31.41 Aligned_cols=80 Identities=14% Similarity=0.014 Sum_probs=56.5
Q ss_pred CcEEEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHH
Q 002309 164 WNAVSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVF 240 (938)
Q Consensus 164 w~~vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l 240 (938)
-.+|+++.. +++|.....+.+.+++++.|+.+..... . .+.......++.+...++|.|++...... ....+
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~--~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l 99 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---N--GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVI 99 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHH
Confidence 457777774 5778888999999999999998775321 1 22455667788888889999999764332 34566
Q ss_pred HHHHHcCC
Q 002309 241 SVAKYLGM 248 (938)
Q Consensus 241 ~~a~~~g~ 248 (938)
+.+.+.|.
T Consensus 100 ~~~~~~~i 107 (330)
T PRK10355 100 KEAKQEGI 107 (330)
T ss_pred HHHHHCCC
Confidence 77766563
No 489
>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=32.92 E-value=1.5e+02 Score=31.61 Aligned_cols=77 Identities=8% Similarity=0.085 Sum_probs=50.2
Q ss_pred EEEEEE---cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcC--CceEEEEEeChhhHHHHHH
Q 002309 167 VSVIFV---DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALM--ESRVIVLHVSPSLGFQVFS 241 (938)
Q Consensus 167 vaii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~--~~~viv~~~~~~~~~~~l~ 241 (938)
|+++.. ++.|.......+++++++.|+.+..... . .+.......++.+... ++|.|++.........+++
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~ 76 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA---E--RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLR 76 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC---C--CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHH
Confidence 556653 3456677788899999999988765321 1 1233445667777777 8999988644333445677
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
.+.+.|+
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 7777664
No 490
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=32.59 E-value=6.5e+02 Score=26.95 Aligned_cols=131 Identities=16% Similarity=0.143 Sum_probs=73.3
Q ss_pred EEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhcCcEEEE--cCCChhHH
Q 002309 32 VNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMETDIVAII--GPQCSTVA 109 (938)
Q Consensus 32 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~~V~avi--Gp~~s~~~ 109 (938)
-.|+.+|...+. ..+.+|+.|+.++. |..+.+...++.-.-...++-+.+.++.-+.+|+ .+..
T Consensus 39 k~~~~lF~epST---RTR~SFE~A~~~LG-------g~~i~l~~~~ss~~kgEsl~Dt~~vls~y~D~iviR~~~~---- 104 (302)
T PRK14805 39 KSVVMLFEKPSL---RTRVSFDIGINKLG-------GHCLYLDQQNGALGKRESVADFAANLSCWADAIVARVFSH---- 104 (302)
T ss_pred CEEEEEecCCCc---hHHHHHHHHHHHcC-------CcEEECCCCcCcCCCCcCHHHHHHHHHHhCCEEEEeCCCh----
Confidence 457777776653 67899999999874 2333332222221112223333333444344444 3322
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH---HhcC---CcEEEEEEEcCccccchHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV---SYYG---WNAVSVIFVDNEYGRNGVSA 183 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l---~~~~---w~~vaii~~d~~~g~~~~~~ 183 (938)
..+..+++..++|+|.... + ...| .+++++++ +++| -.+|+++.+ +......
T Consensus 105 ~~~~~~a~~~~vPVINa~~-~-----~~HP------------tQaL~Dl~Ti~e~~g~l~g~kva~vGD----~~~v~~S 162 (302)
T PRK14805 105 STIEQLAEHGSVPVINALC-D-----LYHP------------CQALADFLTLAEQFGDVSKVKLAYVGD----GNNVTHS 162 (302)
T ss_pred hHHHHHHHhCCCCEEECCC-C-----CCCh------------HHHHHHHHHHHHHhCCcCCcEEEEEcC----CCccHHH
Confidence 2345566667899997422 1 1223 46777763 3443 357888753 2346777
Q ss_pred HHHHHhhcceEEEEE
Q 002309 184 LNDKLAERRCRISYK 198 (938)
Q Consensus 184 l~~~l~~~g~~v~~~ 198 (938)
+..++...|.++...
T Consensus 163 ~~~~~~~~g~~v~~~ 177 (302)
T PRK14805 163 LMYGAAILGATMTVI 177 (302)
T ss_pred HHHHHHHcCCEEEEE
Confidence 788888889887654
No 491
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=32.58 E-value=1.8e+02 Score=30.24 Aligned_cols=84 Identities=17% Similarity=0.086 Sum_probs=49.4
Q ss_pred HHHHHHH--HHh---cCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceE
Q 002309 152 MTAVAEM--VSY---YGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRV 226 (938)
Q Consensus 152 ~~ai~~~--l~~---~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~v 226 (938)
++.++++ +.. ..-++|.++- |..+...+.+.|++.|..|.....|... ....+.......+...+.++
T Consensus 113 se~Ll~~~~l~~~~~~~~~~vLi~r-----g~~~r~~L~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~~~~~~~d~ 185 (255)
T PRK05752 113 SEALLALPALRQALAVPDPRVLIMR-----GEGGRELLAERLREQGASVDYLELYRRC--LPDYPAGTLLQRVEAERLNG 185 (255)
T ss_pred cHHHHhChhhhccccCCCCEEEEEc-----cCccHHHHHHHHHHCCCEEeEEEEEeec--CCCCCHHHHHHHHHhCCCCE
Confidence 5566654 332 2345666664 3445677899999999988765555322 11222334455555566777
Q ss_pred EEEEeChhhHHHHHHHH
Q 002309 227 IVLHVSPSLGFQVFSVA 243 (938)
Q Consensus 227 iv~~~~~~~~~~~l~~a 243 (938)
|++. ++..+..+++.+
T Consensus 186 v~ft-S~~~~~~~~~~~ 201 (255)
T PRK05752 186 LVVS-SGQGFEHLQQLA 201 (255)
T ss_pred EEEC-CHHHHHHHHHHh
Confidence 6665 666666676554
No 492
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=32.52 E-value=1.1e+02 Score=28.77 Aligned_cols=83 Identities=14% Similarity=0.100 Sum_probs=60.4
Q ss_pred HHHHHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 002309 152 MTAVAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHV 231 (938)
Q Consensus 152 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~ 231 (938)
++.+...+++++-+++.++- |........+.+.+.+.-.|+++... +.++....+.+....+.++++++-
T Consensus 14 GQV~~~W~~~~~~~~IiVvd-D~~A~D~~~k~~l~ma~P~gvk~~i~---------sv~~a~~~l~~~~~~~~~v~ii~k 83 (151)
T PF03830_consen 14 GQVATAWVKKLNANRIIVVD-DEVANDPFQKMILKMAAPAGVKLSIF---------SVEEAIEKLKKPEYSKKRVLIIVK 83 (151)
T ss_dssp TTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE----------HHHHHHHHCGGGGTTEEEEEEES
T ss_pred eeeeEEEhhhcccCEEEEEC-HHHhcCHHHHHHHHHhhcCCCceEEE---------EHHHHHHHHHhcccCCceEEEEEC
Confidence 56778889999999998874 44445556666666666778887642 255666777777767889999999
Q ss_pred ChhhHHHHHHHHH
Q 002309 232 SPSLGFQVFSVAK 244 (938)
Q Consensus 232 ~~~~~~~~l~~a~ 244 (938)
++.++..++++-.
T Consensus 84 ~~~d~~~l~~~g~ 96 (151)
T PF03830_consen 84 SPEDALRLVEAGV 96 (151)
T ss_dssp SHHHHHHHHHTT-
T ss_pred CHHHHHHHHhcCC
Confidence 9999988887543
No 493
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=32.34 E-value=1.9e+02 Score=29.65 Aligned_cols=75 Identities=15% Similarity=0.057 Sum_probs=48.9
Q ss_pred EEEEEEc--CccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|..+ +.|.......+.+++++.|+++..... . .+.......++++...++|.+++...... ..+++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT---N--FSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 4566643 456667788899999999988764321 1 12444556777887889999998754322 34556666
Q ss_pred HcC
Q 002309 245 YLG 247 (938)
Q Consensus 245 ~~g 247 (938)
+.|
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 555
No 494
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=32.31 E-value=2.7e+02 Score=25.84 Aligned_cols=61 Identities=16% Similarity=0.120 Sum_probs=37.6
Q ss_pred cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHH----HHHhcCCceEEEEEeChhhHH
Q 002309 173 DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLL----VKVALMESRVIVLHVSPSLGF 237 (938)
Q Consensus 173 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l----~~lk~~~~~viv~~~~~~~~~ 237 (938)
.|..|....+.+.+.|++.|.+|........+ ..||...- +.+.+...+.-|+.|......
T Consensus 6 sDh~g~~lK~~i~~~L~~~g~eV~D~G~~~~~----~~dy~~~a~~va~~V~~~~~d~GIliCgtGiG~ 70 (140)
T PF02502_consen 6 SDHAGFELKEAIKEYLEEKGYEVIDFGTYSED----SVDYPDFAEKVAEAVASGEADRGILICGTGIGM 70 (140)
T ss_dssp E-GGGHHHHHHHHHHHHHTTEEEEEESESSTS----T--HHHHHHHHHHHHHTTSSSEEEEEESSSHHH
T ss_pred eCHHHHHHHHHHHHHHHHCCCEEEEeCCCCCC----CCCHHHHHHHHHHHHHcccCCeEEEEcCCChhh
Confidence 45678889999999999999999877666544 33333333 344445555555554444433
No 495
>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=32.08 E-value=1.4e+02 Score=31.06 Aligned_cols=80 Identities=11% Similarity=0.015 Sum_probs=50.5
Q ss_pred EEEEEEEc--CccccchHHHHHHHHhhcceEEEEEeec-CCCCCCChhhHHHHHHHHhcCCceEEEEEeChhh-HHHHHH
Q 002309 166 AVSVIFVD--NEYGRNGVSALNDKLAERRCRISYKSGI-PPESGVNTGYVMDLLVKVALMESRVIVLHVSPSL-GFQVFS 241 (938)
Q Consensus 166 ~vaii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~-~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~-~~~~l~ 241 (938)
+|+++..+ +.|.....+.+.+++++.|..+...... ... .+.......+..+.. ++|.|++...... ...+++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~ 77 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVES--FDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVA 77 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccC--CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHH
Confidence 46777754 5577778888999999988654332221 111 123445567777777 8999888654333 346778
Q ss_pred HHHHcCC
Q 002309 242 VAKYLGM 248 (938)
Q Consensus 242 ~a~~~g~ 248 (938)
++.+.|.
T Consensus 78 ~~~~~~i 84 (275)
T cd06307 78 RLAAAGV 84 (275)
T ss_pred HHHHCCC
Confidence 8887664
No 496
>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=32.06 E-value=1.8e+02 Score=29.90 Aligned_cols=76 Identities=12% Similarity=0.083 Sum_probs=49.2
Q ss_pred EEEEEE--cCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChhhHHHHHHHHH
Q 002309 167 VSVIFV--DNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPSLGFQVFSVAK 244 (938)
Q Consensus 167 vaii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~~~~~~l~~a~ 244 (938)
|++|.. ++.|-......+.+++++.|+.+..... . .+..+....++++...++|.|++...... ...++.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~ 75 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT---G--YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLR 75 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC---C--CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHH
Confidence 456664 3556667778889999999988764321 1 22445567788888888999888754332 34555555
Q ss_pred HcCC
Q 002309 245 YLGM 248 (938)
Q Consensus 245 ~~g~ 248 (938)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd01575 76 AAGI 79 (268)
T ss_pred hcCC
Confidence 5554
No 497
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=31.97 E-value=6.7e+02 Score=26.90 Aligned_cols=136 Identities=18% Similarity=0.218 Sum_probs=73.4
Q ss_pred eEEEEEEeeCCCcchhHHHHHHHHHHHHHhcCCCCCCCCEEEEEEccCCCChHHHHHHHHHHHhc-CcEEEEcCCChhHH
Q 002309 31 VVNVGALFTLDSTIGRVAKIAIEEAVKDVNSNSSILHGTKLNITMQSSNCSGFIGMVEALRFMET-DIVAIIGPQCSTVA 109 (938)
Q Consensus 31 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~D~~~~~~~a~~~a~~li~~-~V~aviGp~~s~~~ 109 (938)
.-.|+.+|-..+. ..+.+|+.|+.++. |..+.+...++...-...++-+.+.++. ++.+|+-=. ..-
T Consensus 45 gk~~~~lF~~pST---RTR~SFe~A~~~LG-------g~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~--~~~ 112 (305)
T PRK00856 45 GKTVANLFFEPST---RTRLSFELAAKRLG-------ADVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRH--PQS 112 (305)
T ss_pred CcEEEEEeccCCc---chHHHHHHHHHHcC-------CcEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeC--CCh
Confidence 3457778766553 57899999999873 2333332223222222333344444444 355554211 122
Q ss_pred HHHHHhhccCCccEEEcccCCCCCCCCCCCceEEecCCchHHHHHHHHHH---HhcC-C--cEEEEEEEcCccccchHHH
Q 002309 110 HIVSYVSNELQVPLLSFGVTDPTLSSLQYPFFVRTTQSDSYQMTAVAEMV---SYYG-W--NAVSVIFVDNEYGRNGVSA 183 (938)
Q Consensus 110 ~~va~~~~~~~iP~Is~~~~~~~l~~~~~p~~~r~~ps~~~~~~ai~~~l---~~~~-w--~~vaii~~d~~~g~~~~~~ 183 (938)
..+..++...+||+|....++ ...| .+++++++ +++| + .+|+++. |..++ .....
T Consensus 113 ~~~~~~a~~~~vPVINa~~g~-----~~HP------------tQ~LaDl~Ti~e~~G~l~g~kv~~vG-D~~~~-~v~~S 173 (305)
T PRK00856 113 GAARLLAESSDVPVINAGDGS-----HQHP------------TQALLDLLTIREEFGRLEGLKVAIVG-DIKHS-RVARS 173 (305)
T ss_pred HHHHHHHHHCCCCEEECCCCC-----CCCc------------HHHHHHHHHHHHHhCCCCCCEEEEEC-CCCCC-cHHHH
Confidence 245566667899999742221 1122 46666663 3443 3 4676665 33233 45566
Q ss_pred HHHHHhhcceEEEE
Q 002309 184 LNDKLAERRCRISY 197 (938)
Q Consensus 184 l~~~l~~~g~~v~~ 197 (938)
+...+...|.++..
T Consensus 174 l~~~~~~~g~~~~~ 187 (305)
T PRK00856 174 NIQALTRLGAEVRL 187 (305)
T ss_pred HHHHHHHcCCEEEE
Confidence 77778888887654
No 498
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=31.96 E-value=96 Score=25.55 Aligned_cols=17 Identities=29% Similarity=0.446 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 002309 841 FLICGVACFIALVIYFL 857 (938)
Q Consensus 841 f~il~~g~~la~~vf~~ 857 (938)
++.+.+.++++.+++..
T Consensus 9 iialiv~~iiaIvvW~i 25 (81)
T PF00558_consen 9 IIALIVALIIAIVVWTI 25 (81)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455555555555554
No 499
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=31.90 E-value=3.7e+02 Score=26.71 Aligned_cols=86 Identities=12% Similarity=0.030 Sum_probs=51.2
Q ss_pred cEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeCh----hhHHHHH
Q 002309 165 NAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSP----SLGFQVF 240 (938)
Q Consensus 165 ~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~----~~~~~~l 240 (938)
.+|.+.....+.-.-+..-+...++..|++|.+-. .+ ......+..+++.++++|.+.+.. .....++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG---~~-----~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i 154 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLG---RD-----VPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVI 154 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHH
Confidence 35554444444444556777788888999886422 21 123345566666789988886532 4566677
Q ss_pred HHHHHcCCCCCCeEEEEe
Q 002309 241 SVAKYLGMMGNGYVWIAT 258 (938)
Q Consensus 241 ~~a~~~g~~~~~~~wi~~ 258 (938)
++.++.+....-.++++.
T Consensus 155 ~~lr~~~~~~~~~i~vGG 172 (201)
T cd02070 155 EALKEAGLRDKVKVMVGG 172 (201)
T ss_pred HHHHHCCCCcCCeEEEEC
Confidence 777776543333455554
No 500
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.84 E-value=5.1e+02 Score=28.57 Aligned_cols=100 Identities=11% Similarity=0.066 Sum_probs=0.0
Q ss_pred HHHHHHhcCCcEEEEEEEcCccccchHHHHHHHHhhcceEEEEEeecCCCCCCChhhHHHHHHHHhcCCceEEEEEeChh
Q 002309 155 VAEMVSYYGWNAVSVIFVDNEYGRNGVSALNDKLAERRCRISYKSGIPPESGVNTGYVMDLLVKVALMESRVIVLHVSPS 234 (938)
Q Consensus 155 i~~~l~~~~w~~vaii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~lk~~~~~viv~~~~~~ 234 (938)
++-++++.||+..-+.. |.|=.+...++...+.+.++.+-....-... ..-...-+.+.|+.+.|+||+.+++.
T Consensus 121 lA~y~kkkG~K~~Lvca--DTFRagAfDQLkqnA~k~~iP~ygsyte~dp----v~ia~egv~~fKke~fdvIIvDTSGR 194 (483)
T KOG0780|consen 121 LAYYYKKKGYKVALVCA--DTFRAGAFDQLKQNATKARVPFYGSYTEADP----VKIASEGVDRFKKENFDVIIVDTSGR 194 (483)
T ss_pred HHHHHHhcCCceeEEee--cccccchHHHHHHHhHhhCCeeEecccccch----HHHHHHHHHHHHhcCCcEEEEeCCCc
Q ss_pred --hHHHHHHHHHHc-CCCCCCeEEEEeCc
Q 002309 235 --LGFQVFSVAKYL-GMMGNGYVWIATDW 260 (938)
Q Consensus 235 --~~~~~l~~a~~~-g~~~~~~~wi~~~~ 260 (938)
+-..++.+..+. +...+..+.+.-|+
T Consensus 195 h~qe~sLfeEM~~v~~ai~Pd~vi~VmDa 223 (483)
T KOG0780|consen 195 HKQEASLFEEMKQVSKAIKPDEIIFVMDA 223 (483)
T ss_pred hhhhHHHHHHHHHHHhhcCCCeEEEEEec
Done!