Query 002368
Match_columns 930
No_of_seqs 628 out of 3735
Neff 9.6
Searched_HMMs 46136
Date Thu Mar 28 22:28:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002368hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 7.2E-83 1.6E-87 665.4 50.5 779 22-853 22-846 (897)
2 KOG4440 NMDA selective glutama 100.0 1.7E-78 3.6E-83 635.4 39.7 751 20-853 29-858 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 2.7E-71 5.8E-76 602.6 57.8 705 75-847 83-851 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 6E-65 1.3E-69 607.9 55.2 594 209-852 4-624 (656)
5 cd06361 PBP1_GPC6A_like Ligand 100.0 7.1E-47 1.5E-51 423.3 40.0 337 40-416 34-396 (403)
6 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1E-46 2.2E-51 422.6 39.6 365 26-418 2-382 (384)
7 cd06362 PBP1_mGluR Ligand bind 100.0 1.2E-46 2.6E-51 432.6 39.9 371 25-417 1-450 (452)
8 cd06374 PBP1_mGluR_groupI Liga 100.0 1.7E-46 3.7E-51 431.6 40.4 375 22-419 5-469 (472)
9 cd06375 PBP1_mGluR_groupII Lig 100.0 4.6E-46 1E-50 423.9 41.0 365 25-413 1-454 (458)
10 cd06364 PBP1_CaSR Ligand-bindi 100.0 9.9E-46 2.1E-50 425.4 41.9 374 22-414 8-494 (510)
11 cd06376 PBP1_mGluR_groupIII Li 100.0 1.1E-45 2.5E-50 424.0 40.8 367 25-413 1-452 (463)
12 cd06366 PBP1_GABAb_receptor Li 100.0 7E-46 1.5E-50 412.6 37.4 339 28-419 1-348 (350)
13 cd06392 PBP1_iGluR_delta_1 N-t 100.0 3.5E-45 7.5E-50 401.5 39.8 363 28-418 1-399 (400)
14 cd06365 PBP1_Pheromone_recepto 100.0 2.6E-45 5.6E-50 419.6 38.6 369 25-414 1-453 (469)
15 cd06380 PBP1_iGluR_AMPA N-term 100.0 1.2E-44 2.6E-49 407.1 41.2 372 28-417 1-381 (382)
16 cd06363 PBP1_Taste_receptor Li 100.0 1.1E-44 2.5E-49 409.8 39.1 353 23-414 3-396 (410)
17 cd06386 PBP1_NPR_C_like Ligand 100.0 1.9E-44 4.1E-49 404.0 38.9 353 30-415 3-380 (387)
18 cd06370 PBP1_Speract_GC_like L 100.0 1.7E-44 3.6E-49 407.6 38.5 349 27-404 1-386 (404)
19 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 3.8E-44 8.2E-49 401.7 40.4 334 22-414 15-364 (377)
20 cd06371 PBP1_sensory_GC_DEF_li 100.0 2.3E-44 4.9E-49 402.2 37.8 349 28-411 1-369 (382)
21 cd06373 PBP1_NPR_like Ligand b 100.0 3.2E-44 7E-49 405.4 36.4 359 28-415 1-390 (396)
22 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 1.1E-43 2.4E-48 390.5 38.6 355 28-417 1-363 (364)
23 cd06372 PBP1_GC_G_like Ligand- 100.0 1E-43 2.2E-48 400.7 38.6 358 28-415 1-387 (391)
24 cd06352 PBP1_NPR_GC_like Ligan 100.0 9.6E-44 2.1E-48 401.5 38.4 361 28-416 1-384 (389)
25 cd06385 PBP1_NPR_A Ligand-bind 100.0 1.4E-43 3.1E-48 401.2 38.0 357 28-415 1-392 (405)
26 cd06391 PBP1_iGluR_delta_2 N-t 100.0 4.6E-43 9.9E-48 389.6 39.7 366 28-418 1-399 (400)
27 cd06367 PBP1_iGluR_NMDA N-term 100.0 1.8E-43 4E-48 394.4 36.4 339 26-413 2-351 (362)
28 PRK15404 leucine ABC transport 100.0 9.9E-43 2.1E-47 387.1 36.7 342 19-404 18-364 (369)
29 cd06382 PBP1_iGluR_Kainate N-t 100.0 4.3E-43 9.4E-48 386.1 32.1 316 28-417 1-326 (327)
30 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.1E-42 4.5E-47 390.2 37.7 357 28-415 1-393 (399)
31 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 2.3E-41 5E-46 370.6 40.1 360 29-417 2-371 (372)
32 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3E-41 6.4E-46 373.1 40.2 361 28-418 1-370 (371)
33 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 2E-41 4.3E-46 375.7 38.9 360 28-418 1-369 (370)
34 cd06394 PBP1_iGluR_Kainate_KA1 100.0 2.8E-41 6E-46 364.2 29.1 323 28-418 1-332 (333)
35 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 1.8E-39 3.9E-44 359.2 35.6 328 28-399 1-334 (334)
36 cd06346 PBP1_ABC_ligand_bindin 100.0 6.9E-40 1.5E-44 357.7 30.8 304 28-396 1-310 (312)
37 KOG1056 Glutamate-gated metabo 100.0 3.4E-39 7.4E-44 366.7 36.6 392 22-456 27-494 (878)
38 cd06368 PBP1_iGluR_non_NMDA_li 100.0 1.6E-39 3.5E-44 357.7 33.1 316 28-417 1-323 (324)
39 COG0683 LivK ABC-type branched 100.0 2.4E-39 5.2E-44 359.3 34.5 340 23-403 7-356 (366)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 3.5E-39 7.5E-44 358.4 34.7 328 28-398 1-344 (345)
41 cd06355 PBP1_FmdD_like Peripla 100.0 4.8E-39 1E-43 356.1 35.4 337 28-407 1-344 (348)
42 cd06345 PBP1_ABC_ligand_bindin 100.0 5.8E-39 1.3E-43 355.9 34.6 321 28-391 1-338 (344)
43 TIGR03669 urea_ABC_arch urea A 100.0 7.5E-39 1.6E-43 354.8 35.4 341 27-412 1-349 (374)
44 cd06348 PBP1_ABC_ligand_bindin 100.0 2E-38 4.4E-43 351.7 35.2 334 28-396 1-343 (344)
45 TIGR03407 urea_ABC_UrtA urea A 100.0 7.2E-38 1.6E-42 348.0 37.2 330 27-400 1-338 (359)
46 cd06344 PBP1_ABC_ligand_bindin 100.0 2.6E-38 5.6E-43 348.7 31.5 321 28-393 1-328 (332)
47 cd06350 PBP1_GPCR_family_C_lik 100.0 5.2E-38 1.1E-42 349.5 32.0 309 28-414 1-340 (348)
48 cd06329 PBP1_SBP_like_3 Peripl 100.0 9E-38 1.9E-42 345.7 32.4 319 28-391 1-337 (342)
49 cd06340 PBP1_ABC_ligand_bindin 100.0 9.1E-38 2E-42 346.2 31.9 324 28-392 1-342 (347)
50 PF01094 ANF_receptor: Recepto 100.0 1.8E-37 3.9E-42 345.6 33.3 334 43-400 2-348 (348)
51 cd06331 PBP1_AmiC_like Type I 100.0 4.2E-37 9.2E-42 339.4 33.5 319 28-389 1-325 (333)
52 cd06343 PBP1_ABC_ligand_bindin 100.0 1E-36 2.2E-41 340.6 36.0 341 23-403 3-361 (362)
53 cd06327 PBP1_SBP_like_1 Peripl 100.0 3.6E-37 7.9E-42 340.1 30.3 321 28-393 1-331 (334)
54 cd06349 PBP1_ABC_ligand_bindin 100.0 2.1E-36 4.6E-41 335.0 35.3 330 28-403 1-339 (340)
55 cd06357 PBP1_AmiC Periplasmic 100.0 4.2E-36 9.1E-41 334.0 36.9 341 28-409 1-347 (360)
56 cd06381 PBP1_iGluR_delta_like 100.0 7E-36 1.5E-40 328.5 36.8 333 28-417 1-362 (363)
57 cd06328 PBP1_SBP_like_2 Peripl 100.0 2.5E-36 5.5E-41 332.4 32.9 322 28-394 1-331 (333)
58 cd06359 PBP1_Nba_like Type I p 100.0 3.3E-36 7.1E-41 332.1 33.2 324 28-397 1-331 (333)
59 cd06336 PBP1_ABC_ligand_bindin 100.0 1.6E-36 3.4E-41 336.3 30.6 324 28-394 1-344 (347)
60 cd06347 PBP1_ABC_ligand_bindin 100.0 9.5E-36 2.1E-40 329.5 34.8 322 28-394 1-331 (334)
61 cd06356 PBP1_Amide_Urea_BP_lik 100.0 9.1E-36 2E-40 328.1 33.8 316 28-387 1-324 (334)
62 cd06334 PBP1_ABC_ligand_bindin 100.0 7.6E-36 1.6E-40 329.6 31.8 329 28-386 1-345 (351)
63 cd06358 PBP1_NHase Type I peri 100.0 2E-35 4.3E-40 325.9 33.5 319 28-393 1-328 (333)
64 cd06360 PBP1_alkylbenzenes_lik 100.0 3E-35 6.6E-40 325.7 34.3 325 28-394 1-332 (336)
65 PF13458 Peripla_BP_6: Peripla 100.0 1.1E-35 2.5E-40 330.2 30.8 335 26-403 1-342 (343)
66 cd06330 PBP1_Arsenic_SBP_like 100.0 1.4E-35 3.1E-40 329.4 31.3 320 28-386 1-333 (346)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 7.9E-35 1.7E-39 322.7 32.7 317 28-386 1-335 (347)
68 PF13433 Peripla_BP_5: Peripla 100.0 4.6E-34 1E-38 299.3 31.3 316 27-388 1-326 (363)
69 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 3.1E-34 6.6E-39 315.0 29.6 300 73-414 43-351 (362)
70 cd06332 PBP1_aromatic_compound 100.0 1.7E-33 3.7E-38 311.4 33.4 320 28-392 1-327 (333)
71 cd06337 PBP1_ABC_ligand_bindin 100.0 7.5E-34 1.6E-38 315.8 29.5 330 28-403 1-356 (357)
72 TIGR03863 PQQ_ABC_bind ABC tra 100.0 1.7E-32 3.6E-37 299.5 26.2 303 37-399 7-315 (347)
73 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 1.3E-31 2.8E-36 295.8 31.9 315 28-413 1-322 (328)
74 cd06383 PBP1_iGluR_AMPA_Like N 100.0 4.3E-32 9.2E-37 299.1 27.4 328 35-390 6-351 (368)
75 cd06339 PBP1_YraM_LppC_lipopro 100.0 3E-32 6.6E-37 299.7 24.6 302 28-389 1-329 (336)
76 cd06326 PBP1_STKc_like Type I 100.0 4E-31 8.6E-36 292.7 33.6 317 27-385 1-326 (336)
77 KOG1055 GABA-B ion channel rec 100.0 9.7E-32 2.1E-36 294.9 19.0 371 22-415 37-431 (865)
78 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 6.7E-29 1.4E-33 267.4 37.0 341 23-417 15-374 (382)
79 cd06341 PBP1_ABC_ligand_bindin 100.0 1.6E-29 3.5E-34 280.2 30.3 308 28-379 1-318 (341)
80 cd06333 PBP1_ABC-type_HAAT_lik 100.0 7E-29 1.5E-33 271.4 30.2 278 28-322 1-293 (312)
81 cd04509 PBP1_ABC_transporter_G 100.0 4.7E-28 1E-32 263.3 27.3 280 28-320 1-290 (299)
82 cd06269 PBP1_glutamate_recepto 100.0 1.2E-27 2.6E-32 260.0 28.8 224 28-259 1-235 (298)
83 cd06268 PBP1_ABC_transporter_L 100.0 2.8E-26 6.1E-31 249.2 28.7 280 28-322 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1E-22 2.2E-27 212.9 28.5 324 41-415 18-366 (380)
85 PRK09495 glnH glutamine ABC tr 99.9 3.8E-21 8.2E-26 202.3 21.5 219 460-801 23-243 (247)
86 PRK10797 glutamate and asparta 99.9 6.1E-21 1.3E-25 205.3 22.6 224 460-802 38-272 (302)
87 PF00497 SBP_bac_3: Bacterial 99.9 7.6E-21 1.6E-25 197.3 16.1 221 464-801 1-224 (225)
88 PRK11260 cystine transporter s 99.9 4.3E-20 9.4E-25 196.5 21.4 221 460-801 39-261 (266)
89 PRK15010 ABC transporter lysin 99.9 5.6E-20 1.2E-24 194.9 22.2 223 459-801 23-254 (260)
90 PRK11917 bifunctional adhesin/ 99.8 8.7E-20 1.9E-24 192.4 22.1 219 460-800 36-258 (259)
91 TIGR01096 3A0103s03R lysine-ar 99.8 1.3E-19 2.9E-24 191.4 21.2 219 461-800 23-250 (250)
92 PRK15007 putative ABC transpor 99.8 1.6E-19 3.5E-24 189.7 21.6 218 460-801 19-242 (243)
93 PRK15437 histidine ABC transpo 99.8 2.1E-19 4.6E-24 190.4 20.9 222 460-801 24-254 (259)
94 TIGR02995 ectoine_ehuB ectoine 99.8 4.4E-19 9.4E-24 189.5 19.9 223 460-801 31-261 (275)
95 PRK10859 membrane-bound lytic 99.8 7E-18 1.5E-22 193.3 19.6 221 460-801 41-266 (482)
96 PRK09959 hybrid sensory histid 99.7 3.3E-17 7.1E-22 211.7 22.5 216 461-801 301-520 (1197)
97 PF00060 Lig_chan: Ligand-gate 99.7 6.9E-19 1.5E-23 169.3 1.3 107 583-689 1-115 (148)
98 TIGR03870 ABC_MoxJ methanol ox 99.7 8.2E-17 1.8E-21 168.7 16.4 208 463-799 1-241 (246)
99 TIGR02285 conserved hypothetic 99.7 2.4E-16 5.2E-21 167.8 16.8 230 460-801 16-261 (268)
100 cd01391 Periplasmic_Binding_Pr 99.7 3.1E-15 6.7E-20 159.1 24.1 257 28-320 1-261 (269)
101 cd00134 PBPb Bacterial peripla 99.7 1.5E-15 3.2E-20 156.0 20.8 214 464-800 1-218 (218)
102 COG0834 HisJ ABC-type amino ac 99.7 1.2E-15 2.5E-20 163.8 20.1 225 460-801 32-264 (275)
103 smart00062 PBPb Bacterial peri 99.7 3.2E-15 6.9E-20 153.5 20.0 215 463-800 1-219 (219)
104 PRK09959 hybrid sensory histid 99.7 9.5E-16 2.1E-20 198.2 19.2 226 453-802 49-278 (1197)
105 TIGR03871 ABC_peri_MoxJ_2 quin 99.6 6.6E-15 1.4E-19 153.5 18.5 211 463-800 1-228 (232)
106 PF04348 LppC: LppC putative l 99.5 3E-12 6.4E-17 146.8 22.8 306 24-396 217-530 (536)
107 smart00079 PBPe Eukaryotic hom 99.4 3.5E-12 7.7E-17 120.2 11.3 123 678-801 1-133 (134)
108 COG4623 Predicted soluble lyti 99.4 6.8E-12 1.5E-16 128.3 13.8 220 460-801 21-247 (473)
109 cd01537 PBP1_Repressors_Sugar_ 99.1 6.7E-09 1.5E-13 110.2 20.4 205 28-252 1-211 (264)
110 cd01536 PBP1_ABC_sugar_binding 99.0 6.5E-08 1.4E-12 103.0 23.6 207 28-254 1-215 (267)
111 cd06267 PBP1_LacI_sugar_bindin 98.9 6.9E-08 1.5E-12 102.5 20.3 205 28-252 1-210 (264)
112 TIGR01098 3A0109s03R phosphate 98.9 1.4E-08 2.9E-13 107.5 14.5 199 461-786 31-254 (254)
113 cd06325 PBP1_ABC_uncharacteriz 98.9 8.6E-08 1.9E-12 103.0 20.7 201 28-243 1-208 (281)
114 cd06300 PBP1_ABC_sugar_binding 98.9 2.3E-07 5E-12 99.2 23.2 202 28-246 1-211 (272)
115 PRK00489 hisG ATP phosphoribos 98.8 3.1E-08 6.8E-13 105.6 11.5 164 520-801 51-219 (287)
116 cd06320 PBP1_allose_binding Pe 98.8 1.3E-06 2.8E-11 93.5 23.9 208 28-254 1-216 (275)
117 cd06282 PBP1_GntR_like_2 Ligan 98.6 3.1E-06 6.7E-11 90.0 21.4 200 28-249 1-206 (266)
118 PRK10653 D-ribose transporter 98.6 6.9E-06 1.5E-10 88.9 24.0 209 25-254 25-240 (295)
119 COG3107 LppC Putative lipoprot 98.6 2.5E-06 5.3E-11 92.3 18.0 317 23-404 254-600 (604)
120 PF10613 Lig_chan-Glu_bd: Liga 98.6 1.9E-08 4.2E-13 78.4 1.1 49 483-531 14-65 (65)
121 cd06323 PBP1_ribose_binding Pe 98.6 1.1E-05 2.3E-10 86.0 22.7 204 29-254 2-214 (268)
122 COG2984 ABC-type uncharacteriz 98.5 1.4E-05 3E-10 82.5 21.2 204 22-243 26-240 (322)
123 cd06273 PBP1_GntR_like_1 This 98.5 1.2E-05 2.6E-10 85.6 21.5 200 28-249 1-208 (268)
124 cd06317 PBP1_ABC_sugar_binding 98.5 1.4E-05 3E-10 85.5 22.0 210 28-254 1-221 (275)
125 cd06319 PBP1_ABC_sugar_binding 98.5 1.8E-05 3.9E-10 84.7 22.8 208 28-254 1-219 (277)
126 cd06312 PBP1_ABC_sugar_binding 98.4 5.4E-05 1.2E-09 80.8 23.3 209 28-254 1-217 (271)
127 cd06305 PBP1_methylthioribose_ 98.4 5.2E-05 1.1E-09 80.9 22.3 208 28-254 1-217 (273)
128 cd06301 PBP1_rhizopine_binding 98.3 7.9E-05 1.7E-09 79.5 23.0 209 28-254 1-218 (272)
129 cd06310 PBP1_ABC_sugar_binding 98.3 0.00014 3.1E-09 77.6 24.4 209 28-254 1-217 (273)
130 PF13407 Peripla_BP_4: Peripla 98.3 6.5E-05 1.4E-09 79.4 20.7 202 29-246 1-209 (257)
131 cd01545 PBP1_SalR Ligand-bindi 98.3 8.2E-05 1.8E-09 79.2 20.9 207 29-254 2-215 (270)
132 cd06309 PBP1_YtfQ_like Peripla 98.3 0.0002 4.4E-09 76.4 23.4 208 28-252 1-218 (273)
133 PRK10936 TMAO reductase system 98.2 0.00036 7.8E-09 77.2 24.7 200 24-243 44-254 (343)
134 TIGR03431 PhnD phosphonate ABC 98.2 3.1E-05 6.6E-10 83.4 15.4 117 677-795 125-258 (288)
135 cd06298 PBP1_CcpA_like Ligand- 98.2 0.00018 4E-09 76.4 20.8 207 28-254 1-213 (268)
136 PRK09701 D-allose transporter 98.1 0.00071 1.5E-08 73.7 25.1 213 28-254 26-250 (311)
137 cd01539 PBP1_GGBP Periplasmic 98.1 0.00055 1.2E-08 74.3 23.8 208 28-246 1-228 (303)
138 cd06289 PBP1_MalI_like Ligand- 98.1 0.00026 5.6E-09 75.2 20.4 208 28-254 1-214 (268)
139 cd06303 PBP1_LuxPQ_Quorum_Sens 98.1 0.00068 1.5E-08 72.7 23.4 213 28-254 1-224 (280)
140 cd06311 PBP1_ABC_sugar_binding 98.1 0.0011 2.3E-08 70.8 24.6 212 29-255 2-220 (274)
141 cd01542 PBP1_TreR_like Ligand- 98.1 0.00038 8.3E-09 73.6 20.5 201 29-253 2-207 (259)
142 COG1879 RbsB ABC-type sugar tr 98.0 0.00075 1.6E-08 74.0 23.1 210 22-245 29-245 (322)
143 cd06284 PBP1_LacI_like_6 Ligan 98.0 0.00051 1.1E-08 72.9 21.1 198 29-247 2-204 (267)
144 cd06308 PBP1_sensor_kinase_lik 98.0 0.001 2.2E-08 70.9 23.2 208 28-255 1-217 (270)
145 cd06271 PBP1_AglR_RafR_like Li 98.0 0.00066 1.4E-08 72.1 20.8 200 29-249 2-211 (268)
146 cd06281 PBP1_LacI_like_5 Ligan 98.0 0.00049 1.1E-08 73.3 19.7 201 28-249 1-206 (269)
147 PRK10355 xylF D-xylose transpo 98.0 0.0014 3.1E-08 71.9 23.4 204 22-244 21-236 (330)
148 cd01540 PBP1_arabinose_binding 98.0 0.0016 3.4E-08 70.2 23.4 215 28-254 1-229 (289)
149 PRK15395 methyl-galactoside AB 98.0 0.002 4.3E-08 70.9 24.4 210 22-243 20-249 (330)
150 cd06313 PBP1_ABC_sugar_binding 97.9 0.0024 5.1E-08 68.1 23.9 197 38-254 12-216 (272)
151 TIGR01481 ccpA catabolite cont 97.9 0.0013 2.7E-08 72.5 22.4 201 25-247 58-264 (329)
152 cd01575 PBP1_GntR Ligand-bindi 97.9 0.0011 2.3E-08 70.4 20.9 201 29-249 2-207 (268)
153 cd06306 PBP1_TorT-like TorT-li 97.9 0.0018 4E-08 68.8 22.6 196 28-243 1-207 (268)
154 cd06321 PBP1_ABC_sugar_binding 97.9 0.002 4.4E-08 68.5 22.8 206 28-254 1-214 (271)
155 PF00532 Peripla_BP_1: Peripla 97.9 0.0011 2.4E-08 70.7 20.4 206 28-252 3-214 (279)
156 cd06322 PBP1_ABC_sugar_binding 97.9 0.0031 6.8E-08 66.9 23.9 194 29-243 2-203 (267)
157 cd06295 PBP1_CelR Ligand bindi 97.9 0.0012 2.6E-08 70.5 20.4 204 27-254 4-222 (275)
158 cd06324 PBP1_ABC_sugar_binding 97.9 0.0027 5.8E-08 69.0 23.3 210 29-254 2-238 (305)
159 cd06288 PBP1_sucrose_transcrip 97.9 0.0011 2.4E-08 70.4 20.0 203 28-253 1-211 (269)
160 cd01538 PBP1_ABC_xylose_bindin 97.9 0.0028 6.1E-08 68.2 23.2 199 28-245 1-216 (288)
161 cd06275 PBP1_PurR Ligand-bindi 97.9 0.0016 3.6E-08 69.1 21.1 206 28-252 1-211 (269)
162 cd06299 PBP1_LacI_like_13 Liga 97.8 0.0017 3.6E-08 68.9 20.8 205 28-252 1-208 (265)
163 cd06283 PBP1_RegR_EndR_KdgR_li 97.8 0.0022 4.7E-08 68.1 21.6 204 28-251 1-210 (267)
164 cd06278 PBP1_LacI_like_2 Ligan 97.8 0.0017 3.8E-08 68.7 20.6 191 29-242 2-197 (266)
165 cd06270 PBP1_GalS_like Ligand 97.8 0.0031 6.8E-08 67.0 22.6 200 28-247 1-205 (268)
166 cd06316 PBP1_ABC_sugar_binding 97.8 0.0044 9.6E-08 66.9 24.0 211 28-254 1-219 (294)
167 cd01574 PBP1_LacI Ligand-bindi 97.8 0.0036 7.8E-08 66.3 22.9 197 28-247 1-202 (264)
168 PRK15408 autoinducer 2-binding 97.8 0.0054 1.2E-07 67.3 24.6 200 27-243 24-233 (336)
169 cd06274 PBP1_FruR Ligand bindi 97.8 0.0038 8.2E-08 66.2 22.1 205 28-252 1-211 (264)
170 cd06285 PBP1_LacI_like_7 Ligan 97.8 0.0036 7.7E-08 66.4 21.8 197 28-247 1-203 (265)
171 cd06318 PBP1_ABC_sugar_binding 97.8 0.0064 1.4E-07 65.1 23.9 200 28-244 1-215 (282)
172 cd06293 PBP1_LacI_like_11 Liga 97.8 0.004 8.7E-08 66.2 22.1 205 28-252 1-210 (269)
173 PRK11303 DNA-binding transcrip 97.8 0.005 1.1E-07 67.7 23.3 206 25-252 60-271 (328)
174 PRK10014 DNA-binding transcrip 97.8 0.0047 1E-07 68.3 23.3 203 25-246 63-270 (342)
175 COG1609 PurR Transcriptional r 97.7 0.0062 1.4E-07 66.7 23.4 202 24-247 56-265 (333)
176 PRK10703 DNA-binding transcrip 97.7 0.0031 6.7E-08 69.8 21.3 208 26-252 59-272 (341)
177 cd06294 PBP1_ycjW_transcriptio 97.7 0.0039 8.5E-08 66.2 20.5 200 28-249 1-213 (270)
178 cd06302 PBP1_LsrB_Quorum_Sensi 97.7 0.01 2.3E-07 64.1 23.9 210 28-254 1-219 (298)
179 cd06292 PBP1_LacI_like_10 Liga 97.7 0.0071 1.5E-07 64.4 22.3 206 29-252 2-214 (273)
180 cd06314 PBP1_tmGBP Periplasmic 97.7 0.014 2.9E-07 62.2 24.2 206 28-254 1-213 (271)
181 TIGR02955 TMAO_TorT TMAO reduc 97.6 0.012 2.5E-07 63.6 23.5 195 28-243 1-207 (295)
182 cd06354 PBP1_BmpA_PnrA_like Pe 97.6 0.0061 1.3E-07 64.7 20.7 196 28-242 1-206 (265)
183 TIGR02417 fruct_sucro_rep D-fr 97.6 0.0087 1.9E-07 65.7 22.5 202 25-249 59-267 (327)
184 cd06296 PBP1_CatR_like Ligand- 97.6 0.0067 1.4E-07 64.5 20.9 206 29-254 2-214 (270)
185 PRK10423 transcriptional repre 97.6 0.0085 1.8E-07 65.8 22.1 206 25-252 55-268 (327)
186 cd06307 PBP1_uncharacterized_s 97.6 0.016 3.5E-07 61.7 23.5 210 28-254 1-219 (275)
187 cd06291 PBP1_Qymf_like Ligand 97.6 0.0091 2E-07 63.2 21.3 196 28-249 1-203 (265)
188 cd01541 PBP1_AraR Ligand-bindi 97.6 0.0051 1.1E-07 65.5 19.3 205 29-252 2-216 (273)
189 cd06277 PBP1_LacI_like_1 Ligan 97.6 0.0091 2E-07 63.4 21.1 198 29-247 2-205 (268)
190 cd06286 PBP1_CcpB_like Ligand- 97.5 0.0076 1.7E-07 63.6 20.1 199 28-249 1-205 (260)
191 cd06304 PBP1_BmpA_like Peripla 97.5 0.0086 1.9E-07 63.3 20.2 196 28-242 1-202 (260)
192 cd06290 PBP1_LacI_like_9 Ligan 97.5 0.009 1.9E-07 63.3 20.3 199 28-247 1-204 (265)
193 PRK10727 DNA-binding transcrip 97.5 0.012 2.6E-07 65.1 22.0 204 25-249 58-267 (343)
194 PRK09492 treR trehalose repres 97.5 0.014 3.1E-07 63.6 22.0 192 25-243 61-256 (315)
195 cd06272 PBP1_hexuronate_repres 97.5 0.0083 1.8E-07 63.4 19.5 198 28-250 1-203 (261)
196 PRK09526 lacI lac repressor; R 97.4 0.027 6E-07 62.2 23.1 202 25-250 62-271 (342)
197 cd01543 PBP1_XylR Ligand-bindi 97.4 0.0094 2E-07 63.2 18.6 202 28-254 1-207 (265)
198 cd06279 PBP1_LacI_like_3 Ligan 97.4 0.015 3.2E-07 62.4 20.2 195 29-247 2-223 (283)
199 cd06280 PBP1_LacI_like_4 Ligan 97.4 0.028 6.2E-07 59.4 21.8 199 28-251 1-204 (263)
200 PRK14987 gluconate operon tran 97.3 0.023 5E-07 62.5 21.6 206 26-252 63-272 (331)
201 PF04392 ABC_sub_bind: ABC tra 97.3 0.012 2.5E-07 63.5 18.2 185 28-228 1-194 (294)
202 TIGR02637 RhaS rhamnose ABC tr 97.3 0.086 1.9E-06 57.1 25.1 198 29-244 1-210 (302)
203 cd06297 PBP1_LacI_like_12 Liga 97.3 0.031 6.7E-07 59.4 21.1 200 29-252 2-213 (269)
204 PF12974 Phosphonate-bd: ABC t 97.3 0.0018 3.9E-08 67.7 11.3 121 677-799 95-230 (243)
205 PRK11553 alkanesulfonate trans 97.3 0.0019 4.2E-08 70.4 11.7 71 677-749 119-193 (314)
206 PRK10401 DNA-binding transcrip 97.2 0.058 1.3E-06 59.7 22.9 205 25-250 58-268 (346)
207 TIGR02634 xylF D-xylose ABC tr 97.2 0.063 1.4E-06 58.1 22.0 197 29-244 1-209 (302)
208 PRK11041 DNA-binding transcrip 97.1 0.062 1.3E-06 58.4 21.8 209 24-252 33-246 (309)
209 cd01544 PBP1_GalR Ligand-bindi 97.1 0.056 1.2E-06 57.4 20.9 191 28-249 1-209 (270)
210 TIGR01729 taurine_ABC_bnd taur 97.1 0.0031 6.7E-08 68.3 10.6 70 677-749 90-164 (300)
211 TIGR02405 trehalos_R_Ecol treh 96.9 0.13 2.9E-06 55.9 22.1 191 25-243 58-253 (311)
212 cd06353 PBP1_BmpA_Med_like Per 96.9 0.07 1.5E-06 56.2 18.3 198 28-242 1-200 (258)
213 cd06315 PBP1_ABC_sugar_binding 96.8 0.21 4.6E-06 53.3 22.2 205 28-246 2-216 (280)
214 PF13379 NMT1_2: NMT1-like fam 96.4 0.014 3E-07 61.4 9.5 74 677-751 104-189 (252)
215 COG3221 PhnD ABC-type phosphat 96.3 0.11 2.5E-06 55.1 15.1 110 677-788 134-260 (299)
216 TIGR03427 ABC_peri_uca ABC tra 95.8 0.056 1.2E-06 58.7 10.6 68 679-749 98-170 (328)
217 COG4213 XylF ABC-type xylose t 95.8 0.36 7.9E-06 49.9 15.3 209 20-245 19-243 (341)
218 cd06287 PBP1_LacI_like_8 Ligan 95.6 1.1 2.5E-05 47.4 19.7 184 42-252 24-211 (269)
219 TIGR01728 SsuA_fam ABC transpo 95.1 0.18 4E-06 53.9 11.7 71 677-749 91-165 (288)
220 PF09084 NMT1: NMT1/THI5 like; 95.0 0.15 3.2E-06 52.1 10.1 63 677-741 83-149 (216)
221 PF03466 LysR_substrate: LysR 94.9 0.63 1.4E-05 46.5 14.6 195 462-787 6-205 (209)
222 TIGR02122 TRAP_TAXI TRAP trans 94.9 0.098 2.1E-06 57.1 8.9 60 677-739 131-197 (320)
223 cd05466 PBP2_LTTR_substrate Th 94.8 1.5 3.1E-05 42.7 16.7 70 489-570 13-82 (197)
224 cd08442 PBP2_YofA_SoxR_like Th 94.8 1.7 3.7E-05 42.5 17.1 70 489-570 13-82 (193)
225 PRK10339 DNA-binding transcrip 94.7 2.4 5.2E-05 46.3 19.5 193 25-249 62-264 (327)
226 cd08440 PBP2_LTTR_like_4 TThe 94.6 2.1 4.6E-05 41.8 17.3 70 489-570 13-82 (197)
227 cd08468 PBP2_Pa0477 The C-term 94.3 2.2 4.7E-05 42.4 16.8 73 489-570 13-85 (202)
228 cd08433 PBP2_Nac The C-teminal 94.3 3.1 6.7E-05 40.9 17.8 70 489-570 13-82 (198)
229 cd08420 PBP2_CysL_like C-termi 94.3 2.4 5.1E-05 41.7 16.9 70 489-570 13-82 (201)
230 PRK11151 DNA-binding transcrip 94.3 2.1 4.6E-05 46.2 17.6 83 462-570 91-173 (305)
231 cd08438 PBP2_CidR The C-termin 94.3 3 6.6E-05 40.8 17.6 70 489-570 13-82 (197)
232 cd08421 PBP2_LTTR_like_1 The C 94.2 2.7 6E-05 41.3 17.1 69 490-570 14-82 (198)
233 CHL00180 rbcR LysR transcripti 94.1 2.3 5E-05 46.0 17.4 86 462-570 95-180 (305)
234 cd08412 PBP2_PAO1_like The C-t 94.0 3.6 7.8E-05 40.3 17.4 71 488-570 12-82 (198)
235 COG1744 Med Uncharacterized AB 93.9 2.5 5.4E-05 46.3 17.0 205 24-243 33-244 (345)
236 PF02608 Bmp: Basic membrane p 93.7 5.8 0.00013 42.9 19.4 202 27-243 2-212 (306)
237 cd06276 PBP1_FucR_like Ligand- 93.7 4.6 0.0001 42.1 18.1 143 84-249 45-192 (247)
238 TIGR02990 ectoine_eutA ectoine 93.5 0.68 1.5E-05 47.6 11.0 93 147-242 108-206 (239)
239 cd08459 PBP2_DntR_NahR_LinR_li 93.5 2.9 6.3E-05 41.3 15.8 70 489-570 13-82 (201)
240 PRK12684 transcriptional regul 93.5 2.8 6E-05 45.6 16.7 207 461-799 92-303 (313)
241 cd08418 PBP2_TdcA The C-termin 93.5 4.9 0.00011 39.5 17.5 72 489-570 13-84 (201)
242 PRK12679 cbl transcriptional r 93.3 6 0.00013 43.0 19.0 208 461-801 92-306 (316)
243 PF07885 Ion_trans_2: Ion chan 93.3 0.24 5.3E-06 41.2 6.2 55 617-671 22-78 (79)
244 cd08415 PBP2_LysR_opines_like 93.3 4.7 0.0001 39.4 16.9 71 488-570 12-82 (196)
245 cd08462 PBP2_NodD The C-termin 93.2 3.3 7.1E-05 41.0 15.6 67 491-570 15-81 (200)
246 PRK11242 DNA-binding transcrip 93.1 4.4 9.4E-05 43.5 17.5 83 462-570 91-173 (296)
247 cd08463 PBP2_DntR_like_4 The C 93.1 5.6 0.00012 39.6 17.2 71 489-570 13-83 (203)
248 cd08434 PBP2_GltC_like The sub 93.1 5.4 0.00012 38.8 16.9 70 489-570 13-82 (195)
249 cd08417 PBP2_Nitroaromatics_li 92.9 4 8.7E-05 40.1 15.8 70 489-570 13-82 (200)
250 PRK12681 cysB transcriptional 92.9 3.5 7.5E-05 45.1 16.3 85 461-570 92-176 (324)
251 cd08426 PBP2_LTTR_like_5 The C 92.8 8.3 0.00018 37.8 17.8 70 489-570 13-82 (199)
252 cd08460 PBP2_DntR_like_1 The C 92.6 2.9 6.4E-05 41.3 14.3 70 488-570 12-81 (200)
253 PRK12683 transcriptional regul 92.4 6.4 0.00014 42.6 17.5 197 461-789 92-294 (309)
254 cd08419 PBP2_CbbR_RubisCO_like 92.4 9.8 0.00021 37.1 17.7 70 489-570 12-81 (197)
255 PRK11480 tauA taurine transpor 92.2 0.6 1.3E-05 51.0 9.2 67 677-746 112-183 (320)
256 PF12683 DUF3798: Protein of u 92.2 13 0.00029 38.2 17.6 208 26-243 2-224 (275)
257 TIGR00363 lipoprotein, YaeC fa 92.1 7 0.00015 40.9 16.4 120 677-799 106-250 (258)
258 PF13377 Peripla_BP_3: Peripla 92.0 0.6 1.3E-05 44.8 8.0 93 151-247 1-96 (160)
259 TIGR01256 modA molybdenum ABC 91.9 2.3 5.1E-05 43.2 12.7 73 715-788 132-205 (216)
260 cd08411 PBP2_OxyR The C-termin 91.9 8 0.00017 38.0 16.5 69 490-570 15-83 (200)
261 PRK11233 nitrogen assimilation 91.8 4.4 9.6E-05 43.7 15.4 84 461-569 90-173 (305)
262 cd08435 PBP2_GbpR The C-termin 91.8 13 0.00029 36.2 18.0 71 490-570 14-84 (201)
263 PRK10837 putative DNA-binding 91.8 9.2 0.0002 40.8 17.8 83 462-570 89-171 (290)
264 cd08461 PBP2_DntR_like_3 The C 91.7 7.2 0.00016 38.2 15.8 70 489-570 13-82 (198)
265 cd08466 PBP2_LeuO The C-termin 91.6 6.2 0.00013 38.8 15.2 70 489-570 13-82 (200)
266 cd06353 PBP1_BmpA_Med_like Per 91.4 2.5 5.5E-05 44.4 12.4 87 28-123 122-208 (258)
267 cd08413 PBP2_CysB_like The C-t 91.3 10 0.00022 37.4 16.4 71 489-570 13-83 (198)
268 PF03808 Glyco_tran_WecB: Glyc 91.2 3.6 7.8E-05 40.1 12.4 100 146-257 36-137 (172)
269 cd08425 PBP2_CynR The C-termin 91.2 11 0.00024 36.8 16.6 69 490-570 15-83 (197)
270 TIGR02424 TF_pcaQ pca operon t 91.1 8 0.00017 41.5 16.5 86 461-570 92-177 (300)
271 cd08443 PBP2_CysB The C-termin 91.1 17 0.00036 35.8 18.7 72 488-570 12-83 (198)
272 TIGR00035 asp_race aspartate r 90.9 2.5 5.5E-05 43.5 11.6 87 76-191 59-146 (229)
273 cd08427 PBP2_LTTR_like_2 The C 90.8 11 0.00024 36.6 16.2 72 489-570 13-84 (195)
274 TIGR00787 dctP tripartite ATP- 90.8 0.93 2E-05 47.7 8.4 102 677-786 126-230 (257)
275 cd08449 PBP2_XapR The C-termin 90.7 15 0.00033 35.7 17.1 72 489-570 13-84 (197)
276 cd08441 PBP2_MetR The C-termin 90.6 12 0.00027 36.5 16.4 69 490-570 14-82 (198)
277 PRK11063 metQ DL-methionine tr 90.6 5.4 0.00012 42.1 13.9 120 677-799 119-263 (271)
278 PF13531 SBP_bac_11: Bacterial 90.3 2.4 5.2E-05 43.6 10.9 194 489-798 11-226 (230)
279 PRK09791 putative DNA-binding 90.3 9.9 0.00021 40.9 16.3 86 461-570 94-179 (302)
280 cd08444 PBP2_Cbl The C-termina 90.3 16 0.00035 35.8 16.8 72 488-570 12-83 (198)
281 cd08423 PBP2_LTTR_like_6 The C 90.1 14 0.00029 36.1 16.1 72 490-570 14-87 (200)
282 PRK12680 transcriptional regul 90.0 16 0.00034 40.0 17.6 85 461-570 92-176 (327)
283 PRK12682 transcriptional regul 90.0 16 0.00034 39.5 17.5 84 462-570 93-176 (309)
284 cd08414 PBP2_LTTR_aromatics_li 89.9 20 0.00043 34.8 17.1 69 490-570 14-82 (197)
285 cd08437 PBP2_MleR The substrat 89.9 20 0.00044 35.0 17.4 71 490-570 14-84 (198)
286 cd08429 PBP2_NhaR The C-termin 89.9 20 0.00043 35.7 17.2 71 489-568 13-83 (204)
287 cd08465 PBP2_ToxR The C-termin 89.9 8.2 0.00018 38.2 14.3 70 489-570 13-82 (200)
288 cd08464 PBP2_DntR_like_2 The C 89.7 14 0.00031 36.1 15.9 70 489-570 13-82 (200)
289 cd08448 PBP2_LTTR_aromatics_li 89.5 21 0.00047 34.6 17.1 70 489-570 13-82 (197)
290 cd08467 PBP2_SyrM The C-termin 89.4 17 0.00038 35.7 16.3 70 489-570 13-82 (200)
291 cd08469 PBP2_PnbR The C-termin 89.4 12 0.00026 37.6 15.3 69 490-570 14-82 (221)
292 cd08457 PBP2_OccR The C-termin 89.3 23 0.00049 34.6 17.9 70 489-570 13-82 (196)
293 cd08456 PBP2_LysR The C-termin 89.3 19 0.00041 35.1 16.4 70 489-570 13-82 (196)
294 cd08445 PBP2_BenM_CatM_CatR Th 88.8 20 0.00043 35.3 16.3 70 489-570 14-83 (203)
295 COG3473 Maleate cis-trans isom 88.8 19 0.00042 35.3 14.5 93 148-243 107-205 (238)
296 cd08451 PBP2_BudR The C-termin 88.7 25 0.00053 34.3 19.1 70 490-570 15-84 (199)
297 cd06533 Glyco_transf_WecG_TagA 88.4 7.6 0.00016 37.8 12.1 98 146-255 34-133 (171)
298 cd08436 PBP2_LTTR_like_3 The C 88.2 26 0.00056 33.9 17.5 71 489-570 13-83 (194)
299 PRK10341 DNA-binding transcrip 88.1 18 0.00039 39.2 16.3 85 462-570 97-181 (312)
300 cd08458 PBP2_NocR The C-termin 87.7 29 0.00063 33.9 17.1 70 489-570 13-82 (196)
301 PRK09860 putative alcohol dehy 87.3 2.8 6.1E-05 46.8 9.5 88 148-237 20-109 (383)
302 PRK10094 DNA-binding transcrip 86.5 32 0.00068 37.2 17.0 87 461-570 91-177 (308)
303 PRK10200 putative racemase; Pr 86.4 7.9 0.00017 39.8 11.5 88 75-191 58-147 (230)
304 PF12727 PBP_like: PBP superfa 86.3 9.9 0.00022 37.8 11.8 102 677-784 81-190 (193)
305 PRK11074 putative DNA-binding 86.0 22 0.00047 38.2 15.4 86 461-570 91-176 (300)
306 COG1454 EutG Alcohol dehydroge 86.0 4.4 9.5E-05 44.5 9.7 92 148-241 18-111 (377)
307 PRK15421 DNA-binding transcrip 85.8 28 0.00061 37.7 16.3 83 462-570 89-171 (317)
308 COG2247 LytB Putative cell wal 85.7 6.9 0.00015 41.0 10.3 51 136-192 103-159 (337)
309 PRK11013 DNA-binding transcrip 85.6 34 0.00073 36.9 16.7 83 462-570 94-176 (309)
310 cd08430 PBP2_IlvY The C-termin 85.6 37 0.00079 33.0 18.4 72 488-570 12-83 (199)
311 PRK15454 ethanol dehydrogenase 85.4 4 8.6E-05 45.8 9.5 88 148-237 38-127 (395)
312 PF03480 SBP_bac_7: Bacterial 85.3 1.2 2.5E-05 47.8 5.0 88 677-772 126-214 (286)
313 cd08192 Fe-ADH7 Iron-containin 85.3 7.4 0.00016 43.4 11.6 90 148-239 13-104 (370)
314 COG1910 Periplasmic molybdate- 85.3 22 0.00048 35.3 13.0 107 677-790 87-201 (223)
315 cd08189 Fe-ADH5 Iron-containin 85.2 7.4 0.00016 43.4 11.5 90 148-239 15-106 (374)
316 COG0725 ModA ABC-type molybdat 85.0 24 0.00051 36.9 14.2 177 493-785 46-242 (258)
317 PRK09508 leuO leucine transcri 84.7 18 0.00039 39.2 14.1 84 461-570 111-194 (314)
318 cd08551 Fe-ADH iron-containing 84.4 7.9 0.00017 43.2 11.3 90 148-239 12-103 (370)
319 COG1744 Med Uncharacterized AB 84.2 21 0.00047 39.1 14.2 93 26-125 161-253 (345)
320 PRK11062 nhaR transcriptional 84.1 32 0.00069 36.8 15.6 86 462-570 93-178 (296)
321 cd08190 HOT Hydroxyacid-oxoaci 83.8 5.2 0.00011 45.3 9.6 88 148-237 12-101 (414)
322 PRK11482 putative DNA-binding 83.8 44 0.00096 36.2 16.7 82 461-570 116-197 (317)
323 COG0715 TauA ABC-type nitrate/ 83.7 8.2 0.00018 42.3 11.0 73 677-751 126-203 (335)
324 PRK10624 L-1,2-propanediol oxi 83.6 5.5 0.00012 44.6 9.6 88 148-237 19-108 (382)
325 PRK09861 cytoplasmic membrane 83.4 25 0.00054 37.1 13.8 120 677-799 120-264 (272)
326 COG1794 RacX Aspartate racemas 83.3 22 0.00047 35.6 12.1 86 76-191 59-146 (230)
327 PF06506 PrpR_N: Propionate ca 83.2 20 0.00044 35.0 12.3 135 66-244 10-145 (176)
328 TIGR03339 phn_lysR aminoethylp 83.1 65 0.0014 33.8 18.0 69 490-570 98-166 (279)
329 cd08193 HVD 5-hydroxyvalerate 83.1 5.8 0.00013 44.3 9.5 89 148-238 15-105 (376)
330 cd08486 PBP2_CbnR The C-termin 82.4 52 0.0011 32.2 16.4 70 489-570 14-83 (198)
331 PF02608 Bmp: Basic membrane p 82.4 7.3 0.00016 42.1 9.7 90 27-123 127-221 (306)
332 cd08194 Fe-ADH6 Iron-containin 82.2 6.9 0.00015 43.7 9.7 87 148-236 12-100 (375)
333 cd08453 PBP2_IlvR The C-termin 82.0 52 0.0011 32.0 17.4 73 489-570 13-85 (200)
334 TIGR02638 lactal_redase lactal 82.0 6.6 0.00014 43.9 9.4 88 148-237 18-107 (379)
335 TIGR00696 wecB_tagA_cpsF bacte 81.9 25 0.00054 34.3 12.2 86 145-240 35-122 (177)
336 PRK07475 hypothetical protein; 81.8 8.8 0.00019 39.8 9.6 83 75-189 61-146 (245)
337 KOG3857 Alcohol dehydrogenase, 80.6 12 0.00026 39.6 9.6 97 131-229 38-138 (465)
338 COG1638 DctP TRAP-type C4-dica 80.2 4.3 9.4E-05 44.1 6.9 103 677-790 157-265 (332)
339 PRK10677 modA molybdate transp 80.0 16 0.00036 38.2 11.1 71 491-570 41-117 (257)
340 PF14503 YhfZ_C: YhfZ C-termin 79.9 6.7 0.00014 39.8 7.5 90 688-782 113-210 (232)
341 PF01177 Asp_Glu_race: Asp/Glu 79.8 34 0.00074 34.5 13.2 125 85-240 59-198 (216)
342 PF00465 Fe-ADH: Iron-containi 79.7 7.7 0.00017 43.2 9.0 89 148-240 12-102 (366)
343 cd08188 Fe-ADH4 Iron-containin 79.4 9.8 0.00021 42.5 9.6 88 148-237 17-106 (377)
344 cd08446 PBP2_Chlorocatechol Th 79.2 64 0.0014 31.3 17.2 69 490-570 15-83 (198)
345 cd08428 PBP2_IciA_ArgP The C-t 79.2 64 0.0014 31.2 15.4 100 679-783 89-192 (195)
346 cd08450 PBP2_HcaR The C-termin 79.2 63 0.0014 31.2 16.4 70 489-570 13-82 (196)
347 PRK09906 DNA-binding transcrip 78.8 71 0.0015 34.0 16.1 82 463-570 91-172 (296)
348 cd08416 PBP2_MdcR The C-termin 78.6 67 0.0014 31.1 17.8 72 489-570 13-84 (199)
349 cd08185 Fe-ADH1 Iron-containin 78.3 11 0.00023 42.2 9.6 88 148-238 15-105 (380)
350 cd08485 PBP2_ClcR The C-termin 78.2 71 0.0015 31.2 16.9 70 489-570 14-83 (198)
351 PF13407 Peripla_BP_4: Peripla 78.1 5.8 0.00013 41.4 7.1 78 162-243 1-81 (257)
352 PF07287 DUF1446: Protein of u 78.0 51 0.0011 36.2 14.1 174 37-246 6-188 (362)
353 cd08176 LPO Lactadehyde:propan 77.9 9.6 0.00021 42.5 9.0 87 148-236 17-105 (377)
354 PRK11716 DNA-binding transcrip 77.2 97 0.0021 32.2 16.3 83 462-569 67-149 (269)
355 cd08191 HHD 6-hydroxyhexanoate 77.2 23 0.00049 39.8 11.7 89 148-239 12-102 (386)
356 PRK10537 voltage-gated potassi 76.6 5.8 0.00013 44.2 6.7 56 615-670 164-221 (393)
357 PRK03692 putative UDP-N-acetyl 76.5 28 0.0006 36.0 11.1 86 146-240 93-179 (243)
358 cd08181 PPD-like 1,3-propanedi 76.4 14 0.0003 41.0 9.6 86 148-236 15-103 (357)
359 PRK09986 DNA-binding transcrip 75.9 1.1E+02 0.0024 32.4 17.6 85 462-570 97-181 (294)
360 PF03401 TctC: Tripartite tric 75.9 53 0.0012 34.7 13.6 122 677-799 88-242 (274)
361 cd08182 HEPD Hydroxyethylphosp 75.8 23 0.0005 39.4 11.3 86 148-238 12-99 (367)
362 cd08170 GlyDH Glycerol dehydro 75.6 11 0.00023 41.7 8.6 84 148-236 12-97 (351)
363 cd08431 PBP2_HupR The C-termin 75.6 73 0.0016 30.8 14.1 71 489-570 13-83 (195)
364 PLN02245 ATP phosphoribosyl tr 74.6 32 0.00069 38.0 11.4 92 678-774 178-277 (403)
365 cd07766 DHQ_Fe-ADH Dehydroquin 74.1 26 0.00055 38.4 11.0 101 148-255 12-114 (332)
366 PRK05452 anaerobic nitric oxid 73.3 1.1E+02 0.0024 35.3 16.2 141 95-256 198-348 (479)
367 cd08186 Fe-ADH8 Iron-containin 73.3 28 0.00061 38.9 11.2 89 148-238 12-106 (383)
368 cd08187 BDH Butanol dehydrogen 72.9 17 0.00036 40.8 9.3 87 148-237 18-107 (382)
369 cd08432 PBP2_GcdR_TrpI_HvrB_Am 71.8 50 0.0011 31.8 11.7 98 681-781 87-189 (194)
370 cd08452 PBP2_AlsR The C-termin 71.7 1E+02 0.0022 29.9 18.0 69 490-570 14-82 (197)
371 cd08171 GlyDH-like2 Glycerol d 71.4 18 0.00038 39.9 8.9 87 148-238 12-100 (345)
372 PRK13583 hisG ATP phosphoribos 71.4 46 0.001 33.8 10.9 93 677-774 109-212 (228)
373 PRK00945 acetyl-CoA decarbonyl 69.8 31 0.00068 33.3 8.9 120 85-215 28-168 (171)
374 PF13685 Fe-ADH_2: Iron-contai 69.8 27 0.00059 36.2 9.2 100 149-255 9-109 (250)
375 PRK03635 chromosome replicatio 69.5 1.1E+02 0.0023 32.7 14.4 82 462-570 90-171 (294)
376 PRK00865 glutamate racemase; P 69.3 51 0.0011 34.6 11.4 38 83-120 59-96 (261)
377 cd06305 PBP1_methylthioribose_ 69.3 19 0.00042 37.7 8.5 77 162-243 2-81 (273)
378 TIGR00315 cdhB CO dehydrogenas 69.2 51 0.0011 31.6 10.1 116 91-215 29-160 (162)
379 COG2358 Imp TRAP-type uncharac 69.0 24 0.00052 37.8 8.7 78 677-757 127-214 (321)
380 TIGR03298 argP transcriptional 68.5 1.6E+02 0.0036 31.1 15.9 64 493-569 107-170 (292)
381 cd06267 PBP1_LacI_sugar_bindin 67.5 19 0.00042 37.3 8.0 76 162-243 2-79 (264)
382 PRK14498 putative molybdopteri 67.3 45 0.00098 40.2 11.9 67 157-228 184-262 (633)
383 PRK09423 gldA glycerol dehydro 66.8 23 0.00049 39.4 8.6 84 148-236 19-104 (366)
384 cd08183 Fe-ADH2 Iron-containin 66.6 46 0.001 37.1 11.1 84 148-238 12-97 (374)
385 PLN03192 Voltage-dependent pot 66.6 7.1 0.00015 48.7 5.1 54 619-672 250-305 (823)
386 PRK13348 chromosome replicatio 66.5 1.8E+02 0.0039 30.8 15.5 102 680-786 180-285 (294)
387 cd06312 PBP1_ABC_sugar_binding 66.3 21 0.00046 37.5 8.1 79 161-243 1-83 (271)
388 COG0078 ArgF Ornithine carbamo 65.4 1.9E+02 0.0041 30.7 16.2 161 26-223 44-211 (310)
389 KOG1419 Voltage-gated K+ chann 65.2 11 0.00024 42.4 5.4 89 584-672 234-324 (654)
390 PRK15408 autoinducer 2-binding 65.1 28 0.0006 38.2 8.8 82 158-243 22-106 (336)
391 cd01537 PBP1_Repressors_Sugar_ 65.1 21 0.00046 36.9 7.7 78 161-243 1-80 (264)
392 cd06301 PBP1_rhizopine_binding 64.5 23 0.0005 37.1 7.9 78 161-243 1-82 (272)
393 PRK10991 fucI L-fucose isomera 64.0 2.6E+02 0.0056 32.6 15.9 128 62-193 47-206 (588)
394 cd06306 PBP1_TorT-like TorT-li 63.8 25 0.00053 37.0 8.0 80 161-243 1-82 (268)
395 PF00625 Guanylate_kin: Guanyl 63.4 76 0.0016 31.1 10.8 128 91-240 3-134 (183)
396 PRK11119 proX glycine betaine 63.2 34 0.00073 37.3 8.8 63 458-543 25-88 (331)
397 PF04273 DUF442: Putative phos 62.9 80 0.0017 28.1 9.6 85 153-239 22-107 (110)
398 cd02071 MM_CoA_mut_B12_BD meth 62.1 58 0.0013 29.5 8.9 68 168-243 8-79 (122)
399 cd06282 PBP1_GntR_like_2 Ligan 61.7 33 0.00071 35.7 8.5 77 162-243 2-80 (266)
400 cd08550 GlyDH-like Glycerol_de 61.7 35 0.00075 37.7 8.8 84 148-236 12-97 (349)
401 cd08197 DOIS 2-deoxy-scyllo-in 61.7 93 0.002 34.4 12.0 102 148-254 12-119 (355)
402 cd08422 PBP2_CrgA_like The C-t 60.9 44 0.00095 32.2 8.8 67 714-782 125-193 (197)
403 TIGR00067 glut_race glutamate 60.8 1E+02 0.0022 32.1 11.6 40 82-121 51-91 (251)
404 cd06304 PBP1_BmpA_like Peripla 60.5 1.1E+02 0.0025 31.7 12.3 127 25-160 119-245 (260)
405 TIGR03414 ABC_choline_bnd chol 59.8 2.4E+02 0.0053 30.0 14.9 40 492-540 24-63 (290)
406 cd06318 PBP1_ABC_sugar_binding 59.8 31 0.00068 36.4 8.0 78 161-243 1-81 (282)
407 cd06167 LabA_like LabA_like pr 59.6 1.4E+02 0.0031 27.9 11.6 95 148-243 27-124 (149)
408 PRK11139 DNA-binding transcrip 59.2 1.5E+02 0.0033 31.5 13.3 102 679-784 180-286 (297)
409 cd08178 AAD_C C-terminal alcoh 58.7 55 0.0012 36.8 9.9 79 157-237 19-99 (398)
410 cd01536 PBP1_ABC_sugar_binding 58.4 37 0.0008 35.2 8.2 78 161-243 1-81 (267)
411 cd06316 PBP1_ABC_sugar_binding 57.8 34 0.00073 36.5 7.8 79 161-243 1-82 (294)
412 cd01545 PBP1_SalR Ligand-bindi 57.7 41 0.00089 35.1 8.4 78 162-243 2-81 (270)
413 cd06310 PBP1_ABC_sugar_binding 57.6 37 0.0008 35.6 8.0 80 161-243 1-83 (273)
414 cd06277 PBP1_LacI_like_1 Ligan 57.4 53 0.0012 34.2 9.2 75 162-243 2-81 (268)
415 cd01540 PBP1_arabinose_binding 57.4 32 0.00068 36.5 7.5 77 161-243 1-80 (289)
416 cd06322 PBP1_ABC_sugar_binding 57.3 42 0.00091 35.0 8.4 77 162-243 2-81 (267)
417 cd06302 PBP1_LsrB_Quorum_Sensi 57.2 40 0.00087 36.1 8.3 78 162-243 2-82 (298)
418 PRK00002 aroB 3-dehydroquinate 56.7 1E+02 0.0023 34.0 11.5 102 148-254 20-127 (358)
419 cd06289 PBP1_MalI_like Ligand- 56.6 45 0.00097 34.7 8.5 77 162-243 2-80 (268)
420 cd08175 G1PDH Glycerol-1-phosp 55.8 49 0.0011 36.5 8.7 87 148-236 12-100 (348)
421 COG0563 Adk Adenylate kinase a 55.4 44 0.00096 32.7 7.4 28 93-120 3-30 (178)
422 COG1880 CdhB CO dehydrogenase/ 54.9 1.6E+02 0.0036 27.7 10.1 124 83-215 27-168 (170)
423 cd08447 PBP2_LTTR_aromatics_li 54.5 2E+02 0.0044 27.5 16.8 70 489-570 13-82 (198)
424 PRK15116 sulfur acceptor prote 54.4 2.2E+02 0.0047 30.0 12.7 88 37-140 79-167 (268)
425 cd08481 PBP2_GcdR_like The C-t 54.2 1.4E+02 0.003 28.6 11.1 65 716-782 124-190 (194)
426 PRK14174 bifunctional 5,10-met 54.0 3E+02 0.0066 29.3 14.3 175 28-228 33-216 (295)
427 cd01391 Periplasmic_Binding_Pr 53.7 41 0.00089 34.5 7.6 78 161-243 1-83 (269)
428 cd06300 PBP1_ABC_sugar_binding 53.6 54 0.0012 34.3 8.5 80 161-243 1-86 (272)
429 cd08179 NADPH_BDH NADPH-depend 53.0 35 0.00075 38.1 7.1 80 156-237 20-102 (375)
430 cd06299 PBP1_LacI_like_13 Liga 52.8 64 0.0014 33.5 8.9 76 162-243 2-79 (265)
431 cd01538 PBP1_ABC_xylose_bindin 52.5 62 0.0013 34.4 8.8 77 162-243 2-81 (288)
432 cd08177 MAR Maleylacetate redu 52.3 35 0.00075 37.5 6.8 98 148-255 12-111 (337)
433 COG4521 TauA ABC-type taurine 52.0 74 0.0016 32.2 8.0 105 677-783 120-236 (334)
434 TIGR01744 XPRTase xanthine pho 52.0 40 0.00087 33.4 6.5 71 50-121 4-79 (191)
435 cd06303 PBP1_LuxPQ_Quorum_Sens 52.0 47 0.001 35.1 7.7 81 161-242 1-84 (280)
436 PRK09701 D-allose transporter 51.9 64 0.0014 34.8 8.8 84 157-243 22-108 (311)
437 PF02310 B12-binding: B12 bind 51.7 1.5E+02 0.0033 26.4 10.0 69 164-240 5-77 (121)
438 PRK03601 transcriptional regul 51.3 3.1E+02 0.0068 28.7 15.5 84 461-570 88-171 (275)
439 PF14981 FAM165: FAM165 family 51.0 32 0.0007 24.5 3.8 33 819-851 3-35 (51)
440 cd08180 PDD 1,3-propanediol de 49.9 44 0.00096 36.5 7.2 80 155-237 18-99 (332)
441 cd00755 YgdL_like Family of ac 49.9 1.6E+02 0.0034 30.2 10.6 116 37-168 60-181 (231)
442 PRK01686 hisG ATP phosphoribos 49.8 2.9E+02 0.0063 27.9 12.4 92 688-786 114-207 (215)
443 PRK10014 DNA-binding transcrip 49.7 89 0.0019 34.1 9.7 80 159-243 64-145 (342)
444 PF12683 DUF3798: Protein of u 49.7 1.6E+02 0.0035 30.5 10.3 100 144-253 16-139 (275)
445 PF13380 CoA_binding_2: CoA bi 49.6 21 0.00045 32.2 3.7 86 160-254 1-88 (116)
446 cd06270 PBP1_GalS_like Ligand 49.2 82 0.0018 32.8 9.0 76 162-243 2-79 (268)
447 cd06281 PBP1_LacI_like_5 Ligan 48.7 78 0.0017 33.0 8.7 77 162-243 2-80 (269)
448 PRK09189 uroporphyrinogen-III 48.6 77 0.0017 32.7 8.4 87 146-240 103-191 (240)
449 cd06320 PBP1_allose_binding Pe 48.5 64 0.0014 33.8 8.1 80 161-243 1-83 (275)
450 cd00886 MogA_MoaB MogA_MoaB fa 48.5 97 0.0021 29.4 8.4 63 161-227 2-70 (152)
451 TIGR02667 moaB_proteo molybden 48.4 1.1E+02 0.0024 29.5 8.7 65 159-227 4-72 (163)
452 PRK11303 DNA-binding transcrip 48.4 85 0.0018 34.0 9.2 80 159-243 61-142 (328)
453 PRK10936 TMAO reductase system 48.3 73 0.0016 34.9 8.7 81 159-243 46-129 (343)
454 COG1464 NlpA ABC-type metal io 48.3 38 0.00081 35.1 5.7 47 25-82 29-75 (268)
455 cd06317 PBP1_ABC_sugar_binding 47.9 69 0.0015 33.4 8.2 77 162-243 2-82 (275)
456 TIGR02637 RhaS rhamnose ABC tr 47.7 64 0.0014 34.5 8.0 77 163-243 2-82 (302)
457 PF00205 TPP_enzyme_M: Thiamin 47.6 23 0.00049 32.9 3.8 58 82-140 2-63 (137)
458 cd01542 PBP1_TreR_like Ligand- 47.6 79 0.0017 32.7 8.5 76 162-243 2-79 (259)
459 cd06315 PBP1_ABC_sugar_binding 47.5 99 0.0022 32.6 9.4 79 160-243 1-82 (280)
460 cd08549 G1PDH_related Glycerol 47.5 98 0.0021 33.8 9.4 98 148-254 12-113 (332)
461 TIGR02370 pyl_corrinoid methyl 47.5 1.3E+02 0.0028 30.0 9.5 87 160-254 85-175 (197)
462 PRK15424 propionate catabolism 47.2 2.9E+02 0.0063 32.4 13.5 136 66-245 40-176 (538)
463 PRK10653 D-ribose transporter 46.8 81 0.0018 33.6 8.6 80 159-243 26-108 (295)
464 cd06323 PBP1_ribose_binding Pe 46.7 65 0.0014 33.4 7.8 77 162-243 2-81 (268)
465 PLN02428 lipoic acid synthase 46.5 1.5E+02 0.0032 32.5 10.2 107 141-252 129-256 (349)
466 cd02067 B12-binding B12 bindin 46.4 1.9E+02 0.0041 25.8 9.6 67 168-242 8-78 (119)
467 cd01324 cbb3_Oxidase_CcoQ Cyto 46.0 19 0.00041 26.5 2.3 28 585-612 12-39 (48)
468 cd00758 MoCF_BD MoCF_BD: molyb 45.9 98 0.0021 28.5 7.8 60 175-239 20-80 (133)
469 TIGR00070 hisG ATP phosphoribo 45.8 1.4E+02 0.0031 29.2 9.0 74 678-759 100-173 (182)
470 cd06273 PBP1_GntR_like_1 This 45.4 93 0.002 32.3 8.7 76 162-243 2-79 (268)
471 PRK10355 xylF D-xylose transpo 45.3 1E+02 0.0022 33.7 9.1 80 159-243 25-107 (330)
472 PRK13010 purU formyltetrahydro 45.1 4.1E+02 0.0089 28.3 14.8 95 92-192 11-125 (289)
473 COG1922 WecG Teichoic acid bio 44.7 98 0.0021 32.0 8.0 101 146-259 96-199 (253)
474 cd01574 PBP1_LacI Ligand-bindi 44.6 1.1E+02 0.0023 31.8 9.0 77 162-243 2-80 (264)
475 COG0134 TrpC Indole-3-glycerol 44.6 60 0.0013 33.5 6.5 87 148-244 69-158 (254)
476 cd08169 DHQ-like Dehydroquinat 44.6 1.8E+02 0.0038 32.0 10.8 101 148-254 12-118 (344)
477 PRK07377 hypothetical protein; 44.5 47 0.001 32.0 5.3 61 462-539 75-135 (184)
478 cd06319 PBP1_ABC_sugar_binding 44.4 82 0.0018 32.9 8.1 77 162-243 2-81 (277)
479 PF00532 Peripla_BP_1: Peripla 44.2 57 0.0012 34.6 6.8 77 160-243 2-80 (279)
480 cd08184 Fe-ADH3 Iron-containin 44.1 1.1E+02 0.0025 33.5 9.2 85 148-238 12-103 (347)
481 TIGR00177 molyb_syn molybdenum 44.0 1.1E+02 0.0024 28.6 8.0 47 175-226 28-74 (144)
482 PRK13054 lipid kinase; Reviewe 43.8 2.1E+02 0.0045 30.7 11.1 76 160-241 4-79 (300)
483 PF01102 Glycophorin_A: Glycop 43.8 33 0.00072 31.0 4.0 29 824-852 66-94 (122)
484 cd03522 MoeA_like MoeA_like. T 43.6 1.3E+02 0.0027 32.5 9.1 78 157-238 157-240 (312)
485 PHA03239 envelope glycoprotein 43.4 39 0.00084 37.6 5.2 18 909-926 405-422 (429)
486 cd06295 PBP1_CelR Ligand bindi 43.1 1.1E+02 0.0024 32.0 8.9 77 159-243 3-88 (275)
487 PF01634 HisG: ATP phosphoribo 42.9 43 0.00094 32.1 4.9 101 678-786 57-159 (163)
488 cd08475 PBP2_CrgA_like_6 The C 42.8 2.3E+02 0.005 27.1 10.7 67 715-783 128-196 (199)
489 TIGR02417 fruct_sucro_rep D-fr 42.7 1.5E+02 0.0032 32.1 10.0 80 159-243 60-141 (327)
490 cd00423 Pterin_binding Pterin 42.6 3.1E+02 0.0067 28.6 11.8 20 148-168 110-129 (258)
491 PRK10216 DNA-binding transcrip 42.5 4.6E+02 0.01 28.1 17.7 84 463-570 98-188 (319)
492 PF07302 AroM: AroM protein; 42.4 2.2E+02 0.0047 28.9 9.9 74 159-238 125-200 (221)
493 TIGR02329 propionate_PrpR prop 42.3 3.9E+02 0.0085 31.3 13.6 129 75-245 37-166 (526)
494 cd08173 Gro1PDH Sn-glycerol-1- 42.3 1.1E+02 0.0024 33.5 8.9 96 149-255 14-112 (339)
495 cd01539 PBP1_GGBP Periplasmic 42.1 99 0.0021 33.1 8.4 78 161-243 1-83 (303)
496 PRK09219 xanthine phosphoribos 41.9 66 0.0014 31.8 6.2 71 50-121 4-79 (189)
497 cd06296 PBP1_CatR_like Ligand- 41.9 99 0.0021 32.2 8.2 76 162-243 2-79 (270)
498 PRK00843 egsA NAD(P)-dependent 41.8 1.5E+02 0.0032 32.7 9.7 97 148-255 22-121 (350)
499 cd01575 PBP1_GntR Ligand-bindi 41.4 1E+02 0.0023 31.8 8.3 76 162-243 2-79 (268)
500 TIGR00288 conserved hypothetic 41.2 2.9E+02 0.0063 26.4 10.0 85 147-243 43-130 (160)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=7.2e-83 Score=665.40 Aligned_cols=779 Identities=19% Similarity=0.313 Sum_probs=626.2
Q ss_pred CCCceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCC-CcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccC
Q 002368 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLG-GRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQ 99 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~-g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~ 99 (930)
+-+..|.||.++|-+.. +...|+++|+...|....--+ -.+|..++..-. .+......+.+.-.++||.||+|-+
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 AFPNTIQIGGLFPRNTD---QEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGFY 98 (897)
T ss_pred cCCCceeeccccCCcch---HHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheecc
Confidence 46678999999999764 457788888887776432110 134444433222 4666777888888899999999999
Q ss_pred ChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHH
Q 002368 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (930)
Q Consensus 100 ~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~ 179 (930)
.--....+..++...++|+|+++. | ++...++..++.|+-. .++++++.|++|.+++.+| |.+-|....+++
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--TDGDNQFVIQMRPALK---GALLSLIDHYKWEKFVYLY-DTDRGLSILQAI 170 (897)
T ss_pred cccchhhhhhhccceeeeeecccC--C--cCCCceEEEEeCchHH---HHHHHHHHhcccceEEEEE-cccchHHHHHHH
Confidence 999999999999999999998765 2 2344578889988754 8999999999999999999 666788999999
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccc
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 259 (930)
-+.+.+++..|.....-... +...++.+++.+...+.+-+++.|..+....++.|+-+.|-...+|+++..+..-..
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 99999999999876544333 456699999999988889899999999889999999888877899999998754443
Q ss_pred ccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcC------CCCCCCchhhhHhhHHHHHHHHHHHhhhcCC
Q 002368 260 IDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN------GSIGLNPYGLYAYDTVWMIARALKLFLDQGN 333 (930)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDav~~la~Al~~a~~~~~ 333 (930)
.+. +.......++.++....-++|..++|.++|++... +..++.+.++.+|||+.++++|++.+..+..
T Consensus 248 ~dl-----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~ 322 (897)
T KOG1054|consen 248 IDL-----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRI 322 (897)
T ss_pred hhH-----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhh
Confidence 333 23344566788888888899999999999986532 2245677889999999999999999876643
Q ss_pred cceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecC
Q 002368 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSN 413 (930)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~ 413 (930)
+... +...| .+...+..+|..|..|-++|+++.++|+||+|+||..|.|.+.+.+|++++.++. +++|+|+.
T Consensus 323 ~~~r------RG~~G-D~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~-rk~~~W~e 394 (897)
T KOG1054|consen 323 DISR------RGNAG-DCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGS-RKVGYWNE 394 (897)
T ss_pred chhc------cCCCc-cccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCc-ceeeeecc
Confidence 2211 11222 2222357789999999999999999999999999999999999999999999998 99999999
Q ss_pred CCCccccCCcccccCCCCCCCCCccceeeEeCCCcccCCCcccccCCCcceEEEecCcccccccEEee---cCcceEEEE
Q 002368 414 YSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKV---NGTDIVHGY 490 (930)
Q Consensus 414 ~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~~---~~~~~~~G~ 490 (930)
..|+.....+. ..++.... .+.++..|.+.-..||.-+.... .|+.++.||
T Consensus 395 ~~~fv~~~t~a----~~~~d~~~----------------------~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGy 448 (897)
T KOG1054|consen 395 GEGFVPGSTVA----QSRNDQAS----------------------KENRTVVVTTILESPYVMLKKNHEQLEGNERYEGY 448 (897)
T ss_pred cCceeeccccc----cccccccc----------------------cccceEEEEEecCCchhHHHhhHHHhcCCccccee
Confidence 99875332110 00111000 11233333333222332222211 267889999
Q ss_pred eHHHHHHHHHHCCCcccEEEEeC---CCCCCCCC-HHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEE
Q 002368 491 CIDVFLAAVRLLPYAVPYKFIPY---GDGHKNPT-YSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVA 566 (930)
Q Consensus 491 ~~dll~~l~~~ln~~~~~~~~~~---~~~~~n~~-~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v 566 (930)
|+||+.+++++.++++++..+.. |..+..++ |+||++.|..|++|+++++++||-.|.+.+|||.|++..++.+++
T Consensus 449 CvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMI 528 (897)
T KOG1054|consen 449 CVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMI 528 (897)
T ss_pred HHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEE
Confidence 99999999999998766666643 33345566 999999999999999999999999999999999999999999999
Q ss_pred eccC-CCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCC------CC-------CcccchhhHHHHHHHhh
Q 002368 567 PVRK-LNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFR------GP-------PRKQIVTVLWFSFSTMF 632 (930)
Q Consensus 567 ~~~~-~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~------~~-------~~~~~~~~~~~~~~~l~ 632 (930)
++|+ ..+..+.|+.|+..+.|+|++..++-+++++++..|.++.+++ |+ +-+++.+++||++++++
T Consensus 529 KKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFM 608 (897)
T KOG1054|consen 529 KKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFM 608 (897)
T ss_pred eCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHH
Confidence 9998 6789999999999999999999999999999999998876543 22 22458999999999999
Q ss_pred ccccC-CcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCC-eEEEEeCchhHHHHHHhcCC
Q 002368 633 FAHRE-NTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSND-RVGYQVGSFAENYLIEELSI 710 (930)
Q Consensus 633 ~~~~~-~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~-~i~~~~~s~~~~~l~~~~~~ 710 (930)
+|+.. .|+|.++|++-.+||||+||+.++|||||++|||+.++.+||.+.+||.++.+ ..|+..+....+||+.+.-.
T Consensus 609 QQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFFr~Skia 688 (897)
T KOG1054|consen 609 QQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFFRRSKIA 688 (897)
T ss_pred hcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHHhhhhHH
Confidence 99988 89999999999999999999999999999999999999999999999998875 46777777778888543100
Q ss_pred Cccce----------EeCCCHHHHHHHHHc-CCcEEEEccchhhHHHHhc-CcceEEeCCccccCccEEEecCCCcchhH
Q 002368 711 PKSRL----------VALGSPEEYAIALEN-RTVAAVVDERPYIDLFLSD-HCQFSVRGQEFTKSGWGFAFPRDSPLAID 778 (930)
Q Consensus 711 ~~~~~----------~~~~~~~~~~~~l~~-g~~~a~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~spl~~~ 778 (930)
-..++ +...+..|+++++++ .+.+|++.+...-+|..++ .|+-.-++..+.+.+|+++.||||.|+..
T Consensus 689 vy~kMW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGiATp~Gsslr~~ 768 (897)
T KOG1054|consen 689 VYEKMWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLRNA 768 (897)
T ss_pred HHHHHHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCccceecccccCCcceeecCCCCcccccc
Confidence 00111 335688999999988 6678999998888888765 79999999999999999999999999999
Q ss_pred HHHHHHhccccccHHHHHHhhcc-cCCCCCCCCCC--CCCcccccccchhHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q 002368 779 MSTAILTLSENGELQRIHDKWLR-KKACSSESSQS--DSEQLQIQSFRGLFLICGIACFLALLAYFCLMLRQFKKYSA 853 (930)
Q Consensus 779 ~n~~i~~l~e~G~~~~~~~~~~~-~~~~~~~~~~~--~~~~l~l~~~~g~f~il~~g~~lallvf~~e~~~~~~~~~~ 853 (930)
+|.++++|.|.|+++++++||+. +++|....... ....|+|++.+|+||||..|+++|.++.++|++|+.+...+
T Consensus 769 vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Eak 846 (897)
T KOG1054|consen 769 VNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAK 846 (897)
T ss_pred hhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHHH
Confidence 99999999999999999999998 99999876543 44789999999999999999999999999999998776654
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=1.7e-78 Score=635.37 Aligned_cols=751 Identities=22% Similarity=0.389 Sum_probs=614.8
Q ss_pred cCCCCceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEec--CCCChHHHH-HHHHHHHhcCcEEEE
Q 002368 20 GALKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD--AKFNGFLSI-MGALQFMETDTLAIV 96 (930)
Q Consensus 20 ~~~~~~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D--~~~~~~~a~-~~a~~li~~~v~aii 96 (930)
++..+.+++||.++.-. ....-+.-++.++|++.+ ..++.+.-.- ...++.+.+ ..-.+|++..|.+|+
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 AACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVL 100 (993)
T ss_pred cCCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEE
Confidence 34567789999997654 345667788889997764 3666663222 222444444 444578888888877
Q ss_pred c--cCChhh---HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC
Q 002368 97 G--PQSAVM---AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD 170 (930)
Q Consensus 97 G--p~~S~~---~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~ 170 (930)
= |.+|+. -.+++-.+.-+++|++....-+..+++ .-++.|.|+.|+.+.|+....+.+..+.|++|.++.+||.
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 444433 234556788899999999999999999 5689999999999999999999999999999999999999
Q ss_pred cCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEE
Q 002368 171 QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (930)
Q Consensus 171 ~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~ 250 (930)
-|+.....++..+++...++.....+.++ ..++++.|-.+|..++||+++....+||..+++.|.+++|++.+|+|
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 99988888888888877777767778888 78999999999999999999999999999999999999999999999
Q ss_pred EEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhh
Q 002368 251 IATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (930)
Q Consensus 251 i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~ 330 (930)
|.+...... .+...|++|++.-...+ -.++.-|++.++|.|++.++.
T Consensus 257 iV~E~a~~~-----------nn~PdG~LGlqL~~~~~----------------------~~~hirDsv~vlasAv~e~~~ 303 (993)
T KOG4440|consen 257 IVGERAISG-----------NNLPDGILGLQLINGKN----------------------ESAHIRDSVGVLASAVHELLE 303 (993)
T ss_pred EEecccccc-----------CCCCCceeeeEeecCcc----------------------ccceehhhHHHHHHHHHHHHh
Confidence 998854332 13357899987743221 134677999999999999976
Q ss_pred cCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhcc-ccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEe
Q 002368 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIG 409 (930)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG 409 (930)
...-. . -...||++...|..+..+.+.+...+ -+|.||++.||++|||....|+|+|+..+...+.+|
T Consensus 304 ~e~I~---------~--~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~ 372 (993)
T KOG4440|consen 304 KENIT---------D--PPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVG 372 (993)
T ss_pred hccCC---------C--CCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhc
Confidence 53221 1 12346777788988999988888766 589999999999999999999999996433225555
Q ss_pred EecCCCCccccCCcccccCCCCCCCCCccceeeEeCCCcccCCCcccccCCCcceEEEecCcccccccEEeec-------
Q 002368 410 YWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKVN------- 482 (930)
Q Consensus 410 ~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~~~------- 482 (930)
.|+. +. ...+.+.|+|||+-++.|++..+| ++|||.+.+. +||++..+
T Consensus 373 ~yd~---~r----------------~~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~---~PFVYv~p~~sd~~c 427 (993)
T KOG4440|consen 373 IYDG---TR----------------VIPNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQ---EPFVYVKPTLSDGTC 427 (993)
T ss_pred cccc---ee----------------eccCCceeecCCCCcCCCcccccc---ceeEEEEecc---CCeEEEecCCCCcch
Confidence 5432 21 123446899999999999999988 6799888875 55665431
Q ss_pred ------------------------C------cceEEEEeHHHHHHHHHHCCCcccEEEEeCCC-CC----------CCCC
Q 002368 483 ------------------------G------TDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD-GH----------KNPT 521 (930)
Q Consensus 483 ------------------------~------~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~-~~----------~n~~ 521 (930)
+ .-|+.|+|+||+-.+++.+||+++..+++.|. |. ...+
T Consensus 428 ~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~ke 507 (993)
T KOG4440|consen 428 KEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKE 507 (993)
T ss_pred hhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccce
Confidence 0 12789999999999999999999888887542 11 2237
Q ss_pred HHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhh
Q 002368 522 YSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVV 601 (930)
Q Consensus 522 ~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~ 601 (930)
|+|++++|.+|++||++++++|+++|.++++||.|+...|++++.+++...+....||+||+..+|+++++++.++++++
T Consensus 508 w~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~l 587 (993)
T KOG4440|consen 508 WNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALML 587 (993)
T ss_pred ehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hheeeccCC-CCCC-------CCcccchhhHHHHHHHhhccccC--CcccchhHHHHHHHHHHHHHhhhhhhhhhheeee
Q 002368 602 WILEHRLND-EFRG-------PPRKQIVTVLWFSFSTMFFAHRE--NTVSTLGRVVLIIWLFVVLIITSSYTASLTSILT 671 (930)
Q Consensus 602 ~~~~~~~~~-~~~~-------~~~~~~~~~~~~~~~~l~~~~~~--~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt 671 (930)
+++.++++- .|.. ....+++..+||+||.++..+.. .|+|.+.|++-++|+-|++|+.++|||||++||.
T Consensus 588 YlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLV 667 (993)
T KOG4440|consen 588 YLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLV 667 (993)
T ss_pred HHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhhee
Confidence 999998875 3332 23456899999999999999743 8999999999999999999999999999999999
Q ss_pred eccccCCCCChHHhh--h--CCCeEEEEeCchhHHHHHHhcCCCc--cce--EeCCCHHHHHHHHHcCCcEEEEccchhh
Q 002368 672 VQQLSSPIKGIDTLM--T--SNDRVGYQVGSFAENYLIEELSIPK--SRL--VALGSPEEYAIALENRTVAAVVDERPYI 743 (930)
Q Consensus 672 ~~~~~~~i~sl~dL~--~--s~~~i~~~~~s~~~~~l~~~~~~~~--~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~ 743 (930)
..+.+..++++.|-. + .+...+.+.+|....||+++..... .++ ..|.+.+|.++++++|..+||+-+...+
T Consensus 668 LdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gkL~AFIWDS~rL 747 (993)
T KOG4440|consen 668 LDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGKLHAFIWDSARL 747 (993)
T ss_pred ecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCceeEEEeeccee
Confidence 999999999998843 2 2245788899999999977543221 112 3467889999999999999999999999
Q ss_pred HHHHhcCcceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhhccc---CCCCCCCCCCCCCccccc
Q 002368 744 DLFLSDHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLRK---KACSSESSQSDSEQLQIQ 820 (930)
Q Consensus 744 ~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~~~~---~~~~~~~~~~~~~~l~l~ 820 (930)
+|..+++|+|...++.|...+||++++||||+.+.+..+|+++.|+|.|+++.++|+.. ..|..... .+..|++.
T Consensus 748 EfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~k--~PatLgl~ 825 (993)
T KOG4440|consen 748 EFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRSK--APATLGLE 825 (993)
T ss_pred eehhhcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhcc--Cccccccc
Confidence 99999999999999999999999999999999999999999999999999999999982 34444433 58899999
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q 002368 821 SFRGLFLICGIACFLALLAYFCLMLRQFKKYSA 853 (930)
Q Consensus 821 ~~~g~f~il~~g~~lallvf~~e~~~~~~~~~~ 853 (930)
++.|+|++.+.|++..+...++|+.|++++.++
T Consensus 826 NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 826 NMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred ccccEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 999999999998888877778899988766543
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=2.7e-71 Score=602.58 Aligned_cols=705 Identities=20% Similarity=0.355 Sum_probs=560.8
Q ss_pred CChHHHHHHHHHHHhc-CcEEEEccCChh---hHHHHHHhhhcCCCcEEEeecCCC-CCCCC-CCCeEEEccCChHHHHH
Q 002368 75 FNGFLSIMGALQFMET-DTLAIVGPQSAV---MAHVLSHLANELQVPLLSFTALDP-TLSPL-QYPFFVQTAPNDLYLMS 148 (930)
Q Consensus 75 ~~~~~a~~~a~~li~~-~v~aiiGp~~S~---~~~av~~~~~~~~vp~is~~a~~~-~ls~~-~~~~~fr~~p~~~~~~~ 148 (930)
.||..-+...++++.. +|.+|+--..|. ++..+--+....+||+|+..+.+. .++++ ..-.|++..|+-.+|++
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 7999999999999987 899888555444 222233466788999999866544 44443 23478999999999999
Q ss_pred HHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 149 ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
++.++|+.|+|..+++|...-+.-+.....++...... |.++.......++ .+++......++|+-++.||+++|
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 99999999999999999988887788888888877764 6666666566655 233344445566667799999999
Q ss_pred chhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCC
Q 002368 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIG 306 (930)
Q Consensus 227 ~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 306 (930)
+.+++..|+..|.++||++++|+||++...... + ....+...|.+.+.... |+
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 999999999999999999999999997654432 0 01123455666655422 11
Q ss_pred CCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccC
Q 002368 307 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (930)
Q Consensus 307 ~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~ 386 (930)
..+....-|++-++|.|+..+...-+.. ...+.+|...... ....+..+...|.|+.|+| +.+.|+++
T Consensus 293 -~~l~~rVrdgvaiva~aa~s~~~~~~~l--------p~~~~~C~~~~~~-~~~~~~~l~r~l~NvT~~g--~~lsf~~~ 360 (1258)
T KOG1053|consen 293 -YSLEARVRDGVAIVARAASSMLRIHGFL--------PEPKMDCREQEET-RLTSGETLHRFLANVTWDG--RDLSFNED 360 (1258)
T ss_pred -hhHHHHHhhhHHHHHHHHHHHHhhcccC--------CCcccccccccCc-cccchhhhhhhhheeeecc--cceeecCC
Confidence 2234567799999999999987654332 1222232222211 2234888999999999999 88999999
Q ss_pred CCCCCCcEEEEEeeecCceeEEeEecCCCCccccCCcccccCCCCCCCCCccceeeEeCCCcccCCCcccccCCCcceEE
Q 002368 387 RSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRI 466 (930)
Q Consensus 387 g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~lrv 466 (930)
|-..++...++...++..|..||.|.+.+ | .++..+||.... .+.+- ....+|+|
T Consensus 361 g~~v~p~lvvI~l~~~r~We~VG~We~~~-L--------------------~M~y~vWPr~~~-~~q~~---~d~~HL~V 415 (1258)
T KOG1053|consen 361 GYLVHPNLVVIDLNRDRTWERVGSWENGT-L--------------------VMKYPVWPRYHK-FLQPV---PDKLHLTV 415 (1258)
T ss_pred ceeeccceEEEecCCCcchheeceecCCe-E--------------------EEeccccccccC-ccCCC---CCcceeEE
Confidence 99899999999888888889999997765 3 345668883322 12111 13457888
Q ss_pred EecCcccccccEEeec-----------------------------CcceEEEEeHHHHHHHHHHCCCcccEEEEeCCC-C
Q 002368 467 GVPNRVSYRDFVFKVN-----------------------------GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD-G 516 (930)
Q Consensus 467 ~v~~~~~~~p~~~~~~-----------------------------~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~-~ 516 (930)
.+.+..||......|+ -+.|++||||||++.+++..||++++..+..|. |
T Consensus 416 vTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGKhG 495 (1258)
T KOG1053|consen 416 VTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGKHG 495 (1258)
T ss_pred EEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCccc
Confidence 8876533322211111 023899999999999999999998888877653 3
Q ss_pred -CCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHH
Q 002368 517 -HKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFL 595 (930)
Q Consensus 517 -~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~ 595 (930)
..||.|+||+++|..+++||++++++|+++|.+.+|||.||.++++.++|...+...+..+||.||++.+|++++++++
T Consensus 496 kk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm~l 575 (1258)
T KOG1053|consen 496 KKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVMCL 575 (1258)
T ss_pred ceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHHHH
Confidence 3789999999999999999999999999999999999999999999999999998889999999999999999999888
Q ss_pred HHHHh-hhheeeccCCCC---------CCCCcccchhhHHHHHHHhhccc--cCCcccchhHHHHHHHHHHHHHhhhhhh
Q 002368 596 VVGTV-VWILEHRLNDEF---------RGPPRKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSSYT 663 (930)
Q Consensus 596 ~~~~~-~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yt 663 (930)
+++.+ ++++|+.++-.| .|.+.++++.++|..|+.+|... .++|++..+|+++.+|.||++|+.++||
T Consensus 576 ivaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAsYT 655 (1258)
T KOG1053|consen 576 IVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLASYT 655 (1258)
T ss_pred HHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Confidence 77554 668888875433 23357789999999999999874 6699999999999999999999999999
Q ss_pred hhhheeeeeccccCCCCChHHhhhC-------CCeEEEEeCchhHHHHHHhcCCCccceEeC--CCHHHHHHHHHcCCcE
Q 002368 664 ASLTSILTVQQLSSPIKGIDTLMTS-------NDRVGYQVGSFAENYLIEELSIPKSRLVAL--GSPEEYAIALENRTVA 734 (930)
Q Consensus 664 a~L~s~Lt~~~~~~~i~sl~dL~~s-------~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~l~~g~~~ 734 (930)
|||++||....+..++.++.|=+-+ +.+.|.+.++..+.++++++.....-++.| ...+++++.|++|+.|
T Consensus 656 ANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK~gKLD 735 (1258)
T KOG1053|consen 656 ANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLKNGKLD 735 (1258)
T ss_pred HHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHhcccch
Confidence 9999999999999999999885422 346888877777888876553333334334 4789999999999999
Q ss_pred EEEccchhhHHHHhc--CcceEEeC--CccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhhcccCCCCCCCC
Q 002368 735 AVVDERPYIDLFLSD--HCQFSVRG--QEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLRKKACSSESS 810 (930)
Q Consensus 735 a~~~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~~~~~~~~~~~~ 810 (930)
||+.+...++|...+ .|+|..++ +.|.+.+||+++|||||++..+|.+|+++...|.|+.+++.|+. ..|.....
T Consensus 736 AFIyDaAVLnY~agkDegCKLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wlt-gic~n~k~ 814 (1258)
T KOG1053|consen 736 AFIYDAAVLNYMAGKDEGCKLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLT-GICHNSKN 814 (1258)
T ss_pred hHHHHHHHHHHhhccCCCceEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhh-cccccchh
Confidence 999999999999887 69999998 89999999999999999999999999999999999999999998 77777777
Q ss_pred CCCCCcccccccchhHHHHHHHHHHHHHHHHHHHHHH
Q 002368 811 QSDSEQLQIQSFRGLFLICGIACFLALLAYFCLMLRQ 847 (930)
Q Consensus 811 ~~~~~~l~l~~~~g~f~il~~g~~lallvf~~e~~~~ 847 (930)
+..+.+|++++|.|+|++|++|+++|+++|++|-++.
T Consensus 815 evmSsqLdIdnmaGvFymL~~amgLSllvfi~EHlvY 851 (1258)
T KOG1053|consen 815 EVMSSQLDIDNMAGVFYMLAVAMGLSLLVFIWEHLVY 851 (1258)
T ss_pred hhhhcccChhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7789999999999999999999999999999996543
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=6e-65 Score=607.88 Aligned_cols=594 Identities=36% Similarity=0.608 Sum_probs=507.7
Q ss_pred HHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCCh
Q 002368 209 NELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSK 288 (930)
Q Consensus 209 ~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 288 (930)
..+.+++....+++++++.+..+..++.++.++||+..+|+|+.+.......+.... ....+.++|.++...+.|.+.
T Consensus 4 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~ 81 (656)
T KOG1052|consen 4 KLLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSE 81 (656)
T ss_pred hHHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccH
Confidence 345667778899999999999999999999999999999999999987776665432 345577889999999999999
Q ss_pred hhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHH
Q 002368 289 RRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLAN 368 (930)
Q Consensus 289 ~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 368 (930)
..+.|..+|+.. + ...+.++.++||++++++.|++.+.. ... ....|...+.|.++..+.+.
T Consensus 82 ~~~~~~~~~~~~-~--~~~~~~~~~~~D~~~~~a~~~~~~~~-~~~--------------~~~~~~~~~~~~~~~~~~~~ 143 (656)
T KOG1052|consen 82 LLQNFVTRWQTS-N--VELLVYALWAYDAIQALARAVESLLN-IGN--------------LSLSCGRNNSWLDALGVFNF 143 (656)
T ss_pred HHHHHHHHHhhc-c--ccccchhhHHHHHHHHHHHHHHHhhc-CCC--------------CceecCCCCcccchhHHHHH
Confidence 999999999876 2 45788899999999999999999864 111 12233333445567788888
Q ss_pred HHhcccc---CcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCccccCCcccccCCCCCCCCCccceeeEeC
Q 002368 369 ILQTNMT---GLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWP 445 (930)
Q Consensus 369 l~~~~f~---G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wp 445 (930)
+...... |.+|.+.++.++.+....|+|+|+.+.+. +.||.|++..| ..|.||
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~-~~ig~W~~~~~-----------------------~~i~~~ 199 (656)
T KOG1052|consen 144 GKKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGE-RRIGYWYPRGG-----------------------ENISWP 199 (656)
T ss_pred HHhhhhhccccceeEEEecCCCccccceEEEEEecCcCc-eeEEEecCCCC-----------------------ceeecc
Confidence 8776644 45678888888888999999999999998 88999988764 468999
Q ss_pred CCcccCCCcccccCCCcceEEEecCcccccccEEee---cCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCC--CCC
Q 002368 446 GGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKV---NGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH--KNP 520 (930)
Q Consensus 446 g~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~~---~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~--~n~ 520 (930)
+.....|++|.+|.+|+++||+++...||.-+.... .++..+.|+|+|+++++++++||++++..++.+.|. ++|
T Consensus 200 ~~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g 279 (656)
T KOG1052|consen 200 GKDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNG 279 (656)
T ss_pred CCcccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCC
Confidence 999999999999999999999999876665555541 145689999999999999999999999998876544 457
Q ss_pred CHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHh
Q 002368 521 TYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTV 600 (930)
Q Consensus 521 ~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~ 600 (930)
+|+|++++|.+|++|++ ++++++++|.+++|||.||++.++++++++++..+..|.|++||++++|+++++++++++++
T Consensus 280 ~~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~ 358 (656)
T KOG1052|consen 280 NWDGLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLL 358 (656)
T ss_pred ChhHHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHH
Confidence 99999999999999999 89999999999999999999999999999999666699999999999999999999999999
Q ss_pred hhheeeccCCCCCCCC-----cccchhhHHHHHHHhhcccc-CCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeecc
Q 002368 601 VWILEHRLNDEFRGPP-----RKQIVTVLWFSFSTMFFAHR-ENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQ 674 (930)
Q Consensus 601 ~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~-~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~ 674 (930)
+|+++|+.+.++ .++ .....+++|+++++++.|+. +.|++.++|+++++||++++|++++|||+|+|+||+++
T Consensus 359 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~ 437 (656)
T KOG1052|consen 359 LWILERLSPYEL-PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPR 437 (656)
T ss_pred HHHHhccccccC-CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 999999999888 222 11245578999999998874 58999999999999999999999999999999999999
Q ss_pred ccCCCCChHHhhh-CCCeEEEEeCchhHHHHHHh---cCCCcc-ceEeCCCHHHHHHHHHcC---CcEEEEccchhhHHH
Q 002368 675 LSSPIKGIDTLMT-SNDRVGYQVGSFAENYLIEE---LSIPKS-RLVALGSPEEYAIALENR---TVAAVVDERPYIDLF 746 (930)
Q Consensus 675 ~~~~i~sl~dL~~-s~~~i~~~~~s~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~g---~~~a~~~~~~~~~~~ 746 (930)
+.++|++++||.+ ++.++|...+++...++.+. .....+ +.+.+.+.+|+.+++++| +++++.++.++..++
T Consensus 438 ~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~ 517 (656)
T KOG1052|consen 438 LRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLF 517 (656)
T ss_pred cCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHH
Confidence 9999999999995 88899999999999999776 333444 677889999999999998 455555555555555
Q ss_pred Hhc-CcceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhhcccC----CCCCCCCCCCCCcccccc
Q 002368 747 LSD-HCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLRKK----ACSSESSQSDSEQLQIQS 821 (930)
Q Consensus 747 ~~~-~~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~~~~~----~~~~~~~~~~~~~l~l~~ 821 (930)
.++ .|+++++++.+...+++ ++||||||++.++++|+++.|.|.+++|+++|+... .|.... ....|++++
T Consensus 518 ~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~l~~~~ 593 (656)
T KOG1052|consen 518 LRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKALDLES 593 (656)
T ss_pred hhcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---cccccchhh
Confidence 543 39999999999999999 999999999999999999999999999999999943 444433 467899999
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 002368 822 FRGLFLICGIACFLALLAYFCLMLRQFKKYS 852 (930)
Q Consensus 822 ~~g~f~il~~g~~lallvf~~e~~~~~~~~~ 852 (930)
++|+|+++++|+++|+++|++|++|++++..
T Consensus 594 ~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 594 FWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999988876
No 5
>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=7.1e-47 Score=423.26 Aligned_cols=337 Identities=21% Similarity=0.279 Sum_probs=288.0
Q ss_pred chHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-------------------CcEEEEccCC
Q 002368 40 GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-------------------DTLAIVGPQS 100 (930)
Q Consensus 40 G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-------------------~v~aiiGp~~ 100 (930)
|.....|+++|+|+||++| +|+|++|+++++|+|+++..|+.++.+|+++ +|.|||||.+
T Consensus 34 g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 34 GFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred HHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 6778899999999999999 5579999999999999999999999999974 7999999999
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHH
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~ 179 (930)
|+.+.+++++++.++||+||++++++.|++ .+||||||+.|+|..|+.+++++++++||++|++|+.|++||++..+.|
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f 192 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETF 192 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHH
Confidence 999999999999999999999999999998 7899999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCC---hhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcc
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVT---ETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~---~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 256 (930)
.+++++.|+||+..+.++.+.+.. ..++..+++++++++|||||+.+...++..++++|+++|+ +++||++++|
T Consensus 193 ~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w 269 (403)
T cd06361 193 IIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNW 269 (403)
T ss_pred HHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcc
Confidence 999999999999999998752111 1567777777899999999999999999999999999998 6899999998
Q ss_pred cccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcce
Q 002368 257 STFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (930)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~ 336 (930)
.+...... ........|++++.+..+..+ .|.+.|++.+ ..++||||+++|+||++++...
T Consensus 270 ~~~~~~~~---~~~~~~~~g~ig~~~~~~~~~---~F~~~~~~~~---------~~~v~~AVyaiA~Al~~~~~~~---- 330 (403)
T cd06361 270 STAKKILT---DPNVKKIGKVVGFTFKSGNIS---SFHQFLKNLL---------IHSIQLAVFALAHAIRDLCQER---- 330 (403)
T ss_pred cCcccccc---CCcccccceEEEEEecCCccc---hHHHHHHHhh---------HHHHHHHHHHHHHHHHHhccCC----
Confidence 76433321 122356788999888665444 5666666554 3468999999999999974321
Q ss_pred ecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecC---ceeEEeEecC
Q 002368 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG---YPQQIGYWSN 413 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~---~~~~VG~w~~ 413 (930)
.|...... ++.+|+++|++++|+|++|++.||++|++ ...|+|+|++.++ .+++||.|++
T Consensus 331 ---------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~ 393 (403)
T cd06361 331 ---------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDP 393 (403)
T ss_pred ---------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeC
Confidence 13333333 48999999999999999889999999995 7799999999533 3699999988
Q ss_pred CCC
Q 002368 414 YSG 416 (930)
Q Consensus 414 ~~g 416 (930)
.+.
T Consensus 394 ~~~ 396 (403)
T cd06361 394 QND 396 (403)
T ss_pred CCC
Confidence 764
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=1e-46 Score=422.62 Aligned_cols=365 Identities=21% Similarity=0.321 Sum_probs=307.7
Q ss_pred eEEEeEEee-cC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEccCC
Q 002368 26 VLNVGAIFS-FG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQS 100 (930)
Q Consensus 26 ~I~IG~~~~-l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~ 100 (930)
.|+||+++| ++ +..|...+.|+++|+++||+++++|++.+|.+.+.+.++ ++..+...+++++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 55 566888999999999999999999999999999999665 6667777888877789999999999
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHH
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG 180 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~ 180 (930)
|..+.++++++++++||+|++++++|.+++. .+|++|+.|++..++.++++++++++|++|++||+++. |....+.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHH
Confidence 9999999999999999999999999988864 35778888999899999999999999999999997654 666666888
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccc
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (930)
+.+++.|++|+. +.++.+ +.|++++|++||+.++++||++++..++..+++||+++||+.+.|.|+.++......
T Consensus 160 ~~~~~~g~~v~~-~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKI-RQLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEE-EECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 888899999986 447655 689999999999999999999999999999999999999999999999877533322
Q ss_pred cCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhh-cCCCC---------CCCchhhhHhhHHHHHHHHHHHhhh
Q 002368 261 DSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SNGSI---------GLNPYGLYAYDTVWMIARALKLFLD 330 (930)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~YDav~~la~Al~~a~~ 330 (930)
+. +........+.+++...++++..++|.++|+++ ++... .+..+++++||||+++++|++++..
T Consensus 235 ~~-----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~ 309 (384)
T cd06393 235 DL-----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQ 309 (384)
T ss_pred cc-----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhh
Confidence 22 111112223567777788899999999999854 55211 1256899999999999999997643
Q ss_pred cCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEcc-CCCCCCCcEEEEEeeecCceeEEe
Q 002368 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVIEHGYPQQIG 409 (930)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~~~~~~y~I~~~~~~~~~~~VG 409 (930)
.. ...+.|+...+|..|.+|+++|++++|+|+||+++||+ +|.|.+..|+|+|+.++|. +.||
T Consensus 310 ~~---------------~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~-~~vg 373 (384)
T cd06393 310 MT---------------VNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGL-EKVG 373 (384)
T ss_pred cC---------------CCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcc-eeeE
Confidence 21 12345777789999999999999999999999999996 6788999999999999999 9999
Q ss_pred EecCCCCcc
Q 002368 410 YWSNYSGLS 418 (930)
Q Consensus 410 ~w~~~~gl~ 418 (930)
+|++..||+
T Consensus 374 ~W~~~~g~~ 382 (384)
T cd06393 374 VWNPNTGLN 382 (384)
T ss_pred EEcCCCCcC
Confidence 999999975
No 7
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=1.2e-46 Score=432.64 Aligned_cols=371 Identities=22% Similarity=0.337 Sum_probs=310.0
Q ss_pred ceEEEeEEeecCC-------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 002368 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-- 89 (930)
Q Consensus 25 ~~I~IG~~~~l~~-------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 89 (930)
+++.||++||++. ..|.....|+++|+|+||++||+|+|++|+++++|+|+++..|+..+.+|+.
T Consensus 1 Gd~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~ 80 (452)
T cd06362 1 GDIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRAS 80 (452)
T ss_pred CCeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhh
Confidence 4689999999962 3577889999999999999999999999999999999999999999999985
Q ss_pred ---------------------cCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHH
Q 002368 90 ---------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (930)
Q Consensus 90 ---------------------~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~ 147 (930)
.+|.+||||.+|+.+.++++++..+++|+|+++++++.+++ .+||||||+.|++..|+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999997 68999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc-CCceEEEEEc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHG 226 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~viv~~~ 226 (930)
.++++++++++|++|++|+.|++||+...+.|.+.+++.|++|+..+.++.. ....|+.+++++|++ .++|+||+.+
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 9999999999999999999999999999999999999999999998888764 457899999999987 5799999999
Q ss_pred chhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHH-------------
Q 002368 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDF------------- 293 (930)
Q Consensus 227 ~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f------------- 293 (930)
...++..++++|++.|++ .+++||++++|....... ....+..+|++++.++....+.+++|
T Consensus 239 ~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~ 313 (452)
T cd06362 239 REDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV----EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNP 313 (452)
T ss_pred ChHHHHHHHHHHHHcCCc-CceEEEEeccccccchhh----cccccccceEEEEEecccccccHHHHhhhCCcCcCCCCh
Confidence 999999999999999997 568999999876542221 23346788998888776555444443
Q ss_pred --HHHHHhhcCCC----------------------CCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCC
Q 002368 294 --VSRWNTLSNGS----------------------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGG 349 (930)
Q Consensus 294 --~~~~~~~~~~~----------------------~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~ 349 (930)
.+.|+..|++. .....++++.|||||++|+|+++++.+++...
T Consensus 314 ~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~------------- 380 (452)
T cd06362 314 WFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT------------- 380 (452)
T ss_pred HHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------
Confidence 33344444311 01244788999999999999999976543210
Q ss_pred cccCCCccccCchHHHHHHHHhccccCcce-eEEEccCCCCCCCcEEEEEeeec---CceeEEeEecCCCCc
Q 002368 350 TLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIEH---GYPQQIGYWSNYSGL 417 (930)
Q Consensus 350 ~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~~~~~~y~I~~~~~~---~~~~~VG~w~~~~gl 417 (930)
...|.....+ ++.+|+++|++++|.|++| +|.||++|++ ...|+|+|++.+ ..+++||+|++..||
T Consensus 381 ~~~c~~~~~~-~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 381 TGLCDAMKPI-DGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred CCCCcCccCC-CHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 0123333333 5999999999999999998 7999999996 569999999842 224999999887764
No 8
>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=1.7e-46 Score=431.56 Aligned_cols=375 Identities=20% Similarity=0.309 Sum_probs=310.0
Q ss_pred CCCceEEEeEEeecCC-----------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHH
Q 002368 22 LKPEVLNVGAIFSFGT-----------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGA 84 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~~-----------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a 84 (930)
..+++|.||++||++. ..|.....|+.+|+|+||+++++|||++|++.++|+|+++..|++.+
T Consensus 5 ~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~ 84 (472)
T cd06374 5 RMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQS 84 (472)
T ss_pred EecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHH
Confidence 4678999999999973 13667789999999999999999999999999999999999999999
Q ss_pred HHHHhc--------------------------CcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEE
Q 002368 85 LQFMET--------------------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFV 137 (930)
Q Consensus 85 ~~li~~--------------------------~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~f 137 (930)
.+++.+ +|.|||||.+|+.+.+++++++.+++|+|+++++++.+++ ..|||||
T Consensus 85 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~f 164 (472)
T cd06374 85 IEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFL 164 (472)
T ss_pred HHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceE
Confidence 999852 7999999999999999999999999999999999999998 5799999
Q ss_pred EccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC
Q 002368 138 QTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM 217 (930)
Q Consensus 138 r~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~ 217 (930)
|+.|+|..|+.++++++++++|++|++||+|++||+...+.|.+.+++.|+||++.+.++.. ....|+..+|.+|+++
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~~ 242 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRSR 242 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999998888654 4478999999999976
Q ss_pred Cce--EEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHH--
Q 002368 218 EAR--VIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDF-- 293 (930)
Q Consensus 218 ~~~--viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f-- 293 (930)
++| ||++.+...++..++++++++||. .+++||++++|.+..... ....+.++|++++.++.+..+.+++|
T Consensus 243 ~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~ 317 (472)
T cd06374 243 LPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYL 317 (472)
T ss_pred CCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHH
Confidence 554 566667777899999999999996 568999999886532221 23456789999999888877777665
Q ss_pred -------------HHHHHhhcCCCC------------------------CCCchhhhHhhHHHHHHHHHHHhhhcCCcce
Q 002368 294 -------------VSRWNTLSNGSI------------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (930)
Q Consensus 294 -------------~~~~~~~~~~~~------------------------~~~~~~~~~YDav~~la~Al~~a~~~~~~~~ 336 (930)
.+.|+..|++.. ....+++++|||||++|+|++++..+.+..
T Consensus 318 ~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~- 396 (472)
T cd06374 318 KLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG- 396 (472)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC-
Confidence 345665554210 011455689999999999999997543211
Q ss_pred ecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcce-eEEEccCCCCCCCcEEEEEeeec----CceeEEeEe
Q 002368 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIEH----GYPQQIGYW 411 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~~~~~~y~I~~~~~~----~~~~~VG~w 411 (930)
....|...... ++.+|+++|++++|+|++| +|.||++|++ ...|+|+|++.. ..++.||.|
T Consensus 397 ------------~~~~c~~~~~~-~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~-~~~ydI~n~~~~~~~~~~~~~VG~w 462 (472)
T cd06374 397 ------------HVGLCDAMKPI-DGRKLLEYLLKTSFSGVSGEEVYFDENGDS-PGRYDIMNLQYTEDLRFDYINVGSW 462 (472)
T ss_pred ------------CCCCCcCCCCC-CHHHHHHHHHhCcccCCCCCeEEEcCCCCC-CCceEEEEEEECCCCCEEEEEEEEE
Confidence 11123333333 4999999999999999999 6999999996 568999999952 224999999
Q ss_pred cCCCCccc
Q 002368 412 SNYSGLSV 419 (930)
Q Consensus 412 ~~~~gl~~ 419 (930)
++ .+|.+
T Consensus 463 ~~-~~l~~ 469 (472)
T cd06374 463 HE-GDLGI 469 (472)
T ss_pred eC-Ccccc
Confidence 74 35543
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=4.6e-46 Score=423.86 Aligned_cols=365 Identities=22% Similarity=0.343 Sum_probs=310.0
Q ss_pred ceEEEeEEeecCC-------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh--
Q 002368 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-- 89 (930)
Q Consensus 25 ~~I~IG~~~~l~~-------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~-- 89 (930)
++|.||++||++. ..|.....|+.+|+|+||+++++|||.+|++.++|+|+++..|++++.+++.
T Consensus 1 Gd~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~ 80 (458)
T cd06375 1 GDLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRAS 80 (458)
T ss_pred CCEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhh
Confidence 4789999999962 3588889999999999999999999999999999999999999999998883
Q ss_pred -----------------------cCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHH
Q 002368 90 -----------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLY 145 (930)
Q Consensus 90 -----------------------~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~ 145 (930)
.+|.|||||.+|+.+.+++++++.++||+|+++++++.|++ .+||||||+.|+|..
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~ 160 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFY 160 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHH
Confidence 27999999999999999999999999999999999999998 679999999999999
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc-CCceEEEE
Q 002368 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVV 224 (930)
Q Consensus 146 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~viv~ 224 (930)
|+.+++++++++||++|++||.|++||+...+.|.+++++.|+||+..+.++.. ....|+..+++++++ .++||||+
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~l~~~~~a~vVvl 238 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRS--ADRKSYDSVIRKLLQKPNARVVVL 238 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CCHHHHHHHHHHHhccCCCEEEEE
Confidence 999999999999999999999999999999999999999999999999888765 457899999999975 79999999
Q ss_pred EcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHH---------
Q 002368 225 HGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS--------- 295 (930)
Q Consensus 225 ~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~--------- 295 (930)
.+...++..++++|+++|+. ++||++++|....... ....+.++|++++.+.....+.+++|.+
T Consensus 239 ~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~----~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~ 311 (458)
T cd06375 239 FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV----KGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTR 311 (458)
T ss_pred ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh----hccchhhceEEEEEeccccchhHHHHHHhCCcCcCCC
Confidence 99999999999999999985 7999999886432211 1234678999999998877777776654
Q ss_pred ------HHHhhcCCCC----------------------CCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCC
Q 002368 296 ------RWNTLSNGSI----------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLG 347 (930)
Q Consensus 296 ------~~~~~~~~~~----------------------~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~ 347 (930)
-|+..|++.. .......+.||||+++|+||++++.+.++.
T Consensus 312 n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~------------ 379 (458)
T cd06375 312 NPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPN------------ 379 (458)
T ss_pred CcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCC------------
Confidence 3666664110 113467889999999999999998654321
Q ss_pred CCcccCCCccccCchHHHH-HHHHhcccc-----Ccce-eEEEccCCCCCCCcEEEEEeee--cC---ceeEEeEecC
Q 002368 348 GGTLNLGALSIFDGGKKFL-ANILQTNMT-----GLSG-PIHFNQDRSLLHPSYDIINVIE--HG---YPQQIGYWSN 413 (930)
Q Consensus 348 ~~~~~~~~~~~~~~~~~l~-~~l~~~~f~-----G~tG-~v~fd~~g~~~~~~y~I~~~~~--~~---~~~~VG~w~~ 413 (930)
....|..+..++ +.+|+ +.|++++|. |.+| +|.||++|+. ...|+|+|++. ++ .++.||.|+.
T Consensus 380 -~~~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 380 -TTKLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred -CCCCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 112355555564 88999 599999999 9988 5999999994 77999999993 22 2589999954
No 10
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=100.00 E-value=9.9e-46 Score=425.35 Aligned_cols=374 Identities=21% Similarity=0.292 Sum_probs=310.6
Q ss_pred CCCceEEEeEEeecCC----------------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHH
Q 002368 22 LKPEVLNVGAIFSFGT----------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFL 79 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~~----------------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~ 79 (930)
..+++|.||++||++. ..|.....|+++|+|+||+++++||+.+|+++++|+|+++..
T Consensus 8 ~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~ 87 (510)
T cd06364 8 QKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSK 87 (510)
T ss_pred eecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHH
Confidence 4678999999999973 347788999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-C------------------cEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEc
Q 002368 80 SIMGALQFMET-D------------------TLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQT 139 (930)
Q Consensus 80 a~~~a~~li~~-~------------------v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~ 139 (930)
|+.++.+|+.+ + |.|||||.+|+++.++++++..++||+|+++++++.+++ .+||||||+
T Consensus 88 a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt 167 (510)
T cd06364 88 ALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEc
Confidence 99999999865 2 469999999999999999999999999999999999998 689999999
Q ss_pred cCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCc
Q 002368 140 APNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA 219 (930)
Q Consensus 140 ~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~ 219 (930)
.|+|..|+.+++++++++||++|++|+.|++||+...+.|++.+++.|+||+..+.++.. ....|+.+++.++++++|
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~a 245 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNSTA 245 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999998888764 357899999999999999
Q ss_pred eEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHH-----
Q 002368 220 RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV----- 294 (930)
Q Consensus 220 ~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~----- 294 (930)
||||+.+...++..++++++++|+. +++||++++|........ ....+.+.|++++.+.....+.+++|.
T Consensus 246 ~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~---~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p 320 (510)
T cd06364 246 KVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAM---PEYFDVMGGTIGFALKAGQIPGFREFLQKVHP 320 (510)
T ss_pred eEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccccc---CCccceeeEEEEEEECCCcCccHHHHHHhCCc
Confidence 9999999999999999999999985 469999998865433221 234567889999988776666555443
Q ss_pred ----------HHHHhhcCCCC-----C---------------------------------------------CCchhhhH
Q 002368 295 ----------SRWNTLSNGSI-----G---------------------------------------------LNPYGLYA 314 (930)
Q Consensus 295 ----------~~~~~~~~~~~-----~---------------------------------------------~~~~~~~~ 314 (930)
+.|++.|++.. . ...++.+.
T Consensus 321 ~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v 400 (510)
T cd06364 321 KKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNV 400 (510)
T ss_pred ccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHH
Confidence 33555554210 0 11235679
Q ss_pred hhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcce-eEEEccCCCCCCCc
Q 002368 315 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPS 393 (930)
Q Consensus 315 YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~~~~~~ 393 (930)
||||+++|+||++++.+.... ..-....|..+..+. +.+|++.|++++|.|.+| ++.||++|++ ...
T Consensus 401 ~~AVyAvAhaLh~~~~c~~~~----------~~~~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~ 468 (510)
T cd06364 401 YLAVYSIAHALQDIYTCTPGK----------GLFTNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGN 468 (510)
T ss_pred HHHHHHHHHHHHHHhcCCCCC----------CCccCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCCC-ccc
Confidence 999999999999998653110 000011355544554 889999999999999988 5999999995 779
Q ss_pred EEEEEeee---cCc--eeEEeEecCC
Q 002368 394 YDIINVIE---HGY--PQQIGYWSNY 414 (930)
Q Consensus 394 y~I~~~~~---~~~--~~~VG~w~~~ 414 (930)
|+|+|++. ++. +++||.|++.
T Consensus 469 YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 469 YSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 99999994 332 5899999764
No 11
>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=1.1e-45 Score=424.05 Aligned_cols=367 Identities=20% Similarity=0.327 Sum_probs=300.2
Q ss_pred ceEEEeEEeecC--C-----------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH----HHHHH
Q 002368 25 EVLNVGAIFSFG--T-----------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM----GALQF 87 (930)
Q Consensus 25 ~~I~IG~~~~l~--~-----------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~----~a~~l 87 (930)
++|+||+++|++ . ..|.+...|+++|+|+||+++++|||++|+++++|+|+++..+.. .+.++
T Consensus 1 Gdi~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l 80 (463)
T cd06376 1 GDITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQAL 80 (463)
T ss_pred CCeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhh
Confidence 479999999997 1 257778999999999999999999999999999999997764444 44455
Q ss_pred Hh-------------------cCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHH
Q 002368 88 ME-------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (930)
Q Consensus 88 i~-------------------~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~ 147 (930)
++ ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 43 27999999999999999999999999999999999999987 67999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhc-CCceEEEEE
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVH 225 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~viv~~ 225 (930)
.+++++++++||++|++||.|++||....+.|.+.+++.| ++|...+.++.. ..+.|+..+|++|++ .++|+||+.
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~ 238 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIF 238 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEe
Confidence 9999999999999999999999999999999999999974 688766666544 457899999999987 799999999
Q ss_pred cchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHH-----------
Q 002368 226 GYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV----------- 294 (930)
Q Consensus 226 ~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~----------- 294 (930)
+...++..++++|+++|+.+ .|+||++++|........ ...+.+.|++++.+.....+.+++|.
T Consensus 239 ~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~----~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~ 313 (463)
T cd06376 239 ANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL----QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRN 313 (463)
T ss_pred cChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc----cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCC
Confidence 99999999999999999865 599999998865433211 12356889999988877777666654
Q ss_pred ----HHHHhhcCCCCC--------------------------CCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccC
Q 002368 295 ----SRWNTLSNGSIG--------------------------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLN 344 (930)
Q Consensus 295 ----~~~~~~~~~~~~--------------------------~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~ 344 (930)
+.|+..|++..+ ....++++||||+++|+|+++++.+.+..
T Consensus 314 ~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~--------- 384 (463)
T cd06376 314 VWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG--------- 384 (463)
T ss_pred cHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC---------
Confidence 357665542210 01257799999999999999997553321
Q ss_pred CCCCCcccCCCccccCchHHHHHHHHhccccCcce-eEEEccCCCCCCCcEEEEEeee----cCceeEEeEecC
Q 002368 345 GLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYWSN 413 (930)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~~~~~~y~I~~~~~----~~~~~~VG~w~~ 413 (930)
....|.....+ ++.+|+++|++++|+|++| +|.||++|++ ...|+|++++. ...+++||.|++
T Consensus 385 ----~~~~C~~~~~~-~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ----YTGVCPEMEPA-DGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ----CCCCCccCCCC-CHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 11134443334 4899999999999999999 6999999996 56899999983 222499999975
No 12
>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=7e-46 Score=412.60 Aligned_cols=339 Identities=40% Similarity=0.711 Sum_probs=305.8
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~~~ 105 (930)
|||+++|++ +..|.....|+++|+|+||++||+++|++|+++++|++|+|..|++++++|+++ +|.+||||.+|..+.
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~ 80 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAE 80 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHH
Confidence 699999999 888999999999999999999976679999999999999999999999999988 999999999999999
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~ 184 (930)
++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|+.|++||+...+.+.+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~ 160 (350)
T cd06366 81 FVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQ 160 (350)
T ss_pred HHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHH
Confidence 9999999999999999999999965 678999999999999999999999999999999999999999999999999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC-C
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS-K 263 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~-~ 263 (930)
+.|++|+..+.++.+ .+..|+.++++++++.+||+|++++.+.++..+++|++++||..++|+|+.++++...++. .
T Consensus 161 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 238 (350)
T cd06366 161 EAGIEISYRAAFPPS--ANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSS 238 (350)
T ss_pred HcCCEEEEEeccCCC--CChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCC
Confidence 999999999988875 3468999999999999999999999999999999999999998888999999876544311 0
Q ss_pred CCCchhhhhcccceEEEEEecCC-ChhhHHHHHHHHhhcCCCC----CCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 264 SPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
....+...+..+|++++.++.++ ++..++|.++|+++++... +|+.+++++|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee------------------
Confidence 11124556788999999998887 8889999999999996321 578899999999987
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCcc
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl~ 418 (930)
+.+|+|++|+++||++|++....|.++++.++++ +.||+|++..|++
T Consensus 301 --------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~-~~vg~~~~~~~~~ 347 (350)
T cd06366 301 --------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGY-RKIGFWSSESGLS 347 (350)
T ss_pred --------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCce-EEEEEEeCCCCcc
Confidence 2478999999999999998889999999998888 9999999988876
Q ss_pred c
Q 002368 419 V 419 (930)
Q Consensus 419 ~ 419 (930)
.
T Consensus 348 ~ 348 (350)
T cd06366 348 V 348 (350)
T ss_pred c
Confidence 4
No 13
>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=3.5e-45 Score=401.49 Aligned_cols=363 Identities=21% Similarity=0.341 Sum_probs=294.9
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITM-HDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~-~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||++|+..+ .....|+++|++++|.+..++++.+|.+.+ .|+.+|+..+..++++|+++||.|||||.++..+..
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 3899999765 246899999999999998899999999999 999999999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEEeec-----------CCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcch
Q 002368 107 LSHLANELQVPLLSFTA-----------LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG 175 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a-----------~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~ 175 (930)
++.+|+..+||+|++++ ++|.++..+||++.|.. ..+.+|+++++++|+|++|++|| |++||...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp~---~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARPP---VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecCc---hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 99999999999999866 44555556677666663 35678999999999999999999 89999999
Q ss_pred HHHHHHHHHhcCcEEEEEEe-------cCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCce
Q 002368 176 VTALGDKLAEIRCKISYKSA-------LPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (930)
Q Consensus 176 ~~~~~~~l~~~g~~i~~~~~-------~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~ 248 (930)
.+.+.+++.+.+.+|.+... +++. . .+.....|.+++... ++||++++++.+..+++||.++||+..+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~v~~~~~~~~~~~--l-~~~~~~~L~~~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y 229 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQKVDRNISRVFTNL--F-TTMKTEELNRYRDTL-RRAILLLSPRGAQTFINEAVETNLASKDS 229 (400)
T ss_pred HHHHHHHHhhcCceEEEEEcccCcchhhhhH--H-HHHHHhhhhhccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCe
Confidence 99999999999999987652 2221 1 233444555666556 89999999999999999999999999999
Q ss_pred EEEEeCcccccccCCCCCchhhhhccc-ceEEEEEecCCChhhHHHH----HHHHhhcCC---C--CCCCchhhhHhhHH
Q 002368 249 VWIATTWLSTFIDSKSPLSLKTAKSIL-GALTLRQHTPDSKRRRDFV----SRWNTLSNG---S--IGLNPYGLYAYDTV 318 (930)
Q Consensus 249 ~~i~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~--~~~~~~~~~~YDav 318 (930)
+||.+++.....+. .+...... ++.+++.+.|.++...+|. .+|++.... . ..+..+++++||||
T Consensus 230 ~wI~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV 304 (400)
T cd06392 230 HWVFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSV 304 (400)
T ss_pred EEEEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHH
Confidence 99999987665443 22222222 3445888888877555554 677644321 1 14678999999999
Q ss_pred HHHHHHHHHhhhcCCcceecCCCccCCCCCCcccC--CCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEE
Q 002368 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (930)
Q Consensus 319 ~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I 396 (930)
|++|+|++.++.... ..+..+ ++| ++..+|..|..|+++|++++|+|+||+|+||++|+|.++.|+|
T Consensus 305 ~~~A~Al~~ll~~~~---------~~~~~~--l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldI 373 (400)
T cd06392 305 LMLANAFHRKLEDRK---------WHSMAS--LNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEI 373 (400)
T ss_pred HHHHHHHHHHhhccc---------cCCCCC--CccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEE
Confidence 999999998653221 112222 355 5688999999999999999999999999999999999999999
Q ss_pred EEe-----eecCceeEEeEecCCCCcc
Q 002368 397 INV-----IEHGYPQQIGYWSNYSGLS 418 (930)
Q Consensus 397 ~~~-----~~~~~~~~VG~w~~~~gl~ 418 (930)
+|+ .|.|. ++||+|++.+||.
T Consensus 374 i~l~~~~~~g~g~-~~iG~W~~~~gl~ 399 (400)
T cd06392 374 LGTSYSETFGKDV-RRLATWDSEKGLN 399 (400)
T ss_pred EeccccccCCCCc-eEeEEecCCCCCC
Confidence 994 47778 9999999999874
No 14
>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=2.6e-45 Score=419.57 Aligned_cols=369 Identities=22% Similarity=0.335 Sum_probs=304.6
Q ss_pred ceEEEeEEeecCC----------------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 002368 25 EVLNVGAIFSFGT----------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (930)
Q Consensus 25 ~~I~IG~~~~l~~----------------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~ 82 (930)
++|.||++||++. ..|.+...|+.+|+|+||++..+|||.+|++.++|+||++..|+.
T Consensus 1 Gdi~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~ 80 (469)
T cd06365 1 GDLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALE 80 (469)
T ss_pred CCeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHH
Confidence 4689999999851 126677899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHH
Q 002368 83 GALQFME--------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (930)
Q Consensus 83 ~a~~li~--------------~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~ 147 (930)
++.+++. .+++|||||.+|..+.+++++++.++||+|+++++++.+++ .+||||||+.|+|..|+
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHH
Confidence 9999985 36999999999999999999999999999999999999998 67999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
.++++++++++|++|++|+.|++||+...+.|.+++++.|+||++.+.++........++...+++++.+++||||+++.
T Consensus 161 ~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~ 240 (469)
T cd06365 161 LGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGD 240 (469)
T ss_pred HHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcC
Confidence 99999999999999999999999999999999999999999999999898762112348899999999999999999999
Q ss_pred hhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHH-----------
Q 002368 228 SRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR----------- 296 (930)
Q Consensus 228 ~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~----------- 296 (930)
..++..++.++.+.+. .+++||++++|....... ....+.++|++++.++.+..+.+++|.++
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw 314 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIF 314 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccH
Confidence 9888776555555443 468999999886543221 23457899999999999888888887655
Q ss_pred ----HHhhcCCC----------CC-----------------CCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCC
Q 002368 297 ----WNTLSNGS----------IG-----------------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNG 345 (930)
Q Consensus 297 ----~~~~~~~~----------~~-----------------~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~ 345 (930)
|+..|++. .. ....+.+.||||+++|+||++++.+++..
T Consensus 315 ~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~---------- 384 (469)
T cd06365 315 LEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVET---------- 384 (469)
T ss_pred HHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccC----------
Confidence 55444311 00 12246789999999999999998764321
Q ss_pred CCCCcccCCCccccCchHHHHHHHHhccccCccee-EEEccCCCCCCCcEEEEEeee--cC--ceeEEeEecCC
Q 002368 346 LGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGP-IHFNQDRSLLHPSYDIINVIE--HG--YPQQIGYWSNY 414 (930)
Q Consensus 346 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~-v~fd~~g~~~~~~y~I~~~~~--~~--~~~~VG~w~~~ 414 (930)
....+|.. ... .+.+|++.|++++|.|.+|. |.||+|||+ ...|+|+|++. ++ .+++||.|++.
T Consensus 385 --~~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 385 --QSENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred --CCcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 01122222 334 38899999999999999995 999999995 67999999983 22 35999999753
No 15
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=1.2e-44 Score=407.09 Aligned_cols=372 Identities=18% Similarity=0.276 Sum_probs=300.5
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||++++.+ +...+.|+++|+++||++..++++.+|.+.+.++. +|+..+++++++|++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 489999998 47889999999999999876667778887788776 79999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~ 186 (930)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..+++++++++||++|++||++++ |....+.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999999988875 4679999998863 458889999999999999997665 667777888899988
Q ss_pred C--cEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCC
Q 002368 187 R--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (930)
Q Consensus 187 g--~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (930)
| ++|... .+... ....|++.+|++||+.++|+||+.++.+++..+++||+++||+.++|+||.+++.....+.
T Consensus 153 g~~i~v~~~-~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~-- 227 (382)
T cd06380 153 DNKWQVTAR-RVDNV--TDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL-- 227 (382)
T ss_pred CCceEEEEE-EecCC--CcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH--
Confidence 8 666543 23322 2357999999999999999999999999999999999999999999999998765443322
Q ss_pred CCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC------CCCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
........++.++....+..+..++|.++|+++++.. ..++.+++++||||+++++|++++++.+++..+.
T Consensus 228 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~ 304 (382)
T cd06380 228 ---SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHR 304 (382)
T ss_pred ---HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccc
Confidence 1112223346666666667889999999999987521 2467799999999999999999997654321100
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCc
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl 417 (930)
.. ......+..|.-+...+|++|.+|+++|++++|+|++|+++||++|++....++|+++++++. +.||+|++..||
T Consensus 305 ~~-~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~-~~vg~w~~~~g~ 381 (382)
T cd06380 305 ID-ISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGL-RKVGYWNEDDGL 381 (382)
T ss_pred cc-cccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCc-eEEEEECCCcCc
Confidence 00 001112222222345678889999999999999999999999999998888999999998888 999999998875
No 16
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.1e-44 Score=409.82 Aligned_cols=353 Identities=24% Similarity=0.359 Sum_probs=298.3
Q ss_pred CCceEEEeEEeecCC---------------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHH
Q 002368 23 KPEVLNVGAIFSFGT---------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSI 81 (930)
Q Consensus 23 ~~~~I~IG~~~~l~~---------------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~ 81 (930)
.++++.||+++|++. ..|.....|+++|+|+||++||+|+|++|+++++|+|+ +..|+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~ 81 (410)
T cd06363 3 LPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANF 81 (410)
T ss_pred CCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHH
Confidence 578999999999863 23677899999999999999999999999999999976 77799
Q ss_pred HHHHHHHh----------------cCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChH
Q 002368 82 MGALQFME----------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDL 144 (930)
Q Consensus 82 ~~a~~li~----------------~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~ 144 (930)
+.+.+|++ ++|.+||||.+|+.+.+++++++++++|+|+++++++.+++ ..+||+||+.|++.
T Consensus 82 ~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~ 161 (410)
T cd06363 82 PPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDK 161 (410)
T ss_pred HHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcH
Confidence 99999984 48999999999999999999999999999999999999987 67899999999999
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 002368 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (930)
Q Consensus 145 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~ 224 (930)
.++.++++++++++|++|++++.|++||++..+.+.+.+++.|++|+..+.++... ..+.|+.++|.+|++++||+|++
T Consensus 162 ~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~-~~~~d~~~~l~~i~~~~~dvIil 240 (410)
T cd06363 162 DQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDT-DPETDYQQILKQINQTKVNVIVV 240 (410)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCC-chHHHHHHHHHHHhcCCCeEEEE
Confidence 99999999999999999999999999999999999999999999999988887531 23789999999999999999999
Q ss_pred EcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC
Q 002368 225 HGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS 304 (930)
Q Consensus 225 ~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 304 (930)
++.++++..+++|++++||.. .+|++++++........ ....+...+++++..+.+..+.+++|.++
T Consensus 241 ~~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~-------- 307 (410)
T cd06363 241 FASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDELPS---LPGIRNIGTVLGVAQQTVTIPGFSDFIYS-------- 307 (410)
T ss_pred EcChHHHHHHHHHHHhcCCCC--CEEEEeCcccccccccC---CccceeeccEEEEEeCCCCCccHHHHHHH--------
Confidence 999999999999999999854 48898876643221111 11223455677777777778888888876
Q ss_pred CCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEc
Q 002368 305 IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFN 384 (930)
Q Consensus 305 ~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd 384 (930)
+++.+||||+++|+|+++++..+.. .|...+.. ++++|+++|++++|+|++|++.||
T Consensus 308 -----~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~~~-~~~~l~~~L~~~~~~g~~g~i~fd 364 (410)
T cd06363 308 -----FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRVPV-YPWQLLEELKKVNFTLLGQTVRFD 364 (410)
T ss_pred -----HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCCCC-CHHHHHHHHhccEEecCCcEEEeC
Confidence 4567999999999999998654321 12211222 488999999999999999999999
Q ss_pred cCCCCCCCcEEEEEeeecC---ceeEEeEecCC
Q 002368 385 QDRSLLHPSYDIINVIEHG---YPQQIGYWSNY 414 (930)
Q Consensus 385 ~~g~~~~~~y~I~~~~~~~---~~~~VG~w~~~ 414 (930)
++|++ ...|.|++++.++ .+++||+|++.
T Consensus 365 ~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 365 ENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 99995 5689999996432 24999999874
No 17
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=1.9e-44 Score=403.97 Aligned_cols=353 Identities=16% Similarity=0.229 Sum_probs=294.5
Q ss_pred eEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 30 GAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 30 G~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
=+++|.+. ..+...+.|+++|+|+||+++|+++|++|+++++|++|++..+..++.++.+++|.|||||.||..+.+
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 45677542 235678999999999999999998899999999999999888888888888789999999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCC--CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcch---HHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG---VTALGD 181 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~---~~~~~~ 181 (930)
++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||++++||++. .+.+.+
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 999999999999999999999976 358999999999999999999999999999999999999999887 899999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++|+..+.++.+ +.|+..+|+++++.+ |+||+++..+++..++++|+++||+..+|+||..+...+...
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 999999999887665544 679999999999887 999999999999999999999999999999999986531110
Q ss_pred C------CCCCc---hhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCC------CCCCCchhhhHhhHHHHHHHHHH
Q 002368 262 S------KSPLS---LKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLNPYGLYAYDTVWMIARALK 326 (930)
Q Consensus 262 ~------~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~la~Al~ 326 (930)
. .+..+ ....+.++|+.++.++ .+.+++|.++|++++.. ...++.+++++|||++++|+|++
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 0 01111 2334556666555544 56788888888844321 12345889999999999999999
Q ss_pred HhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEee--ecCc
Q 002368 327 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI--EHGY 404 (930)
Q Consensus 327 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~--~~~~ 404 (930)
+++..+.+ +.+|.+|+++|++++|+|++|+++||++|+| ...|.|+.++ +++.
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 98654321 2269999999999999999999999999997 5699999997 3444
Q ss_pred eeEEeEecCCC
Q 002368 405 PQQIGYWSNYS 415 (930)
Q Consensus 405 ~~~VG~w~~~~ 415 (930)
++.||+|...+
T Consensus 370 ~~~~~~~~~~~ 380 (387)
T cd06386 370 YEVVGNYFGKN 380 (387)
T ss_pred EEEEeEEcccc
Confidence 59999997543
No 18
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.7e-44 Score=407.59 Aligned_cols=349 Identities=17% Similarity=0.290 Sum_probs=295.3
Q ss_pred EEEeEEeecCC----CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChh
Q 002368 27 LNVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (930)
Q Consensus 27 I~IG~~~~l~~----~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~ 102 (930)
||||+++|++. ..|....+|+++|+|+||++||+++|++|+++++|++|++..|+.++++|++++|.+||||.+|.
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~~v~aiiGp~~S~ 80 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKRGVVAFIGPECTC 80 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhcCceEEECCCchh
Confidence 68999999975 44999999999999999999999889999999999999999999999999999999999999985
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~ 181 (930)
.+ ++.++++++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|+.+++||++..+.+.+
T Consensus 81 ~~--~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 TT--EARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred HH--HHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 54 567999999999999999999987 679999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCcEEEEEEecCCCCC---CChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCC-CCceEEEEeCccc
Q 002368 182 KLAEIRCKISYKSALPPDQS---VTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMM-DSGYVWIATTWLS 257 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~---~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~-~~~~~~i~~~~~~ 257 (930)
.+++.|++|+..+.++.+.. ....++...+++++.. ++++|+++...++..|++||+++||+ ..+|+||+++...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 99999999999998876510 1147899999998865 77888888888999999999999998 5789999866311
Q ss_pred c------c---------ccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCC------------CCCCCch
Q 002368 258 T------F---------IDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------------SIGLNPY 310 (930)
Q Consensus 258 ~------~---------~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------------~~~~~~~ 310 (930)
. . ............++++|++.+.+..+ ++..++|.++|++++.. ...|+.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 0 0 01001111345567899988876655 77788999999887431 1246778
Q ss_pred hhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcce-eEEEccCCCC
Q 002368 311 GLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSL 389 (930)
Q Consensus 311 ~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~g~~ 389 (930)
++++|||++++|+|++++.+.++.. .++++|.++|++++|+|++| ++.||++|++
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~~------------------------~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGDI------------------------YNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCCC------------------------CCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 9999999999999999986543211 25899999999999999999 8999999996
Q ss_pred CCCcEEEEEeeecCc
Q 002368 390 LHPSYDIINVIEHGY 404 (930)
Q Consensus 390 ~~~~y~I~~~~~~~~ 404 (930)
...|.|++++++.+
T Consensus 373 -~~~y~v~~~~~~~~ 386 (404)
T cd06370 373 -EGNYSVLALQPIPP 386 (404)
T ss_pred -ccceEEEEeccccc
Confidence 68999999987655
No 19
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=3.8e-44 Score=401.74 Aligned_cols=334 Identities=21% Similarity=0.309 Sum_probs=277.6
Q ss_pred CCCceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCC-----CCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE
Q 002368 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRV-----LGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV 96 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggi-----l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii 96 (930)
..+.+|+||+++|. .....|+++|++++|++.+. ++|.++++ +++++..+..++.+|++++|.|||
T Consensus 15 ~~~~~i~IG~i~~~-----~~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~----~~~~~~~a~~~~~~Li~~~V~aii 85 (377)
T cd06379 15 CSPKTVNIGAVLSN-----KKHEQEFKEAVNAANVERHGSRKIKLNATTITH----DPNPIQTALSVCEQLISNQVYAVI 85 (377)
T ss_pred CCCcEEEEeEEecc-----hhHHHHHHHHHHHHhhhhcCCcceeeccceEee----cCChhhHHHHHHHHHhhcceEEEE
Confidence 34678999999984 35789999999999995443 33455555 344555566677788988999997
Q ss_pred c-cC-Chh---hHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC
Q 002368 97 G-PQ-SAV---MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD 170 (930)
Q Consensus 97 G-p~-~S~---~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~ 170 (930)
| +. +|. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|++..|+.++++++++++|++|++||++++
T Consensus 86 ~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~ 165 (377)
T cd06379 86 VSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDH 165 (377)
T ss_pred EeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCc
Confidence 4 33 343 4667888999999999999999999987 5699999999999999999999999999999999999999
Q ss_pred cCcchHHHHHHHHHhcCc----EEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 171 QGRNGVTALGDKLAEIRC----KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 171 ~g~~~~~~~~~~l~~~g~----~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
||++..+.+++.+++.|+ +|+..+.++.+ ..|+..+++++++.++|+|+++++.+++..++++++++||+++
T Consensus 166 ~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~ 241 (377)
T cd06379 166 EGRAAQKRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGE 241 (377)
T ss_pred chhHHHHHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCC
Confidence 999999999999999999 88888888766 7899999999999999999999999999999999999999999
Q ss_pred ceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHH
Q 002368 247 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 326 (930)
Q Consensus 247 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~ 326 (930)
+|+||.++.+... .....|++++++..+ ..+++++||||+++|+|++
T Consensus 242 ~~~wi~t~~~~~~-----------~~~~~g~~g~~~~~~----------------------~~~~~~~yDAV~~~A~Al~ 288 (377)
T cd06379 242 GYVWIVSEQAGAA-----------RNAPDGVLGLQLING----------------------KNESSHIRDAVAVLASAIQ 288 (377)
T ss_pred CEEEEEecccccc-----------ccCCCceEEEEECCC----------------------CCHHHHHHHHHHHHHHHHH
Confidence 9999999987321 234578888887542 1246789999999999999
Q ss_pred HhhhcCCcceecCCCccCCCCCCcccCCCc-cccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCce
Q 002368 327 LFLDQGNTISFSNDTKLNGLGGGTLNLGAL-SIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYP 405 (930)
Q Consensus 327 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~ 405 (930)
++...... ......|.+. .+|..|..++++|++++|+|++|+++||++|++....|+|+|+++.++
T Consensus 289 ~~~~~~~~------------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~- 355 (377)
T cd06379 289 ELFEKENI------------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKL- 355 (377)
T ss_pred HHHcCCCC------------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCc-
Confidence 98652111 0111123332 257789999999999999999999999999998778999999999888
Q ss_pred eEEeEecCC
Q 002368 406 QQIGYWSNY 414 (930)
Q Consensus 406 ~~VG~w~~~ 414 (930)
++||+|++.
T Consensus 356 ~~VG~w~~~ 364 (377)
T cd06379 356 VQVGLYNGD 364 (377)
T ss_pred eEeeEEcCc
Confidence 999999764
No 20
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=2.3e-44 Score=402.24 Aligned_cols=349 Identities=19% Similarity=0.281 Sum_probs=290.0
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
|||++.|++ +..|...+.|+++|+|+||++|++++|+++++++.|++|++..++.++.++ .++|.+||||.||.++
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~-~~~V~aviGp~~S~~~ 79 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY-EGYASAFVGPVNPGYC 79 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc-cCCceEEECCCCchHH
Confidence 699999996 455888899999999999999999779999999999999988887655543 4599999999999999
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
.++++++++++||+|+++++++.+++ ..||+|+|+.|++ +.++++++++++|++|++||++++||++..+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999997 7799999999987 4668889999999999999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcch-----hhHHHHHHHHHHcCCCCCceEEEEeCccc
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYS-----RTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~viv~~~~~-----~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 257 (930)
++.|++|+..+.++.+ +.|++++|++||+.+ +||||++++. .++..+++||+++||+..+|+||++++..
T Consensus 157 ~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~ 232 (382)
T cd06371 157 RAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLL 232 (382)
T ss_pred HHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccc
Confidence 9999999988888866 789999999999988 6999998876 67889999999999999999999998543
Q ss_pred ccc-----cCCC-CCchhhhhcccceEEEEEecCCChhhHHHHHHHHhh-cCCCC---CCCchhhhHhhHHHHHHHHHHH
Q 002368 258 TFI-----DSKS-PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SNGSI---GLNPYGLYAYDTVWMIARALKL 327 (930)
Q Consensus 258 ~~~-----~~~~-~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---~~~~~~~~~YDav~~la~Al~~ 327 (930)
... .... ..+....++++|++++.++.+..+..++|.++|+.. ++... .++.+++++|||++++|+|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 111 0000 012344467889888877665555566666665321 11011 2345667899999999999999
Q ss_pred hhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeE
Q 002368 328 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQ 407 (930)
Q Consensus 328 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~ 407 (930)
+++.++. .++++++++|.+++|+|++|+++||++|++ .+.|.|+++.++|. +-
T Consensus 313 a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~-~~ 365 (382)
T cd06371 313 ARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGD-QL 365 (382)
T ss_pred HHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCC-ee
Confidence 9765332 148999999999999999999999999996 79999999999887 65
Q ss_pred EeEe
Q 002368 408 IGYW 411 (930)
Q Consensus 408 VG~w 411 (930)
+-++
T Consensus 366 ~~~~ 369 (382)
T cd06371 366 YPTY 369 (382)
T ss_pred eeeE
Confidence 5444
No 21
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=3.2e-44 Score=405.39 Aligned_cols=359 Identities=17% Similarity=0.260 Sum_probs=300.0
Q ss_pred EEeEEeecCC----CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC----ChHHHHHHHHHHHh-cCcEEEEcc
Q 002368 28 NVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF----NGFLSIMGALQFME-TDTLAIVGP 98 (930)
Q Consensus 28 ~IG~~~~l~~----~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~----~~~~a~~~a~~li~-~~v~aiiGp 98 (930)
+||+++|.+. ..|.....|+++|+|+||++||+++|++|+++++|+++ ++..++..+.+++. ++|.+||||
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp 80 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLGP 80 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEECC
Confidence 5899999984 34678899999999999999998889999999999999 89999999999875 489999999
Q ss_pred CChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcC----c
Q 002368 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG----R 173 (930)
Q Consensus 99 ~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g----~ 173 (930)
.||+.+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|+++|.+++++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~ 160 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCY 160 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHH
Confidence 99999999999999999999999999999997 679999999999999999999999999999999999987764 5
Q ss_pred chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEe
Q 002368 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (930)
Q Consensus 174 ~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 253 (930)
...+.+.+.+++.|++|+.. .+..+ ....|+.++|+++++.. |+||++++..++..+++|++++||+..+|+||..
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~-~~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~ 236 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDF-PFDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNI 236 (396)
T ss_pred HHHHHHHHHHhhcCceeeEE-eecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 56789999999999998854 45433 11479999999999865 9999999999999999999999999999999997
Q ss_pred Ccccccc------c--CCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhh----cCC---CCCCCchhhhHhhHH
Q 002368 254 TWLSTFI------D--SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNG---SIGLNPYGLYAYDTV 318 (930)
Q Consensus 254 ~~~~~~~------~--~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~---~~~~~~~~~~~YDav 318 (930)
+...... . ..........++.+|++++..+.++++..++|.++|+++ |+. ...|+.+++++|||+
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 6543211 1 011111344556788888888888888899999999875 431 113567899999999
Q ss_pred HHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEE
Q 002368 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (930)
Q Consensus 319 ~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~ 398 (930)
+++++||+++...++. ..++++|+++|++++|+|++|++.||++|++ ...|.|++
T Consensus 317 ~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~ 371 (396)
T cd06373 317 LLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWD 371 (396)
T ss_pred HHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeee
Confidence 9999999998544321 1258999999999999999999999999996 57888877
Q ss_pred ee--ecCceeEEeEecCCC
Q 002368 399 VI--EHGYPQQIGYWSNYS 415 (930)
Q Consensus 399 ~~--~~~~~~~VG~w~~~~ 415 (930)
+. .+|.++.||++++.+
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 62 344449999987754
No 22
>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=1.1e-43 Score=390.48 Aligned_cols=355 Identities=19% Similarity=0.271 Sum_probs=297.1
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
+||++|+-++ .....|+++|++++|....+++ .++ .-+..|...+.+++|+++++||.|||||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~--~~~---~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLP--QID---IVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCccccc--ceE---EeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998764 3568999999999998765543 111 2233688999999999999999999999999999999
Q ss_pred HHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcC
Q 002368 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR 187 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g 187 (930)
+.+|+..+||+|+++. |..+ ..+|+.++.|+ +++|++++++++||++|++||+++ ||....+.|.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999999754 3332 33568999998 899999999999999999999655 99999999999999999
Q ss_pred cEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCc
Q 002368 188 CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLS 267 (930)
Q Consensus 188 ~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 267 (930)
++|.+...++.. ..++..+|++++.+++++||+++.++.+..+++++.+.+|+..+|+||.|+......+.
T Consensus 145 ~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~----- 215 (364)
T cd06390 145 WQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL----- 215 (364)
T ss_pred ceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH-----
Confidence 999988777654 67999999999999999999999999999999999999999999999999832222222
Q ss_pred hhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC------CCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 268 LKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 268 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
+.....++|+++++.+.|+++..++|.++|++..... .+++.+++++|||||++|+|++++...+.+.++.
T Consensus 216 ~~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~--- 292 (364)
T cd06390 216 TKFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRR--- 292 (364)
T ss_pred HHHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccC---
Confidence 3456688999999999999999999999998765311 2467899999999999999999986543332111
Q ss_pred ccCCCCCCcccCC--CccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCc
Q 002368 342 KLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (930)
Q Consensus 342 ~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl 417 (930)
+++..|. ...+|..|..|+++|++++|+|+||+++||++|+|....|+|+|+.++|. ++||+|++..||
T Consensus 293 ------~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~-~~vG~W~~~~g~ 363 (364)
T cd06390 293 ------GNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGI-RKIGYWNEDEKL 363 (364)
T ss_pred ------CCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcc-eEEEEECCCCCc
Confidence 1222332 23468889999999999999999999999999999999999999999999 999999999886
No 23
>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=1e-43 Score=400.69 Aligned_cols=358 Identities=18% Similarity=0.292 Sum_probs=292.2
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||++.|++ ...|.....|+++|+++||++|++++|++|++++.|++|++..|+.++++++.+ +|.+||||.||++
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999986 335777789999999999999999988999999999999999999999999976 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec---CCcCc--chHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGR--NGVT 177 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~--~~~~ 177 (930)
+.+++++++.++||+|+++++++.+++ ..||+++|+.|++..++.+++++++++||++|+++|.+ +.||+ ...+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999997 67999999999999999999999999999999999854 23442 2344
Q ss_pred HHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccc
Q 002368 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (930)
Q Consensus 178 ~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 257 (930)
.+.+.++ .+++++..+.++.+ +.++...+.+.+.+++|+||++++..++..++++|+++||+.++|+||.+++..
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~ 235 (391)
T cd06372 161 AVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFE 235 (391)
T ss_pred HHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhc
Confidence 5555554 68899998888766 577777777777799999999999999999999999999988889999964322
Q ss_pred ccccCCCC---CchhhhhcccceEEEEEecCC-ChhhHHHHHHHHhhcCCCC---------CCCchhhhHhhHHHHHHHH
Q 002368 258 TFIDSKSP---LSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI---------GLNPYGLYAYDTVWMIARA 324 (930)
Q Consensus 258 ~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~---------~~~~~~~~~YDav~~la~A 324 (930)
..+..... ......+..+|++++.+..+. .+..++|.++|+++++..+ ..+.+++++||||+++|+|
T Consensus 236 ~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~A 315 (391)
T cd06372 236 DNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALA 315 (391)
T ss_pred CccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHH
Confidence 21110000 012244567888888776543 3557788888887764111 2357899999999999999
Q ss_pred HHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHH---hccccCcceeEEEccCCCCCCCcEEEEEeee
Q 002368 325 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL---QTNMTGLSGPIHFNQDRSLLHPSYDIINVIE 401 (930)
Q Consensus 325 l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~ 401 (930)
++++++.+.. +.+|.+|+++|+ +++|+|++|+|.||++|+| .+.|.|+++++
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 9998654321 235889999999 6899999999999999997 78999999986
Q ss_pred cC---ceeEEeEecCCC
Q 002368 402 HG---YPQQIGYWSNYS 415 (930)
Q Consensus 402 ~~---~~~~VG~w~~~~ 415 (930)
.+ .++.||+|+..+
T Consensus 371 ~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 371 SGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred cCCccceeeEEEecchh
Confidence 32 259999997654
No 24
>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=9.6e-44 Score=401.49 Aligned_cols=361 Identities=20% Similarity=0.375 Sum_probs=314.7
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||+++|++ +..|.....|+++|+|+||++||+++|++|++++.|++|++..++..+.+|+.+ +|.+||||.+|+.
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 699999997 556899999999999999999976679999999999999999999999999976 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC-cCcchHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGD 181 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~-~g~~~~~~~~~ 181 (930)
+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.+++++++++||++++++++++. ||....+.+.+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~ 160 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEA 160 (389)
T ss_pred HHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHH
Confidence 999999999999999999999999987 5789999999999999999999999999999999998888 99999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++|+..+.++.+ ....|+..+++++++.+ |+|++++.+.++..+++|++++|+...+++|++++.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999999888765 12579999999999887 999999999999999999999999888899999887655421
Q ss_pred C--------CCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCC--------CCCCCchhhhHhhHHHHHHHHH
Q 002368 262 S--------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG--------SIGLNPYGLYAYDTVWMIARAL 325 (930)
Q Consensus 262 ~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~~~~~~~~~~~YDav~~la~Al 325 (930)
. .....+...+.++|++++.++.+.++..++|.++|+++++. ...|+.+++++|||++++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 1 11112345677899999888888888999999999998852 1246789999999999999999
Q ss_pred HHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeec-Cc
Q 002368 326 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH-GY 404 (930)
Q Consensus 326 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~-~~ 404 (930)
+++...++. +.++.++.++|++++|.|++|++.||++|++ ...|.|++++++ +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCce
Confidence 998765321 1258889999999999999999999999996 578999999975 44
Q ss_pred eeEEeEecCCCC
Q 002368 405 PQQIGYWSNYSG 416 (930)
Q Consensus 405 ~~~VG~w~~~~g 416 (930)
+..++.....+|
T Consensus 373 ~~~~~~~~~~~~ 384 (389)
T cd06352 373 LEVVYLYDTSSG 384 (389)
T ss_pred EEEEEeccccce
Confidence 588887766553
No 25
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=1.4e-43 Score=401.15 Aligned_cols=357 Identities=17% Similarity=0.226 Sum_probs=293.1
Q ss_pred EEeEEeecCCC---cc-hHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH-----HHHHH-HhcCcEEEEc
Q 002368 28 NVGAIFSFGTV---NG-QVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM-----GALQF-METDTLAIVG 97 (930)
Q Consensus 28 ~IG~~~~l~~~---~G-~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~-----~a~~l-i~~~v~aiiG 97 (930)
+||+++|++.. .| +....|+++|+|+||++||+|+|++|++++.|+++++..+.. .+.++ ..++|.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 59999999844 44 778899999999999999999999999999999766654333 33333 3459999999
Q ss_pred cCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEE-EEEecCC-cCcc
Q 002368 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVI-AIFNDDD-QGRN 174 (930)
Q Consensus 98 p~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~va-ii~~d~~-~g~~ 174 (930)
|.||.++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++++ ++|.++. +|+.
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~ 160 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRP 160 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccc
Confidence 999999999999999999999999999999998 779999999999999999999999999999998 4565543 3344
Q ss_pred ---hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEE
Q 002368 175 ---GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (930)
Q Consensus 175 ---~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i 251 (930)
..+.+.+.+++.|++|+..+..+.+ ..|++.+|+++++.. |+|+++++..++..++++|+++||+.++|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEEDD----LINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCCc----hhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 4688999999999999987644333 779999999998754 99999999999999999999999999999999
Q ss_pred EeCcccccccC---------CCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhh----cCCCC---CCCchhhhHh
Q 002368 252 ATTWLSTFIDS---------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSI---GLNPYGLYAY 315 (930)
Q Consensus 252 ~~~~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~---~~~~~~~~~Y 315 (930)
.++++...... .+..+....+++++++....+.+.++.+++|.++|+++ |+... .|+.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 98765432221 01111344667899988877778888899999999985 54221 1668999999
Q ss_pred hHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEE
Q 002368 316 DTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYD 395 (930)
Q Consensus 316 Dav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~ 395 (930)
||||++|+|++++...++. +.+|++|+++|++++|+|++|++.||++|+| .+.|.
T Consensus 316 Dav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~ 370 (405)
T cd06385 316 DGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFA 370 (405)
T ss_pred HHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeE
Confidence 9999999999998654321 2259999999999999999999999999997 57898
Q ss_pred EEEe---eecCceeEEeEecCCC
Q 002368 396 IINV---IEHGYPQQIGYWSNYS 415 (930)
Q Consensus 396 I~~~---~~~~~~~~VG~w~~~~ 415 (930)
++++ +++++ +.||+|+..+
T Consensus 371 ~~~~~~~~~g~~-~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDF-QVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcE-EEEEEEcccC
Confidence 8866 45555 9999997544
No 26
>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=4.6e-43 Score=389.59 Aligned_cols=366 Identities=21% Similarity=0.326 Sum_probs=296.9
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEE--EEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSI--TMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l--~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~ 105 (930)
+||++++.++..+ +.|+++|+++||++..+|+|++|++ ...|++ |+..|..++++|++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~~---~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKKD---DEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCchH---HHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 4899999988655 5699999999999999999995554 889995 999999999999999999999998888889
Q ss_pred HHHHhhhcCCCcEEEe----ecCC-----CCCCC--CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcc
Q 002368 106 VLSHLANELQVPLLSF----TALD-----PTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRN 174 (930)
Q Consensus 106 av~~~~~~~~vp~is~----~a~~-----~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~ 174 (930)
.++.+|+.++||+|++ ++++ |.+++ .+||+++| |+ ..++.++++++++|+|++++++ .|++||..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~-~d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIF-YDTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEE-EeCCccHH
Confidence 9999999999999985 4433 33443 56788888 44 6788999999999999999976 46778999
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCC---hhHHHH-HHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCce
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVT---ETDVRN-ELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~---~~d~~~-~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~ 248 (930)
.++.+.+.+++.|+||..... ... .. ...+.. .+.+++. .+.++||+++.++.+..++++|+++||++.+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~~-~~~--~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y 229 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQKV-ENN--INKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDC 229 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEec-Ccc--hhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCe
Confidence 999999999999999997442 221 11 112322 4456655 66799999999999999999999999999999
Q ss_pred EEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC---------CCCCchhhhHhhHHH
Q 002368 249 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS---------IGLNPYGLYAYDTVW 319 (930)
Q Consensus 249 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~YDav~ 319 (930)
+||.+++....++.. +.....+.|+.+++++.|.+....+|..+|.+++... ..++.+++++|||||
T Consensus 230 ~wi~t~~~~~~~dl~----~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~ 305 (400)
T cd06391 230 HWIIINEEISDMDVQ----ELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVL 305 (400)
T ss_pred EEEEeCccccccccc----hHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHH
Confidence 999999988877763 2334567788889999998888889999988776311 135689999999999
Q ss_pred HHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEe
Q 002368 320 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (930)
Q Consensus 320 ~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~ 399 (930)
++|+|++++...+... ......|..++..+|..|..|+++|++++|+|+||+++|+++|+|..+.|+|+|+
T Consensus 306 ~~A~A~~~l~~~~~~~---------~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~ 376 (400)
T cd06391 306 LLANAFHKKLEDRKWH---------SMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGT 376 (400)
T ss_pred HHHHHHHHHHhhcccc---------CCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEe
Confidence 9999999875322111 1111222223456898999999999999999999999999999999999999999
Q ss_pred e-----ecCceeEEeEecCCCCcc
Q 002368 400 I-----EHGYPQQIGYWSNYSGLS 418 (930)
Q Consensus 400 ~-----~~~~~~~VG~w~~~~gl~ 418 (930)
. ++|. ++||+|++..||.
T Consensus 377 ~~~~~~~~g~-rkiG~Ws~~~gl~ 399 (400)
T cd06391 377 NYGEDLGRGV-RKLGCWNPITGLN 399 (400)
T ss_pred eccccCCCcc-eEEEEEcCCcCCC
Confidence 6 8898 9999999999863
No 27
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=100.00 E-value=1.8e-43 Score=394.44 Aligned_cols=339 Identities=18% Similarity=0.259 Sum_probs=288.9
Q ss_pred eEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh-
Q 002368 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM- 103 (930)
Q Consensus 26 ~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~- 103 (930)
.|+||.++|.++ ...+++.|+..+|.+-....+.++++++.|+++||..++.++++++.+ +|.+|+||.+|+.
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 589999999984 246777777777766534358999999999999999999999988765 8999999999998
Q ss_pred --HHHHHHhhhcCCCcEEEeecCCCCC-CC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHH
Q 002368 104 --AHVLSHLANELQVPLLSFTALDPTL-SP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (930)
Q Consensus 104 --~~av~~~~~~~~vp~is~~a~~~~l-s~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~ 179 (930)
+.+++++++.++||+|+++++++.+ ++ ..|||+||+.|++..|+++++++++++||++|++||.+++||++..+.+
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l 156 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRV 156 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHH
Confidence 9999999999999999999999998 77 7899999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCcE--EEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccc
Q 002368 180 GDKLAEIRCK--ISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (930)
Q Consensus 180 ~~~l~~~g~~--i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 257 (930)
++.+++.|++ ++....++.. ...++...+.++++.++|+|+++++..++..++++|+++||++++|+||+++.+.
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~---~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~ 233 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS---DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELAL 233 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC---CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccc
Confidence 9999999999 8777777665 1228899999999999999999999999999999999999999999999999886
Q ss_pred ccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCccee
Q 002368 258 TFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISF 337 (930)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~ 337 (930)
.... ...+...|++++++..+ ..+.+++||||+++|+|++++..++....
T Consensus 234 ~~~~-------~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~- 283 (362)
T cd06367 234 GSGL-------APEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGALP- 283 (362)
T ss_pred cccC-------CccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCC-
Confidence 4211 12356679999987542 34578899999999999999876432211
Q ss_pred cCCCccCCCCCCcccCCCccc--cCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEee-ecCceeEEeEecC
Q 002368 338 SNDTKLNGLGGGTLNLGALSI--FDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSN 413 (930)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~-~~~~~~~VG~w~~ 413 (930)
.....|..... +.+|..|.++|++++|+|++|+|+||++|++..+.|+|+|++ +.++ ++||.|++
T Consensus 284 ----------~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~-~~VG~W~~ 351 (362)
T cd06367 284 ----------EPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKW-ERVGSWEN 351 (362)
T ss_pred ----------CCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcc-eEEEEEcC
Confidence 11123444332 667999999999999999999999999999888899999999 6676 99999975
No 28
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=9.9e-43 Score=387.14 Aligned_cols=342 Identities=12% Similarity=0.158 Sum_probs=300.5
Q ss_pred ccCCCCceEEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE
Q 002368 19 QGALKPEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI 95 (930)
Q Consensus 19 ~~~~~~~~I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai 95 (930)
+++..+++|+||++.|++ +..|...++|+++|+++||++||+. |++|+++++|++++|..++..+++|++++|.+|
T Consensus 18 ~~~~~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~-G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~i 96 (369)
T PRK15404 18 SHAALADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIK-GDKLEGVEYDDACDPKQAVAVANKVVNDGIKYV 96 (369)
T ss_pred cccccCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCC-CeEEEEEeecCCCCHHHHHHHHHHHHhCCceEE
Confidence 344566799999999998 4568999999999999999999996 899999999999999999999999998899999
Q ss_pred EccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHH-HcCCcEEEEEEecCCcCcc
Q 002368 96 VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS-YFGWGEVIAIFNDDDQGRN 174 (930)
Q Consensus 96 iGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~-~~~w~~vaii~~d~~~g~~ 174 (930)
|||.+|+.+.++++++++.+||+|++.++++.+++..+||+||+.+.+..++.++++++. .++|++++++++|+.||++
T Consensus 97 iG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~ 176 (369)
T PRK15404 97 IGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEG 176 (369)
T ss_pred EcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHH
Confidence 999999999999999999999999999999999887789999999999999999999864 5699999999999999999
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
..+.+.+.+++.|++++..+.++.+ ..|+++++.++++.+||+|++.+...+...++++++++|+.. .|++++
T Consensus 177 ~~~~~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~ 249 (369)
T PRK15404 177 LARSVKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPE 249 (369)
T ss_pred HHHHHHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecC
Confidence 9999999999999999999999887 789999999999999999998888889999999999999854 366665
Q ss_pred cccccccCCCCCchhhhhcccceEEEEEec-CCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCC
Q 002368 255 WLSTFIDSKSPLSLKTAKSILGALTLRQHT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGN 333 (930)
Q Consensus 255 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~ 333 (930)
+....... ....+..+|+++..++. ..+|..++|.++|+++++ .+++.++..+||++++++.|+++++..
T Consensus 250 ~~~~~~~~-----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~Y~~~~~l~~Al~~aG~~-- 320 (369)
T PRK15404 250 GVGNKSLS-----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ--DPSGPFVWTTYAAVQSLAAGINRAGSD-- 320 (369)
T ss_pred cCCCHHHH-----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC--CCCccchHHHHHHHHHHHHHHHhhCCC--
Confidence 43322110 22346778988765543 346788999999999875 566678899999999999999997321
Q ss_pred cceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCc
Q 002368 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 404 (930)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~ 404 (930)
+++.|.++|++.+|+|++|+++|+++|++....|.|++|+++|.
T Consensus 321 ---------------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 321 ---------------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred ---------------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 48899999999999999999999999998789999999998886
No 29
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=4.3e-43 Score=386.08 Aligned_cols=316 Identities=22% Similarity=0.350 Sum_probs=275.6
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||+++++ ..|...++|+++|+|+||++||+|+|++|+++++|++ +++..+++++++|++++|.+||||.+|+.+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999998 6689999999999999999999998999999999999 89999999999999889999999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~ 186 (930)
+++++++++||+|+++++++.++ .++|+||+.|++..++.+++++++++||++|+++|++++++.. +.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~~~----l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGLLR----LQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHHHH----HHHHHHhh
Confidence 99999999999999988888776 4689999999999999999999999999999999998886544 45555555
Q ss_pred Cc---EEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 187 RC---KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 187 g~---~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
|. .+.. +.++++ . |++++|.+|++++||+|++++.+.++..+++||+++||+.+.|+|+.+++.....+..
T Consensus 153 ~~~g~~v~~-~~~~~~----~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~ 226 (327)
T cd06382 153 GISGITITV-RQLDDD----L-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE 226 (327)
T ss_pred ccCCCeEEE-EEccCC----c-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchh
Confidence 54 4443 567666 4 9999999999999999999999999999999999999999999999987755443331
Q ss_pred CCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC------CCCCchhhhHhhHHHHHHHHHHHhhhcCCccee
Q 002368 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISF 337 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~ 337 (930)
.......++.++.++.++++..++|.++|+++|+.. ..|+.+++.+|||++++
T Consensus 227 -----~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~---------------- 285 (327)
T cd06382 227 -----DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF---------------- 285 (327)
T ss_pred -----hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe----------------
Confidence 122234477888888888999999999999999621 12778899999998865
Q ss_pred cCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCc
Q 002368 338 SNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (930)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl 417 (930)
|+||+++||++|+|.+..|+|+|+.++++ +.||+|++..||
T Consensus 286 --------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~-~~vg~w~~~~~~ 326 (327)
T cd06382 286 --------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGL-RKVGTWNSSEGL 326 (327)
T ss_pred --------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCc-eEEEEECCCCCc
Confidence 99999999999999999999999998888 999999998875
No 30
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=2.1e-42 Score=390.16 Aligned_cols=357 Identities=16% Similarity=0.222 Sum_probs=287.0
Q ss_pred EEeEEeecCCC-c---chHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHH----HHHHHHH-HhcCcEEEEcc
Q 002368 28 NVGAIFSFGTV-N---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLS----IMGALQF-METDTLAIVGP 98 (930)
Q Consensus 28 ~IG~~~~l~~~-~---G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a----~~~a~~l-i~~~v~aiiGp 98 (930)
+||+++|-+.. + =.....|+++|+|+||++||+++|++|+++++|+++++..+ ...+..+ +.+++.+||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~a~~lAieeiN~~g~il~g~~l~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~v~aviGp 80 (399)
T cd06384 1 TLAVVLPDNNLKYAWAWPRVGPAIRMAVERIQNKGKLLRGYTITLLNKSSELNGGCSESLAPLHAVDLKLYSDPDVFFGP 80 (399)
T ss_pred CeEEECCCCCCCCeeehhhhHHHHHHHHHHHhccCCcCCCceEEEEEeccCCccccchhhhHHHHHHHHhhcCCCEEECC
Confidence 47888886422 1 23456799999999999999878999999999987664433 3222211 23588999999
Q ss_pred CChhhHHHHHHhhhcCCCcEEEeecCCCCCCC--CCCCeEEEccCChHHHHHHHHHHHHHcCCc-EEEEEEecCCcCc--
Q 002368 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAIFNDDDQGR-- 173 (930)
Q Consensus 99 ~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~-~vaii~~d~~~g~-- 173 (930)
.||.++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++..++++++|+ ++++||.++.++.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999999986 478999999999999999988889999999 6889997543322
Q ss_pred --chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEE
Q 002368 174 --NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (930)
Q Consensus 174 --~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i 251 (930)
...+.+.+.+++.|++|+....+..+ +.|+.++|++++. +||+|+++++..++..+++|++++||+.++|+||
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i 235 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHIEK----NSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFF 235 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEeccc----hhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEE
Confidence 13567888889999999987666655 7899999999997 8999999999999999999999999999999999
Q ss_pred EeCccccccc------C----CCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhh----cCCCCCC---CchhhhH
Q 002368 252 ATTWLSTFID------S----KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSIGL---NPYGLYA 314 (930)
Q Consensus 252 ~~~~~~~~~~------~----~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 314 (930)
..++....+. . .+...+...+++++++++.++.|.++..++|.++|+++ |+....| +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 9886543221 0 00112455668899999988888888899999999874 5432234 6679999
Q ss_pred hhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcE
Q 002368 315 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 394 (930)
Q Consensus 315 YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y 394 (930)
||||+++|.|++++...++. +.+|.+|+++|++++|+|++|++.||++|+| ...|
T Consensus 316 YDav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~ 370 (399)
T cd06384 316 YDGVMLYAMALNETLAEGGS------------------------QKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDF 370 (399)
T ss_pred HHHHHHHHHHHHHHHhcCCC------------------------CCCcHhHHHHHhCceeecceeEEEECCCCCc-ccce
Confidence 99999999999998654321 3358999999999999999999999999996 5667
Q ss_pred EE---EEeeecCceeEEeEecCCC
Q 002368 395 DI---INVIEHGYPQQIGYWSNYS 415 (930)
Q Consensus 395 ~I---~~~~~~~~~~~VG~w~~~~ 415 (930)
.+ .+++++++ +.||+|+..+
T Consensus 371 ~~~~~~~~~~g~~-~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGKY-EVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCeE-EEEEEEcCCC
Confidence 77 35566666 9999997754
No 31
>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=2.3e-41 Score=370.62 Aligned_cols=360 Identities=15% Similarity=0.237 Sum_probs=298.1
Q ss_pred EeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCC-cEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 29 VGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGG-RKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g-~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
||++|+-++ .....|+++|++++|....+++. .+|...+..- ..|...+.+++|+|+++||.||+||.++..+..
T Consensus 2 iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~~ 78 (372)
T cd06387 2 IGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMNT 78 (372)
T ss_pred cceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHHH
Confidence 899998654 35689999999999998877654 4777755443 459999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~ 186 (930)
+..+|+..+||+|.+.-. .+...+|..++.|+ +..|+++++++|||++|++|| |+++|....+.+.+.++..
T Consensus 79 v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~~ 150 (372)
T cd06387 79 LTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQN 150 (372)
T ss_pred HHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhccC
Confidence 999999999999986332 12344788899998 689999999999999999999 7788999999999999999
Q ss_pred CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCC
Q 002368 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (930)
Q Consensus 187 g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (930)
+..|.+....+.. ...+++..+++++.++.++||++|.++.+..|+++|.+.||+..+|+||.++......+.
T Consensus 151 ~~~V~~~~v~~~~---~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl---- 223 (372)
T cd06387 151 NWQVTARSVGNIK---DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL---- 223 (372)
T ss_pred CceEEEEEeccCC---chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH----
Confidence 9998876544432 356899999999999999999999999999999999999999999999999844333332
Q ss_pred chhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCC------CCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
.+......++++++.+.|+++..++|.++|++.+.. ..+++.+++++|||||++|.|++++...+.... .
T Consensus 224 -~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~--~- 299 (372)
T cd06387 224 -ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVS--R- 299 (372)
T ss_pred -HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcc--c-
Confidence 222333344999999999999999999999876531 124567899999999999999999754432211 0
Q ss_pred CccCCCCCCcccCC--CccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCc
Q 002368 341 TKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (930)
Q Consensus 341 ~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl 417 (930)
.+.+..|. ...+|..|..|+++|++++|+|+||+++|+++|+|.+..|+|+|+.++|. ++||+|++..|+
T Consensus 300 ------~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~-~kIG~W~~~~g~ 371 (372)
T cd06387 300 ------RGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGS-RKAGYWNEYERF 371 (372)
T ss_pred ------CCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCc-eeEEEECCCCCc
Confidence 11222332 34578899999999999999999999999999999999999999999999 999999999886
No 32
>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=3e-41 Score=373.15 Aligned_cols=361 Identities=17% Similarity=0.249 Sum_probs=288.7
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCC-CcEEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEccCChhhHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLG-GRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~-g~~l~l~~~D~~-~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~ 105 (930)
+||.||+..+ .....|+++|++.+|.+...+. +.+|..++..-. .|...+.+++|+++++||.||+||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899998654 3467999999999998764432 356676655443 4899999999999999999999999999999
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHh
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE 185 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~ 185 (930)
++++++++.+||+|+++.+ +...+.|.+++.|+ +..+++++++++||++|+++|+ +++|...++.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec-CCccHHHHHHHHHhhHh
Confidence 9999999999999997654 22334444455555 4578888999999999999995 44566779999999999
Q ss_pred cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCC
Q 002368 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSP 265 (930)
Q Consensus 186 ~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 265 (930)
.|++|+.....+.+ +.|++++|++|+.+++|+||+.++++.+..|++||+++||+.++|+||.++......+.
T Consensus 150 ~g~~v~~~~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l--- 222 (371)
T cd06388 150 NGWQVSAICVENFN----DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL--- 222 (371)
T ss_pred cCCeeeeEEeccCC----cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH---
Confidence 99999886655544 56999999999999999999999999999999999999999999999998753222221
Q ss_pred CchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcC-----CCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 266 LSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN-----GSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 266 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~-----~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
.+......++.+++...++.+..++|.++|++.+. ....|...++++||||++++.|++++........
T Consensus 223 --~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~---- 296 (371)
T cd06388 223 --ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDIS---- 296 (371)
T ss_pred --HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcc----
Confidence 12222333488888888888999999999987642 1135778999999999999999999753221110
Q ss_pred CccCCCCCCcccC--CCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCcc
Q 002368 341 TKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (930)
Q Consensus 341 ~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl~ 418 (930)
..+.+..| +...+|..|..|+++|++++|+|+||+++||++|+|....++|++++++|. ++||+|++..||.
T Consensus 297 -----~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~-~kvG~W~~~~g~~ 370 (371)
T cd06388 297 -----RRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGP-RKIGYWNDMDKLV 370 (371)
T ss_pred -----cCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCc-eEEEEEcCCCCcc
Confidence 01222244 345688899999999999999999999999999999888999999999998 9999999999864
No 33
>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=2e-41 Score=375.68 Aligned_cols=360 Identities=18% Similarity=0.284 Sum_probs=292.2
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD-AKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D-~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||.||+..+ .....|+++|++.+|... .+|...+.. +..|...+.+++|+++++||.||+||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~~-----~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTSE-----FRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhcccC-----ceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899998765 346899999999999862 566664443 3458999999999999999999999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~ 186 (930)
++++|++.+||+|+++++. +..++|.+++.|+ ...++++++++++|++|+++|+ ++||...++.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 9999999999999986552 3457888899888 4789999999999999999997 569999999999999999
Q ss_pred CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCC
Q 002368 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (930)
Q Consensus 187 g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (930)
|++|+..............|++++|++|++.++|+||+.++++++..+++||+++||+.++|+||.++......+.
T Consensus 145 g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l---- 220 (370)
T cd06389 145 KWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDL---- 220 (370)
T ss_pred CceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccch----
Confidence 9988754422111012367999999999999999999999999999999999999999999999998743322222
Q ss_pred chhhhhcccceEEEEEecCCChhhHHHHHHHHh----hcCC--CCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNT----LSNG--SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~~--~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
....-...++.+++...++.+..++|.++|++ +|.. ...|...++.+||||++++.|++++...+.... .
T Consensus 221 -~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~--~- 296 (370)
T cd06389 221 -SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS--R- 296 (370)
T ss_pred -hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc--c-
Confidence 11112234577888888889999999999996 5421 145778999999999999999999854432211 0
Q ss_pred CccCCCCCCcccC--CCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCcc
Q 002368 341 TKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (930)
Q Consensus 341 ~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl~ 418 (930)
.+++..| ....+|.+|..|+++|++++|+|+||+++||++|+|....++|++++++|. ++||+|++..||.
T Consensus 297 ------~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~-~kvG~W~~~~~~~ 369 (370)
T cd06389 297 ------RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGP-RKIGYWSEVDKMV 369 (370)
T ss_pred ------CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcc-eEEEEEcCCCCcc
Confidence 1122233 335678899999999999999999999999999999888999999999999 9999999998864
No 34
>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=2.8e-41 Score=364.24 Aligned_cols=323 Identities=20% Similarity=0.301 Sum_probs=263.5
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChH-HHHHHHHHHHhcCcEEEEccCChhh-HH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGF-LSIMGALQFMETDTLAIVGPQSAVM-AH 105 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~-~a~~~a~~li~~~v~aiiGp~~S~~-~~ 105 (930)
+||+++++.+..|+..+.|+++|++++|++||++++++|++++.|++.++. .+..++++++++||.|||||.+|.. +.
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~gV~AIiGp~ss~~~~~ 80 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPKGVVSVLGPSSSPASSS 80 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhcCeEEEECCCCchHHHH
Confidence 589999999999999999999999999999999866799999999999875 7778888999889999999999975 67
Q ss_pred HHHHhhhcCCCcEEEeecCC-CCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~-~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~ 184 (930)
++++++++.+||+|+++... |.+...++++ .++.|++..|++|+++++++|||++|++||+++++ ...|.+.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999986443 3333344444 89999999999999999999999999999999986 556666666
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (930)
..+. +...++.....++.|++++|++|+.+++|+||++++++.+..+++||+++||+.++|+|+.|+......+.
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5433 12222222112367899999999999999999999999999999999999999999999999876553333
Q ss_pred CCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC--C----CCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS--I----GLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--~----~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
.+.......+.+++...++.+..++|.++|+++|... . ....-++.+||||+++
T Consensus 231 ---~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------------- 290 (333)
T cd06394 231 ---DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------------- 290 (333)
T ss_pred ---HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------------
Confidence 2222234557888888898999999999988866211 1 1123455566665533
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCcc
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl~ 418 (930)
|+||+|+||++|.|.+...+|+++..+|. ++||+|++..||+
T Consensus 291 -------------------------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~-~kig~W~~~~gl~ 332 (333)
T cd06394 291 -------------------------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGF-RQIGQWHSNETLS 332 (333)
T ss_pred -------------------------------------eeecceecCCCCcCcccEEEEEEecCCcc-eEEEEEeCCCCcC
Confidence 99999999999999999999999999999 9999999999875
No 35
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=1.8e-39 Score=359.22 Aligned_cols=328 Identities=17% Similarity=0.203 Sum_probs=290.9
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
+||++.|++ +..|.....|+++|++++|++||+. |++|++++.|+++++..+...+.+|++++|.+|+||.+|..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~-g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGK-GVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCC-CeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 599999998 4568899999999999999999885 999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHH-HHcCCcEEEEEEecCCcCcchHHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
.+++++++..+||+|+++++++.+++..||++||+.|++..++.++++++ ++++|++|++++.|++||+...+.+++.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999999888777776678999999999999999999986 46889999999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
++.|++|+..+.++.+ ..|++..+.++++.++|+|++.+...++..+++++++.|+.. .|+.++++......
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~- 231 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA---PFMGGDGLCDPEFI- 231 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC---cEEecCccCCHHHH-
Confidence 9999999999988877 789999999999999999999999999999999999999843 46766544321110
Q ss_pred CCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
....+..+|++.+.++.+ .++..++|.++|+++++ ..|+.++..+||+++++++|++++..
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~al~~~~~----------- 294 (334)
T cd06342 232 ----KIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--DPPGAYAPYAYDAANVLAEAIKKAGS----------- 294 (334)
T ss_pred ----HHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHHHHHHHHhCC-----------
Confidence 223456789988877665 47889999999999986 55688999999999999999999621
Q ss_pred ccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEe
Q 002368 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~ 399 (930)
. +++.++++|++++|+|++|+++|+++|++....|.|+|+
T Consensus 295 -----------------~-~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 -----------------T-DPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred -----------------C-CHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 1 488999999999999999999999999999999999885
No 36
>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=6.9e-40 Score=357.67 Aligned_cols=304 Identities=19% Similarity=0.267 Sum_probs=268.5
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|++ +..|+...+|+++|+++||++||+. |++|+++++|++++|..+++++++|+++ +|.+||||.+|+.
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~-G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVL-GEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCC-CceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 699999998 4568889999999999999999994 9999999999999999999999999987 9999999999999
Q ss_pred HHHH-HHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHH
Q 002368 104 AHVL-SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (930)
Q Consensus 104 ~~av-~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~ 181 (930)
+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++++.|++||++..+.+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999999999987 567999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++|+..+.++++ +.|++++++++++++||+|++.+.+.++..+++|++++|+..+ |++++++.....
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~ 232 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDK---FLLTDGMKSDSF 232 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCc---eEeeccccChHH
Confidence 999999999999999887 8899999999999999999999999999999999999998443 666655433211
Q ss_pred CCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 262 SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
. . ......++|+++..++.+. +..++|.++|+++|+ ..|+.+++.+||+++++++|
T Consensus 233 ~-~---~~~~~~~~g~~~~~~~~~~-~~~~~f~~~~~~~~g--~~p~~~~~~~Yd~~~~l~~A----------------- 288 (312)
T cd06346 233 L-P---ADGGYILAGSYGTSPGAGG-PGLEAFTSAYKAAYG--ESPSAFADQSYDAAALLALA----------------- 288 (312)
T ss_pred H-H---hhhHHHhCCcEEccCCCCc-hhHHHHHHHHHHHhC--CCCCccchhhHHHHHHHHHH-----------------
Confidence 1 0 1223567898887765544 888999999999997 56889999999999999855
Q ss_pred ccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEE
Q 002368 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I 396 (930)
|.|++|++.||++|++.. .|.-
T Consensus 289 --------------------------------~~g~~g~~~f~~~g~~~~-~~~~ 310 (312)
T cd06346 289 --------------------------------YQGASGVVDFDENGDVAG-SYDE 310 (312)
T ss_pred --------------------------------hCCCccceeeCCCCCccc-ceee
Confidence 788999999999998633 5543
No 37
>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=3.4e-39 Score=366.72 Aligned_cols=392 Identities=22% Similarity=0.385 Sum_probs=336.3
Q ss_pred CCCceEEEeEEeecCC-------------CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH
Q 002368 22 LKPEVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM 88 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~~-------------~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li 88 (930)
.-+++|.||.+||.+. ..|.+...|+.+|+|+||+ ..+|||.||.+.++|||+.+..|.++..+++
T Consensus 27 ~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv 105 (878)
T KOG1056|consen 27 RIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSFV 105 (878)
T ss_pred cCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHHH
Confidence 5678999999999852 2366778999999999999 8999999999999999999999999999998
Q ss_pred hc-----------------CcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHH
Q 002368 89 ET-----------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAI 150 (930)
Q Consensus 89 ~~-----------------~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai 150 (930)
.+ .|.++|||..|+++.+++.+..-.+||+|+++++++.|++ .+|+||.|+.|+|..|++||
T Consensus 106 ~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am 185 (878)
T KOG1056|consen 106 RASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAM 185 (878)
T ss_pred HhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHH
Confidence 53 4899999999999999999999999999999999999999 89999999999999999999
Q ss_pred HHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcchh
Q 002368 151 AEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSR 229 (930)
Q Consensus 151 ~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~viv~~~~~~ 229 (930)
++++++++|.+|..++++++||+.+.++|++..+++|+||...+.++.. ..+..+..+++|+.. .+++++|+.+..+
T Consensus 186 ~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~~ 263 (878)
T KOG1056|consen 186 VDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRGE 263 (878)
T ss_pred HHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCcc
Confidence 9999999999999999999999999999999999999999999877766 678899999999998 8999999999999
Q ss_pred hHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHH-------------
Q 002368 230 TGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR------------- 296 (930)
Q Consensus 230 ~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 296 (930)
++..++++|+.+++.+ .++||++|+|....+... ......+|++++....+..+.+++|...
T Consensus 264 ~~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 264 DARRLLKAARRANLTG-EFLWIASDGWASQNSPTE----APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred hHHHHHHHHHHhCCCc-ceEEEecchhhccCChhh----hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 9999999999999865 589999999987655432 2334788999999988888877776544
Q ss_pred --HHhhcCCC---------------------CCC-----CchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCC
Q 002368 297 --WNTLSNGS---------------------IGL-----NPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGG 348 (930)
Q Consensus 297 --~~~~~~~~---------------------~~~-----~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~ 348 (930)
|+.+|+.. ... ..-....+|||+++|+|++.+..+... +
T Consensus 339 e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~ 405 (878)
T KOG1056|consen 339 EFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------G 405 (878)
T ss_pred hhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------C
Confidence 55444310 001 112467899999999999999765432 2
Q ss_pred CcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecC---ceeEEeEecCCCCccccCCccc
Q 002368 349 GTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG---YPQQIGYWSNYSGLSVVPPEKL 425 (930)
Q Consensus 349 ~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~---~~~~VG~w~~~~gl~~~~~~~~ 425 (930)
....|+.+...+ |.+|.+.+.+++|.|..|.+.||++|| ....|+|++++..+ .+..||+|++..-
T Consensus 406 ~~~~C~~m~~~d-g~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~--------- 474 (878)
T KOG1056|consen 406 TSGLCSAMKAID-GSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLS--------- 474 (878)
T ss_pred ccccCcCccccC-HHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccc---------
Confidence 334577777764 999999999999999999999999999 58999999999655 4599999988652
Q ss_pred ccCCCCCCCCCccceeeEeCCCcccCCCccc
Q 002368 426 YRKPANRSSSNQHLYSVVWPGGVTSKPRGWV 456 (930)
Q Consensus 426 ~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~ 456 (930)
.+...+.|.++....|++.|
T Consensus 475 -----------l~i~~~~w~~~~~~v~~S~C 494 (878)
T KOG1056|consen 475 -----------LNIEDLDWTTKPSGVPKSVC 494 (878)
T ss_pred -----------ccceeeeeccCCCCCccccc
Confidence 23456889998888888887
No 38
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=1.6e-39 Score=357.66 Aligned_cols=316 Identities=21% Similarity=0.348 Sum_probs=270.8
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~-~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||+++|+++ ...+.|+++|+|+||++||++++.++++.+.|+ ++++..++.++++|++++|.+||||.+|+.+.+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~~~V~aiiG~~~S~~~~a 77 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLSQGVAAIFGPSSSSSANT 77 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHhcCcEEEECCCCHHHHHH
Confidence 5999999988 788999999999999999998666999999998 599999999999999889999999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~ 186 (930)
+++++++++||+|+++++++.++ ..++|.| .|++..++.+++++++++||++|+++|++++++ ...+.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~-~~~~~~~--~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~-~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKP-RQFTINL--YPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL-LRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCC-CcceEEe--cCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH-HHHHHHHHhhccC
Confidence 99999999999999999988876 3344444 577778999999999999999999999877654 4456677778888
Q ss_pred CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCC
Q 002368 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (930)
Q Consensus 187 g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (930)
|++|+.....+ . .+|++++|.++++.+||+|++.+++.++..+++|++++||+.+.|+||.++......+.
T Consensus 154 g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~---- 224 (324)
T cd06368 154 GIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL---- 224 (324)
T ss_pred CceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch----
Confidence 99998776444 3 23899999999999999999999999999999999999999889999998764433221
Q ss_pred chhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCC------CCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
........++.+.....+++|..++|.++|+++++.. ..|+.+++.+|||++++
T Consensus 225 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------------- 284 (324)
T cd06368 225 -ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------------- 284 (324)
T ss_pred -hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe-------------------
Confidence 1222344567777777888999999999999998631 26888999999999865
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEecCCCCc
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~~~~gl 417 (930)
||+++||++|+|.+..++|+++.+++. +.||+|++..|+
T Consensus 285 -------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~-~~~g~W~~~~~~ 323 (324)
T cd06368 285 -------------------------------------TGRIQFDENGQRSNFTLDILELKEGGL-RKVGTWNPEDGL 323 (324)
T ss_pred -------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCc-eEEEEECCCCCC
Confidence 899999999999999999999998898 999999998775
No 39
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=2.4e-39 Score=359.27 Aligned_cols=340 Identities=20% Similarity=0.267 Sum_probs=286.2
Q ss_pred CCceEEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcc
Q 002368 23 KPEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGP 98 (930)
Q Consensus 23 ~~~~I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp 98 (930)
..++|+||++.|+| +.+|+...+|+++|+|+||+.||++ |++|+++++|+++||..+++.+++|+.+ +|.+|||+
T Consensus 7 ~a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~ 85 (366)
T COG0683 7 AADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGP 85 (366)
T ss_pred ccCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEe
Confidence 34589999999997 6779999999999999999999986 8889999999999999999999999985 99999999
Q ss_pred CChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCC-CeEEEccCChHHHHHHHHHHHHHc-CCcEEEEEEecCCcCcchH
Q 002368 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQY-PFFVQTAPNDLYLMSAIAEMVSYF-GWGEVIAIFNDDDQGRNGV 176 (930)
Q Consensus 99 ~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~-~~~fr~~p~~~~~~~ai~~~l~~~-~w~~vaii~~d~~~g~~~~ 176 (930)
.+|+.+.++.+++++.++|+|+++++++.++...+ +++||+.|++..|+.++++++... +.|+|++|+.|+.||++..
T Consensus 86 ~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~ 165 (366)
T COG0683 86 TTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLA 165 (366)
T ss_pred ccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHH
Confidence 99999999999999999999999999998877444 559999999999999999997764 4559999999999999999
Q ss_pred HHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcc
Q 002368 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (930)
Q Consensus 177 ~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 256 (930)
+.+++.+++.|++++..+.+.+. +.+|.+++.++++.+||+|++.+++.++..|++|+++.|+... .+..++.
T Consensus 166 ~~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~---~~~~~~~ 238 (366)
T COG0683 166 DAFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK---LIGGDGA 238 (366)
T ss_pred HHHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc---ccccccc
Confidence 99999999999997766778776 5569999999999999999999999999999999999998654 2222222
Q ss_pred cccccCCCCCchhhhhcccc-eEEEEE-ec-CCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCC
Q 002368 257 STFIDSKSPLSLKTAKSILG-ALTLRQ-HT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGN 333 (930)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~g-~~~~~~-~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~ 333 (930)
...... ........+ .+.... +. .+.|..+.|.++|+++++....++.++..+||+++++++|++++...
T Consensus 239 ~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~~-- 311 (366)
T COG0683 239 GTAEFE-----EIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGKS-- 311 (366)
T ss_pred Cchhhh-----hhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhcC--
Confidence 211100 111222333 333333 23 34667888999999999855667789999999999999999998531
Q ss_pred cceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhcc-ccCcceeEEEccCCCCCCCcEEEEEeeecC
Q 002368 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEHG 403 (930)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~ 403 (930)
. +.+++.++|++.. +.+.+|.+.||++|++....+.|.+++..+
T Consensus 312 -------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~~ 356 (366)
T COG0683 312 -------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKGG 356 (366)
T ss_pred -------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEecC
Confidence 1 3788999999987 689999999999999999999999998543
No 40
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.5e-39 Score=358.35 Aligned_cols=328 Identities=15% Similarity=0.196 Sum_probs=283.6
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCC---CCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCC
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVL---GGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil---~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 100 (930)
|||+++|++ +..|.....|+++|+++||++||+. .|++|+++++|++++|..++..+++|+++ +|.+||||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 699999998 5568899999999999999988763 47999999999999999999999999987 9999999999
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcC--CcEEEEEEecCCcCcchHHH
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTA 178 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~--w~~vaii~~d~~~g~~~~~~ 178 (930)
|..+.++++++++.+||+|+++++++.++...+||+||+.|++..++.++++++++++ |+++++++.|++||+...+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999999888888766689999999999999999999999887 99999999999999999999
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccc
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 258 (930)
+.+.+++.|++|+....++.+ .+|+++++++|++.++|+|++++.+.++..+++++++.|+..+ .+ ..+.+...
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~-~~~~~~~~ 234 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-AL-YMTVGPAF 234 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EE-EEecCCCc
Confidence 999999999999988888876 6899999999999999999999999999999999999999654 22 22222221
Q ss_pred cccCCCCCchhhhhcccceEEEEEecCC-------ChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhc
Q 002368 259 FIDSKSPLSLKTAKSILGALTLRQHTPD-------SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQ 331 (930)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~ 331 (930)
.... ....+..+|+++...+.|. .|..++|.++|+++|+ ..|+.++..+||+++++++|+++++..
T Consensus 235 ~~~~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~p~~~~~~~y~a~~~~~~a~~~ag~~ 307 (345)
T cd06338 235 PAFV-----KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYG--KAPDYHAAGAYAAGQVLQEAVERAGSL 307 (345)
T ss_pred HHHH-----HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhC--CCCCcccHHHHHHHHHHHHHHHHhCCC
Confidence 1000 2234556888887776554 3678999999999997 457788999999999999999997321
Q ss_pred CCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEE
Q 002368 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (930)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~ 398 (930)
+++.+.++|++++|+|++|++.|+++|++.. .+.+++
T Consensus 308 -----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 308 -----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred -----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 4789999999999999999999999999644 555554
No 41
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=4.8e-39 Score=356.12 Aligned_cols=337 Identities=15% Similarity=0.120 Sum_probs=281.3
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|+| +.+|+...+|+++|+++||++||++ |++|+++++|++++|.++++++++|+++ +|.+|+|+.+|+.
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVL-GRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 699999998 5669999999999999999999997 9999999999999999999999999986 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-cCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.++.+++++.++|+|++.+... ....||+||+.+++..++..+++++.. .|+|+|++++.|++||++..+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998653221 245799999999999999999998775 57999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
+++.|++|+....++.+ +.|++++++++++.+||+|++...+.++..|++|+++.|+..+...++........+.
T Consensus 157 ~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~- 231 (348)
T cd06355 157 LESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELR- 231 (348)
T ss_pred HHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHh-
Confidence 99999999999999887 8999999999999999999999999999999999999998754444554432211111
Q ss_pred CCCCchhhhhcccceEEEEEe--cCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 263 KSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
....+...|++....+ ..++|..++|.++|+++|+....++.++..+||+++++++|++++++.
T Consensus 232 -----~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~ag~~--------- 297 (348)
T cd06355 232 -----GIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKAGSF--------- 297 (348)
T ss_pred -----hcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC---------
Confidence 1112456787765544 335688999999999999744445677889999999999999997432
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeE
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQ 407 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~ 407 (930)
++++|.++|++++|+++.|+++|+++++.....+.|.+++.+|.++.
T Consensus 298 --------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~ 344 (348)
T cd06355 298 --------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEI 344 (348)
T ss_pred --------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEE
Confidence 48899999999999999999999984432455666777765444243
No 42
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.8e-39 Score=355.93 Aligned_cols=321 Identities=17% Similarity=0.247 Sum_probs=278.7
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|++ +..|+....|+++|++++|++||+. |++|++++.|++++|..+++.+++|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~-g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGIL-GRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCC-CceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 699999998 5679999999999999999999985 8999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC----CCCCeEEEccCChHHHHHHHHHHHHH-----cCCcEEEEEEecCCcCcc
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSY-----FGWGEVIAIFNDDDQGRN 174 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~----~~~~~~fr~~p~~~~~~~ai~~~l~~-----~~w~~vaii~~d~~~g~~ 174 (930)
+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++.+ ++|++|++++.+++||+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999999888888873 56899999999999999999998876 899999999999999999
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
..+.+++.+++.|++|+..+.++.+ ..|+++++.+|+..++|+|++.+.+.++..+++++++.|+..+ ++...
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 232 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGIS 232 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEec
Confidence 9999999999999999998888876 7799999999999999999999999999999999999998533 23322
Q ss_pred cccccccCCCCCchhhhhcccceEEEEEecC----CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhh
Q 002368 255 WLSTFIDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (930)
Q Consensus 255 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~ 330 (930)
.+....... ....+..+|++....+.| .++..++|.++|+++|+ ..|+.+++.+||+++++++|++++++
T Consensus 233 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~yda~~~l~~A~~~ag~ 306 (344)
T cd06345 233 VEGNSPAFW----KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFG--GPPNYMGASTYDSIYILAEAIERAGS 306 (344)
T ss_pred CCcCCHHHH----HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhC--CCCcccchHHHHHHHHHHHHHHHhcC
Confidence 211110000 122345677766655443 57788999999999997 56889999999999999999999742
Q ss_pred cCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCC
Q 002368 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLH 391 (930)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~ 391 (930)
. +++.|.++|++++|+|++|+++||++|++..
T Consensus 307 ~-----------------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 307 T-----------------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred C-----------------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 2 4789999999999999999999999999643
No 43
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=7.5e-39 Score=354.82 Aligned_cols=341 Identities=9% Similarity=0.049 Sum_probs=281.3
Q ss_pred EEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 27 I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
|+||++.|+| +.+|...++|+++|+++||++||++ |++|+++++|++++|..|+.++++|+++ +|.+||||.+|+
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 7999999998 5679999999999999999999997 8999999999999999999999999986 899999999999
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~ 181 (930)
.+.++++++++.++|+|.... .+. ...||+||+.|++..++.++++++....-+++++++.|++||+...+.+++
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~----~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~ 155 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQ----YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRV 155 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcc----cccccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHH
Confidence 999999999999999996422 222 346899999999999999999998764447899999999999999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++++..+.++.+ +.||++++.+|++++||+|++...+.+...+++|++++|+..+ ++..........
T Consensus 156 ~~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~ 228 (374)
T TIGR03669 156 IAKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYE 228 (374)
T ss_pred HHHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhh
Confidence 999999999999999987 8999999999999999999999999999999999999998644 222221111111
Q ss_pred CCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecC
Q 002368 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~ 339 (930)
.. ....+...|+++..++.+ ++|..++|.++|+++|+....++.++..+||+++++++|++++++.
T Consensus 229 ~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai~~AGs~-------- 296 (374)
T TIGR03669 229 HK----RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAVEEAGTT-------- 296 (374)
T ss_pred hh----hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 00 011234677776666554 4678899999999999733334677889999999999999998432
Q ss_pred CCccCCCCCCcccCCCccccCchHHHHHHHHh-ccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEeEec
Q 002368 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWS 412 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG~w~ 412 (930)
++++|+++|++ .+|+|+.|+++||++++.....+.|.+++.++.+..+..|.
T Consensus 297 ---------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 297 ---------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred ---------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 48999999997 57999999999997665445566677887666435555554
No 44
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2e-38 Score=351.72 Aligned_cols=334 Identities=18% Similarity=0.245 Sum_probs=279.6
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||+++|+| +..|+..+.|+++|+++||++||++ |++|+++++|++++|..+++++++|+++ +|++|+||.+|.+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~-G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVN-GRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcC-CcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 699999998 5569999999999999999999996 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHH-HHHHHHHc-CCcEEEEEEecC-CcCcchHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSA-IAEMVSYF-GWGEVIAIFNDD-DQGRNGVTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~a-i~~~l~~~-~w~~vaii~~d~-~~g~~~~~~~~ 180 (930)
+.++.+++++.++|+|+++++++.+. ..++|+||+.+++..+... +..+++++ ||++++++|.++ .||+...+.++
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 99999999999999999988777664 3468999998777655444 44567777 999999999754 49999999999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccc
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (930)
+.+++.|++++....++.+ +.|+.+++.++++++||+|++.+.+.++..+++++++.|+..+ ++.++++....
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGL---IVGGNGFNTPN 231 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCc---eeccccccCHH
Confidence 9999999999999999877 7899999999999999999999999999999999999998642 45554433221
Q ss_pred cCCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
.. ....+..+|++...++.+ +.+..++|.++|+++|+ ..|+.++..+||+++++++|+++++..+....
T Consensus 232 ~~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~~-- 302 (344)
T cd06348 232 VF-----PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--KAPPQFSAQAFDAVQVVAEALKRLNQKQKLAE-- 302 (344)
T ss_pred HH-----HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--CCccHHHHHHHHHHHHHHHHHHHhcCCCcccc--
Confidence 11 234567789888877655 35678999999999997 56788899999999999999999864321100
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEE
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I 396 (930)
+. ....++.|.++|++++|+|++|++.||++|++....|.|
T Consensus 303 --------------~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 303 --------------LP---LPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred --------------ch---hhhHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 00 001367899999999999999999999999987777654
No 45
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=100.00 E-value=7.2e-38 Score=348.00 Aligned_cols=330 Identities=13% Similarity=0.107 Sum_probs=273.1
Q ss_pred EEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 27 I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
|+||++.|++ +..|...++|+++|+++||++||++ |++|+++++|++++|.+|+.++++|+++ +|.+|+||.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 7899999998 5668899999999999999999997 9999999999999999999999999986 899999999999
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-cCCcEEEEEEecCCcCcchHHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGD 181 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~~~~~~~ 181 (930)
.+.++.+++++.++|++++.... .....||+||+.+++..++.++++++.. .|.|++++++.|++||++..+.+++
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 99999999999999999764321 1245789999999999999999998776 5999999999999999999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++++....++.+ +.|+++++++|++.+||+|++.....++..+++++++.|+..+...++........+.
T Consensus 157 ~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR 232 (359)
T ss_pred HHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh
Confidence 999999999999999887 8999999999999999999998888888999999999998654333444332211111
Q ss_pred CCCCCchhhhhcccceEEEEEe--cCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecC
Q 002368 262 SKSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~ 339 (930)
....+.++|+++...+ ..+.+..++|.++|+++|+....++.+++.+||+++++++|++++++.
T Consensus 233 ------~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~~-------- 298 (359)
T TIGR03407 233 ------GIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGSF-------- 298 (359)
T ss_pred ------hcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC--------
Confidence 1112456887655433 345688899999999998633334556778999999999999997432
Q ss_pred CCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEcc-CCCCCCCcEEEEEee
Q 002368 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVI 400 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~~~~~~y~I~~~~ 400 (930)
++++++++|++++|+++.|+++|++ +++ ....+.+.+++
T Consensus 299 ---------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~-~~~~~~~~~~~ 338 (359)
T TIGR03407 299 ---------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHH-LTKTVRIGEIR 338 (359)
T ss_pred ---------------------CHHHHHHHhcCCcccCCCccEEEeCCCCe-eeeeeEEEEEc
Confidence 4889999999999999999999997 444 33344444443
No 46
>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=2.6e-38 Score=348.71 Aligned_cols=321 Identities=17% Similarity=0.145 Sum_probs=275.5
Q ss_pred EEeEEeecC--CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhhH
Q 002368 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l~--~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~~ 104 (930)
+||++.|++ +..|....+|+++|+++||++||+. |++|+++++|++++|..+++++++|+++ +|.+|+|+.+|+.+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGIN-GKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCC-CCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999998 6678899999999999999999985 9999999999999999999999999987 99999999999999
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcC-CcEEEEEEecCC-cCcchHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDD-QGRNGVTALGDK 182 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~-w~~vaii~~d~~-~g~~~~~~~~~~ 182 (930)
.++++++++.++|+|+++++++.++ ..+||+||+.|++..++.++++++++.+ |+++++++.|++ ||+...+.+.+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~ 158 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSA 158 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHH
Confidence 9999999999999999988888887 4679999999999999999999998876 999999998876 999999999999
Q ss_pred HHh-cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 183 LAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 183 l~~-~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
+++ .|++++....++.+ +.++...+.++++.+||+|++.+...+...+++++++.|. ...+++++.+... .
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~ 230 (332)
T cd06344 159 LLERGGGIVVTPCDLSSP----DFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-D 230 (332)
T ss_pred HHHhcCCeeeeeccCCCC----CCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCH-H
Confidence 999 59998876555544 6678899999999999999999999889999999998774 2234555543322 1
Q ss_pred CCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 262 SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
.. .......+|+++..++.++.+..++|.++|+++|+ .+|+.++..+||+++++++|++++++.
T Consensus 231 ~~----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~a~~~Yda~~~l~~A~~~ag~~---------- 294 (332)
T cd06344 231 TL----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWG--GDVSWRTATAYDATKALIAALSQGPTR---------- 294 (332)
T ss_pred HH----HhchhhhcCeEEEEecccccccchHHHHHHHHHhc--CCchHHHHhHHHHHHHHHHHHHhCCCh----------
Confidence 11 12345678999998888888888999999999997 578899999999999999999987422
Q ss_pred ccCCCCCCcccCCCccccCchHHHH-HHHHhccccCcceeEEEccCCCCCCCc
Q 002368 342 KLNGLGGGTLNLGALSIFDGGKKFL-ANILQTNMTGLSGPIHFNQDRSLLHPS 393 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~~~f~G~tG~v~fd~~g~~~~~~ 393 (930)
++..+. .++.+..|+|+.|+++||++|++..+.
T Consensus 295 -------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~~ 328 (332)
T cd06344 295 -------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQA 328 (332)
T ss_pred -------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCcC
Confidence 244555 678888899999999999999975543
No 47
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=100.00 E-value=5.2e-38 Score=349.52 Aligned_cols=309 Identities=30% Similarity=0.484 Sum_probs=269.1
Q ss_pred EEeEEeecCCC-------------cchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc----
Q 002368 28 NVGAIFSFGTV-------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET---- 90 (930)
Q Consensus 28 ~IG~~~~l~~~-------------~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~---- 90 (930)
.||+++|++.. .|.....++.+|+++||+++++++|++|+++++|++|+|.+|+.++.+|+.+
T Consensus 1 ~ig~lf~~~~~~~~~~~~c~~~~~~~~~~~~~~~~Av~~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~~~~ 80 (348)
T cd06350 1 IIGGLFPLHSGSESVSLKCGRFGKKGLQAAEAMLFAVEEINNDPDLLPNITLGYHIYDSCCSPAVALRAALDLLLSGEGT 80 (348)
T ss_pred CeEEEEeCcccccCCCcccceechHHHHHHHHHHHHHHHHcCCCccCCCCceeEEEEecCCcchHHHHHHHHHHhcCCCC
Confidence 48999999752 3567789999999999999999899999999999999999999999999985
Q ss_pred ----------CcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCC
Q 002368 91 ----------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGW 159 (930)
Q Consensus 91 ----------~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w 159 (930)
+|.+||||.+|+.+.++++++++++||+|+++++++.+++ ..|||+||+.|++..++.+++++++++||
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 8999999999999999999999999999999999999976 67999999999999999999999999999
Q ss_pred cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 160 ~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
++|++++.+++||+...+.+.+.+++.|++|+..+.++.+ ....|+..++++++++++|+|++++.+.++..++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~ 238 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAY 238 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999875 34689999999999999999999999999999999999
Q ss_pred HcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHH
Q 002368 240 RLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVW 319 (930)
Q Consensus 240 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~ 319 (930)
++|+ ...++| ..+.+....... ....+.++|++++.++.|+....++|.+.+++ +++++|||+|
T Consensus 239 ~~g~-~~~~~i-~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~ 302 (348)
T cd06350 239 KLGM-TGKYWI-ISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVY 302 (348)
T ss_pred HhCC-CCeEEE-EEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhhee
Confidence 9999 444444 554444331111 23346789999999988876666777777775 6789999998
Q ss_pred HHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEe
Q 002368 320 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (930)
Q Consensus 320 ~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~ 399 (930)
+ .+.||++|++ ...|.|+++
T Consensus 303 ~-----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~ 322 (348)
T cd06350 303 A-----------------------------------------------------------EVKFDENGDR-LASYDIINW 322 (348)
T ss_pred E-----------------------------------------------------------EEEecCCCCc-ccceeEEEE
Confidence 6 6899999996 678999999
Q ss_pred ee---cCceeEEeEecCC
Q 002368 400 IE---HGYPQQIGYWSNY 414 (930)
Q Consensus 400 ~~---~~~~~~VG~w~~~ 414 (930)
+. .+.++.||.|.+.
T Consensus 323 ~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 323 QIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEcCCcEEEEEEEEEcCC
Confidence 76 2444999999874
No 48
>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=9e-38 Score=345.73 Aligned_cols=319 Identities=18% Similarity=0.186 Sum_probs=278.4
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
+||++.|++ +..|.....|+++|+++||++||+. |++|++++.|++++|..+++.+++|++++|++||||.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~-G~~i~l~~~D~~~~p~~a~~~a~~lv~~~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVD-GRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 599999998 4568999999999999999999996 899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcC-CcEEEEEEecCCcCcch
Q 002368 105 HVL-------SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGRNG 175 (930)
Q Consensus 105 ~av-------~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~-w~~vaii~~d~~~g~~~ 175 (930)
.++ +++++++++|+|+++++++.+++ ..+||+||+.|++..++.++++++...+ ||++++++.|+.||+..
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 999 78889999999999888888887 5689999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHHh--cCcEEEEEEecCCCCCCCh-hHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 176 VTALGDKLAE--IRCKISYKSALPPDQSVTE-TDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 176 ~~~~~~~l~~--~g~~i~~~~~~~~~~~~~~-~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
.+.+.+.+++ .|++|+....++.+ . +|+.+++.++++.+||+|++...+.++..+++++++.|+..+ ++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKLP---FYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCce---EEe
Confidence 9999999999 99999998888876 6 899999999999999999999988899999999999998543 444
Q ss_pred eCcccccccCCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhh
Q 002368 253 TTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (930)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~ 330 (930)
..+....+ . ....+..+|++...++.+ +++..++|.++|+++++ ..|+.++..+||+++++++|+++++.
T Consensus 233 ~~~~~~~~-~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~y~~~~~~~~a~~~ag~ 304 (342)
T cd06329 233 PYLDQPGN-P-----AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--RVPDYYEGQAYNGIQMLADAIEKAGS 304 (342)
T ss_pred ccccchhH-H-----HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHHHHHHHhCC
Confidence 44332221 1 234456788887766543 36788999999999987 57888999999999999999998632
Q ss_pred cCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEcc-CCCCCC
Q 002368 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLH 391 (930)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~~~~ 391 (930)
. +++.+.++|++++|+|+.|+++|++ +++...
T Consensus 305 ~-----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~ 337 (342)
T cd06329 305 T-----------------------------DPEAVAKALEGMEVDTPVGPVTMRASDHQAQQ 337 (342)
T ss_pred C-----------------------------CHHHHHHHHhCCccccCCCCeEEcccCcchhc
Confidence 1 4889999999999999999999985 554433
No 49
>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=9.1e-38 Score=346.19 Aligned_cols=324 Identities=18% Similarity=0.257 Sum_probs=279.3
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCC--CCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCCh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRV--LGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggi--l~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S 101 (930)
|||++.|++ +..|.....|+++|+++||+.||+ ++|++|+++++|++++|..+++++++|+++ +|.+|+||.+|
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 699999998 466889999999999999999973 469999999999999999999999999988 99999999999
Q ss_pred hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc------CCcEEEEEEecCCcCcch
Q 002368 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDDDQGRNG 175 (930)
Q Consensus 102 ~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------~w~~vaii~~d~~~g~~~ 175 (930)
..+.++++++++.++|+|+++++++.+++..+||+||+.|++..++.++++++.++ +|+++++++.|++||+..
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~ 160 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFGTSV 160 (347)
T ss_pred HhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHhHHH
Confidence 99999999999999999999888888887778999999999999999999998875 469999999999999999
Q ss_pred HHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 176 ~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
.+.+++.+++.|++|+..+.++.+ +.|+++++.+++..++|+|++.++..++..|++++++.|+..+ .++...++
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~ 235 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYPAN----ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGG 235 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccCCC----CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCC
Confidence 999999999999999999889877 7899999999999999999999999999999999999998643 22222222
Q ss_pred ccccccCCCCCchhhhhcccceEEEEEecCC-ChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCc
Q 002368 256 LSTFIDSKSPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (930)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~ 334 (930)
..... .. ....+..+|++...++.+. .+..++|.++|+++|+ ..|+.++..+||+++++++|++++.+.
T Consensus 236 ~~~~~-~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~Y~a~~~l~~A~~~ag~~--- 305 (347)
T cd06340 236 AEDPS-FV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--VDLSGNSARAYTAVLVIADALERAGSA--- 305 (347)
T ss_pred cCcHH-HH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHHHhcCC---
Confidence 22111 10 2344667899888777664 6888999999999997 558899999999999999999997432
Q ss_pred ceecCCCccCCCCCCcccCCCccccCchHHHH--HHHHhcccc---CcceeEEEccCCCCCCC
Q 002368 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL--ANILQTNMT---GLSGPIHFNQDRSLLHP 392 (930)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~l~~~~f~---G~tG~v~fd~~g~~~~~ 392 (930)
+++++. .+|++..+. ++.|++.||++|+..++
T Consensus 306 --------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 306 --------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred --------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 377888 488877765 56899999999986443
No 50
>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=1.8e-37 Score=345.58 Aligned_cols=334 Identities=26% Similarity=0.450 Sum_probs=282.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHH-HhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEe
Q 002368 43 SRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQF-METDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (930)
Q Consensus 43 ~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~l-i~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~ 121 (930)
.+.|+++|+++||+++++++|.+|++.+.|+++++..+...+... ..++|.+||||.|+..+.+++.+++.++||+|++
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~ 81 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISP 81 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEES
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeec
Confidence 578999999999999998899999999999996666666666555 4469999999999999999999999999999999
Q ss_pred ecCCCCCCC--CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEE-EecCC
Q 002368 122 TALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYK-SALPP 198 (930)
Q Consensus 122 ~a~~~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~-~~~~~ 198 (930)
+++++.+++ .+||+++|+.|++..++.++++++++++|++|++||+++++|.+..+.+.+.+++.++.++.. ...+.
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVIS 161 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEET
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceecccccccc
Confidence 999999988 479999999999999999999999999999999999999999999999999999976555444 33333
Q ss_pred CCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccc
Q 002368 199 DQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILG 276 (930)
Q Consensus 199 ~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g 276 (930)
. ..++...+.++++ .++++|++++.+.++..|+++|.+.||...+|+||.++.+...... ..........|
T Consensus 162 ~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~---~~~~~~~~~~~ 234 (348)
T PF01094_consen 162 S----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQ---NNEDFREAFQG 234 (348)
T ss_dssp T----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTS---THCHHHCCHTT
T ss_pred c----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeeccccccccc---ccccccccccc
Confidence 3 4455555666655 9999999999999999999999999999999999999987665321 11466788999
Q ss_pred eEEEEEecCCChhhHHHHHHHHhhc------CCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCc
Q 002368 277 ALTLRQHTPDSKRRRDFVSRWNTLS------NGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGT 350 (930)
Q Consensus 277 ~~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~ 350 (930)
++++.+..+..+.+++|.++|++.. .....+..+++++|||++++++|++++...+++...
T Consensus 235 ~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~------------- 301 (348)
T PF01094_consen 235 VLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTN------------- 301 (348)
T ss_dssp EEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTS-------------
T ss_pred eeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCC-------------
Confidence 9999999999999999999999752 133567889999999999999999999865433210
Q ss_pred ccCCCccccCchHHHHHHHHhccccCcceeEEEcc-CCCCCCCcEEEEEee
Q 002368 351 LNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVI 400 (930)
Q Consensus 351 ~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~~~~~~y~I~~~~ 400 (930)
....+.+|..+.++|++++|+|++|++.||+ +|++....|.|+|++
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 0044667999999999999999999999999 899889999999975
No 51
>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=4.2e-37 Score=339.36 Aligned_cols=319 Identities=15% Similarity=0.151 Sum_probs=273.3
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||+++|++ +..|.....|+++|+++||++||+. |++|+++++|++++|..+++++++|+++ +|.+|+||.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~-G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGIL-GRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 599999998 4568899999999999999999985 9999999999999999999999999988 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
+.++++++++.++|+|++++... ....||+||+.|++..++.++++++...+|++|++++.|+.||+...+.+++.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~ 156 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEG---GECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALL 156 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCC---CcCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHH
Confidence 99999999999999998754322 124589999999999999999999877779999999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
++.|.+|+....++.+ ..|+++++.++++.+||+|++++.+.++..|++|+++.|+...... +.+...... ...
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~-~~~ 230 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRIP-ILSLTLDEN-ELA 230 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCCe-eEEcccchh-hhh
Confidence 9999999999999977 7899999999999999999999999999999999999999643333 333322221 111
Q ss_pred CCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
.......+|++...++.+ +.+..++|.++|+++++....++.+++.+||+++++++|++++.+.
T Consensus 231 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~~---------- 296 (333)
T cd06331 231 ----AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGST---------- 296 (333)
T ss_pred ----ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCCC----------
Confidence 112345788888877654 4678899999999998643357889999999999999999986321
Q ss_pred ccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCC
Q 002368 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSL 389 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~ 389 (930)
+++.|.++|++++|+|++|+++|++++++
T Consensus 297 -------------------~~~~l~~al~~~~~~~~~G~i~f~~~~~~ 325 (333)
T cd06331 297 -------------------DPEAVRAALEGVSFDAPQGPVRIDPDNHH 325 (333)
T ss_pred -------------------CHHHHHHHhhcCcccCCCCceEecCCCCc
Confidence 48899999999999999999999987664
No 52
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1e-36 Score=340.61 Aligned_cols=341 Identities=14% Similarity=0.193 Sum_probs=289.3
Q ss_pred CCceEEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcc
Q 002368 23 KPEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGP 98 (930)
Q Consensus 23 ~~~~I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp 98 (930)
.+++|+||+++|++ +..|.....|+++|++++|+.||++ |++|+++++|+++++..++..+++|+++ +|.+||||
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 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGIN-GRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGG 81 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEec
Confidence 35789999999998 4568899999999999999999996 9999999999999999999999999985 99999999
Q ss_pred CChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHH-HHcCCcEEEEEEecCCcCcchH
Q 002368 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGV 176 (930)
Q Consensus 99 ~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~ 176 (930)
.+|..+.++++++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++ +++|+++|++++.|++||+...
T Consensus 82 ~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~ 161 (362)
T cd06343 82 LGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYL 161 (362)
T ss_pred CCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHH
Confidence 99999999999999999999998888888877 479999999999999999999975 5678999999999999999999
Q ss_pred HHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcc
Q 002368 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (930)
Q Consensus 177 ~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 256 (930)
+.+.+.+++.|++++..+.++.+ .+|++++++++++.+||+|++.+.+.++..+++++++.|+... ++.++++
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 99999999999999999999877 7899999999999999999999999999999999999998643 4555543
Q ss_pred ccccc-CCCCCchhhhhcccceEEEEEec-------CCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHh
Q 002368 257 STFID-SKSPLSLKTAKSILGALTLRQHT-------PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLF 328 (930)
Q Consensus 257 ~~~~~-~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a 328 (930)
..... .. ....+..+|++....+. .+.+..++|.++|+++++...+++.++..+||++.++++|++++
T Consensus 235 ~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~a 310 (362)
T cd06343 235 ASVASVLK----PAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQA 310 (362)
T ss_pred cccHHHHH----HhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHh
Confidence 32211 10 12335678887766542 24677899999999998633358889999999999999999997
Q ss_pred hhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccc---cC-cceeEEEccCCCCCCCcEEEEEeeecC
Q 002368 329 LDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNM---TG-LSGPIHFNQDRSLLHPSYDIINVIEHG 403 (930)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f---~G-~tG~v~fd~~g~~~~~~y~I~~~~~~~ 403 (930)
... . +++.++++|+++++ .+ ..|++.|++++++....+.|.++++++
T Consensus 311 g~~---------------------------~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~ 361 (362)
T cd06343 311 GDD---------------------------L-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGR 361 (362)
T ss_pred CCC---------------------------C-CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCc
Confidence 321 1 38899999999997 33 345899987655566678888887654
No 53
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=3.6e-37 Score=340.05 Aligned_cols=321 Identities=17% Similarity=0.146 Sum_probs=277.2
Q ss_pred EEeEEeecCC----CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 28 NVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 28 ~IG~~~~l~~----~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
+||+++|++. ..|.....|+++|+++|| ||+. |++|+++++|++++|.++++++++|+++ +|.+||||.+|.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi~-G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGVL-GRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCcc-CeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 5999999974 448899999999999999 8885 9999999999999999999999999987 999999999999
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~ 181 (930)
.+.++++++++.++|+|+++++++.++. ..+||+||+.+++..++.++++++...+++++++++.|++||+...+.+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 9999999999999999999998888887 457999999999999999999998888899999999999999999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++|+....++.+ .+|+++++.++++.+||+|++.+++.++..+++++++.|+.. +..++..........
T Consensus 158 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~ 232 (334)
T cd06327 158 VVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDVH 232 (334)
T ss_pred HHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHHH
Confidence 999999999999889877 789999999999999999999999999999999999999863 223333222111110
Q ss_pred CCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecC
Q 002368 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~ 339 (930)
....+..+|++...++.+ +.+..++|.++|+++|+ ..|+.++..+||+++++++|++++++.
T Consensus 233 ------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~Y~~~~~~~~A~~~ag~~-------- 296 (334)
T cd06327 233 ------SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG--KMPSMVQAGAYSAVLHYLKAVEAAGTD-------- 296 (334)
T ss_pred ------hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC--cCCCcHHHHHHHHHHHHHHHHHHHCCC--------
Confidence 123356789888877644 37789999999999997 558889999999999999999998433
Q ss_pred CCccCCCCCCcccCCCccccCchHHHHHHHHhcc-ccCcceeEEEcc-CCCCCCCc
Q 002368 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQ-DRSLLHPS 393 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~-~g~~~~~~ 393 (930)
++.+|.++|++++ ++++.|+++|+. +|+...+.
T Consensus 297 ---------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~~ 331 (334)
T cd06327 297 ---------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMVHDM 331 (334)
T ss_pred ---------------------ChHHHHHhccccceeccCCCCceeeccccchhccc
Confidence 4777999999986 688999999987 77754443
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=2.1e-36 Score=334.98 Aligned_cols=330 Identities=18% Similarity=0.228 Sum_probs=279.1
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|++ +..|.....|+++|++++|++||+ +|++|+++++|+++++..+.+.+++|+++ +|.+|+||.+|+.
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGV-GGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCc-CCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHh
Confidence 699999998 566899999999999999999999 49999999999999999999999999987 7999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHH-HHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.++++++++.++|+|+++++.+.+++ ..+|+||+.|++..++.++++++ +.++|++|++++.|++||+...+.+++.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~ 158 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKA 158 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHH
Confidence 999999999999999999887777765 35899999999999999999995 6689999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
+++.|++|+....++++ ..|++..+.++++++||+|++.+.+.++..|++++++.|+..+ ++.+..+......
T Consensus 159 ~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 231 (340)
T cd06349 159 AEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSPKFI 231 (340)
T ss_pred HHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCHHHH
Confidence 99999999998888877 7899999999999999999999999999999999999998643 4443332211111
Q ss_pred CCCCchhhhhcccceEEEEEecCC--ChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 263 KSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
....+..+|++...++.|+ .+..++|.++|+++|+ ..|+.++..+||+++++++|++++...
T Consensus 232 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~p~~~~~~~y~~~~~~~~a~~~ag~~--------- 295 (340)
T cd06349 232 -----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--AQPDAFAAQAYDAVGILAAAVRRAGTD--------- 295 (340)
T ss_pred -----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhhhhHHHHHHHHHHHHHHhCCC---------
Confidence 2234567898888777664 5778999999999887 568889999999999999999997322
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHH-HHhccccCcceeEEEccC-CCCCCCcEEEEEeeecC
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLAN-ILQTNMTGLSGPIHFNQD-RSLLHPSYDIINVIEHG 403 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~f~G~tG~v~fd~~-g~~~~~~y~I~~~~~~~ 403 (930)
+...+.+. +.+..+.|++|+++|+++ |+. ...|.++.+++++
T Consensus 296 --------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~g~ 339 (340)
T cd06349 296 --------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRNGK 339 (340)
T ss_pred --------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeCCc
Confidence 13333333 245568899999999987 654 4588888876653
No 55
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=4.2e-36 Score=333.98 Aligned_cols=341 Identities=17% Similarity=0.123 Sum_probs=277.8
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||+++|+| +..|+..++|+++|+++||++||++ |++|+++++|++++|..++.++++|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVL-GRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 699999998 5679999999999999999999996 8999999999999999999999999985 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
+.++++++++.++|++++++... . ...|++|++.+++..++.++++++.+.+-+++++|+.|++||++..+.+.+.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999998654321 1 22378888888887788889999877666899999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
++.|++++.+..++.+ ..+.||++++.++++++||+|++...+.++..++++++++|+.... +.+.+...... ...
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~-~~~ 232 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEA-EVA 232 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHH-HHh
Confidence 9999999987666654 4489999999999999999999999999999999999999987543 22333322111 110
Q ss_pred CCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
....+..+|+++..++.+ ++|..++|.++|+++|+....++.+++.+||+++++++|++++++.
T Consensus 233 ----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ag~~---------- 298 (360)
T cd06357 233 ----AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRAGSD---------- 298 (360)
T ss_pred ----hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCC----------
Confidence 122456789888776543 5788999999999999743346788999999999999999997322
Q ss_pred ccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecCceeEEe
Q 002368 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIG 409 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~~~~~VG 409 (930)
+++.|+++|++++|+|+.|.+.||.+++.......+.++..+|.|..+.
T Consensus 299 -------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 299 -------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred -------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 4788999999999999999999987654334445555663333324443
No 56
>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=7e-36 Score=328.53 Aligned_cols=333 Identities=17% Similarity=0.200 Sum_probs=258.5
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
+||++++.++.. ....-++.+|++++|++||+ .|+.++++.+|+.+|+.+|+.++++|+++||.|||||.+|..+.++
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~-~~~~i~~v~~dd~~d~~~a~~~~c~Li~~gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 599999997543 34566677788899999987 4788999999999999999999999999999999999999999999
Q ss_pred HHhhhcCCCcEEEeecCC---CC-----CCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHH
Q 002368 108 SHLANELQVPLLSFTALD---PT-----LSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 178 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~---~~-----ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~ 178 (930)
+++++..+||+|++.+.. |. +.+ ...+|.|+..|++ .+..+++++++++||++|+++|++++ |....+.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHH
Confidence 999999999999975421 11 111 1234555666764 68899999999999999999998876 5555577
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHh-------cCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEE
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR-------MMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~-------~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i 251 (930)
+.+++++.|+.++.. ....+ ....+...++.++ ..+.++||+++.++.+..|+++|+++||+..+|+|+
T Consensus 157 ~~~~~~~~g~~v~~~-~~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi 232 (363)
T cd06381 157 FLDQLSRQGIDVLLQ-KVDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWF 232 (363)
T ss_pred HHHHHHhcCceEEEE-ecccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEE
Confidence 778899999876643 22211 1223344433332 345568899999999999999999999999999999
Q ss_pred EeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhH----HHHHHHHhhcCCC----CCCCchhhhHhhHHHHHHH
Q 002368 252 ATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRR----DFVSRWNTLSNGS----IGLNPYGLYAYDTVWMIAR 323 (930)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~~----~~~~~~~~~~YDav~~la~ 323 (930)
+++.+....... +.......|+++++...|..+..+ .|.+.|++..... ..+...++++||||+++
T Consensus 233 ~~~~l~~~~~~l----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~-- 306 (363)
T cd06381 233 LINEEISDTEID----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL-- 306 (363)
T ss_pred Eeccccccchhh----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH--
Confidence 887766532211 345677899999999988777666 5566675433211 23456799999999998
Q ss_pred HHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecC
Q 002368 324 ALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG 403 (930)
Q Consensus 324 Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~ 403 (930)
+++|++++|+|+||+|+||++|.|.+..++|+++.-+|
T Consensus 307 ------------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~ 344 (363)
T cd06381 307 ------------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSE 344 (363)
T ss_pred ------------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCC
Confidence 33577889999999999999999999999999999555
Q ss_pred -----ceeEEeEecCCCCc
Q 002368 404 -----YPQQIGYWSNYSGL 417 (930)
Q Consensus 404 -----~~~~VG~w~~~~gl 417 (930)
. +.+|+|++..||
T Consensus 345 ~~~~~~-~~~~~w~~~~~~ 362 (363)
T cd06381 345 TLGKDG-RWLATWNPSKGL 362 (363)
T ss_pred ccccce-EEeeeccCCCCC
Confidence 6 889999998876
No 57
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=2.5e-36 Score=332.42 Aligned_cols=322 Identities=16% Similarity=0.134 Sum_probs=271.0
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHH-hcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDI-NSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~i-N~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
|||++.|++ +..|....+|+++|+++| |+.||+. |++|++++.|++++|..++.++++|+++ +|.+|+||.+|+
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~-G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVD-GRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcC-CEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 699999998 456899999999999999 4567774 9999999999999999999999999998 999999999999
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~ 181 (930)
.+.++++++++.++|+|+++++++.++. ..++|+||+.+++..++..+++++... +|+|++++.|++||++..+.+++
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~ 158 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKA 158 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHH
Confidence 9999999999999999999888888886 446999999999888899988887766 89999999999999999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHHHHcCCCCCceEEEEeCcccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (930)
.+++.|++++....++++ ..|+++++.++++++||+|++...+. +...+++++.+.|+... +..........
T Consensus 159 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (333)
T cd06328 159 ALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANL 231 (333)
T ss_pred HHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcc
Confidence 999999999999999887 88999999999999999998876555 67778888888776532 22222221111
Q ss_pred cCCCCCchhhhhcccceEEEEEec-CCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecC
Q 002368 261 DSKSPLSLKTAKSILGALTLRQHT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (930)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~ 339 (930)
.. ....+..+|++...++. +.+|..+.|.++|+++|+ ..|+.+++.+||++.++++|++++...
T Consensus 232 ~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~y~a~~~l~~Ai~~ag~~-------- 296 (333)
T cd06328 232 TM-----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG--SPPDLFTAGGMSAAIAVVEALEETGDT-------- 296 (333)
T ss_pred cc-----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC--CCcchhhHHHHHHHHHHHHHHHHhCCC--------
Confidence 11 12234566766655555 678888999999999997 668889999999999999999997411
Q ss_pred CCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEcc-CCCCCCCcE
Q 002368 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSY 394 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~g~~~~~~y 394 (930)
+++++.++|++.+|+++.|+++|+. +++...+.|
T Consensus 297 ---------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~ 331 (333)
T cd06328 297 ---------------------DTEALIAAMEGMSFETPKGTMTFRKEDHQALQPMY 331 (333)
T ss_pred ---------------------CHHHHHHHHhCCeeecCCCceEECcccchhhhccc
Confidence 4889999999999999999999985 555544444
No 58
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=3.3e-36 Score=332.11 Aligned_cols=324 Identities=14% Similarity=0.198 Sum_probs=273.9
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||+++|++ +..|....+|+++|+++|| ||+ .|++|+++++|++++|..+++.+++|+++ +|.+|+||.+|+.
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi-~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKL-GGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--Ccc-CCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHH
Confidence 699999998 4568889999999999998 777 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.++++++++.+||+|+++++.+.+.+ ..+||+||+.+++..++.++++++...||++|++++.|++||+...+.+++.
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998777666665 4589999999999999999999999999999999999999999999999888
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
++ .+++....++.+ .+|+.+++.++++++||+|++...+.++..++++++++|+.. ...++.+...... +.
T Consensus 158 ~~---~~v~~~~~~~~~----~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~ 228 (333)
T cd06359 158 FK---GEVVGEVYTKLG----QLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DT 228 (333)
T ss_pred hC---ceeeeeecCCCC----CcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HH
Confidence 74 467766666666 789999999999999999999988888999999999999853 3345554443322 11
Q ss_pred CCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
. +...+..+|++...++.+ +++..++|.++|+++|+ ..|+.++..+||+++++++|+++++..
T Consensus 229 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~A~~~ag~~--------- 293 (333)
T cd06359 229 L----PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG--RLPTLYAAQAYDAAQLLDSAVRKVGGN--------- 293 (333)
T ss_pred H----HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 0 233456789888877766 46889999999999997 578899999999999999999997421
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEE
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 397 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~ 397 (930)
..+++.+.++|++++|+|++|+++|+++|+... .+.|+
T Consensus 294 ------------------~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~~-~~~~~ 331 (333)
T cd06359 294 ------------------LSDKDALRAALRAADFKSVRGAFRFGTNHFPIQ-DFYLR 331 (333)
T ss_pred ------------------CCCHHHHHHHHhcCccccCccceEECCCCCcce-eEEEE
Confidence 013789999999999999999999999987533 34443
No 59
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.6e-36 Score=336.28 Aligned_cols=324 Identities=17% Similarity=0.183 Sum_probs=276.1
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCC-CC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCC
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVL-GG--RKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil-~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 100 (930)
+||++.|++ +..|.....|+++|++++|++||++ +| ++|+++++|++++|..+.+.+++|+++ +|.+|+|+.+
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~ 80 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPIG 80 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCCC
Confidence 699999998 4568899999999999999999986 45 489999999999999999999999988 9999999999
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHH
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG 180 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~ 180 (930)
|.++.+ ++++++.++|+|+++++++.++...+||+||+.|++..++.++++++...+|++|++++.|++||+...+.++
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~ 159 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYK 159 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHH
Confidence 999988 9999999999999999998887666799999999999999999999888899999999999999999999999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHHHHcCCCCCceEEEEeCccccc
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 259 (930)
+.+++.|++|+....++.+ ..|+++++.++++++||+|++.+... ++..++++++++|+..+ ..++........
T Consensus 160 ~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHH
Confidence 9999999999999889877 78999999999999999999999998 99999999999998653 222221111111
Q ss_pred ccCCCCCchhhhhcccceEEEEEecC----CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcc
Q 002368 260 IDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTI 335 (930)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~ 335 (930)
.. ....+.++|++...++.+ .+|..++|.++|+++|+ ..|+.++..+||+++++++|+++++..
T Consensus 235 ~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~p~~~~~~~y~~~~~~~~Al~~ag~~---- 302 (347)
T cd06336 235 LV------ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYG--EPPNSEAAVSYDAVYILKAAMEAAGSV---- 302 (347)
T ss_pred HH------HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHC--CCCcHHHHHHHHHHHHHHHHHHhcCCC----
Confidence 11 123456789988887655 57888999999999997 458889999999999999999997432
Q ss_pred eecCCCccCCCCCCcccCCCccccCchHHHHHHHHh--------ccccCcceeEEEccCCCCCCCcE
Q 002368 336 SFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ--------TNMTGLSGPIHFNQDRSLLHPSY 394 (930)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--------~~f~G~tG~v~fd~~g~~~~~~y 394 (930)
++..+.+++.. ..|.++.|.+.||++|+...+.+
T Consensus 303 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 303 -------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred -------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 23445544433 55889999999999999766654
No 60
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=9.5e-36 Score=329.55 Aligned_cols=322 Identities=16% Similarity=0.282 Sum_probs=277.6
Q ss_pred EEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||+++|+++ ..|+....|+++|+|+||++||+. |++|++++.|+++++..++..+++|+++ +|++||||.+|..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~-g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVL-GKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCC-CeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHh
Confidence 6999999984 567889999999999999999985 9999999999999999999999999998 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHH-HHcCCcEEEEEEecC-CcCcchHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDD-DQGRNGVTALGD 181 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~~w~~vaii~~d~-~~g~~~~~~~~~ 181 (930)
+.++++++++.+||+|+++++.+.+++. .+|+||+.+++..++.++++++ ++++|++|++|+.++ +|++...+.+++
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 9999999999999999998888777653 3599999999999999999996 567999999999875 899999999999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccccc
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (930)
.+++.|++++....++.+ ..|+.+.+.++++.++|+|++.+...+...+++++++.|+.. .|++++.+.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~---~i~~~~~~~~~~~ 231 (334)
T cd06347 159 AFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKV---PILGGDGWDSPKL 231 (334)
T ss_pred HHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCC---cEEecccccCHHH
Confidence 999999999998888876 678999999999999999999999999999999999999743 4676665543211
Q ss_pred CCCCCchhhhhcccceEEEEEecCC--ChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecC
Q 002368 262 SKSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~ 339 (930)
. ....+..+|++...++.+. .+..++|.++|+++++ ..|+.++..+||+++++++|++++...
T Consensus 232 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~Al~~ag~~-------- 296 (334)
T cd06347 232 E-----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--KEPDAFAALGYDAYYLLADAIERAGST-------- 296 (334)
T ss_pred H-----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhHHHHHHHHHHHHHHHHHhCCC--------
Confidence 1 2334678888887776654 5788999999999986 578889999999999999999986321
Q ss_pred CCccCCCCCCcccCCCccccCchHHHHHHHHhc-cccCcceeEEEccCCCCCCCcE
Q 002368 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQT-NMTGLSGPIHFNQDRSLLHPSY 394 (930)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~f~G~tG~v~fd~~g~~~~~~y 394 (930)
+++.+.++|.+. +|+|++|+++|+.+|+.....|
T Consensus 297 ---------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~~~ 331 (334)
T cd06347 297 ---------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKSAV 331 (334)
T ss_pred ---------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCCce
Confidence 378899998765 6999999999999998654443
No 61
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=9.1e-36 Score=328.13 Aligned_cols=316 Identities=12% Similarity=0.096 Sum_probs=265.2
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||++.|+| +..|+...+|+++|+++||++||++ |++|+++++|++++|..++..+++|+++ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~-Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGIL-GREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCC-CceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 699999998 5669999999999999999999996 9999999999999999999999999986 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
+.++.+++++.++|+|+.+.... ....||+||+.+++..++.++++++...+.+++++|+.|++||++..+.+.+.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999997533322 223589999999999999999999877655899999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC-CCCceEEEEeCcccccccC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM-MDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~-~~~~~~~i~~~~~~~~~~~ 262 (930)
++.|++++....++.+ ..||+++++++++.+||+|++...+.+...+++++++.|+ ..+ ++...........
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~---~~~~~~~~~~~~~ 229 (334)
T cd06356 157 EENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGLGNIP---MASSTLGAQGYEH 229 (334)
T ss_pred HHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCCccCc---eeeeecccchhHH
Confidence 9999999999999987 8899999999999999999999999999999999999998 322 2222111111100
Q ss_pred CCCCchhhhhcccceEEEEEecCC--ChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 263 KSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
. .......+|++...++.++ .|..++|.++|+++|+....++.+++.+||+++++++|++++++.
T Consensus 230 ~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~y~a~~~~~~A~~~ag~~--------- 296 (334)
T cd06356 230 K----RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPDAPYINEEAENNYEAIYLYKEAVEKAGTT--------- 296 (334)
T ss_pred h----ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCCCCCchhHHHHHHHHHHHHHHHHHCCC---------
Confidence 0 0113457888877665443 677899999999999732223678999999999999999997432
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHHHHh-ccccCcceeEEEccCC
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDR 387 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~g 387 (930)
+++.|.++|++ ..|+|+.|+++|++++
T Consensus 297 --------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~ 324 (334)
T cd06356 297 --------------------DRDAVIEALESGLVCDGPEGKVCIDGKT 324 (334)
T ss_pred --------------------CHHHHHHHHHhCCceeCCCceEEEecCC
Confidence 48899999997 5689999999999743
No 62
>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=7.6e-36 Score=329.56 Aligned_cols=329 Identities=15% Similarity=0.183 Sum_probs=271.3
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|++ +..|+...+|+++|+++||+.|||+ |++|+++++|++++|..++..+++|+++ +|.+|+ +.+|+.
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~-Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGIN-GVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcC-CeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 699999998 5678999999999999999999995 9999999999999999999999999998 787765 688999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcC-----CcEEEEEEecCCcCcchHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-----WGEVIAIFNDDDQGRNGVT 177 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~-----w~~vaii~~d~~~g~~~~~ 177 (930)
+.++++++++.+||+|+++++++.+++ ..+||+||+.|++..++.++++++.+.+ .++|++|+.|++||++..+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998877777774 6689999999999999999999987754 7999999999999999999
Q ss_pred HHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccc
Q 002368 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (930)
Q Consensus 178 ~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 257 (930)
.+++.+++.|++|+..+.++.+ +.|+++++.++++.+||+|++.+.+.++..++++++++|+..+ ++.+.+..
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDDK---FIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCce---EEEeeccC
Confidence 9999999999999999989877 7899999999999999999999999999999999999998432 44443322
Q ss_pred ccccCCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCC----CCCchhhhHhhHHHHHHHHHHHhhhc
Q 002368 258 TFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQ 331 (930)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDav~~la~Al~~a~~~ 331 (930)
..... ....+..+|+++..++.+ ++|..++|.++|+++++... .++.++..+||+++++++||+++++.
T Consensus 232 ~~~~~-----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~ 306 (351)
T cd06334 232 DEEDV-----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEK 306 (351)
T ss_pred cHHHH-----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHh
Confidence 21111 234466789888777654 67889999999999986221 34678999999999999999999876
Q ss_pred CCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccC
Q 002368 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (930)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~ 386 (930)
.....+... .....-+.-++.+.+....|+.|+++|...
T Consensus 307 ~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 345 (351)
T cd06334 307 GGETTIAGE----------------EQLENLKLDAARLEELGAEGLGPPVSVSCD 345 (351)
T ss_pred cCCCCCcHH----------------HHHHhhhhhhhhhhhcCcccccCCceeccc
Confidence 432110000 000001233456677778899999999763
No 63
>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=2e-35 Score=325.86 Aligned_cols=319 Identities=15% Similarity=0.163 Sum_probs=268.9
Q ss_pred EEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|+++ ..|+....|+++|+++||+.||+. |++|+++++|++++|..++..+++|+++ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGIL-GREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcC-CcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 6999999984 479999999999999999999995 8999999999999999999999999988 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHH-HHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l-~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.++.++++ .+||+|++++.+.. ...||+||+.+++..++.++++++ +..|+++|++++.|++||+...+.+++.
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997543321 346899999999999988888876 4579999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE-eCccccccc
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA-TTWLSTFID 261 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~-~~~~~~~~~ 261 (930)
+++.|++|+....++.+ ..|+++.++++++.+||+|++.....+...+++++++.|+..+ ++. ...+.....
T Consensus 156 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~ 228 (333)
T cd06358 156 IAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENML 228 (333)
T ss_pred HHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHH
Confidence 99999999998889877 8999999999999999999999999999999999999999754 222 222221111
Q ss_pred CCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCC-CCCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGS-IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
. ......++|++....+.+ ..+..++|.++|+++|+.. ..++.++..+||+++++++|+++++..
T Consensus 229 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~~------- 296 (333)
T cd06358 229 L-----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGSL------- 296 (333)
T ss_pred H-----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCCC-------
Confidence 0 112245788877665544 5788999999999999733 246778899999999999999986321
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCc
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPS 393 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~ 393 (930)
++++|.++|++++|+|++|.+.|++++. +.+.
T Consensus 297 ----------------------~~~~v~~al~~~~~~~~~G~~~~~~~~~-~~~~ 328 (333)
T cd06358 297 ----------------------DPEALIAALEDVSYDGPRGTVTMRGRHA-RQPV 328 (333)
T ss_pred ----------------------CHHHHHHHhccCeeeCCCcceEEccccc-cccc
Confidence 4789999999999999999999998865 4443
No 64
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=3e-35 Score=325.66 Aligned_cols=325 Identities=16% Similarity=0.223 Sum_probs=282.1
Q ss_pred EEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||+++|++. ..|.....|+++|++++| +++ .|++|+++++|+++++..+.+++++|+++ +|.+||||.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKL-GGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCc-CCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHh
Confidence 6999999984 446899999999999986 455 69999999999999999999999999985 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.++++.+++.++|+|+++++++.+++ ..+||+||+.+++..++..+++++...+|+++++++.++.||+...+.+++.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999999999999888888887 4589999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
+++.|++++....++.+ ..||+++++++++.+||+|++...+.++..+++++++.|+.+ ...++.++++......
T Consensus 158 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 232 (336)
T cd06360 158 FTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTL 232 (336)
T ss_pred HHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHH
Confidence 99999999988888876 789999999999999999999999999999999999999853 2345655554332111
Q ss_pred CCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
....+..+|++...++.+ +++..++|.++|+++|+ .+|+.++..+||+++++++|++++.+..
T Consensus 233 -----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~yda~~~~~~A~~~a~~~~-------- 297 (336)
T cd06360 233 -----GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP--DTPSVYAVQGYDAGQALILALEAVGGDL-------- 297 (336)
T ss_pred -----HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC--CCccHHHHHHHHHHHHHHHHHHHhCCCC--------
Confidence 234567889888777655 46889999999999997 5788999999999999999999974321
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcE
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 394 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y 394 (930)
.+++.+.++|++++|+|+.|+++|+++|++..+.|
T Consensus 298 -------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 298 -------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred -------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 13778999999999999999999999998766544
No 65
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=1.1e-35 Score=330.20 Aligned_cols=335 Identities=21% Similarity=0.301 Sum_probs=283.0
Q ss_pred eEEEeEEeecCCC---cchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEccCCh
Q 002368 26 VLNVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSA 101 (930)
Q Consensus 26 ~I~IG~~~~l~~~---~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~-~~v~aiiGp~~S 101 (930)
+|+||++.|+++. .|.....|+++|++++|++||++ |++|+++++|+++++..+++.+++|++ ++|.+|+||.+|
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~-G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGIN-GRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEET-TEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcC-CccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 6999999999844 57889999999999999999996 999999999999999999999999999 599999999999
Q ss_pred hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHH-HcCCcEEEEEEecCCcCcchHHHHH
Q 002368 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALG 180 (930)
Q Consensus 102 ~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~-~~~w~~vaii~~d~~~g~~~~~~~~ 180 (930)
..+.++++++++.++|+|++++.++ ...++|+||..|++..++.++++++. ++|.+++++|+.+++||+...+.+.
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999654442 35679999999999999999999864 5899999999999999999999999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccc
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (930)
+.+++.|++++....++.+ ..|+.++++++++.+||+|++.+.+.+...+++++++.|+..+.+.+..+......+
T Consensus 157 ~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 232 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASL 232 (343)
T ss_dssp HHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHH
T ss_pred HHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHH
Confidence 9999999999988999977 799999999999999999999999999999999999999865444444333222221
Q ss_pred cCCCCCchhhhhcccceEEEEEecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
. ....+.++|++...++.| +.|..++|.++|+++|+...+|+.++..+||++.++++|++++...
T Consensus 233 ~------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g~~------- 299 (343)
T PF13458_consen 233 Q------QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAGSL------- 299 (343)
T ss_dssp H------HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHTSH-------
T ss_pred H------HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhCCC-------
Confidence 1 223457889998888766 4678999999999999743358999999999999999999997311
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeeecC
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG 403 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~~~ 403 (930)
+++.++++|++++|+|+.|++.|++.++.....+.|++++.+|
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 4899999999999999999999976555568888999988443
No 66
>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=1.4e-35 Score=329.35 Aligned_cols=320 Identities=16% Similarity=0.143 Sum_probs=272.8
Q ss_pred EEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||++.|+++ ..|.....|+++|+++||++||+. |++|+++++|+++++..+++++++|+++ +|.+||||.+|..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~-G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIG-GRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcC-CeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHH
Confidence 6999999984 458889999999999999999985 8999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCCcCcchHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~~g~~~~~~~~ 180 (930)
+.++++++++.+||+|++.++++.+++ ..++|+||+.|++..+..++++++++. +|++|++++.|++||....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999999888888876 578999999999999999999999887 49999999999999999999999
Q ss_pred HHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccc
Q 002368 181 DKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (930)
Q Consensus 181 ~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 258 (930)
+.+++. |++++....++.+ .+|+.+++.+|++.+||+|++.+.+.+...|++++++.|+.. +..|+.+.+...
T Consensus 160 ~~~~~~g~~~~~v~~~~~~~~----~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 234 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPKLG----APDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAP 234 (346)
T ss_pred HHHHHhCCCCeecccccCCCC----CcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchh
Confidence 999998 4666665555545 789999999999999999999999999999999999999864 556776665333
Q ss_pred cccCCCCCchhhhhcccceEEEEE--ecC--CChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCc
Q 002368 259 FIDSKSPLSLKTAKSILGALTLRQ--HTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (930)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~--~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~ 334 (930)
.+. ....+..+|++.... +.. +++..++|.++|+++|+ ..|+.++..+||+++++++|+++++.....
T Consensus 235 ~~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~y~a~~~l~~a~~~a~~~~~~ 306 (346)
T cd06330 235 ELA------PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--DYPTYGAYGAYQAVMALAAAVEKAGATDGG 306 (346)
T ss_pred hhh------hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--CCCChHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 211 123355677765443 222 57889999999999997 677888999999999999999998543110
Q ss_pred ceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccC
Q 002368 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (930)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~ 386 (930)
.+ .+.++++|++++|.|+.|++.|+++
T Consensus 307 ------------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~ 333 (346)
T cd06330 307 ------------------------AP-PEQIAAALEGLSFETPGGPITMRAA 333 (346)
T ss_pred ------------------------Cc-HHHHHHHHcCCCccCCCCceeeecC
Confidence 11 2579999999999999999999874
No 67
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.9e-35 Score=322.70 Aligned_cols=317 Identities=18% Similarity=0.227 Sum_probs=265.4
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||++.|++ +..|....+|+++|++++|++||+. |++|+++++|++++|..+.+.+++|+++ +|.+|+||.+|+.
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVL-GRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 699999998 4679999999999999999999995 8999999999999999999999999988 8999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC--CCCCeEEEccCChHHHHHHHHHHHH-HcCCcEEEEEEecCCcCcchHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~--~~~~~~fr~~p~~~~~~~ai~~~l~-~~~w~~vaii~~d~~~g~~~~~~~~ 180 (930)
+.++++++++.+||+|++.++.+.+++ ..++|+||+.+++..++.++++++. ..+|++|+++|.|++||+...+.++
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 159 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLT 159 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHH
Confidence 999999999999999998887777765 3468999999999999999999865 4569999999999999999999999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccc
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (930)
+.+++.|++++....++.+ ..|+++.+.+|++.+||+|++.+.+.+...|++++++.|+..+ ++........
T Consensus 160 ~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~- 231 (347)
T cd06335 160 AALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKVP---IISHWGLSGG- 231 (347)
T ss_pred HHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCCc---EecccCCcCc-
Confidence 9999999999999999877 7899999999999999999999999999999999999998542 2322221111
Q ss_pred cCCCCCchhhhhcccceEEEEEec---CCChhhHHHHHHHHhhcCCCC----CCCchhhhHhhHHHHHHHHHHHhhhcCC
Q 002368 261 DSKSPLSLKTAKSILGALTLRQHT---PDSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQGN 333 (930)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDav~~la~Al~~a~~~~~ 333 (930)
... ....+..+|++....+. +.++..++|.++|+++|+... .++.+++++||+++++++|++++...
T Consensus 232 ~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~-- 305 (347)
T cd06335 232 NFI----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST-- 305 (347)
T ss_pred hhh----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHHHHHHHHHHhcCC--
Confidence 111 12334567877665433 357889999999999997322 35667789999999999999997422
Q ss_pred cceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhcc--ccCccee--EEEccC
Q 002368 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN--MTGLSGP--IHFNQD 386 (930)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~--f~G~tG~--v~fd~~ 386 (930)
.++.+.++|+++. +.|+.|. +.|++.
T Consensus 306 ---------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~ 335 (347)
T cd06335 306 ---------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKE 335 (347)
T ss_pred ---------------------------CHHHHHHHHHhccCCceeeecccCCCCChh
Confidence 2578999998764 6777774 457643
No 68
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=100.00 E-value=4.6e-34 Score=299.32 Aligned_cols=316 Identities=15% Similarity=0.117 Sum_probs=236.8
Q ss_pred EEEeEEeecCCCc---chHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 27 LNVGAIFSFGTVN---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 27 I~IG~~~~l~~~~---G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
||||+++++++.+ +.....|+.||++|||++||++ |++|+.+++|.++|+....+.|++|+.+ +|.+|+|.++|.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvl-G~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVL-GRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBT-TB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhh
Confidence 7999999998655 6678999999999999999998 8999999999999999999999999875 999999999999
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCC--CCCCeEEEccCChHHHHHHHHHH-HHHcCCcEEEEEEecCCcCcchHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEM-VSYFGWGEVIAIFNDDDQGRNGVTAL 179 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~--~~~~~~fr~~p~~~~~~~ai~~~-l~~~~w~~vaii~~d~~~g~~~~~~~ 179 (930)
+..++.++.++++-++..+. ..+ ...|++|-+.....+|...++++ +.++|.+++.+|.+|+.|++..-..+
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~-----~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~ 154 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPT-----QYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRII 154 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEecc-----ccccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHH
Confidence 99999999999999999642 222 45689999999999999999998 56688899999999999999999999
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccc-
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST- 258 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~- 258 (930)
++.+++.|++|+.+..+|.+ .+|+..++.+|++.+||+|+-...++....|+++++++|+... .+-|.+.....
T Consensus 155 r~~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~ 229 (363)
T PF13433_consen 155 RDLLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEA 229 (363)
T ss_dssp HHHHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HH
T ss_pred HHHHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHH
Confidence 99999999999999999998 8999999999999999999999999999999999999999754 34455443332
Q ss_pred cccCCCCCchhhhhcccceEEEEEec--CCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcce
Q 002368 259 FIDSKSPLSLKTAKSILGALTLRQHT--PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (930)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~ 336 (930)
.... ...+...|.++..+|. -++|.+++|+++|+++|+.+..++.....+|.+|+++|+|++++++.
T Consensus 230 E~~~------~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags~----- 298 (363)
T PF13433_consen 230 ELAA------MGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGSD----- 298 (363)
T ss_dssp HHTT------S-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS------
T ss_pred HHhh------cChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCCC-----
Confidence 2221 1245789999998874 46899999999999999876777888889999999999999998433
Q ss_pred ecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCC
Q 002368 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~ 388 (930)
+.++++++|.+..|+++.|.+++|++.+
T Consensus 299 ------------------------d~~~vr~al~g~~~~aP~G~v~id~~n~ 326 (363)
T PF13433_consen 299 ------------------------DPEAVREALAGQSFDAPQGRVRIDPDNH 326 (363)
T ss_dssp -------------------------HHHHHHHHTT--EEETTEEEEE-TTTS
T ss_pred ------------------------CHHHHHHHhcCCeecCCCcceEEcCCCC
Confidence 5899999999999999999999998443
No 69
>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=3.1e-34 Score=314.99 Aligned_cols=300 Identities=15% Similarity=0.222 Sum_probs=237.4
Q ss_pred CCCChHHHHHHHHHHHhc-CcEEEE-ccCChh--hHHHHHHhhhcCCCcEEEeecCCC-CCCC-CCCCeEEEccCChHHH
Q 002368 73 AKFNGFLSIMGALQFMET-DTLAIV-GPQSAV--MAHVLSHLANELQVPLLSFTALDP-TLSP-LQYPFFVQTAPNDLYL 146 (930)
Q Consensus 73 ~~~~~~~a~~~a~~li~~-~v~aii-Gp~~S~--~~~av~~~~~~~~vp~is~~a~~~-~ls~-~~~~~~fr~~p~~~~~ 146 (930)
...||...+.++|+++.+ +|.||| ||.++. .+..++.++++++||+|+++++++ .+++ ..+|||+|+.|++..|
T Consensus 43 ~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q 122 (362)
T cd06378 43 NETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQ 122 (362)
T ss_pred CCCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHH
Confidence 446999999999999987 699766 999997 556788899999999999987665 5566 6799999999999999
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 147 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
+.++++++++|+|++|++||++++.+..+...+++.+++.++++.....++... ....++...+.+++..++++||+++
T Consensus 123 ~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~l~~lk~~~arViVl~~ 201 (362)
T cd06378 123 AAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDM-SDDDGDARTQRQLKKLESQVILLYC 201 (362)
T ss_pred HHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeecc-CCCcchHHHHHHHHhcCCCEEEEEC
Confidence 999999999999999999999988777788888888777666654443333321 1133478889999999999999999
Q ss_pred chhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCC
Q 002368 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIG 306 (930)
Q Consensus 227 ~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 306 (930)
+.+++..++++|+++||++++|+||++++.....+. ...+...|++++.. ++|++.
T Consensus 202 s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~------~~~~~~~G~i~v~~------------~~w~~~------ 257 (362)
T cd06378 202 SKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL------GPSEFPVGLISVSY------------DGWRYS------ 257 (362)
T ss_pred CHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc------ccccCCcceEeecc------------cccccc------
Confidence 999999999999999999999999999976655321 11234467776553 233211
Q ss_pred CCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCC-cc-ccCchHHHHHHHHhccccCcceeEEEc
Q 002368 307 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGA-LS-IFDGGKKFLANILQTNMTGLSGPIHFN 384 (930)
Q Consensus 307 ~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~l~~~l~~~~f~G~tG~v~fd 384 (930)
+.+..||||+++|+|++.+.+.+...+ ....+|.. .. .|..|..|+++|++++|+|. +++|+
T Consensus 258 ---~~a~~~DaV~vva~Al~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~ 321 (362)
T cd06378 258 ---LRARVRDGVAIIATGASAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFT 321 (362)
T ss_pred ---HHHHHHHHHHHHHHHHHHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeEC
Confidence 255789999999999998865433321 11223322 22 37789999999999999996 99999
Q ss_pred cCCCCCCCcEEEEEeeec-CceeEEeEecCC
Q 002368 385 QDRSLLHPSYDIINVIEH-GYPQQIGYWSNY 414 (930)
Q Consensus 385 ~~g~~~~~~y~I~~~~~~-~~~~~VG~w~~~ 414 (930)
++|++.++.|+|+|++++ |+ ++||+|+++
T Consensus 322 ~~G~r~~~~ldIinl~~~~g~-~kVG~W~~~ 351 (362)
T cd06378 322 EDGYLVNPKLVVISLNKERVW-EEVGKWENG 351 (362)
T ss_pred CCCeEccceEEEEEecCCCCc-eEEEEEcCC
Confidence 999999999999999974 77 999999844
No 70
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=100.00 E-value=1.7e-33 Score=311.42 Aligned_cols=320 Identities=18% Similarity=0.256 Sum_probs=273.2
Q ss_pred EEeEEeecCCC---cchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~~~---~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||+++|++.. .|....+|+++|++++| +++ .|++|++++.|+++++..+.+.+++|+++ +|.+||||.+|..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKL-GGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHH
Confidence 69999999854 57789999999999997 566 59999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.++.+.+++.++|+|+++++.+.+++ ..+||+||+.|++..++..+++++...||+++++++.++.||+...+.+.+.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 999999999999999999888877877 4479999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
++ ..++....++.+ ..|+.++++++++.+||+|++...+.++..+++++++.|+.. ...+++++.+......
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL 229 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH
Confidence 97 466666677766 678999999999999999999988889999999999999843 3446665544332111
Q ss_pred CCCCchhhhhcccceEEEEEecCC--ChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 263 KSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
....+.++|++...++.++ ++..++|.++|+++|+ ..|+.++..+||++++++.|++++...
T Consensus 230 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~a~~~ag~~--------- 293 (333)
T cd06332 230 -----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG--RVPSVYAAQGYDAAQLLDAALRAVGGD--------- 293 (333)
T ss_pred -----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 2344678898888777663 5788999999999997 558889999999999999999997421
Q ss_pred CccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCC
Q 002368 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHP 392 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~ 392 (930)
..+++.+.++|++++|+|++|++.|+++|+...+
T Consensus 294 ------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 294 ------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred ------------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 1136789999999999999999999999985444
No 71
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=7.5e-34 Score=315.76 Aligned_cols=330 Identities=12% Similarity=0.090 Sum_probs=266.0
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCC--cEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCCh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGG--RKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g--~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S 101 (930)
|||++.|+| +.+|.....++++|+++||+.+++ .| ++|+|+++|++++|.+|+.++++|+++ +|.+|||+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 699999998 566888999999999999965544 35 589999999999999999999999988 99999999999
Q ss_pred hhHHHHHHhhhcCCCcEEEeecCCCCC------C-CCCCCeEEEccCChHHHHHHHHHHHHHcC-CcEEEEEEecCCcCc
Q 002368 102 VMAHVLSHLANELQVPLLSFTALDPTL------S-PLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGR 173 (930)
Q Consensus 102 ~~~~av~~~~~~~~vp~is~~a~~~~l------s-~~~~~~~fr~~p~~~~~~~ai~~~l~~~~-w~~vaii~~d~~~g~ 173 (930)
..+.++++++++.+||+|++.+..+.. . ...++|+||..+++..++.+++.+++..+ +++|++++.|++||+
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999875432211 1 23478999999999888899998888877 999999999999999
Q ss_pred chHHHHH---HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEE
Q 002368 174 NGVTALG---DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (930)
Q Consensus 174 ~~~~~~~---~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~ 250 (930)
...+.+. +.+++.|++++..+.++++ ..||++++++|++++||+|++.+.+.++..++++++++|+..+ +
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~ 232 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFEPG----TDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---I 232 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccCCC----CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---e
Confidence 8877665 5777899999999999987 8899999999999999999999999999999999999998654 2
Q ss_pred EEe-CcccccccCCCCCchhhhhcccceEEEEEecCCC--------hhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHH
Q 002368 251 IAT-TWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDS--------KRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMI 321 (930)
Q Consensus 251 i~~-~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~--------~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~l 321 (930)
+.. .+.... ... ....+..+|++....+.|.. +..++|.++|+++|+ ..|.....++||+++++
T Consensus 233 ~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g--~~~~~~~~~~~~~~~~l 305 (357)
T cd06337 233 VTIAKALLFP-EDV----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATG--RQWTQPLGYAHALFEVG 305 (357)
T ss_pred EEEeccccCH-HHH----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhC--CCccCcchHHHHHHHHH
Confidence 322 222111 110 12234457776655444432 347899999999997 45667778899999999
Q ss_pred HHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEeee
Q 002368 322 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIE 401 (930)
Q Consensus 322 a~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~~ 401 (930)
++|++++++. .+++.|+++|++++++++.|++.|+++ + ..+..|+.+.|
T Consensus 306 ~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~~ 354 (357)
T cd06337 306 VKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLVG 354 (357)
T ss_pred HHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--C-Ccccccccccc
Confidence 9999997432 147899999999999999999999865 2 33556666666
Q ss_pred cC
Q 002368 402 HG 403 (930)
Q Consensus 402 ~~ 403 (930)
+.
T Consensus 355 ~~ 356 (357)
T cd06337 355 GQ 356 (357)
T ss_pred CC
Confidence 43
No 72
>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=100.00 E-value=1.7e-32 Score=299.48 Aligned_cols=303 Identities=15% Similarity=0.111 Sum_probs=240.0
Q ss_pred CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHHHHhhhcCCC
Q 002368 37 TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQV 116 (930)
Q Consensus 37 ~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av~~~~~~~~v 116 (930)
...+...++|++||+||||++||++ |++|+++..|. ++|..+++.+++|++++|.+|+|+.+|+++.++.+++++.++
T Consensus 7 ~~~~~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~v 84 (347)
T TIGR03863 7 PPPEDRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGA 84 (347)
T ss_pred CCCcchHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCc
Confidence 3446778999999999999999997 89999999985 789999999999998899999999999999999999999999
Q ss_pred cEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEe
Q 002368 117 PLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSA 195 (930)
Q Consensus 117 p~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~ 195 (930)
|+|+++++++.++. ..+||+||+.|++..++.++++++...+.|+|++|+.|++||+...+.+++.+++.|++|+..+.
T Consensus 85 p~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~ 164 (347)
T TIGR03863 85 LLFNAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERP 164 (347)
T ss_pred EEEeCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEE
Confidence 99999999999987 56899999999999999999999888899999999999999999999999999999999999998
Q ss_pred cCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhccc
Q 002368 196 LPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSIL 275 (930)
Q Consensus 196 ~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 275 (930)
++.+......|++......+.++||+|++.....+....+.... +. . ... ....
T Consensus 165 ~~~~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~-~--~~~---------------------~g~~ 218 (347)
T TIGR03863 165 FTFSGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL-P--RPV---------------------AGSA 218 (347)
T ss_pred eccCCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc-c--ccc---------------------cccc
Confidence 88652222345553233334589999999766544322111000 00 0 000 1112
Q ss_pred ceEEEEE-ecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCC
Q 002368 276 GALTLRQ-HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLG 354 (930)
Q Consensus 276 g~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (930)
|+..... +..+.+..++|.++|+++|+ ..|+.+++.+||++++++.|++++++.
T Consensus 219 G~~~~~~~~~~~~~~~~~f~~~f~~~~g--~~p~~~~a~aY~av~~~a~Ai~~AGs~----------------------- 273 (347)
T TIGR03863 219 GLVPTAWHRAWERWGATQLQSRFEKLAG--RPMTELDYAAWLAVRAVGEAVTRTRSA----------------------- 273 (347)
T ss_pred CccccccCCcccchhHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHHHhcCC-----------------------
Confidence 3322211 22345678999999999997 667888999999999999999998543
Q ss_pred CccccCchHHHHHHHHhccc--cCcce-eEEEcc-CCCCCCCcEEEEEe
Q 002368 355 ALSIFDGGKKFLANILQTNM--TGLSG-PIHFNQ-DRSLLHPSYDIINV 399 (930)
Q Consensus 355 ~~~~~~~~~~l~~~l~~~~f--~G~tG-~v~fd~-~g~~~~~~y~I~~~ 399 (930)
++++|+++|+++++ .+..| +++|++ ||+...+ ..+.+.
T Consensus 274 ------d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~~~-~~~~~~ 315 (347)
T TIGR03863 274 ------DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLRQP-VLLVHP 315 (347)
T ss_pred ------CHHHHHHHHcCCCceecccCCCcceeeCCCcccccc-eEeccc
Confidence 59999999999887 47887 699985 7876544 334433
No 73
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=100.00 E-value=1.3e-31 Score=295.76 Aligned_cols=315 Identities=23% Similarity=0.358 Sum_probs=253.4
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCC-CChHHHHHHHHHHH-hcCcEEEEccCChhhHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFM-ETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~-~~~~~a~~~a~~li-~~~v~aiiGp~~S~~~~ 105 (930)
+||++++... .....|+++|++++|..++++++.++.+.+.+.+ +++..++.++++++ .++|.+|+||.+|..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~ 77 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESAS 77 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCCHHHHH
Confidence 4889988866 6789999999999999999876666666555554 79999999999999 66999999999999999
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~ 184 (930)
+++++++.++||+|+++++.+.+++ ..+||+||+.|++..++.++++++++++|+++++||++++++.... .+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l~-~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRLQ-ELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHHH-HHHHhhc
Confidence 9999999999999999998888876 6789999999999999999999999999999999999888544333 3333333
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCc-eEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA-RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~-~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
..+..+.. ..++.+ .++++..+.+++..++ ++|+.++...++..++++|+++||++++|+||.++......+.
T Consensus 157 ~~~~~v~~-~~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~- 230 (328)
T cd06351 157 IKGIQVTV-RRLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL- 230 (328)
T ss_pred ccCceEEE-EEecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch-
Confidence 33444443 345544 3489999999999999 6666666659999999999999999999999999976654433
Q ss_pred CCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcC--CCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCCC
Q 002368 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN--GSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~~ 341 (930)
........|++++....+..+...+|..+|...+. ....+...++..||+++++
T Consensus 231 ----~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~-------------------- 286 (328)
T cd06351 231 ----EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLLL-------------------- 286 (328)
T ss_pred ----hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEEE--------------------
Confidence 23456678999999999999999999999944432 1112233344444443321
Q ss_pred ccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEee-ecCceeEEeEecC
Q 002368 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSN 413 (930)
Q Consensus 342 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~-~~~~~~~VG~w~~ 413 (930)
||++.||++|+|.+..++|++++ +.++ +.||.|++
T Consensus 287 ------------------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~-~~vg~W~~ 322 (328)
T cd06351 287 ------------------------------------TGTVSFDEDGVRSNFTLDIIELNRSRGW-RKVGTWNG 322 (328)
T ss_pred ------------------------------------EeeEEECCCCcccceEEEEEEecCCCCc-eEEEEecC
Confidence 99999999999999999999999 7777 99999984
No 74
>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=4.3e-32 Score=299.12 Aligned_cols=328 Identities=15% Similarity=0.155 Sum_probs=240.7
Q ss_pred cCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecC------CC-ChHHHHHHHHHHHhcCc--EEEEccCChhhHH
Q 002368 35 FGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA------KF-NGFLSIMGALQFMETDT--LAIVGPQSAVMAH 105 (930)
Q Consensus 35 l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~------~~-~~~~a~~~a~~li~~~v--~aiiGp~~S~~~~ 105 (930)
.+...|+..+.|+++|++++|++. |.+|.+.+.|+ .+ |...+.+++++++++++ .|||||.+|..+.
T Consensus 6 ~~~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~ 81 (368)
T cd06383 6 MTEDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDAS 81 (368)
T ss_pred ecccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHH
Confidence 345578999999999999999885 67888888888 55 55666677999999988 8999999999999
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHH-HHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVT-ALGDKLA 184 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~-~~~~~l~ 184 (930)
.++.+++.++||+|+++.. ..++.++||++|+.|++..++.|+++++++|+|++|++||+|++.+..... .+.+...
T Consensus 82 ~V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~ 159 (368)
T cd06383 82 EIKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPT 159 (368)
T ss_pred HHHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHh
Confidence 9999999999999997543 233457999999999999999999999999999999999977664332333 3333333
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCc-eEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA-RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~-~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
..+.++. +.. ..++...|++|+..+. +||+++..++.+..++++|.++||++.+|+||.+++.....+.
T Consensus 160 ~~~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl- 229 (368)
T cd06383 160 RHVITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD- 229 (368)
T ss_pred cCCEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh-
Confidence 3344442 112 4578899999999988 5555555569999999999999999999999999986554433
Q ss_pred CCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhc-C--CCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceecCC
Q 002368 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLS-N--GSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~-~--~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~~~ 340 (930)
+...-...++.+++...+.....+.+.++|.+.- . ...+...-++.+||||++++.|++.+.......
T Consensus 230 ----~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~----- 300 (368)
T cd06383 230 ----LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVED----- 300 (368)
T ss_pred ----hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccC-----
Confidence 2233344678888886555555577777764321 0 001223458999999999999999763111110
Q ss_pred CccCCCCCCcccCCCc---ccc-CchHHHHHHHHhccccCcceeEEEccCCCCC
Q 002368 341 TKLNGLGGGTLNLGAL---SIF-DGGKKFLANILQTNMTGLSGPIHFNQDRSLL 390 (930)
Q Consensus 341 ~~~~~~~~~~~~~~~~---~~~-~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~ 390 (930)
.+.......|... .+| ..|..+.++|+.++|+|+||+|+||++|.|.
T Consensus 301 ---~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~ 351 (368)
T cd06383 301 ---GSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVS 351 (368)
T ss_pred ---CCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceee
Confidence 0010011122221 134 4566999999999999999999999999863
No 75
>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=100.00 E-value=3e-32 Score=299.75 Aligned_cols=302 Identities=15% Similarity=0.131 Sum_probs=250.0
Q ss_pred EEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
+||+++|+++ .+|....+|+++|+++|| |+++++++.|+++ |..++..+.+|++++|.+||||.+|+.+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in-------G~~i~l~~~D~~~-~~~a~~~~~~li~~~V~~iiG~~~s~~~ 72 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN-------GASIELRVYDTAG-AAGAAAAARQAVAEGADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc-------CCCceEEEEeCCC-cccHHHHHHHHHHcCCCEEEccCCHHHH
Confidence 6999999985 468899999999999999 6899999999999 9999999999998899999999999999
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~ 184 (930)
.++++++.+.+||+|+++++.+ +.. .||+||+.+++..++.++++++.+.|++++++++.+++||++..+.|.+.++
T Consensus 73 ~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~ 149 (336)
T cd06339 73 AALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQ 149 (336)
T ss_pred HHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHH
Confidence 9999999999999999765543 222 5899999999999999999999888999999999999999999999999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC---------------------CceEEEEEcchh-hHHHHHHHHHHcC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM---------------------EARVIVVHGYSR-TGLMVFDVAQRLG 242 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---------------------~~~viv~~~~~~-~~~~~~~~a~~~g 242 (930)
+.|++|+..+.++.+ ..||++.+++|++. +||+|++.+.+. ++..+.++++..+
T Consensus 150 ~~G~~vv~~~~~~~~----~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~ 225 (336)
T cd06339 150 QLGGTVVAIESYDPS----PTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYY 225 (336)
T ss_pred HcCCceeeeEecCCC----HHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhc
Confidence 999999999999987 89999999999998 999999998886 7777777877765
Q ss_pred CCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCC-CchhhhHhhHHHHH
Q 002368 243 MMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGL-NPYGLYAYDTVWMI 321 (930)
Q Consensus 243 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~YDav~~l 321 (930)
....+-.+++++++.+.... ....+..+|++...+.. +...+|.++|+++|+ .+| +.+++.+|||+.++
T Consensus 226 ~~~~~~~~~g~~~~~~~~~~-----~~~g~~~~g~~~~~~~~---~~~~~f~~~y~~~~~--~~p~~~~~a~~YDa~~l~ 295 (336)
T cd06339 226 GVPGDVPLYGTSRWYSGTPA-----PLRDPDLNGAWFADPPW---LLDANFELRYRAAYG--WPPLSRLAALGYDAYALA 295 (336)
T ss_pred cCcCCCCEEEeccccCCCCC-----cccCcccCCcEEeCCCc---ccCcchhhhHHHHhc--CCCCchHHHHHHhHHHHH
Confidence 31112346777766643211 12345678877655421 123489999999997 567 89999999999999
Q ss_pred HHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHh-ccccCcceeEEEccCCCC
Q 002368 322 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRSL 389 (930)
Q Consensus 322 a~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~g~~ 389 (930)
+.++++...+ . +|.+ ..|+|++|+++|+++|+.
T Consensus 296 ~~~~~~~~~~------------------------------~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 296 AALAQLGQGD------------------------------A-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHccccc------------------------------c-----ccCCCCccccCcceEEECCCCeE
Confidence 9887764211 1 3333 459999999999999974
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=100.00 E-value=4e-31 Score=292.72 Aligned_cols=317 Identities=14% Similarity=0.163 Sum_probs=264.0
Q ss_pred EEEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 27 LNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 27 I~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
|+||++.|+|. ..|+...+|+++|+++||++||+. |++|+++..|+++++..+...+++|+++ +|++|||+.+|.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~-G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVN-GRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcC-CceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 79999999984 458889999999999999999985 9999999999999999999999999996 999999999988
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
.+.++.+++.+.++|+|+++++++.++....|++||+.+++..++..+++++.+.||+++++++.++.||+...+.+.+.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 88888899999999999987666655544568999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
+++.|++++....++.+ ..|+...+.++++.+||+|++......+..++++++++|+..+ ++...+..... .
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~---~~~~~~~~~~~-~ 231 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQ---FYNLSFVGADA-L 231 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCc---EEEEeccCHHH-H
Confidence 99999998887778765 6789999999999999999999988889999999999998542 22222221111 1
Q ss_pred CCCCchhhhhcccceEEEEE----ecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 263 KSPLSLKTAKSILGALTLRQ----HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
........+|++.... ...+.|..++|.++|+++++. .+|+.++..+||+++++++|++++...
T Consensus 232 ----~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~y~~~~~~~~a~~~~g~~------- 299 (336)
T cd06326 232 ----ARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-APPSYVSLEGYIAAKVLVEALRRAGPD------- 299 (336)
T ss_pred ----HHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-CCCCeeeehhHHHHHHHHHHHHHcCCC-------
Confidence 0233456678765422 123467889999999998852 367888999999999999999986321
Q ss_pred CCCccCCCCCCcccCCCccccCchHHHHHHHHhccc-cCcceeEEEcc
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNM-TGLSGPIHFNQ 385 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f-~G~tG~v~fd~ 385 (930)
.+++.|+++|++++. ++..|.++|++
T Consensus 300 ---------------------~~~~~v~~al~~~~~~~~~g~~~~~~~ 326 (336)
T cd06326 300 ---------------------PTRESLLAALEAMGKFDLGGFRLDFSP 326 (336)
T ss_pred ---------------------CCHHHHHHHHHhcCCCCCCCeEEecCc
Confidence 148899999999886 55555899975
No 77
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.98 E-value=9.7e-32 Score=294.92 Aligned_cols=371 Identities=19% Similarity=0.294 Sum_probs=301.9
Q ss_pred CCCceEEEeEEeecC-----CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEE
Q 002368 22 LKPEVLNVGAIFSFG-----TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLA 94 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~-----~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~a 94 (930)
+...+..|+.++|+. ...|+....|+++|++++|+.+.+|||++|+++..|++|++..+.++..+++.. ....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~m 116 (865)
T KOG1055|consen 37 PSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLM 116 (865)
T ss_pred CCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhe
Confidence 444578999999995 344788899999999999999999999999999999999999999999999988 6777
Q ss_pred EEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCc
Q 002368 95 IVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGR 173 (930)
Q Consensus 95 iiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~ 173 (930)
++|+ ||+....++.-+..++.-++||++++|.+++ +.||+|||+.||+........+++++++|++|+.++++.+--.
T Consensus 117 ll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~ 195 (865)
T KOG1055|consen 117 LLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFS 195 (865)
T ss_pred eccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhc
Confidence 8888 9999999999999999999999999999999 8899999999999999999999999999999999999988888
Q ss_pred chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEe
Q 002368 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (930)
Q Consensus 174 ~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 253 (930)
...+.+...+.+.|++++....+.. |....+.+++..++|+|+-..+...+...+++++..+|.+..|+|+..
T Consensus 196 ~~~~dl~~~~~~~~ieiv~~qsf~~-------dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~ 268 (865)
T KOG1055|consen 196 STLNDLEARLKEAGIEIVFRQSFSS-------DPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLI 268 (865)
T ss_pred chHHHHHHhhhccccEEEEeecccc-------CHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEE
Confidence 8899999999999999998876643 445678999999999999999999999999999999999999999988
Q ss_pred Cccccccc-----CCCCCchhhhhcccceEEEEEe--cCCC------hhhHHHHHHHHhhcC---CCCCCCchhhhHhhH
Q 002368 254 TWLSTFID-----SKSPLSLKTAKSILGALTLRQH--TPDS------KRRRDFVSRWNTLSN---GSIGLNPYGLYAYDT 317 (930)
Q Consensus 254 ~~~~~~~~-----~~~~~~~~~~~~~~g~~~~~~~--~~~~------~~~~~f~~~~~~~~~---~~~~~~~~~~~~YDa 317 (930)
.|....+. ...+.-+++.++++|.+++... +++. -..++|...+.+... ........+.++|||
T Consensus 269 g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~ 348 (865)
T KOG1055|consen 269 GWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDA 348 (865)
T ss_pred EeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHH
Confidence 76554332 2234446788899998887553 2221 123556655554432 123456778999999
Q ss_pred HHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEE
Q 002368 318 VWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 397 (930)
Q Consensus 318 v~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~ 397 (930)
+|++|+|++++....+....+ ..+...... +-.++|++++.+++|+|++|.+.|.+ |+| ...-+|-
T Consensus 349 Iwa~ala~n~t~e~l~~~~~~-----------l~~f~y~~k-~i~d~i~eamn~tsF~GvsG~V~F~~-geR-~a~t~ie 414 (865)
T KOG1055|consen 349 IWALALALNKTMEGLGRSHVR-----------LEDFNYNNK-TIADQIYEAMNSTSFEGVSGHVVFSN-GER-MALTLIE 414 (865)
T ss_pred HHHHHHHHHHHHhcCCcccee-----------ccccchhhh-HHHHHHHHHhhcccccccccceEecc-hhh-HHHHHHH
Confidence 999999999987653211100 011110000 12678999999999999999999976 986 5667888
Q ss_pred EeeecCceeEEeEecCCC
Q 002368 398 NVIEHGYPQQIGYWSNYS 415 (930)
Q Consensus 398 ~~~~~~~~~~VG~w~~~~ 415 (930)
|++++.. +.+|+|+...
T Consensus 415 Q~qdg~y-~k~g~Yds~~ 431 (865)
T KOG1055|consen 415 QFQDGKY-KKIGYYDSTK 431 (865)
T ss_pred HHhCCce-Eeeccccccc
Confidence 8888888 9999997654
No 78
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=99.97 E-value=6.7e-29 Score=267.38 Aligned_cols=341 Identities=17% Similarity=0.167 Sum_probs=247.1
Q ss_pred CCceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHH-HhcCcEEEEcc-C
Q 002368 23 KPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQF-METDTLAIVGP-Q 99 (930)
Q Consensus 23 ~~~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~-~~~~a~~~a~~l-i~~~v~aiiGp-~ 99 (930)
.+..|+||++++.. .....|+++|++.+|.+..++++.+|+.++..-.. |+..+...+|++ +.+||.||+|| .
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 44579999999866 35799999999999999888778899988877654 999999999999 59999999994 8
Q ss_pred ChhhHHHHHHhhhcCCCcEEEeecCCCCC-CCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHH
Q 002368 100 SAVMAHVLSHLANELQVPLLSFTALDPTL-SPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 178 (930)
Q Consensus 100 ~S~~~~av~~~~~~~~vp~is~~a~~~~l-s~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~ 178 (930)
++..+..+..+++..+||+|+++..++.. ++..+.+..++.|+...++.|+.+++++|+|+++++||+.++....
T Consensus 91 s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~~---- 166 (382)
T cd06377 91 TRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPTG---- 166 (382)
T ss_pred CHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHHH----
Confidence 87888899999999999999986654333 2233333346799999999999999999999999999988774333
Q ss_pred HHHHHHhcCc----EEEEEEecCCCCCCChhHH-HHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 179 LGDKLAEIRC----KISYKSALPPDQSVTETDV-RNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 179 ~~~~l~~~g~----~i~~~~~~~~~~~~~~~d~-~~~l~~l~~~~-~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
|.+.++..+. .+......+.. +.+..++ +..|+++++.. +++|++.|+.+.+..+++++.+ +|+||.
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 4444444332 12222223321 0124455 99999999999 9999999999999999988754 499999
Q ss_pred eCcccccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcC
Q 002368 253 TTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQG 332 (930)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~ 332 (930)
++.. +... -.....-.|+++ |.+. ......++.||||+++|+|++.+....
T Consensus 240 ~~~~----~le~---~~~~g~nigLl~-----------------~~~~-----~~~~l~ali~DAV~lvA~a~~~l~~~~ 290 (382)
T cd06377 240 GDPL----PPEA---LRTEGLPPGLLA-----------------HGET-----TQPPLEAYVQDALELVARAVGSATLVQ 290 (382)
T ss_pred cCCc----Chhh---ccCCCCCceEEE-----------------Eeec-----ccccHHHHHHHHHHHHHHHHHHhhhcc
Confidence 8721 1100 000111223331 2111 111337899999999999999863111
Q ss_pred CcceecCCCccCCCCCCcccCCCc--c-ccCchHHHHHHHHhccccCcceeEEEccCCCC--CCCcEEEEEee--ecC--
Q 002368 333 NTISFSNDTKLNGLGGGTLNLGAL--S-IFDGGKKFLANILQTNMTGLSGPIHFNQDRSL--LHPSYDIINVI--EHG-- 403 (930)
Q Consensus 333 ~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~--~~~~y~I~~~~--~~~-- 403 (930)
... .+ .....+|... + .|..|..|.++|++++|+|.||+|.| +.|.| ....++|++++ ..|
T Consensus 291 ~~~------~l---~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~I~~L~~~~~G~~ 360 (382)
T cd06377 291 PEL------AL---IPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFKVWSLRRDPVGQP 360 (382)
T ss_pred ccc------cc---CCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEEEEEeccccCCCc
Confidence 110 11 1122355433 5 89999999999999999999999999 45777 78899999998 333
Q ss_pred ceeEEeEecCCCCc
Q 002368 404 YPQQIGYWSNYSGL 417 (930)
Q Consensus 404 ~~~~VG~w~~~~gl 417 (930)
.|++||+|++...+
T Consensus 361 ~W~kVG~W~~~~~~ 374 (382)
T cd06377 361 TWTTVGSWQGGRKI 374 (382)
T ss_pred cceEEEEecCCCce
Confidence 47999999886433
No 79
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.97 E-value=1.6e-29 Score=280.22 Aligned_cols=308 Identities=12% Similarity=0.087 Sum_probs=254.4
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||+++|++ +..|....+|+++|++++|+.||+. |+++++++.|+++++..+.+.+++|+++ +|.+|||+.+|..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~-G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIA-GRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcC-CceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccc
Confidence 699999997 4679999999999999999999995 8999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC-cCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~-~g~~~~~~~~~~ 182 (930)
+.++ +++.+.++|+|+++++++.++. .|++|++.+++..++.++++++...|.+++++++.++. ||+...+.+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 7766 8999999999998777665553 57889999999999999999999999999999987665 999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
+++.|++++....++.+ ..|+...+.++++.+||+|++.....++..++++++++|+..+.. +......... .
T Consensus 157 ~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~--~~~~~~~~~~-~ 229 (341)
T cd06341 157 LAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKVV--LSGTCYDPAL-L 229 (341)
T ss_pred HHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCEE--EecCCCCHHH-H
Confidence 99999999887777765 678999999999999999999999889999999999999876522 2221211111 1
Q ss_pred CCCCchhhhhcccceEEEEEecC---CChhhHHHHHHHHhhcCC-CCCCCchhhhHhhHHHHHHHHHHHhhhcCCcceec
Q 002368 263 KSPLSLKTAKSILGALTLRQHTP---DSKRRRDFVSRWNTLSNG-SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~~~~ 338 (930)
....+..+|++...++.| +.|..+.|.+.+++.... ..+|+.++..+||+++++++|++++...
T Consensus 230 -----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~------- 297 (341)
T cd06341 230 -----AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC------- 297 (341)
T ss_pred -----HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC-------
Confidence 234567899988877765 467788887765543221 1468899999999999999999997432
Q ss_pred CCCccCCCCCCcccCCCccccCchHH-HHHHHHhccccCcce
Q 002368 339 NDTKLNGLGGGTLNLGALSIFDGGKK-FLANILQTNMTGLSG 379 (930)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~f~G~tG 379 (930)
.+++. ++++|++++.....|
T Consensus 298 ---------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 298 ---------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred ---------------------CChHHHHHHHhhcCCCCCCCC
Confidence 03666 999999998654444
No 80
>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=99.97 E-value=7e-29 Score=271.42 Aligned_cols=278 Identities=20% Similarity=0.271 Sum_probs=234.8
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
|||+++|++ +..|.....|+++|+++||+ ||+. |+++++++.|+++++..+.+.+.+|+++ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~-g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIG-GEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcC-CeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHH
Confidence 699999998 55688899999999999999 9885 9999999999999999999999999986 9999999998888
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
+.++.+++.+.++|+|+++++++.+. ...+|+||+.+++..++..+++++.+.||++|++++.++.+|+...+.+++.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 88899999999999999877655443 44689999999999999999999999999999999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
++.|++++....++.+ ..|+...+.++++.+||+|++......+..+++++++.|+..+ +++++........
T Consensus 158 ~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~~~~- 229 (312)
T cd06333 158 PKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASPDFL- 229 (312)
T ss_pred HHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcHHHH-
Confidence 9999999887778765 5688999999998999999999888888889999999998654 3344333221111
Q ss_pred CCCchhhhhcccceEEEEEe------cC----CChhhHHHHHHHHhhcCCCCC-CCchhhhHhhHHHHHH
Q 002368 264 SPLSLKTAKSILGALTLRQH------TP----DSKRRRDFVSRWNTLSNGSIG-LNPYGLYAYDTVWMIA 322 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~YDav~~la 322 (930)
....+..+|++.+..+ .| .++..++|.++|+++|+ .+ |+.+++.+||++++++
T Consensus 230 ----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g--~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 230 ----RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYG--AGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred ----HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhC--CCCCCchhHHHHHHHHHHH
Confidence 2344667888765422 22 24578999999999996 44 8889999999999998
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=99.96 E-value=4.7e-28 Score=263.32 Aligned_cols=280 Identities=23% Similarity=0.351 Sum_probs=242.6
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChhh
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~~ 103 (930)
+||+++|++ +..|.....|+++|++++|++||+ .|+++++++.|+++++..+...+++++++ +|.+||||.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 599999998 456889999999999999999987 49999999999999999999999999999 9999999999999
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~ 182 (930)
+.+++++++..+||+|++.+.++.+++ ..+|++||+.|++..++..++++++++||+++++++.++.+|+...+.+++.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 999999999999999999888777665 5689999999999999999999999999999999999999999999999999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (930)
+++.|++++....++.+ .+++...++++++.++|+|+++..+..+..+++++++.|+. .++.|++.+.+......
T Consensus 160 ~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~ 234 (299)
T cd04509 160 FKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL 234 (299)
T ss_pred HHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH
Confidence 99999999877777665 57899999999988899999999989999999999999998 78899998876543321
Q ss_pred CCCCchhhhhcccceEEEEEecCCC--hhhHHHH---HHHHhhcCCCCCCCchhhhHhhHHHH
Q 002368 263 KSPLSLKTAKSILGALTLRQHTPDS--KRRRDFV---SRWNTLSNGSIGLNPYGLYAYDTVWM 320 (930)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~YDav~~ 320 (930)
....+.++|+++..++.+.. +..+.|. ..+++.++ .+++.+++++||++++
T Consensus 235 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 -----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYE--DQPDYFAALAYDAVLL 290 (299)
T ss_pred -----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhC--CCCChhhhhhcceeee
Confidence 23456788998888776543 3344443 45555554 6788999999999998
No 82
>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=1.2e-27 Score=260.05 Aligned_cols=224 Identities=30% Similarity=0.499 Sum_probs=208.6
Q ss_pred EEeEEeecCC-----CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-----CcEEEEc
Q 002368 28 NVGAIFSFGT-----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-----DTLAIVG 97 (930)
Q Consensus 28 ~IG~~~~l~~-----~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-----~v~aiiG 97 (930)
+||+++|.+. ..+.....++..|++++|+. ++|+++++.+.|+++++..+...+.+++++ ++.+|+|
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999875 34667788999999999988 469999999999999999999999999975 8999999
Q ss_pred cCChhhHHHHHHhhhcCCCcEEEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchH
Q 002368 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGV 176 (930)
Q Consensus 98 p~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~ 176 (930)
|.+|..+.+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.+++++++++||++|+++|+++++|....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999999998887 6789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcc
Q 002368 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (930)
Q Consensus 177 ~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 256 (930)
+.+.+.+++.|+++.....++.+ ..++...+++++..+++||++++.+.++..+++++++.||+ .+++||.++.+
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~~~----~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~ 232 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIPDG----SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLW 232 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcCCC----HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChh
Confidence 99999999999999999988877 68999999999999999999999999999999999999998 88999999877
Q ss_pred ccc
Q 002368 257 STF 259 (930)
Q Consensus 257 ~~~ 259 (930)
...
T Consensus 233 ~~~ 235 (298)
T cd06269 233 LTS 235 (298)
T ss_pred hcc
Confidence 643
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=99.95 E-value=2.8e-26 Score=249.16 Aligned_cols=280 Identities=22% Similarity=0.337 Sum_probs=241.8
Q ss_pred EEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
+||+++|++ +..|.....|+++|++++|+.||+. |+++++++.|+++++..+.+.++++++++|.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~-g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGIL-GRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCC-CeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 599999997 5678899999999999999999984 999999999999999999999999999999999999999888
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcC-CcEEEEEEecCCcCcchHHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGRNGVTALGDKL 183 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~-w~~vaii~~d~~~g~~~~~~~~~~l 183 (930)
.++.+.+.+.+||+|++.+.++.+.+..+|++|++.|++..++.++++++...+ |+++++++.++++|....+.+.+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 899999999999999998887766544579999999999999999999999888 9999999999999999999999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
++.|++++....++.+ ..++...+++++..++|+|++.+.+..+..+++++++.|+ +..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~- 231 (298)
T cd06268 160 KKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL- 231 (298)
T ss_pred HHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH-
Confidence 9999999887777755 5788999999999999999999988999999999999997 3357777655443211
Q ss_pred CCCchhhhhcccceEEEEEecCC--ChhhHHHH-HHHHhhcCCCCCCCchhhhHhhHHHHHH
Q 002368 264 SPLSLKTAKSILGALTLRQHTPD--SKRRRDFV-SRWNTLSNGSIGLNPYGLYAYDTVWMIA 322 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~YDav~~la 322 (930)
....+..+|++...++.+. .+....|. ++|+++++ .+|+.++..+||++++++
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ----ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYG--RPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ----HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhC--CCcccchHHHHHHHHHHc
Confidence 1234567898888877554 33445565 78888876 788999999999999998
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=99.92 E-value=1e-22 Score=212.90 Aligned_cols=324 Identities=13% Similarity=0.170 Sum_probs=250.6
Q ss_pred hHHHHHHHHHHHHHhcCCCCCCCcEEEE----------EEecCCC--ChHHHHHHHHHHHhc--CcEEEEccCChhhHHH
Q 002368 41 QVSRIAMKAAQDDINSDPRVLGGRKLSI----------TMHDAKF--NGFLSIMGALQFMET--DTLAIVGPQSAVMAHV 106 (930)
Q Consensus 41 ~~~~~a~~lAve~iN~~ggil~g~~l~l----------~~~D~~~--~~~~a~~~a~~li~~--~v~aiiGp~~S~~~~a 106 (930)
+..+.|++.|++.+++.. ...|.++.+ ++.+..| +.=+++.+..+|+.+ .-.+++||.|.-++.+
T Consensus 18 ~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 456889999999887765 345777887 7777766 455788888888876 6899999999999999
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHH------HcCCcEEEEEEecCCcCcch---HH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS------YFGWGEVIAIFNDDDQGRNG---VT 177 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~------~~~w~~vaii~~d~~~g~~~---~~ 177 (930)
++.+...+++|+||.++-. ++-...+++-|..|+....+..+.++.+ +++|+++. ||.+++-.++. +.
T Consensus 97 ~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999866643 3334446899999999999999999984 78998766 88776444443 56
Q ss_pred HHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccc
Q 002368 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (930)
Q Consensus 178 ~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 257 (930)
++....+..+..+...+... ..+++..+|++.+ .++||||+|+.+++.+.|+.+ |+...+|++|..|...
T Consensus 174 al~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~ 243 (380)
T cd06369 174 ALEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFN 243 (380)
T ss_pred hhhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEeccc
Confidence 66666666565555444433 2478888888877 678999999999999999986 4445699999998765
Q ss_pred ccccCCCCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCC-chhhhHhhHHHHHHHHHHHhhhcCCcce
Q 002368 258 TFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLN-PYGLYAYDTVWMIARALKLFLDQGNTIS 336 (930)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~YDav~~la~Al~~a~~~~~~~~ 336 (930)
..... +....++++.++.+++..|+.+.+++ ...++ .... .+++..||||.++|+|+++.+..+++.
T Consensus 244 ~sy~~----d~~a~~amqsVLvIT~~~p~~~~~~~-----~~~fn--~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~- 311 (380)
T cd06369 244 DVYYE----NTTSPPYMRNVLVLTLPPRNSTNNSS-----FTTDN--SLLKDDYVAAYHDGVLLFGHVLKKFLESQEGV- 311 (380)
T ss_pred chhcc----CcchHHHHhceEEEecCCCCCccccc-----CCCCC--cchHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-
Confidence 44321 13456789999999988887765544 12232 2222 889999999999999999998876542
Q ss_pred ecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEEEEee-ecCceeEEeEecCCC
Q 002368 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSNYS 415 (930)
Q Consensus 337 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I~~~~-~~~~~~~VG~w~~~~ 415 (930)
.+.++.+.++|.+|.|++|.+++|+|||| ..+|.++.+. +++.++.||.|+..+
T Consensus 312 ------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 312 ------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred ------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCC
Confidence 24789999999999999999999999996 8899999986 334459999997754
No 85
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.87 E-value=3.8e-21 Score=202.33 Aligned_cols=219 Identities=27% Similarity=0.453 Sum_probs=189.4
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
+..+|+||+.. +|+||.+.+ ++.+.|+++|+++.+++++|.+++++ + .+|.+++..+.+|++|++++
T Consensus 23 ~~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~~~~~--~-------~~~~~~~~~l~~G~vDi~~~ 89 (247)
T PRK09495 23 ADKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLDYTLK--P-------MDFSGIIPALQTKNVDLALA 89 (247)
T ss_pred cCCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCceEEE--e-------CCHHHHHHHHhCCCcCEEEe
Confidence 45789999875 799998865 56799999999999999999775554 3 35999999999999999988
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
+++.+++|.+.++||.||+.+++.+++++..
T Consensus 90 ~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 120 (247)
T PRK09495 90 GITITDERKKAIDFSDGYYKSGLLVMVKANN------------------------------------------------- 120 (247)
T ss_pred cCccCHHHHhhccccchheecceEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999998665
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
.++++++||. |++||+..|+.
T Consensus 121 ---------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~ 141 (247)
T PRK09495 121 ---------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTG 141 (247)
T ss_pred ---------------------------------------------------------CCCCChHHhC--CCEEEEecCch
Confidence 4688999995 88999999988
Q ss_pred hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc--ceEEeCCccccCccEEEecCCCcchh
Q 002368 700 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQEFTKSGWGFAFPRDSPLAI 777 (930)
Q Consensus 700 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~spl~~ 777 (930)
...++.... +..++..+++.++++.+|.+|++|+++.+.....+++++.. ++..++.......++++++|++.+++
T Consensus 142 ~~~~l~~~~--~~~~i~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~ 219 (247)
T PRK09495 142 SVDYAKANI--KTKDLRQFPNIDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELRE 219 (247)
T ss_pred HHHHHHhcC--CCCceEEcCCHHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHH
Confidence 888885533 44577788999999999999999999999888888877643 57777766666788999999999999
Q ss_pred HHHHHHHhccccccHHHHHHhhcc
Q 002368 778 DMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 778 ~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
.||++|.++.++|.++++.++|+.
T Consensus 220 ~~n~al~~~~~~g~~~~i~~k~~~ 243 (247)
T PRK09495 220 KVNGALKTLKENGTYAEIYKKWFG 243 (247)
T ss_pred HHHHHHHHHHHCCcHHHHHHHHcC
Confidence 999999999999999999999987
No 86
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.87 E-value=6.1e-21 Score=205.27 Aligned_cols=224 Identities=21% Similarity=0.272 Sum_probs=188.1
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHH----HCCC-cccEEEEeCCCCCCCCCHHHHHHHHHcCcc
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVR----LLPY-AVPYKFIPYGDGHKNPTYSELINQITTGVF 534 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~----~ln~-~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~ 534 (930)
..+.|+||+.. +|+||.+.++ ++.+.||++|+++.+++ ++|. .+++++++ .+|..++..|..|++
T Consensus 38 ~~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~ 107 (302)
T PRK10797 38 KNGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTF 107 (302)
T ss_pred hCCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCc
Confidence 34679999987 7999999865 67899999998777665 6664 35677776 457889999999999
Q ss_pred cEEEecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCC
Q 002368 535 DAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRG 614 (930)
Q Consensus 535 D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~ 614 (930)
|++++++++|++|.+.++||.||..++..+++++..
T Consensus 108 Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~-------------------------------------------- 143 (302)
T PRK10797 108 DFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG-------------------------------------------- 143 (302)
T ss_pred cEEecCCccCcchhhcceecccEeeccEEEEEECCC--------------------------------------------
Confidence 999989999999999999999999999999998754
Q ss_pred CCcccchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEE
Q 002368 615 PPRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGY 694 (930)
Q Consensus 615 ~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~ 694 (930)
.|++++||. |++||+
T Consensus 144 ---------------------------------------------------------------~i~sl~dL~--Gk~V~v 158 (302)
T PRK10797 144 ---------------------------------------------------------------DIKDFADLK--GKAVVV 158 (302)
T ss_pred ---------------------------------------------------------------CCCChHHcC--CCEEEE
Confidence 478999995 899999
Q ss_pred EeCchhHHHHHHhcC--CCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhc--Cc-ceEEeCCccccCccEEEe
Q 002368 695 QVGSFAENYLIEELS--IPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSD--HC-QFSVRGQEFTKSGWGFAF 769 (930)
Q Consensus 695 ~~~s~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~--~~-~l~~~~~~~~~~~~~~~~ 769 (930)
..|+....++.+... ....+++.+++.++.+++|.+|++||++.+...+.+.+.+ .. .++++++.+...++++++
T Consensus 159 ~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~ 238 (302)
T PRK10797 159 TSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCML 238 (302)
T ss_pred eCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEE
Confidence 999988888754221 1235678899999999999999999999998776654433 22 588888877777899999
Q ss_pred cCCCc-chhHHHHHHHhccccccHHHHHHhhccc
Q 002368 770 PRDSP-LAIDMSTAILTLSENGELQRIHDKWLRK 802 (930)
Q Consensus 770 ~k~sp-l~~~~n~~i~~l~e~G~~~~~~~~~~~~ 802 (930)
+|+++ ++..+|.+|.++.++|.+++|.++|+..
T Consensus 239 ~k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~~ 272 (302)
T PRK10797 239 RKDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFKN 272 (302)
T ss_pred eCCCHHHHHHHHHHHHHHHhCchHHHHHHHHcCC
Confidence 99988 9999999999999999999999999983
No 87
>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region, the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition, at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families or clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homologue with catalytic activity.; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 3N26_A 3QAX_A 3I6V_A 2VHA_B 2IA4_B 2Q89_A 2Q88_A 2YJP_C 1II5_A 1IIW_A ....
Probab=99.85 E-value=7.6e-21 Score=197.31 Aligned_cols=221 Identities=27% Similarity=0.411 Sum_probs=185.3
Q ss_pred eEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEE
Q 002368 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 543 (930)
Q Consensus 464 lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~ 543 (930)
||||+.. +|+||.+.+. ++...|+++|+++++++++|+++++... +|.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~---------~~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPM---------PWSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEE---------EGGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeec---------ccccccccccccccccccccccc
Confidence 6899966 7999999986 7899999999999999999988666654 49999999999999999988999
Q ss_pred ecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchhh
Q 002368 544 VTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTV 623 (930)
Q Consensus 544 t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (930)
+++|.+.++||.||.....++++++.+..
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~--------------------------------------------------- 97 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAP--------------------------------------------------- 97 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTC---------------------------------------------------
T ss_pred cccccccccccccccchhheeeecccccc---------------------------------------------------
Confidence 99999999999999999999999975310
Q ss_pred HHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchhHHH
Q 002368 624 LWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAENY 703 (930)
Q Consensus 624 ~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~~~~ 703 (930)
....+++++||. +.+||+..|+....+
T Consensus 98 ---------------------------------------------------~~~~~~~~~dl~--~~~i~~~~g~~~~~~ 124 (225)
T PF00497_consen 98 ---------------------------------------------------PIKTIKSLDDLK--GKRIGVVRGSSYADY 124 (225)
T ss_dssp ---------------------------------------------------STSSHSSGGGGT--TSEEEEETTSHHHHH
T ss_pred ---------------------------------------------------ccccccchhhhc--CcccccccchhHHHH
Confidence 014677788994 789999999988888
Q ss_pred HHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc--ceEEeCCccccCccEEEecCCCc-chhHHH
Q 002368 704 LIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQEFTKSGWGFAFPRDSP-LAIDMS 780 (930)
Q Consensus 704 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~sp-l~~~~n 780 (930)
+.+.... ..+++.+.+.++++++|.+|++|+++.+...+.++++++. ............+++++++++.| +++.||
T Consensus 125 l~~~~~~-~~~~~~~~~~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n 203 (225)
T PF00497_consen 125 LKQQYPS-NINIVEVDSPEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFN 203 (225)
T ss_dssp HHHHTHH-TSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHH
T ss_pred hhhhccc-hhhhcccccHHHHHHHHhcCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHH
Confidence 8653311 4567789999999999999999999999999999998855 23332445556677777777655 999999
Q ss_pred HHHHhccccccHHHHHHhhcc
Q 002368 781 TAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 781 ~~i~~l~e~G~~~~~~~~~~~ 801 (930)
++|.++.++|.++++.+||++
T Consensus 204 ~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 204 KAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp HHHHHHHHTTHHHHHHHHHHS
T ss_pred HHHHHHHhCcHHHHHHHHHcC
Confidence 999999999999999999986
No 88
>PRK11260 cystine transporter subunit; Provisional
Probab=99.85 E-value=4.3e-20 Score=196.45 Aligned_cols=221 Identities=19% Similarity=0.364 Sum_probs=190.5
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
..++|+||+.. +|+||.+.+. ++.+.|+.+|+++.+++++|.++++.. .+|.+++.++.+|++|++++
T Consensus 39 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~e~~~---------~~~~~~~~~l~~G~~D~~~~ 106 (266)
T PRK11260 39 ERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVKASLKP---------TKWDGMLASLDSKRIDVVIN 106 (266)
T ss_pred cCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCeEEEEe---------CCHHHHHHHHhcCCCCEEEe
Confidence 56789999876 7899988764 678999999999999999997755544 34999999999999999998
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
+++.+++|.+.+.||.||...+..+++++...
T Consensus 107 ~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~------------------------------------------------ 138 (266)
T PRK11260 107 QVTISDERKKKYDFSTPYTVSGIQALVKKGNE------------------------------------------------ 138 (266)
T ss_pred ccccCHHHHhccccCCceeecceEEEEEcCCc------------------------------------------------
Confidence 88999999999999999999999999886551
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
..+++++||. |++||+..|+.
T Consensus 139 ---------------------------------------------------------~~~~~~~dL~--g~~Igv~~G~~ 159 (266)
T PRK11260 139 ---------------------------------------------------------GTIKTAADLK--GKKVGVGLGTN 159 (266)
T ss_pred ---------------------------------------------------------CCCCCHHHcC--CCEEEEecCCc
Confidence 3678899994 88999999998
Q ss_pred hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcc-eEEeCCccccCccEEEecCCCc-chh
Q 002368 700 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQ-FSVRGQEFTKSGWGFAFPRDSP-LAI 777 (930)
Q Consensus 700 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~k~sp-l~~ 777 (930)
...++.+. .+..++..+++..+++++|.+|++|+++.+...+.+++++... +.+....+...+++++++|++| ++.
T Consensus 160 ~~~~l~~~--~~~~~i~~~~~~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~ 237 (266)
T PRK11260 160 YEQWLRQN--VQGVDVRTYDDDPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLK 237 (266)
T ss_pred HHHHHHHh--CCCCceEecCCHHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHH
Confidence 88888553 3445678899999999999999999999999888888877553 5555666677789999999988 999
Q ss_pred HHHHHHHhccccccHHHHHHhhcc
Q 002368 778 DMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 778 ~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
.||++|.++.++|.++++.++|+.
T Consensus 238 ~ln~~l~~~~~~g~~~~i~~k~~~ 261 (266)
T PRK11260 238 AVNQAIAEMQKDGTLKALSEKWFG 261 (266)
T ss_pred HHHHHHHHHHhCCcHHHHHHHhcC
Confidence 999999999999999999999987
No 89
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.85 E-value=5.6e-20 Score=194.86 Aligned_cols=223 Identities=19% Similarity=0.289 Sum_probs=181.7
Q ss_pred CCCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEE
Q 002368 459 NNGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 538 (930)
Q Consensus 459 ~~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~ 538 (930)
...++|+|++.. +|+||.+.++ ++++.|+++|+++++++++|.+++++. .+|..++.++..|++|+++
T Consensus 23 ~~~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~~~~---------~~~~~~~~~l~~g~~Di~~ 90 (260)
T PRK15010 23 ALPETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCTWVA---------SDFDALIPSLKAKKIDAII 90 (260)
T ss_pred ccCCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceEEEe---------CCHHHHHHHHHCCCCCEEE
Confidence 356889999975 6899999875 678999999999999999997755543 3599999999999999999
Q ss_pred ecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcc
Q 002368 539 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRK 618 (930)
Q Consensus 539 ~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 618 (930)
+++..+++|.+.++||.||+.+..++++++..
T Consensus 91 ~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------ 122 (260)
T PRK15010 91 SSLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------ 122 (260)
T ss_pred ecCcCCHHHHhhcccccceEeccEEEEEECCC------------------------------------------------
Confidence 88999999999999999999999999998766
Q ss_pred cchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCc
Q 002368 619 QIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGS 698 (930)
Q Consensus 619 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s 698 (930)
+...+++||. |++||+..|+
T Consensus 123 ----------------------------------------------------------~~~~~~~dl~--g~~Igv~~gs 142 (260)
T PRK15010 123 ----------------------------------------------------------PIQPTLDSLK--GKHVGVLQGS 142 (260)
T ss_pred ----------------------------------------------------------CCCCChhHcC--CCEEEEecCc
Confidence 2233688994 8899999999
Q ss_pred hhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHH-HHhcC--cceEEeCCcc-----ccCccEEEec
Q 002368 699 FAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDL-FLSDH--CQFSVRGQEF-----TKSGWGFAFP 770 (930)
Q Consensus 699 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~--~~l~~~~~~~-----~~~~~~~~~~ 770 (930)
....++.+.......+++.+++.++++++|.+|++|+++.+...+.+ +..+. .++......+ ...+++++++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 222 (260)
T PRK15010 143 TQEAYANETWRSKGVDVVAYANQDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLR 222 (260)
T ss_pred hHHHHHHHhcccCCceEEecCCHHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEe
Confidence 88777755443233456778899999999999999999998877654 33332 2455554322 2234678999
Q ss_pred CCCc-chhHHHHHHHhccccccHHHHHHhhcc
Q 002368 771 RDSP-LAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 771 k~sp-l~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
++.+ ++..||++|.++.++|.++++.+||+.
T Consensus 223 ~~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 223 KDDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred CCCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 9877 999999999999999999999999997
No 90
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.85 E-value=8.7e-20 Score=192.36 Aligned_cols=219 Identities=16% Similarity=0.276 Sum_probs=181.8
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHC-CCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEE
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 538 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~l-n~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~ 538 (930)
+.++|+||+.. +++||.+.++.++++.||++|+++++++++ |..+++++.+ .+|.....+|.+|++|+++
T Consensus 36 ~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 56789999986 899999876446899999999999999994 8665666655 3467777899999999999
Q ss_pred ecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcc
Q 002368 539 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRK 618 (930)
Q Consensus 539 ~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 618 (930)
+++++|++|.+.++||.||+.++..+++++..
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------ 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC------------------------------------------------
Confidence 99999999999999999999999999998765
Q ss_pred cchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCc
Q 002368 619 QIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGS 698 (930)
Q Consensus 619 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s 698 (930)
++++++||. |++||+..|+
T Consensus 139 -----------------------------------------------------------~~~s~~dL~--g~~V~v~~gs 157 (259)
T PRK11917 139 -----------------------------------------------------------NYKSLADMK--GANIGVAQAA 157 (259)
T ss_pred -----------------------------------------------------------CCCCHHHhC--CCeEEEecCC
Confidence 478899995 8999999999
Q ss_pred hhHHHHHHhcCC--CccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCccccCccEEEecCCCc-c
Q 002368 699 FAENYLIEELSI--PKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPRDSP-L 775 (930)
Q Consensus 699 ~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~sp-l 775 (930)
.....+.+.... ...+++.+++..+.+++|..|++|+++.+...+.++.++ +..++++.+...+++++++|+++ +
T Consensus 158 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~~~~a~~k~~~~l 235 (259)
T PRK11917 158 TTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDD--KSEILPDSFEPQSYGIVTKKDDPAF 235 (259)
T ss_pred cHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHcCCCcEEEecHHHHHHhhhc--CCeecCCcCCCCceEEEEeCCCHHH
Confidence 877766443211 123566788999999999999999999998877665544 24566677777789999999988 9
Q ss_pred hhHHHHHHHhccccccHHHHHHhhc
Q 002368 776 AIDMSTAILTLSENGELQRIHDKWL 800 (930)
Q Consensus 776 ~~~~n~~i~~l~e~G~~~~~~~~~~ 800 (930)
+..+|..|.++.. .+++|.+||-
T Consensus 236 ~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 236 AKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHhC
Confidence 9999999999864 7999999994
No 91
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.84 E-value=1.3e-19 Score=191.36 Aligned_cols=219 Identities=22% Similarity=0.389 Sum_probs=185.2
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
+++|+|++.. +|+||.+.++ +++++|+++|+++.+++++|.++++ ++ .+|.+++.++.+|++|+++++
T Consensus 23 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~--~~-------~~~~~~~~~l~~G~~D~~~~~ 90 (250)
T TIGR01096 23 EGSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAKCKF--VE-------QNFDGLIPSLKAKKVDAIMAT 90 (250)
T ss_pred CCeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCeEEE--Ee-------CCHHHHHHHHhCCCcCEEEec
Confidence 3789999965 7899998765 6899999999999999999966554 44 459999999999999999888
Q ss_pred EEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccc
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 620 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 620 (930)
+..+.+|.+.+.||.||+.++..++++...
T Consensus 91 ~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~-------------------------------------------------- 120 (250)
T TIGR01096 91 MSITPKRQKQIDFSDPYYATGQGFVVKKGS-------------------------------------------------- 120 (250)
T ss_pred CccCHHHhhccccccchhcCCeEEEEECCC--------------------------------------------------
Confidence 888999999999999999999999998765
Q ss_pred hhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchh
Q 002368 621 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 700 (930)
Q Consensus 621 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~ 700 (930)
+.+.+++||. |.+||+..|+..
T Consensus 121 --------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~ 142 (250)
T TIGR01096 121 --------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTH 142 (250)
T ss_pred --------------------------------------------------------CcCCChHHcC--CCEEEEecCchH
Confidence 3346788995 889999999988
Q ss_pred HHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc---ceEEeCCcccc-----CccEEEecCC
Q 002368 701 ENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC---QFSVRGQEFTK-----SGWGFAFPRD 772 (930)
Q Consensus 701 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~~~-----~~~~~~~~k~ 772 (930)
..++.+.... ..++..+.+.++++++|.+|++|+++.+...+.+++++.. ++.++...+.. ..++++++|+
T Consensus 143 ~~~l~~~~~~-~~~~~~~~s~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 221 (250)
T TIGR01096 143 EQYLKDYFKP-GVDIVEYDSYDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKG 221 (250)
T ss_pred HHHHHHhccC-CcEEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCC
Confidence 8888654421 4567778999999999999999999999999988877644 37766654332 2478999999
Q ss_pred Cc-chhHHHHHHHhccccccHHHHHHhhc
Q 002368 773 SP-LAIDMSTAILTLSENGELQRIHDKWL 800 (930)
Q Consensus 773 sp-l~~~~n~~i~~l~e~G~~~~~~~~~~ 800 (930)
++ ++..+|++|.+|.++|.++.|.+||+
T Consensus 222 ~~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 222 DTELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred CHHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 88 99999999999999999999999996
No 92
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.84 E-value=1.6e-19 Score=189.68 Aligned_cols=218 Identities=21% Similarity=0.401 Sum_probs=181.9
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
..++|+||+.. +|+||.+.+. ++.+.|+++|+++.+++++|.+++|.. .+|.+++..+.+|++|++++
T Consensus 19 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~---------~~~~~~~~~l~~g~~D~~~~ 86 (243)
T PRK15007 19 AAETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTFSN---------QAFDSLIPSLKFRRVEAVMA 86 (243)
T ss_pred cCCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEEEe---------CCHHHHhHHHhCCCcCEEEE
Confidence 35789999975 7999998874 688999999999999999997755543 45999999999999999988
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
++..+++|.+.++||.||+..+.+++.+..
T Consensus 87 ~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~-------------------------------------------------- 116 (243)
T PRK15007 87 GMDITPEREKQVLFTTPYYDNSALFVGQQG-------------------------------------------------- 116 (243)
T ss_pred cCccCHHHhcccceecCccccceEEEEeCC--------------------------------------------------
Confidence 888999999999999999998877765422
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
.+++++||. |++||+..|+.
T Consensus 117 ----------------------------------------------------------~~~~~~dL~--g~~Igv~~g~~ 136 (243)
T PRK15007 117 ----------------------------------------------------------KYTSVDQLK--GKKVGVQNGTT 136 (243)
T ss_pred ----------------------------------------------------------CCCCHHHhC--CCeEEEecCcH
Confidence 356789995 88999999998
Q ss_pred hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCc-----cccCccEEEecCCCc
Q 002368 700 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQE-----FTKSGWGFAFPRDSP 774 (930)
Q Consensus 700 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~k~sp 774 (930)
...++.+. .+..+++.+++.++.+++|.+|++|+++.+...+.+++.+.+++..++.. ....+++++++++.|
T Consensus 137 ~~~~l~~~--~~~~~~~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 214 (243)
T PRK15007 137 HQKFIMDK--HPEITTVPYDSYQNAKLDLQNGRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVRQGNT 214 (243)
T ss_pred HHHHHHHh--CCCCeEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEeCCCH
Confidence 88888653 24456778899999999999999999999988888888776665554432 223357899999876
Q ss_pred -chhHHHHHHHhccccccHHHHHHhhcc
Q 002368 775 -LAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 775 -l~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
++..||++|.++.++|.++++.++|+.
T Consensus 215 ~l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 215 ELQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred HHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 999999999999999999999999985
No 93
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.83 E-value=2.1e-19 Score=190.36 Aligned_cols=222 Identities=17% Similarity=0.278 Sum_probs=179.8
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
..++|+|++.. +|+||.+.++ ++.+.|+++|+++++++++|.+++++.. +|++++.++.+|++|++++
T Consensus 24 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~ 91 (259)
T PRK15437 24 IPQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMS 91 (259)
T ss_pred cCCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEe
Confidence 45889999874 6899998765 6789999999999999999977666543 4999999999999999998
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
+++.+++|.+.++||.||..++.++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (259)
T PRK15437 92 SLSITEKRQQEIAFTDKLYAADSRLVVAKNS------------------------------------------------- 122 (259)
T ss_pred cCCCCHHHhhhccccchhhcCceEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999998765
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
+...+++||. |++||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl~--g~~Igv~~g~~ 143 (259)
T PRK15437 123 ---------------------------------------------------------DIQPTVESLK--GKRVGVLQGTT 143 (259)
T ss_pred ---------------------------------------------------------CCCCChHHhC--CCEEEEecCcH
Confidence 2234788984 88999999998
Q ss_pred hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHH-HHhcC--cceEEeC-----CccccCccEEEecC
Q 002368 700 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDL-FLSDH--CQFSVRG-----QEFTKSGWGFAFPR 771 (930)
Q Consensus 700 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~--~~l~~~~-----~~~~~~~~~~~~~k 771 (930)
.+.++.+.......+++.+++.++.+++|.+|++|+++.+.....+ +.++. .++.+.+ +.+...++++++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~ 223 (259)
T PRK15437 144 QETFGNEHWAPKGIEIVSYQGQDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRK 223 (259)
T ss_pred HHHHHHhhccccCceEEecCCHHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeC
Confidence 8878754332223567888999999999999999999988776643 33332 2344332 22223346788888
Q ss_pred CCc-chhHHHHHHHhccccccHHHHHHhhcc
Q 002368 772 DSP-LAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 772 ~sp-l~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
+.+ +++.+|.+|.++.++|.++++.+||+.
T Consensus 224 ~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~ 254 (259)
T PRK15437 224 EDNELREALNKAFAEMRADGTYEKLAKKYFD 254 (259)
T ss_pred CCHHHHHHHHHHHHHHHHCCcHHHHHHHhcC
Confidence 766 999999999999999999999999997
No 94
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein. Members of this family are the extracellular solute-binding proteins of ABC transporters that closely resemble amino acid transporters. The member from Sinorhizobium meliloti is involved in ectoine uptake, both for osmoprotection and for catabolism. All other members of the seed alignment are found associated with ectoine catabolic genes.
Probab=99.82 E-value=4.4e-19 Score=189.53 Aligned_cols=223 Identities=19% Similarity=0.211 Sum_probs=182.4
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCc-ccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEE
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYA-VPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 538 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~-~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~ 538 (930)
..++|+|++. +|+||.+.+. ++.+.|+++|+++++++++|.+ +++.. .+|++++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 4578999986 5889998764 6789999999999999999975 34443 4599999999999999998
Q ss_pred ecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcc
Q 002368 539 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRK 618 (930)
Q Consensus 539 ~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 618 (930)
++++++++|.+.++||.||+.+...+++++...
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~----------------------------------------------- 130 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNP----------------------------------------------- 130 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCC-----------------------------------------------
Confidence 889999999999999999999999999987651
Q ss_pred cchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhh-CCCeEEEEeC
Q 002368 619 QIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMT-SNDRVGYQVG 697 (930)
Q Consensus 619 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~-s~~~i~~~~~ 697 (930)
..+++++||.. .|.+||+..|
T Consensus 131 ----------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g 152 (275)
T TIGR02995 131 ----------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGG 152 (275)
T ss_pred ----------------------------------------------------------CCCCCHHHhccCCCceEEEeCC
Confidence 34778888853 3689999999
Q ss_pred chhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc--ceEEeCCc---cccCccEEEecCC
Q 002368 698 SFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQE---FTKSGWGFAFPRD 772 (930)
Q Consensus 698 s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~---~~~~~~~~~~~k~ 772 (930)
+....++.+ .+.+..+++.+++.++++++|.+|++|+++.+...+.+++++.. ++..+... .....++++++++
T Consensus 153 ~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (275)
T TIGR02995 153 GTEEKLARE-AGVKREQIIVVPDGQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPE 231 (275)
T ss_pred cHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCC
Confidence 998888854 34444577889999999999999999999999999888877532 44443321 1112337888887
Q ss_pred Cc-chhHHHHHHHhccccccHHHHHHhhcc
Q 002368 773 SP-LAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 773 sp-l~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
.+ +++.||++|.++.++|.+++|.++|--
T Consensus 232 ~~~l~~~~n~~l~~~~~sG~~~~i~~ky~~ 261 (275)
T TIGR02995 232 DKELRDAFNVELAKLKESGEFAKIIAPYGF 261 (275)
T ss_pred CHHHHHHHHHHHHHHHhChHHHHHHHHhCC
Confidence 76 999999999999999999999999943
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.77 E-value=7e-18 Score=193.31 Aligned_cols=221 Identities=18% Similarity=0.224 Sum_probs=179.1
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
+.++||||+.. .|+.+.++ .+...||++|+++++++++|.+++++.. .+|++++..|.+|++|++++
T Consensus 41 ~~g~LrVg~~~----~P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~~ 107 (482)
T PRK10859 41 ERGELRVGTIN----SPLTYYIG-NDGPTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAAA 107 (482)
T ss_pred hCCEEEEEEec----CCCeeEec-CCCcccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEec
Confidence 56789999974 34444443 2335999999999999999977655522 56999999999999999988
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
++++|++|.+.++||.||+....++++++..
T Consensus 108 ~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------- 138 (482)
T PRK10859 108 GLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------- 138 (482)
T ss_pred cCcCChhhhccCcccCCceeeeEEEEEeCCC-------------------------------------------------
Confidence 8999999999999999999999999988766
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
+.+++++||. |++|++..|+.
T Consensus 139 ---------------------------------------------------------~~i~~l~dL~--Gk~I~V~~gS~ 159 (482)
T PRK10859 139 ---------------------------------------------------------PRPRSLGDLK--GGTLTVAAGSS 159 (482)
T ss_pred ---------------------------------------------------------CCCCCHHHhC--CCeEEEECCCc
Confidence 5688999995 89999999998
Q ss_pred hHHHHHHhc-CCCccce--EeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCccccCccEEEecC-CCc-
Q 002368 700 AENYLIEEL-SIPKSRL--VALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPR-DSP- 774 (930)
Q Consensus 700 ~~~~l~~~~-~~~~~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k-~sp- 774 (930)
....+.+.. ..+...+ ..+.+.++++++|.+|++|+++.+...+.+....+.++.+........+++++++| +.+
T Consensus 160 ~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av~k~~~~~ 239 (482)
T PRK10859 160 HVETLQELKKKYPELSWEESDDKDSEELLEQVAEGKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWALPPSGDDS 239 (482)
T ss_pred HHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHCCCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEEeCCCCHH
Confidence 887774321 1122232 34578999999999999999999988776655555666665544455678999999 456
Q ss_pred chhHHHHHHHhccccccHHHHHHhhcc
Q 002368 775 LAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 775 l~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
|+..+|++|.++.++|.++++.+||+.
T Consensus 240 L~~~ln~~L~~i~~~G~l~~L~~kyfg 266 (482)
T PRK10859 240 LYAALLDFFNQIKEDGTLARLEEKYFG 266 (482)
T ss_pred HHHHHHHHHHHhhcCCHHHHHHHHHhh
Confidence 999999999999999999999999998
No 96
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.75 E-value=3.3e-17 Score=211.72 Aligned_cols=216 Identities=16% Similarity=0.209 Sum_probs=179.6
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
.++|+||+.. +|+||.+.+. ++.+.||++|+++.+++++|.+ +++++. .+|..++..+.+|++|++.+
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 4679999886 7999999975 6899999999999999999965 555552 45888999999999998765
Q ss_pred EEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccc
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 620 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 620 (930)
+..+++|.+.++||.||+.+++++++++..
T Consensus 369 ~~~t~~r~~~~~fs~py~~~~~~~v~~~~~-------------------------------------------------- 398 (1197)
T PRK09959 369 AIYSEDRENNVLFAEAFITTPYVFVMQKAP-------------------------------------------------- 398 (1197)
T ss_pred ccCCccccccceeccccccCCEEEEEecCC--------------------------------------------------
Confidence 668999999999999999999999987554
Q ss_pred hhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchh
Q 002368 621 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 700 (930)
Q Consensus 621 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~ 700 (930)
..+.+ +. .|++||+..|+..
T Consensus 399 --------------------------------------------------------~~~~~---~~-~g~~vav~~g~~~ 418 (1197)
T PRK09959 399 --------------------------------------------------------DSEQT---LK-KGMKVAIPYYYEL 418 (1197)
T ss_pred --------------------------------------------------------CCccc---cc-cCCEEEEeCCcch
Confidence 12222 22 4889999999988
Q ss_pred HHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc--c-eEEeCCccccCccEEEecCCCc-ch
Q 002368 701 ENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--Q-FSVRGQEFTKSGWGFAFPRDSP-LA 776 (930)
Q Consensus 701 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~-l~~~~~~~~~~~~~~~~~k~sp-l~ 776 (930)
..++.+.+ +..+++.+++.++++++|.+|++||++.+...+.|+++++. + +......+....++|+++|+.| |.
T Consensus 419 ~~~~~~~~--p~~~~~~~~~~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~ 496 (1197)
T PRK09959 419 HSQLKEMY--PEVEWIKVDNASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELK 496 (1197)
T ss_pred HHHHHHHC--CCcEEEEcCCHHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHH
Confidence 88886544 45688999999999999999999999999999999988742 2 3333444455678999999998 99
Q ss_pred hHHHHHHHhccccccHHHHHHhhcc
Q 002368 777 IDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 777 ~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
..+|++|..+.++ .++++.+||+.
T Consensus 497 ~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 497 DIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred HHHHHHHHhCCHH-HHHHHHhhccc
Confidence 9999999999998 78899999987
No 97
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.72 E-value=6.9e-19 Score=169.25 Aligned_cols=107 Identities=31% Similarity=0.545 Sum_probs=82.6
Q ss_pred chhHHHHHHHHHHHHHHhhhheeeccCCCCCC-------CCcccchhhHHHHHHHhhccc-cCCcccchhHHHHHHHHHH
Q 002368 583 TPLMWAVTGVFFLVVGTVVWILEHRLNDEFRG-------PPRKQIVTVLWFSFSTMFFAH-RENTVSTLGRVVLIIWLFV 654 (930)
Q Consensus 583 ~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~-~~~~~s~~~R~l~~~w~~~ 654 (930)
++++|++++++++++++++|++++..+.+++. +...++.+++|+.++++++|+ ...|++.+.|++.++|+++
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~s~s~Ril~~~w~l~ 80 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRPRSWSGRILLAFWWLF 80 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH------HHHHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccccchHHHHHHHHHHHH
Confidence 57899999999999999999999987776655 234458899999999999775 5589999999999999999
Q ss_pred HHHhhhhhhhhhheeeeeccccCCCCChHHhhhCC
Q 002368 655 VLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSN 689 (930)
Q Consensus 655 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~ 689 (930)
+++++++|||+|+|+||.|+.+++|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999877
No 98
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.72 E-value=8.2e-17 Score=168.73 Aligned_cols=208 Identities=16% Similarity=0.209 Sum_probs=158.0
Q ss_pred ceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHH---HHHHcCcccEEEe
Q 002368 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELI---NQITTGVFDAAVG 539 (930)
Q Consensus 463 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~---~~l~~g~~D~~~~ 539 (930)
+|+||+.. +|+||.+.+. .||++||++++++++|++++++.. +|++++ ..|.+|++|++++
T Consensus 1 ~l~vg~~~--~~pPf~~~~~-----~Gfdvdl~~~ia~~lg~~~~~~~~---------~~~~~~~~~~~L~~g~~Dii~~ 64 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKDG-----SGFENKIAAALAAAMGRKVVFVWL---------AKPAIYLVRDGLDKKLCDVVLG 64 (246)
T ss_pred CeEEEeCC--CCCCCccCCC-----CcchHHHHHHHHHHhCCCeEEEEe---------ccchhhHHHHHHhcCCccEEEe
Confidence 48999987 8999999742 699999999999999977555543 477765 6999999999985
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
++++++| ++||.||+.++.++++++.+.
T Consensus 65 -~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 65 -LDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred -CCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 8888777 679999999999999998761
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHH--hhhCCC-eEEEEe
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDT--LMTSND-RVGYQV 696 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~d--L~~s~~-~i~~~~ 696 (930)
..+++++| |. |+ +||+..
T Consensus 93 ---------------------------------------------------------~~~~~~~d~~L~--g~~~vgv~~ 113 (246)
T TIGR03870 93 ---------------------------------------------------------LDIKSWNDPRLK--KVSKIGVIF 113 (246)
T ss_pred ---------------------------------------------------------CCCCCccchhhc--cCceEEEec
Confidence 35777765 64 87 999999
Q ss_pred CchhHHHHHHhcCCC-----ccceEeCC---------CHHHHHHHHHcCCcEEEEccchhhHHHHhcCc-ceE--EeCCc
Q 002368 697 GSFAENYLIEELSIP-----KSRLVALG---------SPEEYAIALENRTVAAVVDERPYIDLFLSDHC-QFS--VRGQE 759 (930)
Q Consensus 697 ~s~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~-~l~--~~~~~ 759 (930)
|+..+.++.+..... ...+..++ +.++++++|..|++||++.+.+.+.+++.+.. .+. .+++.
T Consensus 114 gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (246)
T TIGR03870 114 GSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIPDD 193 (246)
T ss_pred CChHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEecccc
Confidence 999999886422110 01112221 46789999999999999998777777766532 333 33322
Q ss_pred c-------c--cCccEEEecCCCc-chhHHHHHHHhccccccHHHHHHhh
Q 002368 760 F-------T--KSGWGFAFPRDSP-LAIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 760 ~-------~--~~~~~~~~~k~sp-l~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
. . ..+++++++|+.+ |++.+|++|.+|. |.+++|..+|
T Consensus 194 ~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 194 ATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 1 0 1135899999998 9999999999999 4899999998
No 99
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.70 E-value=2.4e-16 Score=167.83 Aligned_cols=230 Identities=12% Similarity=0.149 Sum_probs=166.5
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHC-CCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEE
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 538 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~l-n~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~ 538 (930)
..++|++++. +|+||.+.+. ++...|+..++++++++++ ++++++... .|.+++..+ .|+.|+++
T Consensus 16 ~~~~l~~~~~---~~pPf~~~~~-~~~~~G~~~~i~~~i~~~~~~~~~~~~~~---------pw~r~l~~l-~~~~d~~~ 81 (268)
T TIGR02285 16 AKEAITWIVN---DFPPFFIFSG-PSKGRGVFDVILQEIRRALPQYEHRFVRV---------SFARSLKEL-QGKGGVCT 81 (268)
T ss_pred ccceeEEEec---ccCCeeEeCC-CCCCCChHHHHHHHHHHHcCCCceeEEEC---------CHHHHHHHH-hcCCCeEE
Confidence 3578998887 6899998764 5778999999999999998 877666654 499999999 77777777
Q ss_pred ecEEEecCccceeeecccccc-cceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCc
Q 002368 539 GDIAIVTNRTKAVDFTQPYIE-SGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPR 617 (930)
Q Consensus 539 ~~~~~t~~R~~~vdfs~p~~~-~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (930)
.++++|++|.+.++||.||.. ...++++++......
T Consensus 82 ~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~~------------------------------------------- 118 (268)
T TIGR02285 82 VNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAGV------------------------------------------- 118 (268)
T ss_pred eeccCCcchhhceeecCCccccCCceEEEccchhhhc-------------------------------------------
Confidence 679999999999999999975 578888887541000
Q ss_pred ccchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhh-CCCeEEEEe
Q 002368 618 KQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMT-SNDRVGYQV 696 (930)
Q Consensus 618 ~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~-s~~~i~~~~ 696 (930)
..+.....++.+|.+ .|+++|+..
T Consensus 119 -------------------------------------------------------~~~~d~~~~~~~l~~l~g~~vgv~~ 143 (268)
T TIGR02285 119 -------------------------------------------------------RDEQDGDVDLKKLLASKKKRLGVIA 143 (268)
T ss_pred -------------------------------------------------------cccCCCCccHHHHhcCCCeEEEEec
Confidence 000010112333321 377899998
Q ss_pred CchhHHHHHH---hcCC-CccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcC----cceEEeCCcc--ccCccE
Q 002368 697 GSFAENYLIE---ELSI-PKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH----CQFSVRGQEF--TKSGWG 766 (930)
Q Consensus 697 ~s~~~~~l~~---~~~~-~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~----~~l~~~~~~~--~~~~~~ 766 (930)
|+.....+.+ ..+. ...++..+.+.++++++|..|++|+++.+...+.+++.+. ..+....... ...+++
T Consensus 144 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (268)
T TIGR02285 144 SRSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVW 223 (268)
T ss_pred ceeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEE
Confidence 7755333222 1211 1123555677888999999999999999999998887642 2344443221 223578
Q ss_pred EEecCCC---cchhHHHHHHHhccccccHHHHHHhhcc
Q 002368 767 FAFPRDS---PLAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 767 ~~~~k~s---pl~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
++++|+. .+++.||++|.+|.++|.++++.+||+.
T Consensus 224 i~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 224 VACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred EEeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 8999974 3999999999999999999999999997
No 100
>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=99.69 E-value=3.1e-15 Score=159.09 Aligned_cols=257 Identities=19% Similarity=0.280 Sum_probs=202.6
Q ss_pred EEeEEeecC--CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHH
Q 002368 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~--~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~ 105 (930)
+||+++|.+ ..++.....|++.|++++ |..+++++.|+++++......+.+++.+++++|||+.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 566778889999999987 4678889999999999999999999999999999999988777
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC-CcCcchHHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD-DQGRNGVTALGDKLA 184 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~~~~~l~ 184 (930)
.+...+...++|+|++....+... .+++++++.+++..++..+++++.+.+|+++++++.+. .++....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 688889999999999877765544 57899999999999999999999999999999999877 778888999999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC-CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccccccCC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM-EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~-~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (930)
+.|.++......+.. ...++......++.. ++++|+++.. ..+..+++++++.|+.+.++.|++.+.+.....
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~~~~~-- 224 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSPAALL-- 224 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccccccc--
Confidence 999877655444433 235677777888776 7899998877 888999999999998755677777776543321
Q ss_pred CCCchhhhhcccceEEEEEecCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHH
Q 002368 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWM 320 (930)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~ 320 (930)
.......+..++....+..+. ..++.+...+||++.+
T Consensus 225 -----~~~~~~~~~~ti~~~~~~~~~---------------~~~~~~~~~~~~a~~~ 261 (269)
T cd01391 225 -----AAGEAGPGLTTVAQPFPGDDP---------------DQPDYPAALGYDAVLL 261 (269)
T ss_pred -----ccccccceEEecccCCCCCCC---------------CCCCccccceeeeeee
Confidence 012334455555554444333 2455666778888876
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=99.69 E-value=1.5e-15 Score=156.00 Aligned_cols=214 Identities=29% Similarity=0.514 Sum_probs=179.1
Q ss_pred eEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEE
Q 002368 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 543 (930)
Q Consensus 464 lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~ 543 (930)
|+|++.. .++||.+.+. ++.+.|++.++++.+.+++|.++++ .+ ..|.+++..+.+|++|++++....
T Consensus 1 l~i~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~~~~--~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRDA-NGELTGFDVDLAKAIAKELGVKVKF--VE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEECC-CCCEEeeeHHHHHHHHHHhCCeEEE--Ee-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 5788887 7899999864 7899999999999999999966444 44 339999999999999999987777
Q ss_pred ecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchhh
Q 002368 544 VTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTV 623 (930)
Q Consensus 544 t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 623 (930)
+.+|...+.|+.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 889999999999999999999998766
Q ss_pred HHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchhHHH
Q 002368 624 LWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAENY 703 (930)
Q Consensus 624 ~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~~~~ 703 (930)
++.+++||. |.++++..++....+
T Consensus 96 ------------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~ 119 (218)
T cd00134 96 ------------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKY 119 (218)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHH
Confidence 445889995 889999988877777
Q ss_pred HHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcC-cceEEeCCc--cccCccEEEecCCCc-chhHH
Q 002368 704 LIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH-CQFSVRGQE--FTKSGWGFAFPRDSP-LAIDM 779 (930)
Q Consensus 704 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~--~~~~~~~~~~~k~sp-l~~~~ 779 (930)
+.+... ...+..+.+.++.++.+.+|++|+++.+...+.+...+. +++.++... .....+++..+++++ +...|
T Consensus 120 ~~~~~~--~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 197 (218)
T cd00134 120 LKKALP--EAKVVSYDDNAEALAALENGRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKELLDAV 197 (218)
T ss_pred HHHhCC--cccEEEeCCHHHHHHHHHcCCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHHHHHH
Confidence 755443 356777889999999999999999999999988887665 677777653 334456777777775 99999
Q ss_pred HHHHHhccccccHHHHHHhhc
Q 002368 780 STAILTLSENGELQRIHDKWL 800 (930)
Q Consensus 780 n~~i~~l~e~G~~~~~~~~~~ 800 (930)
+++|.++.++|.++.+.++|+
T Consensus 198 ~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 198 NKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHhCccHHHHHHhhC
Confidence 999999999999999999996
No 102
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.69 E-value=1.2e-15 Score=163.81 Aligned_cols=225 Identities=26% Similarity=0.383 Sum_probs=183.8
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
....++|++... ..+||.+.+.+.+.+.||++|+++.+++.++......+++ .+|++++..+..|++|+++.
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 103 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIA 103 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEe
Confidence 567789999852 4569999886336999999999999999988653344443 56999999999999999999
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
++++|++|.+.++||.||+..+..++++....
T Consensus 104 ~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 135 (275)
T COG0834 104 GMTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------ 135 (275)
T ss_pred ccccCHHHhccccccccccccCeEEEEECCCC------------------------------------------------
Confidence 99999999999999999999999999998771
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
..+.+++||. |+++|++.|+.
T Consensus 136 ---------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~ 156 (275)
T COG0834 136 ---------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTT 156 (275)
T ss_pred ---------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcc
Confidence 2378999996 89999999998
Q ss_pred --hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHH--HhcCcc-eEEeCCcccc-CccEEEecCC-
Q 002368 700 --AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF--LSDHCQ-FSVRGQEFTK-SGWGFAFPRD- 772 (930)
Q Consensus 700 --~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~--~~~~~~-l~~~~~~~~~-~~~~~~~~k~- 772 (930)
...+... ......++.+++..+.+.+|.+|++||++.+.+.+.++ ..+... .......... .+++++++|+
T Consensus 157 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (275)
T COG0834 157 DEAEEKAKK--PGPNAKIVAYDSNAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGD 234 (275)
T ss_pred hhHHHHHhh--ccCCceEEeeCCHHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCC
Confidence 4444322 22446788899999999999999999999999998884 333332 2333333333 6889999999
Q ss_pred -CcchhHHHHHHHhccccccHHHHHHhhcc
Q 002368 773 -SPLAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 773 -spl~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
..+++.+|+.|.++.++|.++++.++|+.
T Consensus 235 ~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 235 DPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred cHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 46999999999999999999999999997
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.67 E-value=3.2e-15 Score=153.46 Aligned_cols=215 Identities=26% Similarity=0.523 Sum_probs=181.7
Q ss_pred ceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEE
Q 002368 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIA 542 (930)
Q Consensus 463 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~ 542 (930)
+|+||+.. .++||.+.+. ++.+.|+.+|+++.+.+++|.+ +++.+ .+|..++..+.+|++|++++...
T Consensus 1 ~l~v~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 48899974 7899998764 6779999999999999999966 44444 35999999999999999998777
Q ss_pred EecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchh
Q 002368 543 IVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVT 622 (930)
Q Consensus 543 ~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
.+.+|...+.++.|+...+.++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 6788888899999999999999887655
Q ss_pred hHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchhHH
Q 002368 623 VLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAEN 702 (930)
Q Consensus 623 ~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~~~ 702 (930)
++++++||. |++|++..|+....
T Consensus 97 -------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~ 119 (219)
T smart00062 97 -------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEE 119 (219)
T ss_pred -------------------------------------------------------CCCChHHhC--CCEEEEecCccHHH
Confidence 578999995 88999999888888
Q ss_pred HHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcC--cceEEeCCcccc-CccEEEecCCCc-chhH
Q 002368 703 YLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH--CQFSVRGQEFTK-SGWGFAFPRDSP-LAID 778 (930)
Q Consensus 703 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~~~~~~k~sp-l~~~ 778 (930)
++... ....++..+.+..+.+.+|.+|++|+++...+...+...+. +++.++.+.... ..++++++++++ +.+.
T Consensus 120 ~~~~~--~~~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (219)
T smart00062 120 LLKKL--YPEAKIVSYDSQAEALAALKAGRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDK 197 (219)
T ss_pred HHHHh--CCCceEEEcCCHHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHHHHH
Confidence 77543 23456777889999999999999999999999888887764 567777665555 778999999987 9999
Q ss_pred HHHHHHhccccccHHHHHHhhc
Q 002368 779 MSTAILTLSENGELQRIHDKWL 800 (930)
Q Consensus 779 ~n~~i~~l~e~G~~~~~~~~~~ 800 (930)
++++|..+.++|.++++.++|+
T Consensus 198 ~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 198 INKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHhCchHHHHHhccC
Confidence 9999999999999999999985
No 104
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.66 E-value=9.5e-16 Score=198.16 Aligned_cols=226 Identities=12% Similarity=0.172 Sum_probs=186.3
Q ss_pred CcccccCCCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcC
Q 002368 453 RGWVFPNNGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTG 532 (930)
Q Consensus 453 ~~~~~~~~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g 532 (930)
+.|. .+.++|+||+.. +|+|+.+..+.++.+.||.+|+++.+++++|.+ ++++++ .+|++++.++.+|
T Consensus 49 ~~~l--~~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g 116 (1197)
T PRK09959 49 LRWL--ASKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEG 116 (1197)
T ss_pred HHHH--hhCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcC
Confidence 4454 356789999986 565555543347899999999999999999955 666652 4799999999999
Q ss_pred cccEEEecEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCC
Q 002368 533 VFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEF 612 (930)
Q Consensus 533 ~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~ 612 (930)
++|++.+.++.+++|.+.++||.||+.+..++++++..
T Consensus 117 ~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------ 154 (1197)
T PRK09959 117 EVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHD------------------------------------------ 154 (1197)
T ss_pred CCcEecCccccccccccchhcCCCccCCCceEEEeCCC------------------------------------------
Confidence 99999888999999999999999999999999998755
Q ss_pred CCCCcccchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeE
Q 002368 613 RGPPRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRV 692 (930)
Q Consensus 613 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i 692 (930)
.+++++++. ++++
T Consensus 155 -----------------------------------------------------------------~~~~~~~l~--~~~i 167 (1197)
T PRK09959 155 -----------------------------------------------------------------SMRPLTSSK--PVNI 167 (1197)
T ss_pred -----------------------------------------------------------------CCCCccccc--CeEE
Confidence 455667774 7889
Q ss_pred EEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc--ceEEeCCc-cccCccEEEe
Q 002368 693 GYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQE-FTKSGWGFAF 769 (930)
Q Consensus 693 ~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~-~~~~~~~~~~ 769 (930)
++..|+....++.+.+ +..+++.+++.++++++|.+|++||++.+...+.|+++++. ++.+.... .......+++
T Consensus 168 ~~~~g~~~~~~~~~~~--p~~~i~~~~s~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~ 245 (1197)
T PRK09959 168 ARVANYPPDEVIHQSF--PKATIISFTNLYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLT 245 (1197)
T ss_pred EEeCCCCCHHHHHHhC--CCCEEEeCCCHHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEE
Confidence 9999999888886644 66789999999999999999999999999999999988743 45555322 2233456889
Q ss_pred cCCCc-chhHHHHHHHhccccccHHHHHHhhccc
Q 002368 770 PRDSP-LAIDMSTAILTLSENGELQRIHDKWLRK 802 (930)
Q Consensus 770 ~k~sp-l~~~~n~~i~~l~e~G~~~~~~~~~~~~ 802 (930)
+|+.| |...+|++|..+.++|.. .+.+||+..
T Consensus 246 ~~~~~~L~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 246 RKESVILNEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred cCCcHHHHHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 99999 899999999999999977 999999973
No 105
>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=99.64 E-value=6.6e-15 Score=153.46 Aligned_cols=211 Identities=16% Similarity=0.191 Sum_probs=160.7
Q ss_pred ceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEE
Q 002368 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIA 542 (930)
Q Consensus 463 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~ 542 (930)
.||||+.. .|+||.+.+ ..|+++||++++++++|.+++++..+ ..+..++..+.+|++|++++
T Consensus 1 ~l~v~~~~--~~~P~~~~~-----~~G~~~el~~~i~~~~g~~i~~~~~~-------~~~~~~~~~l~~g~~Di~~~--- 63 (232)
T TIGR03871 1 ALRVCADP--NNLPFSNEK-----GEGFENKIAQLLADDLGLPLEYTWFP-------QRRGFVRNTLNAGRCDVVIG--- 63 (232)
T ss_pred CeEEEeCC--CCCCccCCC-----CCchHHHHHHHHHHHcCCceEEEecC-------cchhhHHHHHhcCCccEEEe---
Confidence 37899886 789998743 36999999999999999887776554 12344567899999999876
Q ss_pred EecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchh
Q 002368 543 IVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVT 622 (930)
Q Consensus 543 ~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 622 (930)
+++|.+.++||.||...+.+++++....
T Consensus 64 -~~~r~~~~~fs~py~~~~~~lv~~~~~~--------------------------------------------------- 91 (232)
T TIGR03871 64 -VPAGYEMVLTTRPYYRSTYVFVTRKDSL--------------------------------------------------- 91 (232)
T ss_pred -ccCccccccccCCcEeeeEEEEEeCCCc---------------------------------------------------
Confidence 4778899999999999999999987751
Q ss_pred hHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchhHH
Q 002368 623 VLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAEN 702 (930)
Q Consensus 623 ~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~~~ 702 (930)
..+++++|+.-.|.+||+..|+....
T Consensus 92 ------------------------------------------------------~~~~~~~d~~l~g~~V~v~~g~~~~~ 117 (232)
T TIGR03871 92 ------------------------------------------------------LDVKSLDDPRLKKLRIGVFAGTPPAH 117 (232)
T ss_pred ------------------------------------------------------ccccchhhhhhcCCeEEEEcCChHHH
Confidence 35778887322488999999999888
Q ss_pred HHHHhcCCCccceE---------eCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcC-cceEEeCCc------cccCccE
Q 002368 703 YLIEELSIPKSRLV---------ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH-CQFSVRGQE------FTKSGWG 766 (930)
Q Consensus 703 ~l~~~~~~~~~~~~---------~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~------~~~~~~~ 766 (930)
++.+. +.. .++. ...+.++++.+|.+|++|+++.+...+.+++++. .++.+.... ....+++
T Consensus 118 ~l~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (232)
T TIGR03871 118 WLARH-GLV-ENVVGYSLFGDYRPESPPGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIA 195 (232)
T ss_pred HHHhc-Ccc-cccccccccccccccCCHHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEE
Confidence 88542 211 1211 1347899999999999999999988888877653 244443321 1233578
Q ss_pred EEecCCCc-chhHHHHHHHhccccccHHHHHHhhc
Q 002368 767 FAFPRDSP-LAIDMSTAILTLSENGELQRIHDKWL 800 (930)
Q Consensus 767 ~~~~k~sp-l~~~~n~~i~~l~e~G~~~~~~~~~~ 800 (930)
++++|+.+ ++..||++|.++. |.+++|.+||.
T Consensus 196 ~~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 196 MGVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred EEEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 88999877 9999999999985 47999999995
No 106
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.48 E-value=3e-12 Score=146.84 Aligned_cols=306 Identities=14% Similarity=0.140 Sum_probs=168.3
Q ss_pred CceEEEeEEeecCCCc---chHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCC
Q 002368 24 PEVLNVGAIFSFGTVN---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS 100 (930)
Q Consensus 24 ~~~I~IG~~~~l~~~~---G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 100 (930)
..+-+|++++|+++.+ |...+.|+..|. ++.+ +.+.++.++||..+.. .....+.+.+|+.+||||..
T Consensus 217 ~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~~----~~~~~l~~~Dt~~~~~--~~~~~~a~~~ga~~ViGPL~ 287 (536)
T PF04348_consen 217 APPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YADA----DSRPELRFYDTNADSA--DALYQQAVADGADFVIGPLL 287 (536)
T ss_dssp -----EEEEE--SSTTHHHHHHHHHHHHHHH------T----T--S-EEEEETTTS-H--HHHHHHHHHTT--EEE---S
T ss_pred CCccCEEEEeCCCCchhHHHHHHHHHHHHhh---cccc----cCCCceEEecCCCCCH--HHHHHHHHHcCCCEEEcCCC
Confidence 3467899999999665 677888998888 2222 3567888999987733 34567788889999999999
Q ss_pred hhhHHHHHHhhhc--CCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHH
Q 002368 101 AVMAHVLSHLANE--LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 178 (930)
Q Consensus 101 S~~~~av~~~~~~--~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~ 178 (930)
-+...+++..-.. -.||++.....+.. .. -+.+|...-+....+..+++.+..-|+++..||+.+++||+...++
T Consensus 288 k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~a 364 (536)
T PF04348_consen 288 KSNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEA 364 (536)
T ss_dssp HHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHH
T ss_pred HHHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHH
Confidence 8888877766543 58999987665543 11 2334444445566789999999999999999999999999999999
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCcccc
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~ 258 (930)
|.+.+++.|+.++....+.. ..++...++.-...+.|.||+.+.+.++..|--...-. ...+-..+.+.....
T Consensus 365 F~~~W~~~gg~~~~~~~~~~-----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~--~a~~lPvyatS~~~~ 437 (536)
T PF04348_consen 365 FNQQWQALGGQVAEVSYYGS-----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH--FAGDLPVYATSRSYS 437 (536)
T ss_dssp HHHHHHHHHSS--EEEEESS-----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT---T-TT-EEEE-GGG--
T ss_pred HHHHHHHcCCCceeeEecCC-----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc--cCCCCCEEEeccccC
Confidence 99999999998876666652 46888888866667899999999999988887766542 122222333332221
Q ss_pred cccCCCCCchhhhhcccceEEEEE-e--cCCChhhHHHHHHHHhhcCCCCCCCchhhhHhhHHHHHHHHHHHhhhcCCcc
Q 002368 259 FIDSKSPLSLKTAKSILGALTLRQ-H--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTI 335 (930)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~-~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDav~~la~Al~~a~~~~~~~ 335 (930)
... +......++|+..+.. + .+..+..+.+...|.+.. ....-.-+.+|||..++.+
T Consensus 438 g~~-----~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---~~~~RL~AlG~DA~~L~~~------------ 497 (536)
T PF04348_consen 438 GSP-----NPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---NSLQRLYALGIDAYRLAPR------------ 497 (536)
T ss_dssp HHT------HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHHT------------
T ss_pred CCC-----CcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc---cHHHHHHHHHHHHHHHHHH------------
Confidence 110 1344567899887754 2 223343444444443221 0112223456666554321
Q ss_pred eecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCCcEEE
Q 002368 336 SFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (930)
Q Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~~y~I 396 (930)
-.-++...+..+.|.||.+++|++|. +.....-
T Consensus 498 ---------------------------l~~l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~w 530 (536)
T PF04348_consen 498 ---------------------------LPQLRQFPGYRLDGLTGQLSLDEDGR-IERQLSW 530 (536)
T ss_dssp ---------------------------HHHHHHSTT--EEETTEEEEE-TT-B-EEEE-EE
T ss_pred ---------------------------HHHHhhCCCCcccCCceeEEECCCCe-EEEeecc
Confidence 11233345567899999999999886 3444333
No 107
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.37 E-value=3.5e-12 Score=120.16 Aligned_cols=123 Identities=33% Similarity=0.517 Sum_probs=107.5
Q ss_pred CCCChHHhhhC-CCeEEEEeCchhHHHHHHhcCCC------c---cceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHH
Q 002368 678 PIKGIDTLMTS-NDRVGYQVGSFAENYLIEELSIP------K---SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFL 747 (930)
Q Consensus 678 ~i~sl~dL~~s-~~~i~~~~~s~~~~~l~~~~~~~------~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 747 (930)
+|++++||..+ +.+||++.|++.+.++.+..... . .+++.+++..+++.+|.+|+ ||++.+.+.+.+++
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-da~v~d~~~~~~~~ 79 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-YAFLMESTYLDYEL 79 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-CEEEeehHhHHHHH
Confidence 47899999743 37899999999999996543210 0 25667899999999999999 99999999999998
Q ss_pred hcCcceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhhcc
Q 002368 748 SDHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 748 ~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
++.|++.++++.+...+++++++|+++|++.+|.+|.++.++|.++++.++|+.
T Consensus 80 ~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 80 SQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred hCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 888999999988888899999999999999999999999999999999999985
No 108
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.37 E-value=6.8e-12 Score=128.27 Aligned_cols=220 Identities=18% Similarity=0.193 Sum_probs=179.0
Q ss_pred CCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 460 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 460 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
....|||++.+ .|..+... ++...|+++++.+.+++.||.+ .+..+. .+.+.++.+|.+|++|++..
T Consensus 21 ~rGvLrV~tin----sp~sy~~~-~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aa 87 (473)
T COG4623 21 ARGVLRVSTIN----SPLSYFED-KGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAA 87 (473)
T ss_pred hcCeEEEEeec----Cccceecc-CCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceecc
Confidence 35689999987 45555543 5677799999999999999955 555553 56899999999999999999
Q ss_pred cEEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCccc
Q 002368 540 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 619 (930)
Q Consensus 540 ~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 619 (930)
++...++|.+.+.....|+..++.++.++..
T Consensus 88 gl~~~~~~l~~~~~gP~y~svs~qlVyRkG~------------------------------------------------- 118 (473)
T COG4623 88 GLLYNSERLKNFQPGPTYYSVSQQLVYRKGQ------------------------------------------------- 118 (473)
T ss_pred cccCChhHhcccCCCCceecccHHHHhhcCC-------------------------------------------------
Confidence 9999999999999999999999999998888
Q ss_pred chhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 002368 620 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 699 (930)
Q Consensus 620 ~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~ 699 (930)
...+++++|. |..+.+..|+.
T Consensus 119 ---------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs~ 139 (473)
T COG4623 119 ---------------------------------------------------------YRPRSLGQLK--GRQITVAKGSA 139 (473)
T ss_pred ---------------------------------------------------------CCCCCHHHcc--CceeeccCCcH
Confidence 4567899996 77788888887
Q ss_pred hHHHHHH--hcCCCccceEe---CCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCccccCccEEEecCC--
Q 002368 700 AENYLIE--ELSIPKSRLVA---LGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPRD-- 772 (930)
Q Consensus 700 ~~~~l~~--~~~~~~~~~~~---~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~-- 772 (930)
...-+.. +...+ ..+.. -.+.+|.++.+..|..+..+.+...+..+..-++++.+.-..-...++++.+|.+
T Consensus 140 ~~~~l~~lk~~kyP-~l~~k~d~~~~~~dLle~v~~Gkldytiads~~is~~q~i~P~laVafd~tde~~v~Wy~~~~dd 218 (473)
T COG4623 140 HVEDLKLLKETKYP-ELIWKVDDKLGVEDLLEMVAEGKLDYTIADSVEISLFQRVHPELAVAFDLTDEQPVAWYLPRDDD 218 (473)
T ss_pred HHHHHHHHHHhhcc-hhhhhhcccccHHHHHHHHhcCCcceeeeccHHHHHHHHhCccceeeeecccccCceeeccCCch
Confidence 5554432 11112 22222 2378899999999999999999999988877788877776666668899999996
Q ss_pred CcchhHHHHHHHhccccccHHHHHHhhcc
Q 002368 773 SPLAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 773 spl~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
+.|...++.++..+.|.|.++++++||++
T Consensus 219 ~tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 219 STLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred HHHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 44999999999999999999999999997
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=99.09 E-value=6.7e-09 Score=110.24 Aligned_cols=205 Identities=10% Similarity=0.050 Sum_probs=152.6
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||+++|.+ .........|++.++++. | +++.+.|+..++....+.+++++.+++++||+...+.....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~--------g--~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA--------G--YQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc--------C--CeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999985 556677788888888872 3 45667788888888888899999889999998776655555
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~l~ 184 (930)
..+.+.+.++|+|.+....+. .+++++...++...+..+++++...|.++++++..+.. ++....+.|.+.++
T Consensus 71 ~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~ 145 (264)
T cd01537 71 IVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALK 145 (264)
T ss_pred HHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHH
Confidence 678888899999998665442 24667788888889999999999889999999987544 66677899999999
Q ss_pred hcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 185 EIR-CKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 185 ~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.| .++........ +..+....+.++.+.+ +++++... ...+..+++++++.|+..++.+-+.
T Consensus 146 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGDW----DAEKGYQAAEELLTAHPDPTAIFAAN-DDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCCC----CHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 887 44433322232 2667777888887776 56655554 3567778999999998644434333
No 110
>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=99.00 E-value=6.5e-08 Score=102.95 Aligned_cols=207 Identities=12% Similarity=0.064 Sum_probs=145.3
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh-hhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S-~~~~ 105 (930)
+||++.|.. +.+......+++.|+++. |+ ++.+.|+..++........+++.+++++||+...+ ....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~--------g~--~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL--------GV--ELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc--------Cc--eEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999874 566677888888888872 44 55567777788888888889998899998864433 3333
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CcCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~~~~ 181 (930)
...+.+.+.++|+|......+. .+.+....+++...+..+++++... |.+++++++.+. .++....+.|.+
T Consensus 71 ~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 145 (267)
T cd01536 71 PALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRD 145 (267)
T ss_pred HHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHH
Confidence 4566677889999987654432 2345567777788888899998776 899999998654 477788899999
Q ss_pred HHHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-iv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
.+++.| .++........ +..+....+.++.+.++++ .+++++...+..+++++++.|+. .+...++.+
T Consensus 146 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~d 215 (267)
T cd01536 146 ALKEYPDIEIVAVQDGNW----DREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGVD 215 (267)
T ss_pred HHHhCCCcEEEEEecCCC----cHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEecC
Confidence 999984 66553322222 2456677788877655433 23344446777899999999975 344344433
No 111
>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=98.93 E-value=6.9e-08 Score=102.51 Aligned_cols=205 Identities=10% Similarity=0.005 Sum_probs=146.2
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||++.|.. ..+......+++.+.++. |.++ .+.|...++.+..+..++++++++++||....+..+..
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 489999984 556667777888877762 4444 46677888888899999999999999987666655555
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~ 184 (930)
...+...++|+|......+. +.+....+++...+..+++++...|.+++++++.+. .++....+.+.+.++
T Consensus 71 -~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~ 143 (264)
T cd06267 71 -LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALE 143 (264)
T ss_pred -HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHH
Confidence 77788999999998665432 345566677778888888998888999999998654 367777889999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.|..+......... .+..+....+.++...+ +|+|+.. +...+..+++++++.|+..++.+.+.
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 888543222222222 12456667777777666 5666644 55667788899999998644444333
No 112
>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=98.92 E-value=1.4e-08 Score=107.45 Aligned_cols=199 Identities=20% Similarity=0.169 Sum_probs=142.0
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
-.+|+||+.. .++|+.. .+...++.+.+++++|.++++... ++|+.++..+.+|++|+++.+
T Consensus 31 ~~~l~vg~~~--~~~~~~~--------~~~~~~l~~~l~~~~g~~v~~~~~--------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGILP--GENASNL--------TRRWEPLADYLEKKLGIKVQLFVA--------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEECC--CCCHHHH--------HHHHHHHHHHHHHHhCCcEEEEeC--------CCHHHHHHHHHcCCccEEEEC
Confidence 3579999985 4444333 234578999999999977555432 469999999999999999865
Q ss_pred EEEec---Cccceeeeccccccc------ceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCC
Q 002368 541 IAIVT---NRTKAVDFTQPYIES------GLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDE 611 (930)
Q Consensus 541 ~~~t~---~R~~~vdfs~p~~~~------~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~ 611 (930)
..... +|....+|+.||... ...+++++..
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~----------------------------------------- 131 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS----------------------------------------- 131 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC-----------------------------------------
Confidence 54333 566667788876543 2456665433
Q ss_pred CCCCCcccchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCe
Q 002368 612 FRGPPRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR 691 (930)
Q Consensus 612 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~ 691 (930)
+|++++||. |++
T Consensus 132 ------------------------------------------------------------------~i~~~~dL~--gk~ 143 (254)
T TIGR01098 132 ------------------------------------------------------------------PIKSLKDLK--GKT 143 (254)
T ss_pred ------------------------------------------------------------------CCCChHHhc--CCE
Confidence 688999995 889
Q ss_pred EEEEe-Cchh-----HHHHHHhcCCCc----cceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc----ceEEeC
Q 002368 692 VGYQV-GSFA-----ENYLIEELSIPK----SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC----QFSVRG 757 (930)
Q Consensus 692 i~~~~-~s~~-----~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~----~l~~~~ 757 (930)
|++.. ++.. ..++.+..+... ..+....+..+.++++.+|++|+.+.+.+....+.++.. ++.++.
T Consensus 144 I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (254)
T TIGR01098 144 FAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIW 223 (254)
T ss_pred EEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEE
Confidence 99874 3321 234444443221 345556678899999999999999999888877766542 578887
Q ss_pred CccccCccEEEecCC-Cc-chhHHHHHHHhc
Q 002368 758 QEFTKSGWGFAFPRD-SP-LAIDMSTAILTL 786 (930)
Q Consensus 758 ~~~~~~~~~~~~~k~-sp-l~~~~n~~i~~l 786 (930)
+.....+++++++|+ .+ +++.+|++|..+
T Consensus 224 ~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 224 KSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred ecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 666566789999999 55 999999999764
No 113
>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=98.92 E-value=8.6e-08 Score=103.04 Aligned_cols=201 Identities=16% Similarity=0.139 Sum_probs=141.4
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
|||++.|+...+-.....|++ +++++.|+.+ |+++++.+.|+..++........+++++++++||+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~---~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFK---DGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHH---HHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 689999876554444455554 5666667665 8999999999999999999999999988999999865442 2222
Q ss_pred HHhhhcCCCcEEEeecCCCCCCC----CCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CcCcchHHHHH
Q 002368 108 SHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALG 180 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~----~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~~~ 180 (930)
.+...++|+|.++..++.... ...+..+.+..++...+..+++++... |.+++++++.+. .++....+.++
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 256779999988654432111 111122223445666678888888876 999999998653 46777789999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
+.+++.|++++... . .. ..++...++++.+ ++|+|++... ..+..+++++++.|+
T Consensus 154 ~~~~~~g~~~~~~~-~-~~----~~~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-V-SS----SNDVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-c-CC----HHHHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 99999999876532 1 22 5677778888864 4687776544 467778888888775
No 114
>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=98.90 E-value=2.3e-07 Score=99.18 Aligned_cols=202 Identities=13% Similarity=0.069 Sum_probs=142.7
Q ss_pred EEeEEeecCC-CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh-HH
Q 002368 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM-AH 105 (930)
Q Consensus 28 ~IG~~~~l~~-~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~-~~ 105 (930)
|||++.|... .+-.....|++.++++. +. .|+++++.+.|+..++....+...++++++|++||....+.. ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~----~~-~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKEL----KK-AGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhh----hc-cCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 6899997643 23334566666666552 11 267889999999999999999999999999999998554433 23
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEec--CCcCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFND--DDQGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d--~~~g~~~~~~~~~ 181 (930)
.....+.+.++|+|......+ . +.+++..+++...+..+++++... |-++++++..+ ...+......+++
T Consensus 76 ~~l~~~~~~~iPvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~ 149 (272)
T cd06300 76 PVIEEACEAGIPVVSFDGTVT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKE 149 (272)
T ss_pred HHHHHHHHCCCeEEEEecCCC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHH
Confidence 355667788999998754321 1 456778888888899999998776 88999999743 3445667789999
Q ss_pred HHHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcCCc--eEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEA--RVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 182 ~l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~--~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
++++.| +++......+ .+.++....+.++..+++ ++|+... .. +..+++++++.|+..+
T Consensus 150 a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~-d~-A~g~~~al~~~g~~~p 211 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD----WDQAVAQKAVADFLASNPDVDGIWTQG-GD-AVGAVQAFEQAGRDIP 211 (272)
T ss_pred HHHHCCCcEEEeecCCC----CCHHHHHHHHHHHHHhCCCcCEEEecC-CC-cHHHHHHHHHcCCCCc
Confidence 999887 7765432222 224566677788876655 5444433 33 8899999999998443
No 115
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.79 E-value=3.1e-08 Score=105.60 Aligned_cols=164 Identities=17% Similarity=0.225 Sum_probs=133.3
Q ss_pred CCHHHHHHHHHcCcccEEEecEEEecCccceeeeccc--ccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHH
Q 002368 520 PTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQP--YIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVV 597 (930)
Q Consensus 520 ~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p--~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~ 597 (930)
.+|.+++..|.+|++|+++++..++.+|.+.++|+.| |....+++++|...
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~--------------------------- 103 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS--------------------------- 103 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC---------------------------
Confidence 4589999999999999999999999999999999988 77777888888655
Q ss_pred HHhhhheeeccCCCCCCCCcccchhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccC
Q 002368 598 GTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSS 677 (930)
Q Consensus 598 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 677 (930)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCChHHhhhCCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC
Q 002368 678 PIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG 757 (930)
Q Consensus 678 ~i~sl~dL~~s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~ 757 (930)
+|++++||. |+++++..+.....++.+ .+. ..+++.+.+..|. ++..|..|++++.......+.++ ++.++
T Consensus 104 ~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi-~~~iv~~~gs~ea--a~~~G~aDaivd~~~~~~~l~~~--~L~~v- 174 (287)
T PRK00489 104 DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGI-DAEVVELSGAVEV--APRLGLADAIVDVVSTGTTLRAN--GLKIV- 174 (287)
T ss_pred CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCC-ceEEEECCCchhh--hhcCCcccEEEeeHHHHHHHHHC--CCEEE-
Confidence 678899995 889999888888888854 343 2456667655554 56669999999887777776653 57777
Q ss_pred CccccCccEEEecC--CCc-chhHHHHHHHhccccccHHHHHHhhcc
Q 002368 758 QEFTKSGWGFAFPR--DSP-LAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 758 ~~~~~~~~~~~~~k--~sp-l~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
+.+.....+++.+| .+| ....+|..+.++ .|.+..+.+||+.
T Consensus 175 ~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~ 219 (287)
T PRK00489 175 EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLM 219 (287)
T ss_pred EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEE
Confidence 55566678999999 677 888899999999 5999999999997
No 116
>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=98.78 E-value=1.3e-06 Score=93.55 Aligned_cols=208 Identities=9% Similarity=0.029 Sum_probs=137.8
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EccCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI-VGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~S~~~~ 105 (930)
|||++.|- +..+-.....+++.|.++. |+++.+...|+..++....+...++++++|++| +.|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL--------GVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh--------CCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 68999984 4444455667777777772 678887777877788877788888998888875 5665554444
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CcCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~~~~ 181 (930)
+....+.+.++|+|...... .....+ ....++...+..+++++... |.++++++.... .......+.+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~---~~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKL---IPNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCC---CCccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 55667788999999875432 111122 24567777788888988776 889999997532 233455688999
Q ss_pred HHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEE-EEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV-VHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv-~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
.+++. |+++....... ....+....+.++....+++-. ++.+...+..+++.+++.|+. .+...++.+
T Consensus 147 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~d 216 (275)
T cd06320 147 AIKKASGIEVVASQPAD----WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGTD 216 (275)
T ss_pred HHhhCCCcEEEEecCCC----ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEecC
Confidence 99998 88876432212 2244555667776655544433 344555666788989999974 333334433
No 117
>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=98.64 E-value=3.1e-06 Score=90.02 Aligned_cols=200 Identities=10% Similarity=0.092 Sum_probs=131.9
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|-. ..+-.....+++.++++. |+.+. +.++..++....+...+++.+++++||....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA--------GYSLL--LATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC--------CCEEE--EeeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 378898853 444445566666666551 45555 4566677777778888888889999886433332334
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec---CCcCcchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~~~~~l 183 (930)
..+.+.+.++|++......+ ..++++ ..++...+..+++++...|.++++++..+ .++++...+.|.+.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~v---~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPSV---SVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCEE---eeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 56777888999988754322 223443 35667788889999888899999999743 345667789999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
++.|+.+......+.. ..+....+.++... .+++|+. ++...+..+++++++.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di 206 (266)
T cd06282 144 RAAGLAPLPPVEIPFN----TAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDL 206 (266)
T ss_pred HHcCCCCCccccCCCc----HHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCce
Confidence 9998865433222222 33333445544333 4666665 556667789999999998644433
No 118
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.63 E-value=6.9e-06 Score=88.90 Aligned_cols=209 Identities=13% Similarity=0.130 Sum_probs=131.6
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcE-EEEccCChh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTL-AIVGPQSAV 102 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~-aiiGp~~S~ 102 (930)
+.-+||++.|- +..+-.....+++.++++. |.++ .+.|+..++........+++.++++ +|++|..+.
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~--------G~~~--~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~ 94 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKL--------GYNL--VVLDSQNNPAKELANVQDLTVRGTKILLINPTDSD 94 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHc--------CCeE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChH
Confidence 45689999985 4444556677888887772 4444 4567777888888888888888887 445665555
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc-CCc-EEEEEEec--CCcCcchHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GWG-EVIAIFND--DDQGRNGVTA 178 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-~w~-~vaii~~d--~~~g~~~~~~ 178 (930)
........+.+.++|+|.+....+ ..+.+....+++..-+..+++++... |.+ +++++..+ ....+...+.
T Consensus 95 ~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~g 169 (295)
T PRK10653 95 AVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEG 169 (295)
T ss_pred HHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHH
Confidence 444566777788999998754321 11234455666666678888887664 543 56666532 2234466789
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEE-EEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI-VVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi-v~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
|.+++++.|+++.... ... .+..+....+.++.+..++.- +++.+...+..+++++++.|+ .+...++.+
T Consensus 170 f~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~--~dv~vig~d 240 (295)
T PRK10653 170 FKQAVAAHKFNVLASQ--PAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGK--SDVMVVGFD 240 (295)
T ss_pred HHHHHhhCCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCC--CceEEEEeC
Confidence 9999999998775321 111 123344455666665554432 334445566678999999997 233444433
No 119
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.58 E-value=2.5e-06 Score=92.31 Aligned_cols=317 Identities=10% Similarity=0.094 Sum_probs=192.0
Q ss_pred CCceEEEeEEeecCC---CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccC
Q 002368 23 KPEVLNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQ 99 (930)
Q Consensus 23 ~~~~I~IG~~~~l~~---~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~ 99 (930)
...+=+|+.++|+++ ..|...+.|+..|-. -++.- ++.-.++.+.||...+..++- .+...+|+..|+||.
T Consensus 254 ~~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~---~~~~~~~~i~dT~~~~l~~i~--aqaqq~G~~~VVGPL 327 (604)
T COG3107 254 QASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQ---TAQVAELKIYDTSAQPLDAIL--AQAQQDGADFVVGPL 327 (604)
T ss_pred cCCchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccC---CccccceeeccCCcccHHHHH--HHHHhcCCcEEeccc
Confidence 455789999999984 457778888887765 12221 233378889999887766543 344455999999999
Q ss_pred ChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHH
Q 002368 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (930)
Q Consensus 100 ~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~ 179 (930)
--....++..-.. ..+|++....++.. ...+..+...-+.+..++..|+.+-.-|.+...++.+.+++|+...++|
T Consensus 328 lK~nVe~L~~~~q-~~i~vLALN~~~n~---r~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF 403 (604)
T COG3107 328 LKPNVEALLASNQ-QPIPVLALNQPENS---RNPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAF 403 (604)
T ss_pred cchhHHHHHhCcC-CCCceeeecCCccc---cCcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHH
Confidence 9988877654443 67888875443322 1234443334444455799999999999999999999999999999999
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCChhHHHHHHH-----------------------HHhcCC-ceEEEEEcchhhHHHHH
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELV-----------------------KVRMME-ARVIVVHGYSRTGLMVF 235 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~-----------------------~l~~~~-~~viv~~~~~~~~~~~~ 235 (930)
.+++++.|+..+....+.. ..+...-+. .+.+.+ .|.|++...++++..|-
T Consensus 404 ~~~Wq~~gg~~v~~~~fg~-----~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~IK 478 (604)
T COG3107 404 NQEWQKLGGGTVLQQKFGS-----TSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELALIK 478 (604)
T ss_pred HHHHHHhcCCchhHhhcCc-----HHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhHHh
Confidence 9999999885554433321 111111111 122233 78999999999888775
Q ss_pred HHHHHcCCCCCceEEEEeCcccccccCCCCCchhhhhcccceEEEE-Ee--cCCChhhHHHHHHHHhhcCCCCCCCchhh
Q 002368 236 DVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLR-QH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGL 312 (930)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~-~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 312 (930)
-...-.+..... ..+.+.-.. ....+ ++....++|+.... |+ .+..|..++...+|...
T Consensus 479 P~ia~~~~~~~~-p~yaSSr~~--~gT~~---P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~------------ 540 (604)
T COG3107 479 PMIAMANGSDSP-PLYASSRSS--QGTNG---PDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND------------ 540 (604)
T ss_pred hHHHhhcCCCCc-ceeeecccc--ccCCC---ccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc------------
Confidence 555533322211 122222111 11111 34556788875432 22 34556666666666532
Q ss_pred hHhhHHHHHHHHHHHhhhcCCcceecCCCccCCCCCCcccCCCccccCchHHHHHHHHhccccCcceeEEEccCCCCCCC
Q 002368 313 YAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHP 392 (930)
Q Consensus 313 ~~YDav~~la~Al~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~g~~~~~ 392 (930)
|..+.++|.+++.-.-.. .=.+ +++..+-..+|+||.++.|+++. +..
T Consensus 541 --~sl~RLyAmGvDAwrLan----------------------------~f~e-lrqV~G~~i~G~TG~Lsad~~c~-I~R 588 (604)
T COG3107 541 --YSLARLYAMGVDAWRLAN----------------------------HFSE-LRQVPGYQIDGLTGTLSADPDCV-IER 588 (604)
T ss_pred --hHHHHHHHhcchHHHHHH----------------------------HhHH-hhcCCCcccccccceeecCCCce-Eee
Confidence 455666666665421100 0001 11233445789999999999886 343
Q ss_pred cEEEEEeeecCc
Q 002368 393 SYDIINVIEHGY 404 (930)
Q Consensus 393 ~y~I~~~~~~~~ 404 (930)
...-.+++.+..
T Consensus 589 ~l~Waqy~~G~v 600 (604)
T COG3107 589 KLSWAQYQQGQV 600 (604)
T ss_pred cchHHHhcCCCe
Confidence 333333333333
No 120
>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=98.56 E-value=1.9e-08 Score=78.38 Aligned_cols=49 Identities=24% Similarity=0.548 Sum_probs=39.5
Q ss_pred CcceEEEEeHHHHHHHHHHCCCcccEEEEeC---CCCCCCCCHHHHHHHHHc
Q 002368 483 GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPY---GDGHKNPTYSELINQITT 531 (930)
Q Consensus 483 ~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~---~~~~~n~~~~~l~~~l~~ 531 (930)
++.++.|||+||++++++.|||++++..++. |..++||+|+|++++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 4679999999999999999999977777763 333468999999999874
No 121
>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=98.55 E-value=1.1e-05 Score=85.96 Aligned_cols=204 Identities=13% Similarity=0.104 Sum_probs=133.2
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEE-EEccCChhhHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLA-IVGPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~a-iiGp~~S~~~~a 106 (930)
||+++|- +..+-.....+++.++++. |+.+ .+.++..++........+++.+++++ |++|..+.....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKEL--------GYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHc--------CceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence 7888884 5556667788888888872 4555 45677778888888888888888888 556665554445
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEec--CCcCcchHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFND--DDQGRNGVTALGDK 182 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d--~~~g~~~~~~~~~~ 182 (930)
....+...++|++......+ ..+.+-.+..++...+..+++++... |.+++++++.+ ..++....+.|.++
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 72 AVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 55566778999998755322 11223345556666678888888776 78999999853 34566778899999
Q ss_pred HHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 183 l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+++. |+++........ +..+....+.++.... +++ +++.+...+..+++++++.|+ .+...++.+
T Consensus 147 l~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~--~di~iig~d 214 (268)
T cd06323 147 VDKYPGLKVVASQPADF----DRAKGLNVMENILQAHPDIKG-VFAQNDEMALGAIEALKAAGK--DDVKVVGFD 214 (268)
T ss_pred HHhCCCcEEEecccCCC----CHHHHHHHHHHHHHHCCCcCE-EEEcCCchHHHHHHHHHHcCC--CCcEEEEeC
Confidence 9984 777653222121 1333334555554443 455 344455556678899999997 344444433
No 122
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.53 E-value=1.4e-05 Score=82.47 Aligned_cols=204 Identities=15% Similarity=0.109 Sum_probs=144.6
Q ss_pred CCCceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCc-EEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCC
Q 002368 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGR-KLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS 100 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~-~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~ 100 (930)
+.++.++||+....+-+.-.....|++-|+.+. |+ .+++.+...++|+..+...+++|..++.++|++-.+
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~t 97 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIAT 97 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecCC
Confidence 566788899999887555566778888888774 34 688889999999999999999999998777777444
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCC--CC--CCeEEEccCChHHHHHHHHHHHHH--cCCcEEEEEEec-CCcCc
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSP--LQ--YPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFND-DDQGR 173 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~--~~--~~~~fr~~p~~~~~~~ai~~~l~~--~~w~~vaii~~d-~~~g~ 173 (930)
. .+.++..-.. ++|++-.+.+||.-.. .. -|----|.-||..-...-.+++++ -+.|+++++|.. .+...
T Consensus 98 p-~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 98 P-AAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred H-HHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 3 3444333222 3999987777664332 11 122333455666656666677776 478999999965 44788
Q ss_pred chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh---hHHHHHHHHHHcCC
Q 002368 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR---TGLMVFDVAQRLGM 243 (930)
Q Consensus 174 ~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~---~~~~~~~~a~~~g~ 243 (930)
...+.++..+++.|++++.. .++. ..|....++.+. .++|+|+..++.. ....++..+.+.+.
T Consensus 175 ~l~eelk~~A~~~Gl~vve~-~v~~-----~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 175 SLVEELKKEARKAGLEVVEA-AVTS-----VNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCCCEEEEE-ecCc-----ccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 89999999999999998743 3332 346666666665 7899999987763 44555667766554
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=98.51 E-value=1.2e-05 Score=85.63 Aligned_cols=200 Identities=17% Similarity=0.165 Sum_probs=132.7
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChhhH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV--GPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~S~~~ 104 (930)
.||++.|- +..+-.....+++.++++. |+.+. +.|+..++.........|++++|++|| ++..+
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--- 67 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH--------GYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDHS--- 67 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC--------CCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC---
Confidence 48999985 3444556677777777762 45554 478888888888888899988777655 43322
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec---CCcCcchHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTALGD 181 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~~~~ 181 (930)
..+...+.+.++|+|......+ ....+| ...++...+..+++++...|.++++++... ..++......|.+
T Consensus 68 ~~~~~~l~~~~iPvv~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~ 141 (268)
T cd06273 68 PALLDLLARRGVPYVATWNYSP---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRA 141 (268)
T ss_pred HHHHHHHHhCCCCEEEEcCCCC---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHH
Confidence 2334566778999998754322 123344 335777788889999888899999999743 2345677899999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
.+++.|+.+.....+... .+.++....+.++.+ ..+++|+. ++...+..+++++++.|+..++.+
T Consensus 142 ~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i 208 (268)
T cd06273 142 ALAEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDL 208 (268)
T ss_pred HHHHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCce
Confidence 999988654322222211 123344455666654 34777665 556667789999999998654433
No 124
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.50 E-value=1.4e-05 Score=85.51 Aligned_cols=210 Identities=15% Similarity=0.156 Sum_probs=132.8
Q ss_pred EEeEEeec--CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhH
Q 002368 28 NVGAIFSF--GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l--~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~ 104 (930)
.||++.|. +..+......|++.+.++. |+. +.+.++..++....+....++.++|++||- |..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~--------g~~--~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED--------GVE--VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc--------CCE--EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 37889986 4566777888888888872 444 455678788888888888888889988854 4444433
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEc-cCChHHHHHHHHHHHHHc--CCcEEEEEEecCCc--CcchHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQT-APNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTAL 179 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~-~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~~--g~~~~~~~ 179 (930)
......+.+.++|+|...... .....++++.. .+++...+..+++.+.+. |.+++++++.+.++ +....+.|
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 455566788999999765432 12234554433 345556677777776654 77899999754333 34456889
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc---CCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
++.+++.|..+......... ....+....+.++-+ .++++|++ .+...+..+++++++.|+. .+...++.+
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~-~dv~v~g~d 221 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA-GGIVIVGAN 221 (275)
T ss_pred HHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc-CCcEEEEeC
Confidence 99999986433322222211 112333334444432 24677774 4455578899999999986 343344433
No 125
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.50 E-value=1.8e-05 Score=84.71 Aligned_cols=208 Identities=11% Similarity=0.071 Sum_probs=132.0
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEE-EccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAI-VGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~ai-iGp~~S~~~~ 105 (930)
+||++.|.. ..+-.....+++.+.++. |+++ .+.|+..++........+++..++++| ++|..+....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL--------GYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV 70 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc--------CCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH
Confidence 488888853 333344556666666552 4444 456888888888888888888888887 4676655455
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc------CCcEEEEEEec--CCcCcchHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFND--DDQGRNGVT 177 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------~w~~vaii~~d--~~~g~~~~~ 177 (930)
.....+.+.++|+|.+.... .+ ..++..+.+++...+..+++++.+. |.++++++..+ ...+....+
T Consensus 71 ~~l~~~~~~~ipvV~~~~~~---~~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (277)
T cd06319 71 TLLKLAAQAKIPVVIADIGA---EG--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTK 145 (277)
T ss_pred HHHHHHHHCCCCEEEEecCC---CC--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHH
Confidence 66677888999999864321 11 1233445566666666777766553 67899999743 345667788
Q ss_pred HHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 178 ~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-iv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
.|.+.+++.|+.+.... ...+ .+..+....+.++....++. .+++.+...+..+++++++.|+. .+...++.+
T Consensus 146 gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg~d 219 (277)
T cd06319 146 GFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLICFD 219 (277)
T ss_pred HHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEEcC
Confidence 99999999998754221 1111 12334445566665555543 23344555567899999999985 343344433
No 126
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.40 E-value=5.4e-05 Score=80.76 Aligned_cols=209 Identities=11% Similarity=0.060 Sum_probs=136.5
Q ss_pred EEeEEeecC--CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh-hhH
Q 002368 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMA 104 (930)
Q Consensus 28 ~IG~~~~l~--~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S-~~~ 104 (930)
|||++.|.. ..+-.....+++.|+++. |+.+.+...|. .++........+|+.+++++||.-..+ ...
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~--------g~~v~~~~~~~-~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL--------GVDVEYRGPET-FDVADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh--------CCEEEEECCCC-CCHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 689999864 455567788888888872 56665443333 388877888888888898888863333 323
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-cCCcEEEEEEec--CCcCcchHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFND--DDQGRNGVTALGD 181 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w~~vaii~~d--~~~g~~~~~~~~~ 181 (930)
......+.+.++|++......+... ..+.+..+..++...+..+++++.+ .|.++++++..+ +..+....+.|.+
T Consensus 72 ~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~ 149 (271)
T cd06312 72 DPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFAD 149 (271)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHHH
Confidence 3444556778999998754332211 1245566778888899999999988 899999999743 3445667889999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
++++.|+.+.. +... .+..+....++++.+. ++++|+.. +...+..+++.+++.|+. .+...++.+
T Consensus 150 ~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~~~-~d~~a~g~~~al~~~g~~-~di~vvg~d 217 (271)
T cd06312 150 GLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVLTL-GAPSAAPAAKALKQAGLK-GKVKLGGFD 217 (271)
T ss_pred HHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEEEe-CCccchHHHHHHHhcCCC-CCeEEEEec
Confidence 99988876432 1111 1133444455555433 35654444 455577788889999976 333334333
No 127
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=98.37 E-value=5.2e-05 Score=80.95 Aligned_cols=208 Identities=13% Similarity=0.007 Sum_probs=132.1
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcc-CChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGP-QSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~S~~~~ 105 (930)
+||++.|- +..+-.....+++-|.++. |+++. +.++..++....+....++..++++||.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL--------GGDLR--VYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 48899885 3444456677777777763 45544 46788888888888888888899998874 3333334
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH--cCCcEEEEEEec-CCcCcchHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFND-DDQGRNGVTALGDK 182 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~--~~w~~vaii~~d-~~~g~~~~~~~~~~ 182 (930)
.+...+.+.++|+|......+. +.+..+..++...+..+++++.. .|.++++++... ..........+.+.
T Consensus 71 ~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~ 144 (273)
T cd06305 71 PWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAV 144 (273)
T ss_pred HHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHH
Confidence 4456677889999987543221 22334666777888888888766 589999999743 22233445688888
Q ss_pred HHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcCCceE---EEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 183 LAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARV---IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 183 l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v---iv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+++.+ .++......... .+.++....++++....+++ .+++.+...+..++.++++.|+.. +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 88877 555432211111 12334445666665445543 334445567778889999999753 33344444
No 128
>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=98.35 E-value=7.9e-05 Score=79.51 Aligned_cols=209 Identities=15% Similarity=0.112 Sum_probs=132.5
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
+||+++|-. ..+-.....|++-|.++. .|+ .+.+.++..++..-.+....+++.+|+++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-------~~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 71 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL-------GGV--ELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA 71 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc-------CCc--EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH
Confidence 589998753 444445556666666651 144 455567777888888888888888888886 665555445
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CcCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~~~~ 181 (930)
.+...+...++|+|......+.. .+.+..+..++...+..+++++... |-++++++.... .......+.|.+
T Consensus 72 ~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 72 PIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 55666788999999875432211 1234456777778888888887765 557999997532 334455688999
Q ss_pred HHHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
++++.| .++... .... .+.......+.++.+. ++++| ++.+...+..+++.+++.|..+.+...++.+
T Consensus 148 ~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 148 VLAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 999888 444322 1111 1222333445554433 45654 4455566778999999999874354555544
No 129
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.33 E-value=0.00014 Score=77.58 Aligned_cols=209 Identities=10% Similarity=-0.021 Sum_probs=128.1
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh-HH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM-AH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~-~~ 105 (930)
|||++.|-. ..+-.....+++.+.++ .|+++.+...++..++....+...+++..++++||--.+... ..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~ 72 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE--------LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV 72 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH--------cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH
Confidence 689998763 33333445566555555 257776665554567777777788888888888885333322 23
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCCc--CcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~~--g~~~~~~~~~ 181 (930)
.....+...++|+|......+. ...++ ....++...+..+++++... |.++++++....++ .....+.|.+
T Consensus 73 ~~l~~~~~~~ipvV~~~~~~~~--~~~~~---~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSGLNS--DIAVS---FVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHHHCCCCEEEecCCCCC--CcceE---EEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 4555566789999987532211 11112 24455556677888887776 89999999754333 3345688999
Q ss_pred HHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-iv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
++++. |+++... .... ....+....+.++...++++ .+++.+...+..+++.+++.|+. .+...++.+
T Consensus 148 a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 148 GLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 99988 8776531 1111 11233344556665444332 34455566788899999999985 444455544
No 130
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=98.30 E-value=6.5e-05 Score=79.44 Aligned_cols=202 Identities=16% Similarity=0.126 Sum_probs=143.3
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHHH
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~a 106 (930)
||++.|.. ..+-.....|++-|.++. |..+.+. .|.+.++..-.....+++++++++|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKEL--------GYEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHH--------TCEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 78888886 446667899999999996 4566665 89999999999999999999998877 7777777777
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc-CC-cEEEEEEecCC--cCcchHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW-GEVIAIFNDDD--QGRNGVTALGDK 182 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-~w-~~vaii~~d~~--~g~~~~~~~~~~ 182 (930)
...-+...+||++++... .....+......++....+..+++++... +- .+++++..... ......+.+.+.
T Consensus 72 ~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 778889999999987554 11223445566678888899999987653 32 68888864433 333567889999
Q ss_pred HHh-cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 183 LAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 183 l~~-~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
+++ .+++++..... .. .+.++....+.++.+.++-..|++++...+..+++..++.|+.+.
T Consensus 148 l~~~~~~~~~~~~~~-~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPGVEIVDEYEY-TD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTTEEEEEEEEE-CT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcceeeeeeeeec-cC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCccc
Confidence 998 46666653222 22 236666666666666554233355677777789999999998443
No 131
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=98.27 E-value=8.2e-05 Score=79.23 Aligned_cols=207 Identities=14% Similarity=0.090 Sum_probs=130.3
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEccCChhhHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiGp~~S~~~~a 106 (930)
||++.|- ++.+......|++.++++. |+.+.+...|... ......+.+++ ..++++||....+.....
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDT--------GYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhC--------CCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCccH
Confidence 7899986 4667778888998888752 6777776655432 22344555544 568999987544433345
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcC--cchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG--RNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g--~~~~~~~~~~l~ 184 (930)
..+.+...++|++......+. ...+++ ..+....+..+++++...|.++++++..+..+. ......|.+.++
T Consensus 72 ~~~~~~~~~ipvv~i~~~~~~---~~~~~V---~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 72 LLDLLDEAGVPYVRIAPGTPD---PDSPCV---RIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHHHhcCCCEEEEecCCCC---CCCCeE---EeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 556777899999987654332 223332 346666678888888888999999998655443 334678999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCc-eEEEEeC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSG-YVWIATT 254 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~~ 254 (930)
+.|+.+......... ....+....+.++.+ .++++|+ +.+...+..+++++++.|...++ ...++.+
T Consensus 146 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 146 EAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 888765210011111 112222234455543 3567766 45567778999999999986443 3344444
No 132
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=98.25 E-value=0.0002 Score=76.42 Aligned_cols=208 Identities=12% Similarity=0.061 Sum_probs=131.2
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
.||++.|- +..+-.....+++-+.++. |+++. +.++..+...-.+....++.+++++|| .|..+....
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR--------GFDLK--FADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWD 70 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc--------CCEEE--EeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccch
Confidence 38999984 4444445566666666652 45554 466666777777778888888888776 444443333
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCC--cCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~--~g~~~~~~~~~ 181 (930)
.....+.+.++|++......+.. ...+++.+..+++...+..+++++... |.++++++..+.. ......+.|++
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~~~--~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 71 PVLKEAKAAGIPVILVDRGVDVK--DDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHHHCCCCEEEEecCcCCc--cCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 44566778899999876532211 112467778888888899999998776 8899999975432 23345788999
Q ss_pred HHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 182 ~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
++++. +.++.... ... ....+....+.++... .+++|+ +.+...+..+++++++.|+..++-+-+.
T Consensus 149 ~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~aI~-~~~d~~a~g~~~a~~~~g~~ip~di~ii 218 (273)
T cd06309 149 VIKKYPNMKIVASQ--TGD--FTRAKGKEVMEALLKAHGDDIDAVY-AHNDEMALGAIQAIKAAGKKPGKDIKIV 218 (273)
T ss_pred HHHHCCCCEEeecc--CCc--ccHHHHHHHHHHHHHhCCCCccEEE-ECCcHHHHHHHHHHHHcCCCCCCCeEEE
Confidence 99987 45544221 111 1233334445555433 356543 4455566678899999998754444433
No 133
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.20 E-value=0.00036 Score=77.16 Aligned_cols=200 Identities=10% Similarity=0.011 Sum_probs=122.3
Q ss_pred CceEEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCCh
Q 002368 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSA 101 (930)
Q Consensus 24 ~~~I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S 101 (930)
...-+||++.|-. ..+-.....+++-++++. |+++.+...++..+...-......++++++++|| .|...
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~--------G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~ 115 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL--------GVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTP 115 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCCh
Confidence 3478999999874 334445567777777652 5655554333234555555667778888888776 45443
Q ss_pred hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc-----CCcEEEEEEec--CCcCcc
Q 002368 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-----GWGEVIAIFND--DDQGRN 174 (930)
Q Consensus 102 ~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-----~w~~vaii~~d--~~~g~~ 174 (930)
....... .+.+.++|++.+..... .+. .......++...+..+++++... |.++++++..+ ......
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3322333 46678999997633211 111 12335567777788888887665 47899999743 223334
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
..+.|.+.+++.|++++... .... ..+.-...++++.+. ++++|+ +....+..+++.+++.|+
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~~~---~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~ 254 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YGDN---DKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNL 254 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cCCC---cHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCC
Confidence 57889999998898876421 1111 123333445555433 467776 345667778899999997
No 134
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=98.19 E-value=3.1e-05 Score=83.44 Aligned_cols=117 Identities=20% Similarity=0.255 Sum_probs=76.8
Q ss_pred CCCCChHHhhhCCCeEEEEe-CchhH-----HHHHHhcCCCcc---ceEeCC-CHHHHHHHHHcCCcEEEEccchhhHHH
Q 002368 677 SPIKGIDTLMTSNDRVGYQV-GSFAE-----NYLIEELSIPKS---RLVALG-SPEEYAIALENRTVAAVVDERPYIDLF 746 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~-~s~~~-----~~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~ 746 (930)
.+|++++||. |.+|++.. ++... ..+.+..+.... +.+.+. +..+.+.+|.+|++|+.+.+...+..+
T Consensus 125 s~i~sl~DL~--Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~vDa~~~~~~~~~~~ 202 (288)
T TIGR03431 125 SPIKSLEDLK--GKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGTVDAATTNDENLDRM 202 (288)
T ss_pred CCCCcHHHhC--CCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCCCCeEeccHHHHHHH
Confidence 4689999995 88999863 33221 122233333211 123344 688999999999999999988877766
Q ss_pred Hhc-C----cceEEeCCccccCccEEEecCCC-c-chhHHHHHHHhccccccHHHH
Q 002368 747 LSD-H----CQFSVRGQEFTKSGWGFAFPRDS-P-LAIDMSTAILTLSENGELQRI 795 (930)
Q Consensus 747 ~~~-~----~~l~~~~~~~~~~~~~~~~~k~s-p-l~~~~n~~i~~l~e~G~~~~~ 795 (930)
..+ . .++.++...-.....+++++++. + +.+.+++++.++.+++..+++
T Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~ 258 (288)
T TIGR03431 203 IRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFE 258 (288)
T ss_pred HHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHH
Confidence 653 2 23454432111224578889994 3 999999999999999665544
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=98.17 E-value=0.00018 Score=76.42 Aligned_cols=207 Identities=10% Similarity=-0.001 Sum_probs=129.1
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
+||+++|-. ..+-.....+++-++++. |+.+.+. .+..++..-.+...++++.++++||=..+. ....
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~-~~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY--------KYNIILS--NSDNDKEKELKVLNNLLAKQVDGIIFMGGK-ISEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhcCCEEEEeCCC-CcHH
Confidence 478888763 334345566666666552 5666555 344566666677777887788887732111 1223
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC---CcCcchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~---~~g~~~~~~~~~~l 183 (930)
+...+...++|+|.+....+ ....++ ..+++...+..+++++...|.++++++..+. .++....+.|.+.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNELPS---VNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 45556678999998755322 122333 4556677778888988888999999998433 36777889999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCce-EEEEeC
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY-VWIATT 254 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~viv~~~~~~~~~~~~~~a~~~g~~~~~~-~~i~~~ 254 (930)
++.|+++.....+... .+.......+.++.+.. +++|+. .+...+..+++++++.|+..++. .+++.+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 9998764321111111 11223334556665544 677775 45555778999999999865443 344433
No 136
>PRK09701 D-allose transporter subunit; Provisional
Probab=98.14 E-value=0.00071 Score=73.72 Aligned_cols=213 Identities=10% Similarity=0.017 Sum_probs=129.4
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
+||++.|- +..+-.....|++-++++. |+++.+...+...+...-......++.+++++||- |..+....
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL--------GVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 79999986 3444445566666666552 56777655455567767777777888888887764 33333222
Q ss_pred HHHHhhhcCCCcEEEeecCCCC--CCCCCCCeEEEccCChHHHHHHHHHHHHH-cCC--cEEEEEEecC--CcCcchHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPT--LSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGW--GEVIAIFNDD--DQGRNGVTA 178 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~--ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w--~~vaii~~d~--~~g~~~~~~ 178 (930)
.....+.+.++|++.+....+. +....-....-+..++...+..+++++.. .|. ++++++..+. .......+.
T Consensus 98 ~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 98 MPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 2234446789999988644321 11111112334567777888888988755 464 7999886433 334556788
Q ss_pred HHHHHHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 179 LGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 179 ~~~~l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
|.+.+++.| +++....... ....+....+.++.+. ++++ |++.+...+..+++.+++.|.. .+...++.+
T Consensus 178 f~~al~~~~~~~~~~~~~~~----~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~d 250 (311)
T PRK09701 178 ATEAFKKASQIKLVASQPAD----WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGTD 250 (311)
T ss_pred HHHHHHhCCCcEEEEecCCC----CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEeC
Confidence 999999887 7664322111 1123334455555433 3565 4466667788899999999975 343344444
No 137
>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=98.13 E-value=0.00055 Score=74.30 Aligned_cols=208 Identities=9% Similarity=0.053 Sum_probs=122.8
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
+||++.|.. ..+-.....+++-++++. + .| +.+.+.+...++..-.....+++.+++.+|| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~---~---~g--~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN---G---GK--VEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh---C---CC--eeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 589999853 444445667777777775 1 13 4455667777888777778888888888766 455444334
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCc---------E--EEEEEecC--C
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWG---------E--VIAIFNDD--D 170 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~---------~--vaii~~d~--~ 170 (930)
.+...+...++|+|......+...-...+-+..+.+++...+..+++++... |-+ + ++++..+. .
T Consensus 73 ~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 73 TVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 5556667789999987653221111111223445667776777777877553 222 2 34454332 2
Q ss_pred cCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 171 QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 171 ~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
......+.|.+.+++.|..+......... .+.+.....++++... ++++|+. .+...+..+++++++.|...+
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 23445678999999888765322222212 1233333455555433 2565444 455566778899999887654
No 138
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=98.10 E-value=0.00026 Score=75.25 Aligned_cols=208 Identities=10% Similarity=0.037 Sum_probs=130.1
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|-. ..+-.....|++-++++. |+++ .+.++..++..-.....+++++++++||...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTV--FLANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 378998863 444556778888777763 4555 34566667777677778888889998887554433334
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~ 184 (930)
....+...++|+|......+ +...+| ..+++...+..+++++...|.++|+++..+. .......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAPFDY---VGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCCCCE---EeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 55667788999998754322 122232 4456666778888888888999999997432 345567799999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCce-EEEEeC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGY-VWIATT 254 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~-~~i~~~ 254 (930)
+.|..+.....++.. .+.......+.++... ++++|+. .+...+..+++++++.|+..++- ..++.+
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIVC-FNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 888542211111111 1123333445555433 4566553 44555667899999999864433 334433
No 139
>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=98.09 E-value=0.00068 Score=72.67 Aligned_cols=213 Identities=8% Similarity=-0.029 Sum_probs=122.3
Q ss_pred EEeEEeecC--CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC--ChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF--NGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l~--~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~--~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
|||+++|-. ..+-.....+++-++++ .|+++.+...++.. ++..-......+++++|++||=...+..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~ 72 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEE--------LNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLR 72 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHH--------cCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchh
Confidence 589999863 22323334444444443 15677776554433 5555566667788888888774322222
Q ss_pred HHHHHHhhhcCCCcEEEeec-CCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH--cCCcEEEEEEec-CCcCcchHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTA-LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFND-DDQGRNGVTAL 179 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a-~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~--~~w~~vaii~~d-~~~g~~~~~~~ 179 (930)
.......+.+.++|.+.... ..+.......+.+-...+++..-+..+++++.. .|.++++++... ...+....+.|
T Consensus 73 ~~~~~~~l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf 152 (280)
T cd06303 73 HRKLIERVLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTF 152 (280)
T ss_pred hHHHHHHHHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHH
Confidence 22223334456777665522 222100000122334566777777888888877 899999999753 23344567889
Q ss_pred HHHHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 180 GDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 180 ~~~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
.+++++. |+++... +... .+..+....+.++.+.. +++|+ +.+...+..+++++++.|+. .+...++-+
T Consensus 153 ~~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~d 224 (280)
T cd06303 153 IDCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGWG 224 (280)
T ss_pred HHHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEecC
Confidence 9999988 7664332 2222 22334444556655443 45544 56667777899999999985 444444444
No 140
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.08 E-value=0.0011 Score=70.84 Aligned_cols=212 Identities=9% Similarity=-0.013 Sum_probs=127.3
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~a 106 (930)
||++.|- +..+-.....+++-+.++....+ .| +.+.+.+...++.........++.+++++|| .|........
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 7888864 34444566778887777764433 13 4566677777776666666668877887766 3443333333
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CcCcchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~~~~~l 183 (930)
....+.+.+||++.+....+ ... .......+++...+..+++++... |.++++++.... .......+.|.+.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 34556778999998754321 111 112235666677788888887765 889999997433 22344568899999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
++.|++++.. .... .+.......+.++... ++++|+. .+...+..++.++++.|.. .+...++.++
T Consensus 153 ~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~-~~~~ivg~d~ 220 (274)
T cd06311 153 AKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT-DIKFVVGGAG 220 (274)
T ss_pred hhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC-CCceEEEeCC
Confidence 9989766532 2211 1223333445554333 3566544 3445567888999998875 2334444443
No 141
>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=98.06 E-value=0.00038 Score=73.56 Aligned_cols=201 Identities=13% Similarity=0.047 Sum_probs=130.2
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
||+++|- +..+-.....+++.++++. |+++.+ .++..++..-....++|+.++++++|...... ...+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~-~~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN--------GYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTI-TDEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHH
Confidence 7888875 3445556778888777662 566644 45666777777778888888898888643332 2345
Q ss_pred HHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec-C--CcCcchHHHHHHHHH
Q 002368 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-D--DQGRNGVTALGDKLA 184 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d-~--~~g~~~~~~~~~~l~ 184 (930)
...+.+.++|+|......+ ..+ .+..+....+..+++++...|.++++++... . ..++...+.|++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~-----~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP-----GIS---SVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC-----CCC---EEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 5666777999998754221 222 3456677778889999888899999999643 2 233456788999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEe
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 253 (930)
+.|........-.. +.......+.++.+.. +++|+... ...+..+++.+++.|+..++-+.+.+
T Consensus 143 ~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 143 EHGICPPNIVETDF----SYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HcCCChHHeeeccC----chhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 98871111111111 1233344555555444 67766555 55677899999999987655555543
No 142
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=98.05 E-value=0.00075 Score=73.98 Aligned_cols=210 Identities=13% Similarity=0.107 Sum_probs=138.5
Q ss_pred CCCceEEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccC
Q 002368 22 LKPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQ 99 (930)
Q Consensus 22 ~~~~~I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~ 99 (930)
+++...+||++.+.. ..+-.....|++-+.++. |....+...|.+.++..-++...+++.+++++|+ .|.
T Consensus 29 a~~~~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~--------g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~ 100 (322)
T COG1879 29 AAAAGKTIGVVVPTLGNPFFQAVRKGAEAAAKKL--------GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPV 100 (322)
T ss_pred HhccCceEEEEeccCCChHHHHHHHHHHHHHHHc--------CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCC
Confidence 444458899998875 334445566666666554 3366788889999999999999999989987766 788
Q ss_pred ChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-cCC-cEEEEEEec--CCcCcch
Q 002368 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGW-GEVIAIFND--DDQGRNG 175 (930)
Q Consensus 100 ~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w-~~vaii~~d--~~~g~~~ 175 (930)
.+........-+...+||+|.+....+.- .........+....+...++++.+ ++- -+++++... .......
T Consensus 101 d~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R 176 (322)
T COG1879 101 DPDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEER 176 (322)
T ss_pred ChhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHH
Confidence 99889999999999999999986654332 112233333555556666777554 432 346666633 4445557
Q ss_pred HHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHHHHcCCCC
Q 002368 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGMMD 245 (930)
Q Consensus 176 ~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~~~~a~~~g~~~ 245 (930)
.+.+++.+++.+.++........+ .+.+.-......+....||+-.+++.. ..+.-..+.+++.|...
T Consensus 177 ~~G~~~~l~~~~~~~~v~~~~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 177 VKGFRDALKEHPPDIEVVDVQTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HhhHHHHHHhCCCcEEEeeccCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 889999999987532222222222 224445566777777888877766554 44445556777788754
No 143
>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=98.04 E-value=0.00051 Score=72.89 Aligned_cols=198 Identities=8% Similarity=-0.008 Sum_probs=123.4
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
||++.|-. ..+-.....+++-|+++. |+++ .+.|+..++.........++..+|++||......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~--------g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA--------GYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc--------CCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 78888864 334445567777777662 5555 4567777877776667777777899888633222221 2
Q ss_pred HHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHHHHHHh
Q 002368 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLAE 185 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~~~l~~ 185 (930)
.... ..++|+|..+...+ . +.+.....++...+..+++++...|.++++++..+ +..+....+.|.+.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2233 45999997643211 1 22233556677778888899888899999999754 34566678899999999
Q ss_pred cCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 186 ~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
.|+++......... .+.++....+.++.+. .+++|+.. +...+..+++++++.|+..++
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 88653221111111 1133344455555433 46776665 445577889999999976433
No 144
>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=98.03 E-value=0.001 Score=70.89 Aligned_cols=208 Identities=11% Similarity=0.125 Sum_probs=127.1
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
+||++.|- ...+-.....+++-+.++- + |+++. +.++..++..-......++.+++++|| .|.......
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~---~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY---P----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc---C----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 58899874 3444445566665555542 1 45554 456666777667777778887777665 333333223
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCCc--CcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~~--g~~~~~~~~~ 181 (930)
.....+.+.++|++.+....+ +. .+...+..++...+..+++++.+. |.++++++..+... .....+.+.+
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 334445678999998754221 11 223345667777788888887775 89999999743322 3345788999
Q ss_pred HHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 182 ~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
.+++. |+++.... .. . ....+....+.++.+ .++++| ++.+...+..+++.+++.|+. .+...++.|.
T Consensus 147 ~l~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQ-DG-D--WLKEKAEEKMEELLQANPDIDLV-YAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEec-CC-C--ccHHHHHHHHHHHHHhCCCCcEE-EeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 99998 88765322 11 1 112233334455433 346754 445666777899999999987 5555555554
No 145
>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=97.99 E-value=0.00066 Score=72.08 Aligned_cols=200 Identities=12% Similarity=0.054 Sum_probs=122.8
Q ss_pred EeEEeecC-----CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCChh
Q 002368 29 VGAIFSFG-----TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (930)
Q Consensus 29 IG~~~~l~-----~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~S~ 102 (930)
||+++|-. ..+-.....+++.++++ .|+++.+...++. ....+.+.+++.+ ++++||...+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE--------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH--------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78998852 44555566777666655 2567766655443 2334556677654 788888643332
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALG 180 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~ 180 (930)
.. .....+.+.++|+|.+....+ +..++++ .+++...+..+++++...|.++++++.... ..+....+.|.
T Consensus 71 ~~-~~~~~~~~~~ipvV~~~~~~~---~~~~~~V---~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DD-PRVALLLERGFPFVTHGRTEL---GDPHPWV---DFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CC-hHHHHHHhcCCCEEEECCcCC---CCCCCeE---eeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 22 223456678999998754322 2234443 356667778888888888999999997443 23445678899
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
+.+++.|..+.....+... .+.......+.++.+. .+++|+.. +...+..+++++++.|+..++.+
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i 211 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDV 211 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcce
Confidence 9999988764221122211 1233334455555433 36776665 45667788999999998655433
No 146
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.98 E-value=0.00049 Score=73.27 Aligned_cols=201 Identities=9% Similarity=-0.018 Sum_probs=125.8
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|- ...+-.....+++.++++. |+.+ .+.++..++.........+.+.+|++||--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA--------GYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 48999985 3455456677887777762 5554 45577777777777777788778888875322222344
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~l~ 184 (930)
+...+.+.++|++......+ ...++ ...++..-+..+++.+...|.++++++..... .+......|.++++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~----~~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG----GGADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC----CCCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 55667778999998765432 12233 34455555577778877789999999975322 23455688999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
+.|+.+.....+... . .......+.++.+ ..+++|+ +.+...+..+++++++.|+..++-+
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 988764211111111 1 1222334555543 3468876 4455666788999999998654433
No 147
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.97 E-value=0.0014 Score=71.89 Aligned_cols=204 Identities=9% Similarity=-0.006 Sum_probs=126.9
Q ss_pred CCCceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cC
Q 002368 22 LKPEVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQ 99 (930)
Q Consensus 22 ~~~~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~ 99 (930)
++++..+||++.|- ++.+-.....|++-++++. |+.+. +.++..++..-.+....+++++|++||= |.
T Consensus 21 ~~~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~--------g~~l~--i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~ 90 (330)
T PRK10355 21 AHAKEVKIGMAIDDLRLERWQKDRDIFVKKAESL--------GAKVF--VQSANGNEETQMSQIENMINRGVDVLVIIPY 90 (330)
T ss_pred ccCCCceEEEEecCCCchHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 34568999999985 4556666777777777663 45555 4566667777777777888888887763 33
Q ss_pred ChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec---CCcCcchH
Q 002368 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGV 176 (930)
Q Consensus 100 ~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~ 176 (930)
...........+...++|+|...... .+.. ......+++...+..+++++...|.++++++... ...+....
T Consensus 91 ~~~~~~~~l~~~~~~~iPvV~id~~~---~~~~--~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~ 165 (330)
T PRK10355 91 NGQVLSNVIKEAKQEGIKVLAYDRMI---NNAD--IDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFR 165 (330)
T ss_pred ChhhHHHHHHHHHHCCCeEEEECCCC---CCCC--ccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHH
Confidence 22222344456678899999874432 1111 2234667888889999999988888887765432 22334556
Q ss_pred HHHHHHHHhc---C-cEEEEEEecCCCCCCChhHHHHHHHHHhc---CCceEEEEEcchhhHHHHHHHHHHcCCC
Q 002368 177 TALGDKLAEI---R-CKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (930)
Q Consensus 177 ~~~~~~l~~~---g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~viv~~~~~~~~~~~~~~a~~~g~~ 244 (930)
+.+++.+++. | +++....... . ....+-...++++.. ..+++ |++.+...+..+++.++++|+.
T Consensus 166 ~gf~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 166 AGQMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDA-VVASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchHHHHHHHHHHCCCC
Confidence 7888888764 4 4442221111 1 112233344455432 24675 4455666677899999999975
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=97.96 E-value=0.0016 Score=70.18 Aligned_cols=215 Identities=11% Similarity=0.037 Sum_probs=126.2
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
+||++.|.. ..+-.....+++.+.++. |+++. +.++. ++..-.....+++..++++||= |..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK--------GFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc--------CCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 588888853 444456677888877762 56654 45555 6666666677788778877763 33333445
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHH----HcCC--cEEEEEE-e--cCCcCcchH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS----YFGW--GEVIAIF-N--DDDQGRNGV 176 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~----~~~w--~~vaii~-~--d~~~g~~~~ 176 (930)
.....+.+.++|+|.+....+.......+.+-....+....+..+++++. ..|+ ++++++. . +........
T Consensus 70 ~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~ 149 (289)
T cd01540 70 AIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRT 149 (289)
T ss_pred HHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHH
Confidence 55667788999999875432211100112223344566666666666544 3566 7888875 2 223456678
Q ss_pred HHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceE-EEEEcchhhHHHHHHHHHHcCCCCCceEEEEe
Q 002368 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (930)
Q Consensus 177 ~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~v-iv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 253 (930)
+.+++.+++.|+........+... .+.+.....++++.... ++. .+++.+...+..+++.+++.|+...+...++.
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~ 228 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGI 228 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEec
Confidence 899999998887532111111110 01122233445554443 443 56667777788899999999987434444444
Q ss_pred C
Q 002368 254 T 254 (930)
Q Consensus 254 ~ 254 (930)
+
T Consensus 229 d 229 (289)
T cd01540 229 N 229 (289)
T ss_pred C
Confidence 4
No 149
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.96 E-value=0.002 Score=70.86 Aligned_cols=210 Identities=10% Similarity=0.026 Sum_probs=118.6
Q ss_pred CCCceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cC
Q 002368 22 LKPEVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQ 99 (930)
Q Consensus 22 ~~~~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~ 99 (930)
....+..||++.|- +..+-.....+++-+.++. | +. .+++.++..++.........++.++|++||= |.
T Consensus 20 ~~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~---g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~ 90 (330)
T PRK15395 20 AAAADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA---P----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLV 90 (330)
T ss_pred hhcCCceEEEEEecCcchHHHHHHHHHHHHHHhc---C----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecc
Confidence 45567899999974 3333345556666665553 2 23 4445666666666666667788878887773 33
Q ss_pred ChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc------------CCcEEEEEEe
Q 002368 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------------GWGEVIAIFN 167 (930)
Q Consensus 100 ~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------------~w~~vaii~~ 167 (930)
.+.........+...++|+|.+....+.-.-...+-......++...+..+++++... |-.++++|..
T Consensus 91 ~~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g 170 (330)
T PRK15395 91 DPAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKG 170 (330)
T ss_pred CHHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEec
Confidence 3333344445567789999998653211000111212234556666666656654432 3334455543
Q ss_pred c--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC----CceEEEEEcchhhHHHHHHHHHHc
Q 002368 168 D--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFDVAQRL 241 (930)
Q Consensus 168 d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~----~~~viv~~~~~~~~~~~~~~a~~~ 241 (930)
. ..........+.+++++.|+.+.... ...+. .+.++....+.++.+. ++++|+ +++...+..+++.+++.
T Consensus 171 ~~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~~-~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~A~gvl~al~~~ 247 (330)
T PRK15395 171 EPGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTAM-WDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAMAMGAVEALKAH 247 (330)
T ss_pred CCCCchHHHHHHHHHHHHHhcCCCeeeee-cccCC-cCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchHHHHHHHHHHhc
Confidence 2 22334457889999999988654322 21110 1223333455565433 356555 55666778899999999
Q ss_pred CC
Q 002368 242 GM 243 (930)
Q Consensus 242 g~ 243 (930)
|+
T Consensus 248 Gl 249 (330)
T PRK15395 248 NK 249 (330)
T ss_pred CC
Confidence 97
No 150
>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=97.94 E-value=0.0024 Score=68.14 Aligned_cols=197 Identities=11% Similarity=0.094 Sum_probs=123.3
Q ss_pred CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHHHHHHhhhcCCC
Q 002368 38 VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQV 116 (930)
Q Consensus 38 ~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~av~~~~~~~~v 116 (930)
.+-.....+++-+.++. |+++. +.++..++..-......++.+++++||= |..+.........+.+.++
T Consensus 12 ~f~~~~~~gi~~~~~~~--------G~~~~--~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 12 TWCAQGKQAADEAGKLL--------GVDVT--WYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred hHHHHHHHHHHHHHHHc--------CCEEE--EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 33344556666665551 55555 4566678888888888899888877664 4444434444455667799
Q ss_pred cEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCC--cCcchHHHHHHHHHhcC-cEEE
Q 002368 117 PLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGDKLAEIR-CKIS 191 (930)
Q Consensus 117 p~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~--~g~~~~~~~~~~l~~~g-~~i~ 191 (930)
|+|.+....+ ....+.+....+++...+..+++++... |.++++++..+.. ......+.|.+.+++.+ .++.
T Consensus 82 PvV~~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~ 158 (272)
T cd06313 82 PVIDMGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVV 158 (272)
T ss_pred cEEEeCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEE
Confidence 9998755332 1111233456677788888999988776 8899999975432 23456789999999875 6554
Q ss_pred EEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 192 YKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 192 ~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
.. .... .+.......+.++.+.+ +++ +++.+...+..+++.+++.|+ .+...++-+
T Consensus 159 ~~--~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 159 DE--QPAN--WDVSKAARIWETWLTKYPQLDG-AFCHNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred ec--cCCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 31 1211 22333445566654443 455 444556677788999999997 444444433
No 151
>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=97.93 E-value=0.0013 Score=72.50 Aligned_cols=201 Identities=8% Similarity=0.030 Sum_probs=126.0
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCCh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV--GPQSA 101 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~S 101 (930)
..-.||+++|- +..+-.....+++-++++ .|+++.+. ++..++..-......+.+.++++|| ++..+
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~ 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 45689999985 344444556666665554 15666544 4444555555556667777888776 43222
Q ss_pred hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--C-cCcchHHH
Q 002368 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--D-QGRNGVTA 178 (930)
Q Consensus 102 ~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~-~g~~~~~~ 178 (930)
..+...+.+.++|++......+ ...+++ ...++...+..+++++...|.++++++..+. . .+....+.
T Consensus 128 ---~~~~~~l~~~~iPvV~~~~~~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~G 198 (329)
T TIGR01481 128 ---EKLREEFSRSPVPVVLAGTVDK---ENELPS---VNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEG 198 (329)
T ss_pred ---hHHHHHHHhcCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHH
Confidence 2344556677999998754321 122333 4456666677788888889999999996432 2 24667889
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
|.+++++.|+.+......... ....+....+.++.+.+|++|+. .+...+..+++++++.|+..++
T Consensus 199 f~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~ 264 (329)
T TIGR01481 199 YKEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPE 264 (329)
T ss_pred HHHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 999999999765322111111 11233345566666667887665 4556788899999999986544
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=97.92 E-value=0.0011 Score=70.44 Aligned_cols=201 Identities=9% Similarity=0.012 Sum_probs=123.5
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
||++.|-. ..+-.....+++-++++. |+.+.+ .++..++..-.+...+++.+++++||--..... ...
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~ 70 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAA--------GYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ERT 70 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHc--------CCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHH
Confidence 78999863 333344556776666652 555544 555556666666777888888888774222212 233
Q ss_pred HHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHHh
Q 002368 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAE 185 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~~ 185 (930)
...+...++|++......+ .. .......+....+..+++++...|.++++++..+. .......+.|.+.+++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~---~~---~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~ 144 (268)
T cd01575 71 RQLLRAAGIPVVEIMDLPP---DP---IDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRA 144 (268)
T ss_pred HHHHHhcCCCEEEEecCCC---CC---CCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHH
Confidence 4455677999998743221 11 12234556677788888998889999999998653 3445567889999999
Q ss_pred cCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 186 ~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
.|............ .........+.++.+. ++++|+. .+...+..+++.+++.|...++.+
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di 207 (268)
T cd01575 145 AGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDI 207 (268)
T ss_pred cCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcce
Confidence 88643221111111 1133344555665443 4676554 455567789999999997644444
No 153
>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=97.92 E-value=0.0018 Score=68.80 Aligned_cols=196 Identities=11% Similarity=-0.033 Sum_probs=122.2
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
+||++.|- ...+-.....+++.++++. |+++.+...+...+...-......+++.++++||= |.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHH
Confidence 58999985 3444455667887777753 45555432222234555556777788888887763 33322222
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCC-----cEEEEEEec--CCcCcchHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW-----GEVIAIFND--DDQGRNGVTA 178 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w-----~~vaii~~d--~~~g~~~~~~ 178 (930)
....+...++|+|......+ +. ........++...+..+++++.+.+. ++++++... ....+...+.
T Consensus 73 -~~~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g 146 (268)
T cd06306 73 -EILQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKG 146 (268)
T ss_pred -HHHHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHH
Confidence 23446778999998643211 11 12234566777778888898877776 899999753 3345566788
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
|.+++++.|++++... ... .+.+.-...++++.+. ++++|+. . ...+..+++.+++.|+
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~-d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 147 FRDALAGSAIEISAIK--YGD--TGKEVQRKLVEEALEAHPDIDYIVG-S-AVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHhhcCcEEeeec--cCC--ccHHHHHHHHHHHHHhCCCcCEEee-c-chhhhHHHHHHHhcCC
Confidence 9999999998876421 111 1233344555555433 4677764 3 6777888999999997
No 154
>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=97.91 E-value=0.002 Score=68.55 Aligned_cols=206 Identities=9% Similarity=-0.014 Sum_probs=126.0
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
+||+++|-. ..+=.....+++-+.++. |..+.+.+.++..++..-......++++++++|| .|.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 489999863 334445567777777764 2334556667777777666677777787777664 444333223
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CcCcchHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALGDK 182 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~~~~~ 182 (930)
.....+.+.++|+|......+ + .. ..+..++...+..+++++... |.++++++.... .......+.+.+.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~-~~---~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G-AD---ATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C-cc---ceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333455677999999855332 1 11 235667777788888888777 999999997542 2234556888999
Q ss_pred HHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 183 l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+++. +++..... .... .+...-...+.++.+. ++++|+. .+...+..+++++++.|+ .+..+++.+
T Consensus 146 ~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEeee-cCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 9987 66533211 2111 1122222345555433 4576544 455567788999999997 344455544
No 155
>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=97.90 E-value=0.0011 Score=70.74 Aligned_cols=206 Identities=10% Similarity=0.011 Sum_probs=137.2
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|-- .++-.....|++-++++ .|+.+-+ .++..++..- +....|.+++|++||=.........
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~--------~Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~ 71 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEARE--------HGYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEE 71 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHH--------TTCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHH--------cCCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHH
Confidence 699999985 44445667777777776 2676655 4555666665 6666777778888874322222345
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcE-EEEEEecCCc--CcchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGE-VIAIFNDDDQ--GRNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~-vaii~~d~~~--g~~~~~~~~~~l 183 (930)
+..+.+. ++|+|......... ..+|++. .++..-+..+++++...|.++ ++++..+... ++...+.+.+++
T Consensus 72 l~~~~~~-~iPvV~~~~~~~~~--~~~~~V~---~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 72 LRRLIKS-GIPVVLIDRYIDNP--EGVPSVY---IDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHHHT-TSEEEEESS-SCTT--CTSCEEE---EEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHc-CCCEEEEEeccCCc--ccCCEEE---EcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 5666666 99999865442111 2345554 346666778888999999999 9999976443 455677899999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceE-EEEEcchhhHHHHHHHHHHcC-CCCCceEEEE
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLG-MMDSGYVWIA 252 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-iv~~~~~~~~~~~~~~a~~~g-~~~~~~~~i~ 252 (930)
++.|+++......... .+.++-...++++.+.+|++ .+++++...|...++.+++.| +..++-+-+.
T Consensus 146 ~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di~~~ 214 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDIVSG 214 (279)
T ss_dssp HHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEEEEC
T ss_pred HHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhheee
Confidence 9999965544333322 23455556677787777772 355667778888999999999 7766655333
No 156
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.89 E-value=0.0031 Score=66.89 Aligned_cols=194 Identities=15% Similarity=0.085 Sum_probs=121.0
Q ss_pred EeEEeecCC-CcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHHH
Q 002368 29 VGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l~~-~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~a 106 (930)
||++.|-.. .+-.....+++-+.++ .|+++ .+.++..++....+...+++++++++||- |..+.....
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK--------QKVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh--------cCCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 788888642 2333455666666554 14544 45677778877778888888888888875 443333333
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CcCcchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~~~~~l 183 (930)
....+.+.++|+|.+....+ ..+.+....+++...+..+++++... |.+++++++..+ .......+.|++++
T Consensus 72 ~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~ 146 (267)
T cd06322 72 AIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEAL 146 (267)
T ss_pred HHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHH
Confidence 44556778999998753211 11223346666667777888887765 889999997432 22344568899999
Q ss_pred Hhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 184 AEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 184 ~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
++. |+++... ... ...+.....+.++... ++++|+ +.+...+..+++++++.|.
T Consensus 147 ~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAV---QPG--ITRAEALTAAQNILQANPDLDGIF-AFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEe---cCC--CChHHHHHHHHHHHHhCCCCCEEE-EcCCcHHHHHHHHHHHCCC
Confidence 998 8876422 111 1123333345555433 456544 4445566778899999997
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=97.88 E-value=0.0012 Score=70.49 Aligned_cols=204 Identities=11% Similarity=0.045 Sum_probs=118.5
Q ss_pred EEEeEEeec--------CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEc
Q 002368 27 LNVGAIFSF--------GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVG 97 (930)
Q Consensus 27 I~IG~~~~l--------~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li-~~~v~aiiG 97 (930)
=.||++.|. +..+-.....|++-++++. |+++.+...+.. . ...+.+++ .+++++||=
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~v~~~~~~----~-~~~~~~~l~~~~~dgiii 70 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAER--------GYDLLLSFVSSP----D-RDWLARYLASGRADGVIL 70 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHHc--------CCEEEEEeCCch----h-HHHHHHHHHhCCCCEEEE
Confidence 368999985 2233344455565554442 567766544432 1 12334444 457887762
Q ss_pred -cCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcc
Q 002368 98 -PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRN 174 (930)
Q Consensus 98 -p~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~ 174 (930)
|.... . .....+...++|++.++...+. ..++ ...+++...+..+++++...|.++++++..+. ..+..
T Consensus 71 ~~~~~~-~-~~~~~~~~~~ipvV~~~~~~~~---~~~~---~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~ 142 (275)
T cd06295 71 IGQHDQ-D-PLPERLAETGLPFVVWGRPLPG---QPYC---YVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEE 142 (275)
T ss_pred eCCCCC-h-HHHHHHHhCCCCEEEECCccCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHH
Confidence 22222 2 2345567889999987553321 2233 35566777788888998888999999997543 23445
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE-EE
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV-WI 251 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~-~i 251 (930)
..+.|.+.+++.|+.+......... .+.......+.++... ++++|+... ...+..+++.+++.|...++-+ .+
T Consensus 143 r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~-~~~a~g~~~~l~~~g~~ip~~i~ii 219 (275)
T cd06295 143 RLEGYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAAS-DLMALGALRALREAGRRVPEDVAVV 219 (275)
T ss_pred HHHHHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEECC-cHHHHHHHHHHHHhCCCCccceEEE
Confidence 6788999999888543321111111 1133334455555443 357666553 4556778899999997543333 44
Q ss_pred EeC
Q 002368 252 ATT 254 (930)
Q Consensus 252 ~~~ 254 (930)
+.+
T Consensus 220 ~~d 222 (275)
T cd06295 220 GFD 222 (275)
T ss_pred eeC
Confidence 434
No 158
>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=97.87 E-value=0.0027 Score=69.04 Aligned_cols=210 Identities=18% Similarity=0.137 Sum_probs=129.3
Q ss_pred EeEEeecC--CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEc-cCChhh
Q 002368 29 VGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAIVG-PQSAVM 103 (930)
Q Consensus 29 IG~~~~l~--~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~--~v~aiiG-p~~S~~ 103 (930)
||+++|-. ..+-.....+++.++++. |+++.+. ++..+...-....+.++++ +|++||= |... .
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~--------g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~ 70 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL--------GIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKS-V 70 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc--------CCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-c
Confidence 78888764 334445566777776652 5665554 5666777777788889998 8988763 3322 2
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCC-----C--CCC-CeEEEccCChHHHHHHHHHHHHHcCCcE--------EEEEEe
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLS-----P--LQY-PFFVQTAPNDLYLMSAIAEMVSYFGWGE--------VIAIFN 167 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls-----~--~~~-~~~fr~~p~~~~~~~ai~~~l~~~~w~~--------vaii~~ 167 (930)
.......+.+.++|++.+....+... . ..+ +++-...+++...+..+++.+...|.++ ++++..
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 33344567778999998865432211 0 111 2344567788888888999988877664 777763
Q ss_pred c--CCcCcchHHHHHHHHHhcC-cEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcC
Q 002368 168 D--DDQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLG 242 (930)
Q Consensus 168 d--~~~g~~~~~~~~~~l~~~g-~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g 242 (930)
+ ........+.|++++++.| ..+.. ..... .........+.++.+. ++++|+ +.+...+..+++++++.|
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 3 2233456788999999887 44322 12212 1233344455565443 467655 556667788999999999
Q ss_pred CCCCc-eEEEEeC
Q 002368 243 MMDSG-YVWIATT 254 (930)
Q Consensus 243 ~~~~~-~~~i~~~ 254 (930)
+..++ ...++.+
T Consensus 226 ~~vp~di~vig~D 238 (305)
T cd06324 226 RKPGRDVLFGGVN 238 (305)
T ss_pred CCcCCCEEEEecC
Confidence 86543 3344433
No 159
>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=97.87 E-value=0.0011 Score=70.42 Aligned_cols=203 Identities=12% Similarity=0.044 Sum_probs=126.4
Q ss_pred EEeEEeecC--CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHH
Q 002368 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~--~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~ 105 (930)
.||+++|-. ..+-.....+++.++++. |+.+. +.++..++..-......+...++++||-........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH--------GYLLL--VVNTGGDDELEAEAVEALLDHRVDGIIYATMYHREV 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChh
Confidence 389999873 455556677777777662 55554 445555555555666677777888887644322211
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKL 183 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~l 183 (930)
.......++|++......+. ..++ .+.+++...+..+++++...|.++++++..+.. ......+.|.+.+
T Consensus 71 --~~~~~~~~ipvv~~~~~~~~---~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 --TLPPELLSVPTVLLNCYDAD---GALP---SVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred --HHHHHhcCCCEEEEecccCC---CCCC---eEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 22335578999987543321 2223 355677777888999888889999999985432 3345678899999
Q ss_pred HhcCcEEEE--EEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEe
Q 002368 184 AEIRCKISY--KSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (930)
Q Consensus 184 ~~~g~~i~~--~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~ 253 (930)
++.|+++.. ....+.. ..+....++++.+. ++++|+. .+...+..+++++++.|+..++-+.+.+
T Consensus 143 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 143 AEAGIPFDPDLVVHGDWS----ADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHcCCCCCHHHeEeCCCC----hHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 998865321 1111211 23334445666544 3677644 5556677899999999986544444443
No 160
>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=97.86 E-value=0.0028 Score=68.18 Aligned_cols=199 Identities=10% Similarity=0.077 Sum_probs=122.0
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
.||+++|- +..+-.....+++-++++. |+.+. +.++..++..-.+..++++.+++++|| .|..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL--------GAEVI--VQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc--------CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHH
Confidence 48999985 3444445566777666652 45544 566777787777788888888888777 343333334
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc------CCcEEEEEEecCC--cCcchHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDDD--QGRNGVT 177 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~------~w~~vaii~~d~~--~g~~~~~ 177 (930)
.....+...++|+|......+. ....+. +..++...+..+++++... |.++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~~---~~~~~~--v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLILN---SNVDYY--VSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCCC---CCcceE--EEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 4555567789999987654321 122222 3445566677777776665 8899999975432 2334568
Q ss_pred HHHHHHHhcC----cEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCC
Q 002368 178 ALGDKLAEIR----CKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMD 245 (930)
Q Consensus 178 ~~~~~l~~~g----~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~viv~~~~~~~~~~~~~~a~~~g~~~ 245 (930)
.|.+++++.| +++... .+... .+...-...+.++.+. ++++|+.. +...+..++.++++.|+..
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 8899999887 554332 11211 1122333445555433 35555444 4566777899999999764
No 161
>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=97.86 E-value=0.0016 Score=69.12 Aligned_cols=206 Identities=9% Similarity=-0.034 Sum_probs=125.8
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||++.|-. ..+-.....+++-+.++. |+++. +.++..++..-.+....+..+++++||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ--------GYNLI--LCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 388998863 455566777887777762 55554 4566667777677777888887776663222222222
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~~~l~ 184 (930)
+..+....++|++......+ +..+++ ...++...+..+++++...|.++++++... +.......+.|.+.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23333456999998754322 122333 345666667888888888899999999743 2334456788999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.|+++......... .+.......++++.+. .+++|+ +.+...+..+++.+++.|...++-+-+.
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 145 EAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAVF-CGNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred HcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEEE-ECChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 888765321111111 1123344556666544 356544 4456667788899999997644444433
No 162
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.85 E-value=0.0017 Score=68.92 Aligned_cols=205 Identities=12% Similarity=0.047 Sum_probs=123.6
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|.. +.+-.....+++-++++. |+.+.+ .++..++..-......++..++++||=-.......
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~- 69 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTII--GNSDENPETENRYLDNLLSQRVDGIIVVPHEQSAE- 69 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChH-
Confidence 489999853 444456677887777663 455554 45555666556666777777888777422222232
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~ 184 (930)
....+.+.++|+|......+ ...++++ ..++...+..+++++...|.++|+++.... .......+.|.++++
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 70 QLEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred HHHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 34555678999998765322 2334444 234444455666777778999999996433 334455678999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.|+++......... ....+....+.++.+.++++|+. .+...+..+++.+++.|+..++-+.+.
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 988543211111111 11233344566665555887554 555667788999999998654433333
No 163
>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=97.84 E-value=0.0022 Score=68.07 Aligned_cols=204 Identities=9% Similarity=0.013 Sum_probs=125.4
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||++.|-. ..+-.....+++-|+++. |+.+. +.++..++..-.....+++..++++||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~--------g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH--------GYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc--------CCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 378898864 444456677777777762 45553 4556566766667777888888877773222222222
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC-c-C-cchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-Q-G-RNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~-~-g-~~~~~~~~~~l 183 (930)
...+...++|+|.+....+ ....++ ...++...+..+++++...|.++++++..... + . +.....|.+.+
T Consensus 71 -l~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 -YQRLAKNGKPVVLVDRKIP---ELGVDT---VTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred -HHHHhcCCCCEEEEcCCCC---CCCCCE---EEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3445678999998754322 122233 33566667888889988889999999975432 2 1 35668899999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEE
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i 251 (930)
++.|............ .+..+....+.++.+.. +++|+.. +...+..+++.+++.|+..++-+-+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v 210 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGL 210 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEE
Confidence 9887532221111111 11344556667765543 5665554 4555677899999999865443333
No 164
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.83 E-value=0.0017 Score=68.74 Aligned_cols=191 Identities=11% Similarity=0.022 Sum_probs=117.6
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
||++.|.. ..+-.....+++-++++. |+++.+...|+ +. ...+...+++.++|++||--.+.... ..
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQAR--------GYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSS-EL 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHC--------CCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCH-HH
Confidence 78888863 444445566665555542 57776665554 22 33345567777788887753332222 33
Q ss_pred HHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHHh
Q 002368 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAE 185 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~~ 185 (930)
...+.+.++|+|......+ +. .+....+++...+..+++++...|.++++++..+. .......+.|.+.+++
T Consensus 70 ~~~~~~~~ipvV~~~~~~~---~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 70 AEECRRNGIPVVLINRYVD---GP---GVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHHHhhcCCCEEEECCccC---CC---CCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 5566778999998754322 11 23346677888888899998888999999998543 3445567889999999
Q ss_pred cCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcC
Q 002368 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLG 242 (930)
Q Consensus 186 ~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g 242 (930)
.|..+... ..... +..+....+.++.+. ++++|+.. +...+..+++.+++.+
T Consensus 144 ~~~~~~~~-~~~~~---~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 144 AGVPVVVE-EAGDY---SYEGGYEAARRLLASRPRPDAIFCA-NDLLAIGVMDAARQEG 197 (266)
T ss_pred cCCChhhh-ccCCC---CHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhc
Confidence 98874321 11111 133334455555444 35665554 3445667778887753
No 165
>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=97.83 E-value=0.0031 Score=66.97 Aligned_cols=200 Identities=13% Similarity=0.006 Sum_probs=124.4
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|-. ..+-.....|++-++++. |+++.+. ++..++..-......++.++|++||--.+.... .
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~ 69 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA--------GKHLIIT--AGHHSAEKEREAIEFLLERRCDALILHSKALSD-D 69 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC--------CCEEEEE--eCCCchHHHHHHHHHHHHcCCCEEEEecCCCCH-H
Confidence 388999863 445556677777777762 5666654 444556655666677888888877753222111 2
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~l~ 184 (930)
....+...++|++.+....+ ...+++ ...++...+..+++++...|.++++++..+.. ......+.|.+.++
T Consensus 70 ~~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 70 ELIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 24445678999998754332 122333 44667777888999988889999999975432 23345678899999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
+.|+++.....+... .+..+....+.++.+.+ +++|+ +.+...+..+++.+++.|+..++
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 988754211111111 12344455666665443 56555 44455677889999999986443
No 166
>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=97.83 E-value=0.0044 Score=66.89 Aligned_cols=211 Identities=10% Similarity=0.038 Sum_probs=121.5
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
|||++.|-. ..+-.....+++-++++ . |+++.++ .++..++..-.+....++.+++++|| .|.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~----~----g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAK----L----GIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHH----c----CCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 689888742 32222344444444433 1 5666433 45667777777777788888887665 443332233
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCCc--CcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~~--g~~~~~~~~~ 181 (930)
.....+.+.++|+|.+....+.... .-+++.-+..++..-+..+++++... |.++++++..+.+. .....+.|.+
T Consensus 72 ~~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~ 150 (294)
T cd06316 72 AAYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKE 150 (294)
T ss_pred HHHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHH
Confidence 4445567789999987654332221 11233345566666678888888766 88999999754333 3445688888
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
.+++.+..+....... . .........++++... ++++|+. .+...+..+++.+++.|+ .+...++.+
T Consensus 151 ~l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 151 TIKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 9887654332111111 1 1012223344554433 4565554 455678889999999997 343444444
No 167
>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=97.82 E-value=0.0036 Score=66.29 Aligned_cols=197 Identities=9% Similarity=0.032 Sum_probs=121.3
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
.||+++|-. ..+-.....+++-++++. |+.+.+...+. .++..-......++++++++||- +..... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~ 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA--------GYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDA-D 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC--------CCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCCh-H
Confidence 388999853 344455667777776662 56666553332 23455555666777778888873 322222 2
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCc--CcchHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGDKL 183 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~--g~~~~~~~~~~l 183 (930)
.+.. ....++|+|......+ ...+ ....++...+..+++++...|.++++++..+... .....+.|.+++
T Consensus 71 ~~~~-~~~~~ipvv~~~~~~~----~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALA-AAPADVPVVFVDGSPS----PRVS---TVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHH-HHhcCCCEEEEeccCC----CCCC---EEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 3333 3567899999865321 1223 3556667778888999888999999999754332 234567899999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC-ceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~-~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
++.|+.+.... ... .+.+.....+.++.+.. +++|+. .+...+..+++++++.|...++
T Consensus 143 ~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~ 202 (264)
T cd01574 143 EAAGIAPPPVL--EGD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLRVPD 202 (264)
T ss_pred HHCCCCcceee--ecC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCcc
Confidence 88887764322 111 11333344555554433 666544 4556677899999999975443
No 168
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.82 E-value=0.0054 Score=67.27 Aligned_cols=200 Identities=12% Similarity=-0.021 Sum_probs=115.8
Q ss_pred EEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhH
Q 002368 27 LNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA 104 (930)
Q Consensus 27 I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~ 104 (930)
-+||++.... .++-.....|++-|.++. |.++.+. ..+..++..-++....++.++|.+|+= |..+...
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~--------G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al 94 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL--------GVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGL 94 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh--------CCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHH
Confidence 3799887654 444455667777777653 5666542 334456666667788899998887774 5554444
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-c--CCcEEEEEEecCC--cCcchHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-F--GWGEVIAIFNDDD--QGRNGVTAL 179 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~--~w~~vaii~~d~~--~g~~~~~~~ 179 (930)
.....-+.+.+||+|++.+..+. +. ..++-...++...+..+++++.+ . +-.+++++..... -.....+.+
T Consensus 95 ~~~l~~a~~~gIpVV~~d~~~~~--~~--~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~ 170 (336)
T PRK15408 95 CPALKRAMQRGVKVLTWDSDTKP--EC--RSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEA 170 (336)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCC--cc--ceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHH
Confidence 56667788889999997654321 11 11221222334566666676654 2 4578998874322 122344677
Q ss_pred HHHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhH-HHHHHHHHHcCC
Q 002368 180 GDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG-LMVFDVAQRLGM 243 (930)
Q Consensus 180 ~~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~-~~~~~~a~~~g~ 243 (930)
.+.+++. +++++... +. . .+...-....+++....||+=.+.+....+ ...++++++.|.
T Consensus 171 ~~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 171 KAKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCC
Confidence 7777543 56666432 21 1 123333445666665556544433333333 457888888886
No 169
>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=97.78 E-value=0.0038 Score=66.15 Aligned_cols=205 Identities=10% Similarity=0.016 Sum_probs=121.6
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|-. ..+-.....+++-+.++ .|+.+.+ .++..++..-.+....++.+++++||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~~~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (264)
T cd06274 1 TIGLIIPDLENRSFARIAKRLEALARE--------RGYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDP 70 (264)
T ss_pred CEEEEeccccCchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH
Confidence 378999863 32323344455444333 1555544 455557766667777788888887773322222222
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~ 184 (930)
...+...++|++.+....+ +...++ ...++...+..+++++...|.++++++..+. .......+.|.+.++
T Consensus 71 -~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (264)
T cd06274 71 -YYLCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALA 143 (264)
T ss_pred -HHHHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHH
Confidence 3345668899998754422 222344 3345566667788888889999999997543 234556789999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.|..+.....+... .+.......+.++... .+++|+.. +...+..+++++++.|+..++-+-+.
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 988643221111111 1123333445555433 36766644 56667789999999998655444443
No 170
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.77 E-value=0.0036 Score=66.40 Aligned_cols=197 Identities=11% Similarity=0.067 Sum_probs=124.0
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
.||+++|- ...+-.....+++-++++. |+++. +.++..++..-.+....+...++++|| .|... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~--------~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~~~ 69 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER--------GYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-DDH 69 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-ChH
Confidence 38999986 3444455666777766662 56654 455556776666667777788888766 44332 223
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKL 183 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l 183 (930)
. ...+...++|++......+ .+++ ...++..-+..+++++...|.++++++..+. ..+....+.|.+.+
T Consensus 70 ~-~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 140 (265)
T cd06285 70 F-LDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAAL 140 (265)
T ss_pred H-HHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHH
Confidence 3 3445678999998754321 2333 3456666778888888888999999997543 34456678899999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
++.|+.+.....+... .........+.++.+. .+++|+ +.+...+..+++.+++.|+..++
T Consensus 141 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~ 203 (265)
T cd06285 141 AEAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTAIF-AVNDFAAIGVMGAARDRGLRVPD 203 (265)
T ss_pred HHcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCc
Confidence 9988765321111111 1123333455665433 356544 44666777899999999986443
No 171
>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=97.77 E-value=0.0064 Score=65.13 Aligned_cols=200 Identities=14% Similarity=0.039 Sum_probs=121.9
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
+||++.|-. ..+-.....+++-+.++. |+.+ .+.++..++..-.+....++.+++++|| .+..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~--------g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL--------GYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc--------CCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 589998863 344445566777777652 4554 4556666777667777788888887766 343333223
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-cCCc--EEEEEEec--CCcCcchHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWG--EVIAIFND--DDQGRNGVTALG 180 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w~--~vaii~~d--~~~g~~~~~~~~ 180 (930)
.....+.+.++|+|......+ +. .+.+..+..++...+..+++++.. .|.+ +++++..+ ...+....+.|+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~---~~-~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSIN---LE-AGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCC---CC-cCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 344566778999998754321 10 123345667777788889988765 6865 89988743 344667778999
Q ss_pred HHHHhcCcE------EEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCC
Q 002368 181 DKLAEIRCK------ISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (930)
Q Consensus 181 ~~l~~~g~~------i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~ 244 (930)
+.+++.|+. .......... ....+....+.++... ++++|+. .+...+..+++.+++.|+.
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 999988642 1111101111 1123333445554433 3555444 4455677889999999974
No 172
>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=97.76 E-value=0.004 Score=66.19 Aligned_cols=205 Identities=11% Similarity=0.007 Sum_probs=124.6
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||++.|- +..+-.....|++-++++. |+++.+. ++..++..-....+.+...++++||--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~--------gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR--------GLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC--------CCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 48899885 3444455667776666642 5666544 43446665556666777778888885332212222
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~l~ 184 (930)
+..+. ..++|+|......+. ...+ ...+++...+..+++.+...|.++++++..+.. ......+.|.++++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33333 357999987653321 1123 345677888888999988889999999975433 23345788999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.|..+.....+... .+.......+.++.+ ..+++|+.. +...+..+++.+++.|...++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEE
Confidence 988754211111111 112333445555543 346765554 55667788999999997655444443
No 173
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.75 E-value=0.005 Score=67.70 Aligned_cols=206 Identities=10% Similarity=-0.019 Sum_probs=125.1
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAV 102 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~ 102 (930)
..-.||+++|- +..+-.....+++.++++ .|+++.+. ++..++..-.+....++..++++||= |....
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 129 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP 129 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC
Confidence 35689999985 333334456666666654 25666554 44445555555666677778888773 22222
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALG 180 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~ 180 (930)
... ....+.+.++|++......+ ...+++ ...++...+..+++++...|.++++++.... ..+....+.|.
T Consensus 130 ~~~-~~~~l~~~~iPvV~v~~~~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~ 202 (328)
T PRK11303 130 EHP-FYQRLQNDGLPIIALDRALD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFR 202 (328)
T ss_pred ChH-HHHHHHhcCCCEEEECCCCC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHH
Confidence 222 23344567999998654321 222333 3456677778888888889999999997543 33455678999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+++++.|+.+... .... .+..+-...+.++.+. .+++|+.. +...+..+++++++.|+..++-+-|.
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 9999998764322 1111 1122333455555443 46776655 45567788999999998655444333
No 174
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.75 E-value=0.0047 Score=68.31 Aligned_cols=203 Identities=10% Similarity=0.038 Sum_probs=124.9
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
..-.||+++|- +..+-.....+++-++++ . |+.+. +.++..++..-......|..+++++||=-.....
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~---~-----g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 132 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEA---Q-----GRMVF--LLQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGS 132 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHH---c-----CCEEE--EEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence 45689999985 344445566677666654 2 45543 3455556666566667777778887773222222
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCc--CcchHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGD 181 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~--g~~~~~~~~~ 181 (930)
.......+.+.++|+|...... ....+++ ...++...+..++++|...|.++++++..+... .....+.|.+
T Consensus 133 ~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 133 SDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred cHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 3345566677899999875321 1122333 455667778888899888999999999754322 2345678999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
++++.|+.+.....+... .........+.++.+. .+++|+ +.+...+..+++.+.+.|+..+
T Consensus 207 al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 207 TLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 999998764322111111 1122333445555443 456655 5566777788999999997644
No 175
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.74 E-value=0.0062 Score=66.72 Aligned_cols=202 Identities=11% Similarity=0.042 Sum_probs=136.3
Q ss_pred CceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChh
Q 002368 24 PEVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (930)
Q Consensus 24 ~~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~ 102 (930)
...-.||++.|- +..+-.....|++-++++ .|+.+-+. .+..++..-......+.+++|++||=-. ..
T Consensus 56 ~~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l~--~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~ 124 (333)
T COG1609 56 GRTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLLA--NTDDDPEKEREYLETLLQKRVDGLILLG-ER 124 (333)
T ss_pred CCCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--CCCCCHHHHHHHHHHHHHcCCCEEEEec-CC
Confidence 356789999994 233334556666666665 25655544 4444777777777777788898888433 33
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALG 180 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~ 180 (930)
........+.+.++|++......+ +..++ ....++..-+..+++++...|.++++++... ...+..-.+.|.
T Consensus 125 ~~~~~~~~l~~~~~P~V~i~~~~~---~~~~~---~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 198 (333)
T COG1609 125 PNDSLLELLAAAGIPVVVIDRSPP---GLGVP---SVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYR 198 (333)
T ss_pred CCHHHHHHHHhcCCCEEEEeCCCc---cCCCC---EEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHH
Confidence 344456667777999998765544 22333 3446777788899999999999999999965 455677789999
Q ss_pred HHHHhcCcEE--EEEEecCCCCCCChhHHHHHHHHHhcCC---ceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 181 DKLAEIRCKI--SYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 181 ~~l~~~g~~i--~~~~~~~~~~~~~~~d~~~~l~~l~~~~---~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
+++++.|+.. .....-... ..+-...+.++.... |++| +|++...|..+++++++.|+..++
T Consensus 199 ~al~~~~~~~~~~~i~~~~~~----~~~g~~~~~~ll~~~~~~ptAi-f~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 199 AALREAGLPINPEWIVEGDFS----EESGYEAAERLLARGEPRPTAI-FCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHHCCCCCCcceEEecCCC----hHHHHHHHHHHHhcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCC
Confidence 9999999875 222211112 344445555555433 6664 566677889999999999987554
No 176
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.73 E-value=0.0031 Score=69.78 Aligned_cols=208 Identities=10% Similarity=0.006 Sum_probs=125.8
Q ss_pred eEEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 26 VLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 26 ~I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
.-.||+++|-. ..+-.....|++-++++. |+++. +.++..++..-......++.+++++||--......
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 45899999874 444455666776666652 45544 44555677766667777777788877631111112
Q ss_pred HHHHHhhhc-CCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHHH
Q 002368 105 HVLSHLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGD 181 (930)
Q Consensus 105 ~av~~~~~~-~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~~ 181 (930)
.....+.. .++|++......+ +..++.+ ..+++...+..+++.+...|.+++++|..+ +..++...+.|.+
T Consensus 129 -~~~~~l~~~~~iPvV~~d~~~~---~~~~~~~--v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~ 202 (341)
T PRK10703 129 -PLLAMLEEYRHIPMVVMDWGEA---KADFTDA--IIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMK 202 (341)
T ss_pred -HHHHHHHhcCCCCEEEEecccC---CcCCCCe--EEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHH
Confidence 23344445 6999998754321 1111222 344545567888888888899999999643 3345556789999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
++++.|+++......... ....+....+.++... .+++|+. .+...+..+++++++.|...++-+.+.
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 999999875432111111 1233444556565443 4676664 456667789999999997644444333
No 177
>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=97.68 E-value=0.0039 Score=66.21 Aligned_cols=200 Identities=12% Similarity=0.065 Sum_probs=118.7
Q ss_pred EEeEEeec------CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEccCC
Q 002368 28 NVGAIFSF------GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (930)
Q Consensus 28 ~IG~~~~l------~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiGp~~ 100 (930)
.||+++|- +..+-.....+++-++++. |+++.+. ++.. +..-.....+++.. ++++||-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN--------GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC--------CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecC
Confidence 37889884 3444456667777777662 5666543 3332 33334566666654 5777664322
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCc--CcchHHH
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTA 178 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~--g~~~~~~ 178 (930)
... ......+.+.++|+|.+....+. ....+| +..++...+..+++.+...|.++++++.....+ .....+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~~--~~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPEDD--KENITY---VDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCCC--CCCCCe---EEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 111 23344567789999987543211 012233 344666677788888888899999999754332 3345788
Q ss_pred HHHHHHhcCcEEEE--EEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 179 LGDKLAEIRCKISY--KSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 179 ~~~~l~~~g~~i~~--~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
|.+.+++.|+.+.. ....+.. ..+....+.++... ++++|+. .+...+..+++.+++.|+..++-+
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv 213 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLDFS----EEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDL 213 (270)
T ss_pred HHHHHHHcCCCCCcceEEecCCc----hHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcce
Confidence 99999998853211 1111211 23344455555443 3666555 456678889999999998644433
No 178
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=97.67 E-value=0.01 Score=64.11 Aligned_cols=210 Identities=9% Similarity=-0.030 Sum_probs=122.7
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
+||++.|- +..+-.....+++-++++. |+++.+. .++..++....+....++++++++||= +..+....
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~--------g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL--------GVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh--------CCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 48888874 3434445566777777662 5555532 244467777777777788888887774 33333333
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc-CC-cEEEEEEecCC--cCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW-GEVIAIFNDDD--QGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-~w-~~vaii~~d~~--~g~~~~~~~~~ 181 (930)
.....+...++|++......+. .. ..+.....++...+..+++++.+. +- ++++++..+.. ......+.|.+
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~---~~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP---DN-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC---Cc-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 4445567789999987543211 01 123344567777788888887776 44 69999975432 23445688999
Q ss_pred HHHhcCcE-EEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 182 KLAEIRCK-ISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 182 ~l~~~g~~-i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+++++|.. +.....+... .+.......++++.+. ++++|+. .+...+..+++.+++.|+. .+...++-+
T Consensus 148 ~l~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~-~dv~vvG~D 219 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGD--DDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVEEAGLK-GKVAVTGLG 219 (298)
T ss_pred HHhhcCCCCeEEeCcccCC--CCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHHhcCCC-CCEEEEEeC
Confidence 99998721 2111111211 1223333344554333 3555444 4556788899999999985 333344433
No 179
>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=97.67 E-value=0.0071 Score=64.38 Aligned_cols=206 Identities=15% Similarity=0.086 Sum_probs=126.1
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCChh--h
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV--GPQSAV--M 103 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~S~--~ 103 (930)
||+++|-. ..+-.....+++-++++. |+.+. +.++..++..-.+....|+.+++++|| ++.... .
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQY--------GYTVL--LCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHA 71 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHC--------CCEEE--EEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccc
Confidence 79999863 444455667777777661 56664 455556666666777888888888766 322221 1
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGD 181 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~ 181 (930)
.......+.+.++|++......+. ...+++ ...++...+..+++.+...|.++++++.... .......+.|.+
T Consensus 72 ~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 72 DHSHYERLAERGLPVVLVNGRAPP--PLKVPH---VSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred hhHHHHHHHhCCCCEEEEcCCCCC--CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 122234456789999987654322 112333 4456777788888988888999999997542 234456788999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
++++.|+.......+... .+.......+.++...++++|+. .+...+..+++.+++.|+..++-+-+.
T Consensus 147 ~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 147 ALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIVA-ASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 999988642111011111 11223334455554445887654 456667778999999997644434333
No 180
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=97.66 E-value=0.014 Score=62.19 Aligned_cols=206 Identities=10% Similarity=0.108 Sum_probs=118.4
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~a 106 (930)
+||++...+..+-.....+++-++++. |+.+.+.. ++..++..-......+++.+|+++| .|........
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL--------GVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc--------CCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 478887665544445566666666552 55555442 3444666666677778888888777 4443332223
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC--CcCcchHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGDK 182 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~--~~g~~~~~~~~~~ 182 (930)
....+.+ ++|++......+. ...++ -...++...+..+++++.+. +-.+++++.... .......+.|+++
T Consensus 72 ~l~~~~~-~ipvV~~~~~~~~--~~~~~---~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~ 145 (271)
T cd06314 72 ALNKAAA-GIKLITTDSDAPD--SGRYV---YIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDA 145 (271)
T ss_pred HHHHHhc-CCCEEEecCCCCc--cceeE---EEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHH
Confidence 3333355 9999987543211 11122 24456666678888887664 344666665432 3345667889999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+++.|+++.... .. . ....+....+.++.+.. +++|+. .+...+..+++.+++.|.. .+...++.+
T Consensus 146 ~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~al~~~g~~-~di~vig~d 213 (271)
T cd06314 146 IKDSKIEIVDTR-GD-E--EDFAKAKSNAEDALNAHPDLKCMFG-LYAYNGPAIAEAVKAAGKL-GKVKIVGFD 213 (271)
T ss_pred HhcCCcEEEEEe-cC-c--cCHHHHHHHHHHHHHhCCCccEEEe-cCCccHHHHHHHHHHcCCC-CceEEEEeC
Confidence 999998765421 11 1 12334445566665443 466554 3445555678888888875 344444443
No 181
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=97.63 E-value=0.012 Score=63.64 Aligned_cols=195 Identities=13% Similarity=0.017 Sum_probs=114.4
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhh-H
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVM-A 104 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~-~ 104 (930)
|||+++|-. ..+-.....+++-+.++. |+.+.+...+...+...-......+++++|++|| .|..... .
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~~--------g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 72 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKHL--------GVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALN 72 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHHh--------CCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhh
Confidence 589999853 333334455666555541 5666665444434666666677778888888876 3332222 2
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcC-----CcEEEEEEecC--CcCcchHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-----WGEVIAIFNDD--DQGRNGVT 177 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~-----w~~vaii~~d~--~~g~~~~~ 177 (930)
..+.. +. .++|+|.+....+ +. ..+-.+..++..-+..+++++.... .++++++.... .......+
T Consensus 73 ~~l~~-~~-~~iPvV~~~~~~~---~~--~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 73 HDLAQ-LT-KSIPVFALVNQID---SN--QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHHHH-Hh-cCCCEEEEecCCC---cc--ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 23333 33 4899987632211 11 1223355566666777888776621 34699997543 34556688
Q ss_pred HHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 178 ~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
.|.+++++.|+++... .... .+..+-...++++.+. ++++| ++....+..+++.+++.|.
T Consensus 146 Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 146 GFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 9999999989877532 2211 1233334455555433 35754 4566667788999888886
No 182
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=97.62 E-value=0.0061 Score=64.66 Aligned_cols=196 Identities=14% Similarity=0.016 Sum_probs=111.7
Q ss_pred EEeEEeec----CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 28 NVGAIFSF----GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 28 ~IG~~~~l----~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
|||++.|- +..+-.....|++.+.++ .|+++.+. ++. ++..-.+....|.+.+|++||--.. ..
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~--------~gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~-~~ 68 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE--------LGIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGF-LL 68 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH--------cCCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCc-ch
Confidence 68999985 233334556666666666 25666654 333 3333345566677778888885222 22
Q ss_pred HHHHHHhhhcC-CCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH-cCCcEEEEEEecCCcCcch-HHHHH
Q 002368 104 AHVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNG-VTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~-~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~-~~w~~vaii~~d~~~g~~~-~~~~~ 180 (930)
.........++ ++|++..+...+.. ...+ +...++..-+..++.++.. .|.++++++..+....... .+.|.
T Consensus 69 ~~~~~~~~~~~~~~PiV~i~~~~~~~--~~~~---~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~ 143 (265)
T cd06354 69 ADALKEVAKQYPDQKFAIIDAVVDDP--PNVA---SIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFE 143 (265)
T ss_pred HHHHHHHHHHCCCCEEEEEecccCCC--CcEE---EEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHH
Confidence 23455566665 89999875432110 1122 2333444444444555654 3999999997543212222 36889
Q ss_pred HHHHhcC---cEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 002368 181 DKLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (930)
Q Consensus 181 ~~l~~~g---~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g 242 (930)
+.+++.| ..+......... .....+-...+.++.+.+||+|+ +.+...+..+++++++.|
T Consensus 144 ~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~pdaI~-~~nd~~A~gv~~al~~~g 206 (265)
T cd06354 144 AGVKYVNPGVPDIEVLVQYAGS-FNDPAKGKEIAQAMYDQGADVIF-AAAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHhccCCCceEEEEEcCc-ccCHHHHHHHHHHHHHCCCcEEE-ECCCCCchHHHHHHHhcC
Confidence 9998888 654322212211 01123334456666655688754 446667778999999988
No 183
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=97.61 E-value=0.0087 Score=65.71 Aligned_cols=202 Identities=7% Similarity=0.001 Sum_probs=122.4
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAV 102 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~ 102 (930)
..-.||+++|- +..+-.....+++-++++ .|+.+.+. ++..++..-......+..++|++|| -|....
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 128 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMPP 128 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCC
Confidence 35689999985 344444556666666554 26666544 4444565555566667777888766 333221
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~ 180 (930)
.. .....+...++|++......+ +..+++ +..++...+..+++++...|.++++++..... .+....+.|.
T Consensus 129 ~~-~~~~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 129 ED-AYYQKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred Ch-HHHHHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 22 223445567999998754322 122333 34556666777788888899999999975432 3445678899
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
+++++.|+.+.... ... ...++-...+.++.+. .+++|+.. +...+..+++++++.| ..++-+
T Consensus 202 ~al~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g-~vP~dv 267 (327)
T TIGR02417 202 QALKQATLEVEWVY--GGN--YSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP-LLDSQL 267 (327)
T ss_pred HHHHHcCCChHhEE--eCC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-CCCCcc
Confidence 99999987532211 111 1123333455565443 36776554 5566788999999999 655433
No 184
>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=97.61 E-value=0.0067 Score=64.47 Aligned_cols=206 Identities=11% Similarity=0.050 Sum_probs=125.8
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~a 106 (930)
||++.|- +..+-.....+++-++++. |+++. +.++..++..-.+....++++++++|| .|..... .
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~--~ 69 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAA--------GYDVV--LSESGRRTSPERQWVERLSARRTDGVILVTPELTS--A 69 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHc--------CCeEE--EecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh--H
Confidence 7889885 4555566677777777662 55554 445555555555566777788888776 3333222 2
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~~~l~ 184 (930)
....+...++|++........ ...+++ ..+++...+..+++.+...|.++++++..+. .......+.|.++++
T Consensus 70 ~~~~~~~~~ipvV~i~~~~~~--~~~~~~---v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (270)
T cd06296 70 QRAALRRTGIPFVVVDPAGDP--DADVPS---VGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAALA 144 (270)
T ss_pred HHHHHhcCCCCEEEEecccCC--CCCCCE---EEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHH
Confidence 355567789999987654211 122333 5566677788888888888999999997532 234456788999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCc-eEEEEeC
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG-YVWIATT 254 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~-~~~i~~~ 254 (930)
+.|+.+......... .+.+.....+.++.+. .+++|+ +.+...+..+++.+++.|...++ ..+++.+
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 145 EAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 888654321111111 1123333445555433 356555 44556677899999999986444 3344443
No 185
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.59 E-value=0.0085 Score=65.79 Aligned_cols=206 Identities=8% Similarity=0.037 Sum_probs=122.5
Q ss_pred ceEEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE--ccCCh
Q 002368 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV--GPQSA 101 (930)
Q Consensus 25 ~~I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii--Gp~~S 101 (930)
..-.||+++|.. ..+-.....+++-++++ .|+++.+ .++..++..-......+.+.+|++|| +...+
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~ 124 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFE--------RGYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTETH 124 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence 456899999863 34444566777766665 1566554 45555666655666677777777776 22222
Q ss_pred hhHHHHHHhhhc-CCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHH
Q 002368 102 VMAHVLSHLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTA 178 (930)
Q Consensus 102 ~~~~av~~~~~~-~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~ 178 (930)
... ...... .++|++..+.... ...++ ....++..-+..+++++...|.++++++..+ ........+.
T Consensus 125 ~~~---~~~l~~~~~iPvV~i~~~~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~G 195 (327)
T PRK10423 125 QPS---REIMQRYPSVPTVMMDWAPF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEG 195 (327)
T ss_pred hhh---HHHHHhcCCCCEEEECCccC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHH
Confidence 222 122233 4899998753211 11112 2334445557788888888999999999643 3344556789
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
|.+++++.|+.+.....+... .........+.++.+. .+++|+. ++...+..+++.+++.|+..++-+-+.
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 999999999764322111111 1122333445555443 4666554 456667789999999998655444333
No 186
>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=97.58 E-value=0.016 Score=61.72 Aligned_cols=210 Identities=12% Similarity=0.047 Sum_probs=119.3
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
+||++.|-. ..+-.....+++-++++..-. ...+.... .+..++..-.+....+.. ++++|| .|..+....
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~-~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHF-VESFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEE-ccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 589988763 344445566776666664211 12222222 233455555555566666 888775 444433333
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc-C--CcEEEEEEecCC--cCcchHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-G--WGEVIAIFNDDD--QGRNGVTALG 180 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-~--w~~vaii~~d~~--~g~~~~~~~~ 180 (930)
.....+.+.++|+|.+....+. ... +.....++...+..+++++... | .++++++..+.. ......+.|.
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3445666789999987543211 111 2234555566667777776665 5 469999975432 3345568899
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+++++.+..+......... .+..+....+.++.+ .++++|+..... +..+++.+++.|+. .+...++.|
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 9999887654332222211 123334455556543 356777776543 36899999999975 344444444
No 187
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=97.57 E-value=0.0091 Score=63.24 Aligned_cols=196 Identities=13% Similarity=0.067 Sum_probs=118.3
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
.||++.|- +..+-.....+++-++++. |+++. +.++..++..-.+....+...++.+||= |..+.
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK--------GYKLI--LCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC--------CCeEE--EecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 37888874 4444445566666655552 55554 4555556666566666777777777763 33222
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC---CcCcchHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVTALGDK 182 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~---~~g~~~~~~~~~~ 182 (930)
...+...++|+|......+ ..++| ..+++...+..+++++...|.++++++.... ..+....+.|.+.
T Consensus 68 --~~~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 --IEEYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred --HHHHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 1244567999998765432 22333 3455566678888888888999999997433 3345567889999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
+++.|+.+.... .... .+..+....+.++.+.. +++|+.. +...+..+++.+++.|...++-+
T Consensus 139 l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~al~~~g~~vp~di 203 (265)
T cd06291 139 LKENGLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIFAS-NDLTAILVLKEAQQRGIRVPEDL 203 (265)
T ss_pred HHHcCCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEEEC-ChHHHHHHHHHHHHcCCCCCcce
Confidence 999887642211 1111 11222234455554433 4655443 44567788999999997644433
No 188
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=97.56 E-value=0.0051 Score=65.52 Aligned_cols=205 Identities=13% Similarity=0.111 Sum_probs=125.3
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChh---h
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAV---M 103 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~---~ 103 (930)
||++.|-. +.+-.....|++-++++ . |+++ .+.++..++..-.+..+.++..+|++|| -|..+. .
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~----~----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~ 71 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSE----K----GYSL--LLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNP 71 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHH----c----CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccc
Confidence 78888753 43334455566555544 1 4555 4566677887778888889988888887 333221 1
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC-CcCcchHHHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD-DQGRNGVTALGDK 182 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~~~~~ 182 (930)
.......+...++|+|......+. ... ..+..++...+..+++++...|.++++++...+ ..+....+.|.+.
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~---~~~---~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~ 145 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEE---LNF---PSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKA 145 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCC---CCC---CEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHH
Confidence 223334457789999987643221 112 235566777788888998888999999887432 2344556788999
Q ss_pred HHhcCcEEEEE--EecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 183 LAEIRCKISYK--SALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 183 l~~~g~~i~~~--~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+++.|..+... ..+... .........+.++.+. .+++|+ +.+...+..+++.+++.|+..++-+-|.
T Consensus 146 l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av~-~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 146 YREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAIV-CYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 99888643211 112111 1112344455555443 467654 4555667789999999998655444444
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=97.56 E-value=0.0091 Score=63.37 Aligned_cols=198 Identities=10% Similarity=0.021 Sum_probs=115.9
Q ss_pred EeEEeec----CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 29 VGAIFSF----GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 29 IG~~~~l----~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
||+++|- +..+-.....+++-+.++. |+++.+...|.. ...-......+.+.+|++||-......
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~--------g~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY--------GYNLILKFVSDE--DEEEFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc--------CCEEEEEeCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 8889886 2334445566666655552 677777666543 222223334466678888885322222
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDK 182 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~ 182 (930)
.....+.+.++|+|......+ ....++ ...++...+..+++++...|.++++++..+.. ......+.|.+.
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 235566778999998754322 122333 33455556677778888889999999975543 234456789999
Q ss_pred HHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 183 l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
+++.|+++.....+... ......+...+.++. ..+++|+.. +...+..+++.+++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai~~~-~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 144 LLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAFFCS-NDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred HHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEEEEC-CcHHHHHHHHHHHHcCCCCCC
Confidence 99988765322111110 011233444443322 247765544 555667788888999986433
No 190
>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=97.54 E-value=0.0076 Score=63.62 Aligned_cols=199 Identities=9% Similarity=0.034 Sum_probs=123.1
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~~~~ 105 (930)
.||++.|- +..+-.....+++.+.++. |+.+.+ .++..++..-......+...+|++||= |.... ..
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 37888886 3555566778888877752 566654 455566666666677777778887763 32222 23
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKL 183 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~~~l 183 (930)
.+..+. +.+ |++......+ ...++ ..+++...+..+++++...|.++++++..+ +.......+.|.+.+
T Consensus 70 ~~~~~~-~~~-pvv~~~~~~~----~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l 140 (260)
T cd06286 70 VIEPYT-KYG-PIVLCEEYDS----KNISS---VYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDAL 140 (260)
T ss_pred HHHHHh-cCC-CEEEEecccC----CCCCE---EEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHH
Confidence 333333 334 8887543221 22233 455666778888899888999999999754 334455678999999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc--CCceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~--~~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
++.|+++.....+... ....+-...+.++.+ ..+++|+ +++...+..+++.+++.|+..++-+
T Consensus 141 ~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~di 205 (260)
T cd06286 141 EEYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPEDL 205 (260)
T ss_pred HHcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCcce
Confidence 9998664321111111 112333445555544 3567654 5666777889999999998644433
No 191
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.52 E-value=0.0086 Score=63.30 Aligned_cols=196 Identities=11% Similarity=0.042 Sum_probs=109.9
Q ss_pred EEeEEeec---CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 28 NVGAIFSF---GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 28 ~IG~~~~l---~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
|||+++|- +..+-.....+++-+.++ .|+.+.+ .++. ++....+....+...+|++||=...+ ..
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~--------~gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~ 68 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKE--------LGVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FM 68 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHh--------cCceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hh
Confidence 68999984 222222334444444444 1555544 4444 55555556666777788877642222 22
Q ss_pred HHHHHhhhcC-CCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHc-CCcEEEEEEecC-CcCcchHHHHHH
Q 002368 105 HVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GWGEVIAIFNDD-DQGRNGVTALGD 181 (930)
Q Consensus 105 ~av~~~~~~~-~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~-~w~~vaii~~d~-~~g~~~~~~~~~ 181 (930)
..+...+++. ++|++......+. ....+ ....++..-+..++.++... |.++++++..+. .......+.|.+
T Consensus 69 ~~~~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~ 143 (260)
T cd06304 69 DAVEKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAA 143 (260)
T ss_pred HHHHHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHH
Confidence 3444555544 7898876543211 01112 22334444444455555544 899999997532 223344678999
Q ss_pred HHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 002368 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (930)
Q Consensus 182 ~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g 242 (930)
++++.|............. .+.++-...++++.+.++++| ++.+...+..+++++++.|
T Consensus 144 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 144 GAKSVNPDITVLVIYTGSF-FDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHHHhCCCcEEEEEEecCc-cCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 9999886543222222110 112233445667666678875 6677777888999999988
No 192
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.51 E-value=0.009 Score=63.29 Aligned_cols=199 Identities=11% Similarity=0.036 Sum_probs=117.7
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||+++|- +..+-.....+++-++++ .|+++.+ .++..++..-......+.++++++||=-.+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG--------SGYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPEEE 70 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHH
Confidence 37888875 344444455566554443 2556544 445556665556666777778888773222211122
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~~~l~ 184 (930)
+..+ . .++|+|......+ +...++ ...++...+..+++++...|.++++++..+ ........+.|.+.++
T Consensus 71 ~~~~-~-~~iPvV~i~~~~~---~~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 71 ILAL-A-EEIPVLAVGRRVP---GPGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HHHH-h-cCCCEEEECCCcC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 2222 3 4899998765322 122333 345667777888888888899999999754 3334456788999998
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCc
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~ 247 (930)
+.|+.+.....+... .........+.++.+. .+++|+ +++...+..+++.+++.|+..++
T Consensus 143 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~ 204 (265)
T cd06290 143 EAGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPE 204 (265)
T ss_pred HcCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCc
Confidence 888764321111111 1122233445565543 357655 45666788889999999986444
No 193
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.51 E-value=0.012 Score=65.13 Aligned_cols=204 Identities=13% Similarity=0.069 Sum_probs=119.8
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
..-.||+++|- +..+-.....+++-++++- |+.+ .+.++..++..-......|+.++|++||=-.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~--------g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~ 127 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYHT--------GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKMIP 127 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHHc--------CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 45789999874 3444445566666665552 4554 34555556665556667777778877773211111
Q ss_pred HHHHHHhhhcCCCc-EEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHH
Q 002368 104 AHVLSHLANELQVP-LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~~vp-~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~ 180 (930)
...+..+.. ++| ++......+ +...++ ...++...+..+++++...|.+++++|..+. .......+.|.
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 128 DAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred hHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 222333333 677 776543221 112233 3456666677788888889999999997543 23455678999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
+++++.|+.+......... .....-...+.++.+. .+++|| +.+...+..+++.+++.|+..++-+
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~G~~vP~di 267 (343)
T PRK10727 200 DALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAVA-CYNDSMAAGAMGVLNDNGIDVPGEI 267 (343)
T ss_pred HHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 9999999764321111111 1122223345555443 356655 4566778889999999998655433
No 194
>PRK09492 treR trehalose repressor; Provisional
Probab=97.49 E-value=0.014 Score=63.61 Aligned_cols=192 Identities=12% Similarity=-0.007 Sum_probs=118.2
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
..-.||++.|- +..+-.....+++-++++ . |+.+ .+.++..++.........|.+.+|++||--..+..
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~---~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~ 130 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTMLPAFYE---Q-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTGI 130 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHHHHHHH---c-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCcc
Confidence 44689999985 333333445555444433 2 4554 45566667766666666777778888885322211
Q ss_pred HHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec---CCcCcchHHHHH
Q 002368 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~~~ 180 (930)
. .......++|++...... ..++ ....++...+..+++++...|.++++++... ...+....+.|.
T Consensus 131 ~---~~~l~~~~~pvv~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~ 199 (315)
T PRK09492 131 T---EEMLAPWQDKLVLLARDA-----KGFS---SVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYL 199 (315)
T ss_pred c---HHHHHhcCCCEEEEeccC-----CCCc---EEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHH
Confidence 1 123344567877654321 1223 3445666677778888888999999999632 223456788999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
+++++.|+.+... .... +...-...+.++...++++|+. .+...+..+++.+++.|+
T Consensus 200 ~al~~~g~~~~~~--~~~~---~~~~~~~~~~~~l~~~~~ai~~-~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 200 AFCKQHKLTPVAA--LGGL---SMQSGYELVAKVLTPETTALVC-ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHcCCCceee--cCCC---CchHHHHHHHHHhhcCCCEEEE-cCcHHHHHHHHHHHHcCC
Confidence 9999999875431 1111 1222233455555567888764 446777889999999997
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=97.49 E-value=0.0083 Score=63.40 Aligned_cols=198 Identities=13% Similarity=0.073 Sum_probs=117.5
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~a 106 (930)
.||++.|-. ..+-.....|++-+.++- |+.+.+...+ +.. .....+...++++||=..+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~~~~---~~~---~~~~~l~~~~vdgii~~~~~~~~~- 65 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISKN--------GYNMNVSITP---SLA---EAEDLFKENRFDGVIIFGESASDV- 65 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHHc--------CCEEEEEecc---cHH---HHHHHHHHcCcCEEEEeCCCCChH-
Confidence 378898863 444455666776666642 5666666544 222 233456666787776322222222
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~~~l~ 184 (930)
....+...++|+|......+ ..+++ +..++...+..+++++...|.++++++..... ........|.+.++
T Consensus 66 ~~~~~~~~~ipvV~~~~~~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 66 EYLYKIKLAIPVVSYGVDYD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHHHcCCCEEEEcccCC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 23445678999998754322 22333 44567777888899988889999999975433 33445678999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCCCCceEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~ 250 (930)
+.|+.+......... .+.......+.++.... +++ |++++...+..+++.+++.|+..++-+-
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~ 203 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIE 203 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceE
Confidence 988643221111111 11233344555554443 566 4455556677899999999986554343
No 196
>PRK09526 lacI lac repressor; Reviewed
Probab=97.40 E-value=0.027 Score=62.20 Aligned_cols=202 Identities=11% Similarity=0.047 Sum_probs=120.5
Q ss_pred ceEEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--cCCh
Q 002368 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG--PQSA 101 (930)
Q Consensus 25 ~~I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG--p~~S 101 (930)
..-.||+++|-. ..+-.....+++-++++ .|+.+.+...++ .++..-......|.+++|++||- |..+
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~-~~~~~~~~~l~~l~~~~vdGiii~~~~~~ 132 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVER-SGVEACQAAVNELLAQRVSGVIINVPLED 132 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCC-ChHHHHHHHHHHHHhcCCCEEEEecCCCc
Confidence 345799999853 33334456666666654 267776654332 23333345556777778888773 4433
Q ss_pred hhHHHHHHhh-hcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHH
Q 002368 102 VMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTA 178 (930)
Q Consensus 102 ~~~~av~~~~-~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~ 178 (930)
... ..+. ...++|++..... + +...+ ....++...+..+++++...|.++++++..+. ...+.....
T Consensus 133 ~~~---~~~~~~~~~iPvV~~d~~-~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~G 202 (342)
T PRK09526 133 ADA---EKIVADCADVPCLFLDVS-P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAG 202 (342)
T ss_pred chH---HHHHhhcCCCCEEEEecc-C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHH
Confidence 222 2222 2358999987542 1 11223 34556666778888998889999999997532 233455788
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEE
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~ 250 (930)
|.+++++.|+.+.....-.. ...+-...+.++... .+++|+ +.+...+..+++.+++.|+..++-+-
T Consensus 203 f~~al~~~gi~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vP~dis 271 (342)
T PRK09526 203 WLEYLTDYQLQPIAVREGDW----SAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESGLRVPGQIS 271 (342)
T ss_pred HHHHHHHcCCCcceEEeCCC----chHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceE
Confidence 99999999986433211111 122223344555433 466655 45666778899999999987554443
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=97.40 E-value=0.0094 Score=63.18 Aligned_cols=202 Identities=9% Similarity=0.010 Sum_probs=119.5
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
+||++.|.+..+-.....+++-+.++. + |+.+.+...| . ......|...+|++||=...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~~~~----~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLEPRG----L---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEeccc----c---hhhhhhccccccceEEEECCCH---HH
Confidence 589999966555556666766666663 2 5665543221 1 3334455555888888532222 22
Q ss_pred HHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC-cCcchHHHHHHHHHhc
Q 002368 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLAEI 186 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~-~g~~~~~~~~~~l~~~ 186 (930)
...+...++|+|......+. . .+-.+..++...+..+++++...|.++++++..... ......+.|++++++.
T Consensus 64 ~~~l~~~~~PvV~~~~~~~~---~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~ 137 (265)
T cd01543 64 AEALQKLGIPVVDVSGSREK---P---GIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEA 137 (265)
T ss_pred HHHHhhCCCCEEEEeCccCC---C---CCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHc
Confidence 34456679999987654321 1 233466777778888889888889999999874432 2234467899999999
Q ss_pred CcEEEEEEec-CCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCC-ceEEEEeC
Q 002368 187 RCKISYKSAL-PPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS-GYVWIATT 254 (930)
Q Consensus 187 g~~i~~~~~~-~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~-~~~~i~~~ 254 (930)
|..+...... ... ..+..+....+.++.+. .+++| ++++...+..+++.+++.|+..+ +...++-|
T Consensus 138 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTD-AQSWEEEQEELAQWLQSLPKPVGI-FACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccc-cccHHHHHHHHHHHHhcCCCCcEE-EecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 9875211111 111 01112223345554333 45654 44566677788999999998533 44444444
No 198
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.39 E-value=0.015 Score=62.41 Aligned_cols=195 Identities=12% Similarity=0.018 Sum_probs=116.9
Q ss_pred EeEEeec------CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChh
Q 002368 29 VGAIFSF------GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (930)
Q Consensus 29 IG~~~~l------~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~ 102 (930)
||++.|- +..+-.....+++-++++ .|+++.+...+. . ......+...++++||--....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~---~~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---E---DSDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---H---HHHHHHHHhcCCCEEEEeCCCC
Confidence 8899986 233334556666665555 156776654432 1 1233456666888888633322
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC-------------
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD------------- 169 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~------------- 169 (930)
. ......+...++|++......+ ...+ ....++...+..+++++...|.++++++..+.
T Consensus 68 ~-~~~~~~~~~~~ipvV~~~~~~~----~~~~---~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 68 D-DPLVAALLRRGLPVVVVDQPLP----PGVP---SVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred C-hHHHHHHHHcCCCEEEEecCCC----CCCC---EEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 2 2345556778999998754321 1122 35566777788888999889999999997532
Q ss_pred ------CcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHc
Q 002368 170 ------DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRL 241 (930)
Q Consensus 170 ------~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~ 241 (930)
.......+.|.+++++.|++......+.... .+.......+.++...+ +++|+ +++...+..+++.+++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~gv~~al~~~ 217 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPE-NDRASGEEAARELLDASPRPTAIL-CMSDVLALGALQVAREL 217 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCC-CchHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHc
Confidence 1123456888999998886532111111110 11334455566665443 56544 55566677899999999
Q ss_pred CCCCCc
Q 002368 242 GMMDSG 247 (930)
Q Consensus 242 g~~~~~ 247 (930)
|+..++
T Consensus 218 g~~ip~ 223 (283)
T cd06279 218 GLRVPE 223 (283)
T ss_pred CCCCCC
Confidence 986443
No 199
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.36 E-value=0.028 Score=59.39 Aligned_cols=199 Identities=12% Similarity=0.087 Sum_probs=121.3
Q ss_pred EEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHH
Q 002368 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~ 105 (930)
.||+++|-. ..+-.....+++.++++ .|+++.+ .++..++..-......+...++++|| .|......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVIL--CNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 388998874 33444567777777776 2566654 45455665555556667776777665 33322222
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec-CCcCcchHHHHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-DDQGRNGVTALGDKLA 184 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d-~~~g~~~~~~~~~~l~ 184 (930)
.. .+...++|+|......+ ...++++ ..++..-+..+++++...|.++++++..+ ..........|.++++
T Consensus 70 -~~-~~~~~~iPvV~~~~~~~---~~~~~~v---~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RL-AELRLSFPVVLIDRAGP---AGRVDAV---VLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HH-HHHhcCCCEEEECCCCC---CCCCCEE---EECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 22 23566899998755432 2334543 34666677888888888899999998753 2223455788999999
Q ss_pred hcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEE
Q 002368 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (930)
Q Consensus 185 ~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i 251 (930)
+.|+..... ..... ..+....+.++... .+++| ++.+...+..+++.+++.|+..++-+.+
T Consensus 142 ~~~~~~~~~-~~~~~----~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~g~~~~l~~~g~~~p~di~i 204 (263)
T cd06280 142 RHGLAPDAR-FVAPT----AEAAEAALAAWLAAPERPEAL-VASNGLLLLGALRAVRAAGLRIPQDLAL 204 (263)
T ss_pred HcCCCCChh-hcccC----HHHHHHHHHHHhcCCCCCcEE-EECCcHHHHHHHHHHHHcCCCCCCcEEE
Confidence 988764321 11212 23333344554433 46664 4566667888999999999865443433
No 200
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=97.35 E-value=0.023 Score=62.46 Aligned_cols=206 Identities=6% Similarity=-0.003 Sum_probs=122.2
Q ss_pred eEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 26 VLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 26 ~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
.-.||++.|- +..+-.....+++-+.++ .|+++.+ .++..++..-......+++++|++||=......
T Consensus 63 ~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~- 131 (331)
T PRK14987 63 SRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT- 131 (331)
T ss_pred CCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-
Confidence 4579999984 344444556666666665 2566654 445555555455556677778888774211111
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC-CcCcchHHHHHHHH
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD-DQGRNGVTALGDKL 183 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~-~~g~~~~~~~~~~l 183 (930)
......+.+.++|+|....... .. ... ....++..-+..+++++...|.++++++.... .........|.+++
T Consensus 132 ~~~~~~l~~~~iPvV~~~~~~~---~~-~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al 205 (331)
T PRK14987 132 PRTLKMIEVAGIPVVELMDSQS---PC-LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQAM 205 (331)
T ss_pred HHHHHHHHhCCCCEEEEecCCC---CC-CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHHH
Confidence 2334456778999997532110 11 111 25566777778888998899999999996432 22334568899999
Q ss_pred HhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 184 ~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
++.|+... ...+... .....-...++++... ++++|| +.+...+..+++++++.|+..++-+-|.
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 99986321 1111111 1112223345555443 467655 4566678889999999998765544433
No 201
>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=97.31 E-value=0.012 Score=63.48 Aligned_cols=185 Identities=10% Similarity=0.082 Sum_probs=111.1
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
+||++...+...-.....|++-++++. | +.. ..+++.+.+.++|+..+...++++.+.+++.|+-- .+..+.++
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~---g-~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL---G-YDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT---T---C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc---C-Ccc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEe-CcHHHHHH
Confidence 688888877544445567776666653 3 333 56889999999999999999998888777776653 23445555
Q ss_pred HHhhhcCCCcEEEeecCCCCCCC----CCC--CeEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecCCc-CcchHHH
Q 002368 108 SHLANELQVPLLSFTALDPTLSP----LQY--PFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ-GRNGVTA 178 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a~~~~ls~----~~~--~~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~~~-g~~~~~~ 178 (930)
....... +|++-.+.++|.-.+ ... +++.-+. +........++++.+ +.++++++|.++.- +....+.
T Consensus 75 ~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~ 151 (294)
T PF04392_consen 75 AKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQ 151 (294)
T ss_dssp HHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHH
T ss_pred HHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHH
Confidence 5554443 999977776775432 222 2554443 333445566666664 47999999976543 4566788
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~ 228 (930)
+++..++.|+++... .++ +..++...+.++. .+.|++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~-~v~-----~~~~~~~~~~~l~-~~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEI-PVP-----SSEDLEQALEALA-EKVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEE-EES-----SGGGHHHHHHHHC-TT-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEE-ecC-----cHhHHHHHHHHhh-ccCCEEEEECCc
Confidence 888889999997743 332 2567888888875 567888886554
No 202
>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=97.31 E-value=0.086 Score=57.08 Aligned_cols=198 Identities=8% Similarity=-0.007 Sum_probs=107.2
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~a 106 (930)
||++.|- +..+-.....+++-+.++. |....+...++..++..-.+....++++++.+|| -|..+.....
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 5677664 3333345566777666663 3222222234556777777778888888777655 3444444344
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccC-ChHHHHHHHHHHHH-Hc-CCcEEEEEEecCCc--CcchHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP-NDLYLMSAIAEMVS-YF-GWGEVIAIFNDDDQ--GRNGVTALGD 181 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p-~~~~~~~ai~~~l~-~~-~w~~vaii~~d~~~--g~~~~~~~~~ 181 (930)
....+.+.+||+|.+....+. + +....... ++...+...++.+. ++ +-++|+++..+... .....+.+.+
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 455577789999987543221 1 11233333 33334444555543 32 33799999754322 1234577777
Q ss_pred HHHhcC---cEEEEEEecCCCCCCChhHHHHHHHHHhcCC--ceEEEEEcchhhHHHHHHHHHHcCCC
Q 002368 182 KLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 244 (930)
Q Consensus 182 ~l~~~g---~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~--~~viv~~~~~~~~~~~~~~a~~~g~~ 244 (930)
.+++.| .+++... ... ...++-...+.++.+.+ +++|+. .....+...++++++.|..
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 777653 3443221 111 11333344455554444 455554 3456667788888888864
No 203
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.29 E-value=0.031 Score=59.38 Aligned_cols=200 Identities=12% Similarity=-0.009 Sum_probs=119.4
Q ss_pred EeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEccCChhhHHH
Q 002368 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQ-FMETDTLAIVGPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~-li~~~v~aiiGp~~S~~~~a 106 (930)
||++.|-. ..+-.....+++.+.++. |+++.+...|+ + ........+ +...+|++||=-..... ..
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~--------gy~~~~~~~~~--~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~ 69 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQ--------RYDLALFPLLS--L-ARLKRYLESTTLAYLTDGLLLASYDLT-ER 69 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHC--------CCEEEEEeCCC--c-HHHHHHHHHHHHhcCCCEEEEecCccC-hH
Confidence 78888863 444455667777777662 67777655442 2 222333433 55557776663222112 23
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--C------cCcchHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--D------QGRNGVTA 178 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~------~g~~~~~~ 178 (930)
....+.+.++|++...... ...+++ .+++..-+..+++.+... .++++++..+. . .+....+.
T Consensus 70 ~~~~l~~~~iPvv~~~~~~-----~~~~~v---~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~g 140 (269)
T cd06297 70 LAERRLPTERPVVLVDAEN-----PRFDSF---YLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRAG 140 (269)
T ss_pred HHHHHhhcCCCEEEEccCC-----CCCCEE---EECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHHH
Confidence 4455677899999875432 123333 357777778888887777 89999986432 2 34456889
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
|++.+++.|+++.....+... ....+....+.++.+. ++++|+.. +...+..+++.+++.|...++-+-+.
T Consensus 141 f~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 141 FQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 999999998865322111111 1133344566666543 35665544 55577789999999998655444333
No 204
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.28 E-value=0.0018 Score=67.69 Aligned_cols=121 Identities=24% Similarity=0.289 Sum_probs=76.7
Q ss_pred CCCCChHHhhhCCCeEEEEeCchh-----HHHHH-HhcCCCc---cceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHH
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFA-----ENYLI-EELSIPK---SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFL 747 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~-----~~~l~-~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 747 (930)
++|++++||. |++|++...+.. ...+. ++.+... .+.+...+.+..+.+|.+|.+|+.+......+.+.
T Consensus 95 s~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~~Da~~~~~~~~~~~~ 172 (243)
T PF12974_consen 95 SPITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGKADAAAIPSDAFERLE 172 (243)
T ss_dssp SS--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTSSSEEEEEHHHHHHHH
T ss_pred CCCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCCccEEEEechhHHHHH
Confidence 4799999996 999998764422 22222 2333332 13345668899999999999999998877777666
Q ss_pred hcC----cceEEeCCccccCccEEEecCCCc--chhHHHHHHHhccccccHHHHHHhh
Q 002368 748 SDH----CQFSVRGQEFTKSGWGFAFPRDSP--LAIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 748 ~~~----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
... .+++++...-......++..++-| .++.+-.+++.+..+-.-..+.+.+
T Consensus 173 ~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 173 AEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 542 357777654333355677888766 8999999999999865555555544
No 205
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.27 E-value=0.0019 Score=70.41 Aligned_cols=71 Identities=25% Similarity=0.352 Sum_probs=50.1
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHHH---hcCCCccce-EeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhc
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLIE---ELSIPKSRL-VALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 749 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 749 (930)
++|++++||. |++|++..++..+.++.. ..+.....+ ..+.+..+...++.+|++|+++...++......+
T Consensus 119 s~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~vDa~~~~ep~~~~~~~~ 193 (314)
T PRK11553 119 SPIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGNVDAWAIWDPYYSAALLQ 193 (314)
T ss_pred CCCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCCCCEEEEcCcHHHHHHhc
Confidence 3688999996 889999888766665543 223332222 2344777889999999999998887777665554
No 206
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=97.20 E-value=0.058 Score=59.71 Aligned_cols=205 Identities=7% Similarity=-0.042 Sum_probs=119.4
Q ss_pred ceEEEeEEeecC-CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 25 ~~I~IG~~~~l~-~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
..-.||+++|-. ..+-.....|++-++++. |+.+. +.++..++..-......+.++++++||=-.....
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~--------gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~~ 127 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH--------QKYVL--IGNSYHEAEKERHAIEVLIRQRCNALIVHSKALS 127 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC--------CCEEE--EEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 346799999853 444445566666666652 45543 4455556655555666677777777663211111
Q ss_pred HHHHHHhhhcCCCc-EEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchHHHHH
Q 002368 104 AHVLSHLANELQVP-LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALG 180 (930)
Q Consensus 104 ~~av~~~~~~~~vp-~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~~~~~ 180 (930)
...+..+.. ++| ++......+ +..+++ ...++..-+..+++++...|.+++++|.... ..+....+.|.
T Consensus 128 ~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (346)
T PRK10401 128 DDELAQFMD--QIPGMVLINRVVP---GYAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWM 199 (346)
T ss_pred hHHHHHHHh--cCCCEEEEecccC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHH
Confidence 122333333 355 666543322 112233 3345555667778888889999999997433 33456778999
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEE
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~ 250 (930)
+++++.|+.+......... .....-...+.++.+. .+++|+ +.+...+..+++.+++.|+..++-+-
T Consensus 200 ~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~dis 268 (346)
T PRK10401 200 SALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLS 268 (346)
T ss_pred HHHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceE
Confidence 9999999764321111111 1122223345555433 467765 45667788899999999987554343
No 207
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=97.16 E-value=0.063 Score=58.15 Aligned_cols=197 Identities=12% Similarity=0.010 Sum_probs=116.6
Q ss_pred EeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCChhhHHH
Q 002368 29 VGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (930)
Q Consensus 29 IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~S~~~~a 106 (930)
||++.|- .+.+-.....+++-++++. |+++ .+.++..++..-.+....++.++|++|| .|..+.....
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~--------g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~ 70 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL--------GAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSN 70 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc--------CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHH
Confidence 5666653 3333344455555555552 5555 4567777777777778888888877666 3333333344
Q ss_pred HHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCc-EEEEEEec--CCcCcchHHHHHHHH
Q 002368 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAIFND--DDQGRNGVTALGDKL 183 (930)
Q Consensus 107 v~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~-~vaii~~d--~~~g~~~~~~~~~~l 183 (930)
....+.+.++|+|.+....+ . .+....+..++...+..+++++...+.+ +++++..+ ........+.+++.+
T Consensus 71 ~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 71 AVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHHHCCCeEEEecCcCC---C--CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 55566788999998754321 1 1222345567777788888988777655 78887643 222333457788888
Q ss_pred Hhc----CcEEEEEEecCCCCCCChhHHHHHHHHHhc---CCceEEEEEcchhhHHHHHHHHHHcCCC
Q 002368 184 AEI----RCKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (930)
Q Consensus 184 ~~~----g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~viv~~~~~~~~~~~~~~a~~~g~~ 244 (930)
++. ++.+.... +... ....+....+.++.. ..+++|+. .+...+..+++++++.|+.
T Consensus 146 ~~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGDIKIVGDQ-WVDG--WLPENALRIMENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCCeEEecCc-CCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 764 35543221 1111 123344556666543 24676554 4455566789999999974
No 208
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=97.13 E-value=0.062 Score=58.36 Aligned_cols=209 Identities=11% Similarity=0.031 Sum_probs=123.8
Q ss_pred CceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChh
Q 002368 24 PEVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (930)
Q Consensus 24 ~~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~ 102 (930)
...-+||++.|- +..+-.....+++-+.++. |+.+.+ .++..+...-......+...+|++||=-.+..
T Consensus 33 ~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~ 102 (309)
T PRK11041 33 NESRTILVIVPDICDPFFSEIIRGIEVTAAEH--------GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSRL 102 (309)
T ss_pred CCCcEEEEEeCCCcCccHHHHHHHHHHHHHHC--------CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCC
Confidence 345789999985 4555566777887777763 455544 45555666555666677777888777311111
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC--cCcchHHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~--~g~~~~~~~~ 180 (930)
....... ......|++..+...+. ..+++ ...++...+..+++++...|.++++++..... ......+.|+
T Consensus 103 ~~~~~~~-~~~~~~pvv~~~~~~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 103 PFDASKE-EQRNLPPMVMANEFAPE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred ChHHHHH-HHhcCCCEEEEccccCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 1111111 22222467765433221 12333 44566677778888888889999999975432 2345678899
Q ss_pred HHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 181 ~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
+.+++.|+++.....+... .........+.++.+. .+++|+. +....+..+++.+++.|+..++-+.|.
T Consensus 176 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 176 QALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 9999988765321111111 1233344566666543 3677665 455666688999999997544333333
No 209
>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=97.12 E-value=0.056 Score=57.39 Aligned_cols=191 Identities=10% Similarity=0.005 Sum_probs=109.9
Q ss_pred EEeEEeecC------CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-ccCC
Q 002368 28 NVGAIFSFG------TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQS 100 (930)
Q Consensus 28 ~IG~~~~l~------~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aii-Gp~~ 100 (930)
|||++.+.+ ..+-.....+++-++++ . |+++.+...+ .+. .+..++++++| .+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~ 62 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE----L----GIELTKFFRD--DDL--------LEILEDVDGIIAIGKF 62 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH----c----CCEEEEEecc--chh--------HHhccCcCEEEEecCC
Confidence 589999854 23333444555555544 2 5666655432 211 12345666665 2222
Q ss_pred hhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCC-------cCc
Q 002368 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-------QGR 173 (930)
Q Consensus 101 S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~-------~g~ 173 (930)
+. .....+.+.++|++...... .+..+++ ...++...+..+++++...|.++++++..... ..+
T Consensus 63 ~~---~~~~~~~~~~~pvV~~~~~~---~~~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~ 133 (270)
T cd01544 63 SQ---EQLAKLAKLNPNLVFVDSNP---APDGFDS---VVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIED 133 (270)
T ss_pred CH---HHHHHHHhhCCCEEEECCCC---CCCCCCE---EEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhh
Confidence 22 33445566789999875432 2223343 45577777888888888899999999985432 344
Q ss_pred chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC----CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 174 ~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~----~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
.....|.+++.+.|.. .....+... .+..+....++++.+. .+++|+ +++...+..+++.+++.|+..++-+
T Consensus 134 ~R~~gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vp~di 209 (270)
T cd01544 134 PRETAFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTAFF-IASDPMAIGALRALQEAGIKVPEDV 209 (270)
T ss_pred HHHHHHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCce
Confidence 5578899999998841 100111111 1122333444454332 356544 4567778889999999998654433
No 210
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=97.06 E-value=0.0031 Score=68.31 Aligned_cols=70 Identities=17% Similarity=0.182 Sum_probs=49.0
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHH---HhcCCCccce--EeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhc
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRL--VALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 749 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~---~~~~~~~~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 749 (930)
..|++++||. |++||+..++..+.++. +..++....+ +.. +..+...++.+|++||++...++.....+.
T Consensus 90 s~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~G~vDa~~~~~p~~~~~~~~ 164 (300)
T TIGR01729 90 SGIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL-KPPQIVAAWQRGDIDAAYVWPPALSELLKS 164 (300)
T ss_pred CCCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec-CcHHHHHHHHcCCcCEEEEecHHHHHHHhc
Confidence 4799999996 99999987765444332 2334433333 333 567889999999999999988877655544
No 211
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=96.93 E-value=0.13 Score=55.88 Aligned_cols=191 Identities=11% Similarity=-0.006 Sum_probs=114.6
Q ss_pred ceEEEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-cCChh
Q 002368 25 EVLNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAV 102 (930)
Q Consensus 25 ~~I~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p~~S~ 102 (930)
..-.||+++|- +..+-.....+++-++++ .|+.+.+ .++..++..-......+...+++++|= |....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFYT--------AGYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHHH--------CCCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 34579999985 233323344455444443 2566543 455556655555555566667887773 22211
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec---CCcCcchHHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTAL 179 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d---~~~g~~~~~~~ 179 (930)
... .....++|++..+... ..++ ...+++..-+..+++++...|.++++++..+ ...+....+.|
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHH----HHHhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 111 2345678888765421 1222 3445667777788888888999999999732 23455678899
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
.+++++.|+.... .... .+..+....+.++...++++|| +.+...+..+++.+++.|.
T Consensus 196 ~~a~~~~gi~~~~---~~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIY---QTGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCcee---eeCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 9999999986321 1111 1122333445555445688765 6677778889999999886
No 212
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.86 E-value=0.07 Score=56.16 Aligned_cols=198 Identities=14% Similarity=0.081 Sum_probs=105.7
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
|||+++|=. ......-.+..-+++++-++. |.+ +.+.+...++.......++++++++.+||+ .+.....++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~--~~~~e~~~~~~~~~~~i~~~~~~g~dlIi~-~g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVE--VTYVENVPEGADAERVLRELAAQGYDLIFG-TSFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCe--EEEEecCCchHhHHHHHHHHHHcCCCEEEE-CchhhhHHH
Confidence 578888732 111122223333444443332 344 444555557778888889999999999998 444555666
Q ss_pred HHhhhcC-CCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec-CCcCcchHHHHHHHHHh
Q 002368 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-DDQGRNGVTALGDKLAE 185 (930)
Q Consensus 108 ~~~~~~~-~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d-~~~g~~~~~~~~~~l~~ 185 (930)
..++.++ ++.++...+..+. +.-..+.|+.... .+.+..+|..+.. -.+|++|... .+........|.+-++.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~~~--~Nv~~~~~~~~e~-~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G~~~ 147 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYKTA--PNVGSYFARIYEG-RYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALGARS 147 (258)
T ss_pred HHHHHHCCCCEEEECCCCCCC--CCeeeEechhhHH-HHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHHHHH
Confidence 7777666 3444433221110 1112233443322 2333344444433 3589999743 23333455667766665
Q ss_pred cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcC
Q 002368 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (930)
Q Consensus 186 ~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g 242 (930)
.+-.+.....+... -.+...-......+.+.++|+|+..+ .....+.++++.|
T Consensus 148 ~~p~~~v~~~~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 148 VNPDATVKVIWTGS-WFDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred HCCCcEEEEEEecC-CCCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 44333333333221 01122334555667778999988887 2345788888876
No 213
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.82 E-value=0.21 Score=53.29 Aligned_cols=205 Identities=14% Similarity=0.062 Sum_probs=110.4
Q ss_pred EEeEEeec-CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcc-CChhhHH
Q 002368 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGP-QSAVMAH 105 (930)
Q Consensus 28 ~IG~~~~l-~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp-~~S~~~~ 105 (930)
+||++.|- +..+-.....+++-++++. |+++ .+.++..++..-.+....++.++|++||=- .......
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~--------gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI--------GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc--------CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 58888875 3333334556666666552 4554 445666677666667777777777776642 2212112
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCC-eEEEccCChHHHHHHHHHHHHHc--CCcEEEEEEecC-CcCcchHHHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYP-FFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD-DQGRNGVTALGD 181 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~-~~fr~~p~~~~~~~ai~~~l~~~--~w~~vaii~~d~-~~g~~~~~~~~~ 181 (930)
.....+.+.++|+|......+. .....+ .+-....++...+..+++++... |.++++++.... .......+.+..
T Consensus 72 ~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~ 150 (280)
T cd06315 72 AELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKE 150 (280)
T ss_pred HHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHH
Confidence 3334456789999987543211 000011 13345667777788889988777 899999986432 111111234444
Q ss_pred HHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 182 ~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
.+++. +..+......... .........++++.+. .+++ |++.+...+..+++.+++.|+..+
T Consensus 151 ~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~a-i~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 151 IIEACKGCTVLSIEDVPIS--RTATRMPALTARLLQRYGDKWTH-SLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHhCCCCEEEEecccCcc--hhhhhhHHHHHHHHHhcCcccce-ecccchhhhHHhHHHHHHhcccCC
Confidence 44432 3333211111111 1111111334444332 3565 455566677888999999998654
No 214
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=96.44 E-value=0.014 Score=61.43 Aligned_cols=74 Identities=20% Similarity=0.230 Sum_probs=50.1
Q ss_pred CCCCChHHhhh-----CCCeEEE-EeCchhHHHHH---HhcCCCc---cceEeCCCHHHHHHHHHcCCcEEEEccchhhH
Q 002368 677 SPIKGIDTLMT-----SNDRVGY-QVGSFAENYLI---EELSIPK---SRLVALGSPEEYAIALENRTVAAVVDERPYID 744 (930)
Q Consensus 677 ~~i~sl~dL~~-----s~~~i~~-~~~s~~~~~l~---~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~ 744 (930)
+.+++++||.+ .|++|++ ..++.....+. ++.++.. -+++.++. .+...++++|++|+++...|+..
T Consensus 104 ~~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~iDa~~~~eP~~~ 182 (252)
T PF13379_consen 104 SDIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGEIDAAVLWEPFAS 182 (252)
T ss_dssp STTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-SEEEEETTHHH
T ss_pred CCccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCCcCEEEecCCHHH
Confidence 57899999943 4888998 45554433332 3444443 45566666 99999999999999999999988
Q ss_pred HHHhcCc
Q 002368 745 LFLSDHC 751 (930)
Q Consensus 745 ~~~~~~~ 751 (930)
....+..
T Consensus 183 ~~~~~g~ 189 (252)
T PF13379_consen 183 QAEAKGI 189 (252)
T ss_dssp HHHHTTS
T ss_pred HHHhccC
Confidence 8776654
No 215
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=96.27 E-value=0.11 Score=55.11 Aligned_cols=110 Identities=21% Similarity=0.205 Sum_probs=76.9
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhH------HHHHHhcCCCc---cceEeCC-CHHHHHHHHHcCCcEEEEccchhhHHH
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAE------NYLIEELSIPK---SRLVALG-SPEEYAIALENRTVAAVVDERPYIDLF 746 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~------~~l~~~~~~~~---~~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~ 746 (930)
++|++++||. |+++++..-+... .+|.++.+.+. ..-+.+. +.+.++.+|.+|.+|+..........+
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~~ 211 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSARGLL 211 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCCceEEeccHHHHhhh
Confidence 6999999996 9999997533222 23333332221 1123344 489999999999999998887776665
Q ss_pred HhcC-----cceEEeCCccccCccEEEecCCCc--chhHHHHHHHhccc
Q 002368 747 LSDH-----CQFSVRGQEFTKSGWGFAFPRDSP--LAIDMSTAILTLSE 788 (930)
Q Consensus 747 ~~~~-----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~~n~~i~~l~e 788 (930)
.... .+++++.+.-...+..++++++-| +++.+..+++.+.+
T Consensus 212 ~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 212 KKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred hhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 5432 357777654444456788888877 99999999999987
No 216
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=95.81 E-value=0.056 Score=58.74 Aligned_cols=68 Identities=19% Similarity=0.229 Sum_probs=50.5
Q ss_pred CCChHHhhhCCCeEEEEeCchhHHHHHHh---cCCCc--cceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhc
Q 002368 679 IKGIDTLMTSNDRVGYQVGSFAENYLIEE---LSIPK--SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 749 (930)
Q Consensus 679 i~sl~dL~~s~~~i~~~~~s~~~~~l~~~---~~~~~--~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 749 (930)
|+|++||+ |++|++..++..+.++.+. .++.. -+++.. +..+...++.+|.+||.+...|+......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFITKDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhcCCCcEEEEcCchHHHHHhC
Confidence 89999997 9999999998776555432 33432 234444 457889999999999999988887655443
No 217
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=95.78 E-value=0.36 Score=49.95 Aligned_cols=209 Identities=10% Similarity=0.044 Sum_probs=122.2
Q ss_pred cCCCCceEEEeEEeecCCC-cchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEE-EEc
Q 002368 20 GALKPEVLNVGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLA-IVG 97 (930)
Q Consensus 20 ~~~~~~~I~IG~~~~l~~~-~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~a-iiG 97 (930)
+++..++..||+..|--.. --..-..++.-+.+.. |.+.. +.+-+++...-......++.+|+.+ ||+
T Consensus 19 ~aa~~~d~~IGis~~d~~~eRW~~D~~~~~~~~e~~--------g~k~~--~q~A~~~~~~Q~~qien~i~qg~~vlvi~ 88 (341)
T COG4213 19 AAAAAKDGVIGISMPDLRSERWIKDRDAFVKKAEAL--------GAKVD--VQSADGDEEKQLAQIENMINQGVKVLVIG 88 (341)
T ss_pred hhhhccCCeEEEEcCChhHhhhhhhhHHHHHHHHhc--------cchhh--hhhhccChhHHHHHHHHHHhcCCCEEEEE
Confidence 3566778999998876311 1112233443344432 45444 4455556777788899999997655 569
Q ss_pred cCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEcc--CChHHHHHHHHHHHHHcC---CcEEEEEE--ecCC
Q 002368 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTA--PNDLYLMSAIAEMVSYFG---WGEVIAIF--NDDD 170 (930)
Q Consensus 98 p~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~--p~~~~~~~ai~~~l~~~~---w~~vaii~--~d~~ 170 (930)
|..|.....+.+.+...+||+|+|.- .+.+....|+...- .--..|+.++.+.++... -..+.++. ++|.
T Consensus 89 a~d~~~l~~~i~~A~~~gikViaYDR---lI~n~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~Dn 165 (341)
T COG4213 89 AIDGGVLSNAVEKAKSEGIKVIAYDR---LINNADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDN 165 (341)
T ss_pred eccchhHHHHHHHHHHcCCeEEEeec---ccccCCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCc
Confidence 99999999999999999999998833 23333333433221 222456666666555543 44556665 2222
Q ss_pred ----cCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc---CCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 171 ----QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 171 ----~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
|-.+..+.++..+..-.++++.+...+.- ..+.....+..+.. .+-|.|+..-. ..+.-.+..++..|+
T Consensus 166 NA~lf~~G~m~VLkp~idsGkik~~Ge~~~d~W---~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl 241 (341)
T COG4213 166 NAKLFFAGAMKVLKPLIDSGKIKVVGEQWTDGW---LPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGL 241 (341)
T ss_pred chHHHHhcHHHHHHHHhhCCceEEeeecccccc---CHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhccc
Confidence 22334456666666556777666655543 13333333333332 33455444433 556677888888898
Q ss_pred CC
Q 002368 244 MD 245 (930)
Q Consensus 244 ~~ 245 (930)
.+
T Consensus 242 ~g 243 (341)
T COG4213 242 AG 243 (341)
T ss_pred CC
Confidence 63
No 218
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.62 E-value=1.1 Score=47.35 Aligned_cols=184 Identities=9% Similarity=-0.019 Sum_probs=106.4
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEe
Q 002368 42 VSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (930)
Q Consensus 42 ~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~ 121 (930)
....+++-++++ .|+++.+...+.. . ..+...+|+++|=....... .....+.+.++|+|..
T Consensus 24 ~~~~~i~~~~~~--------~gy~~~~~~~~~~---~------~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~~iPvV~i 85 (269)
T cd06287 24 EVAAAAAESALE--------RGLALCLVPPHEA---D------SPLDALDIDGAILVEPMADD-PQVARLRQRGIPVVSI 85 (269)
T ss_pred HHHHHHHHHHHH--------CCCEEEEEeCCCc---h------hhhhccCcCeEEEecCCCCC-HHHHHHHHcCCCEEEe
Confidence 445555555554 2577776554411 1 12334578776631111111 2233445679999987
Q ss_pred ecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCC
Q 002368 122 TALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPD 199 (930)
Q Consensus 122 ~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~ 199 (930)
....+. ...++++ ..++...+..+++.+...|.+++++|... ..........|.+++++.|+..... .....
T Consensus 86 ~~~~~~--~~~~~~V---~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~ 159 (269)
T cd06287 86 GRPPGD--RTDVPYV---DLQSAATARMLLEHLRAQGARQIALIVGSARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEA 159 (269)
T ss_pred CCCCCC--CCCCCeE---eeCcHHHHHHHHHHHHHcCCCcEEEEeCCcccccHHHHHHHHHHHHHHcCCCccee-EecCC
Confidence 543210 1223443 34666667888888888999999999643 2334456788999999988764321 11111
Q ss_pred CCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceEEEE
Q 002368 200 QSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (930)
Q Consensus 200 ~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~~i~ 252 (930)
...++-...++++.+. ++++|+ +.+...+..+++.+++.|+..++-+-|.
T Consensus 160 --~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl~vP~dvsvi 211 (269)
T cd06287 160 --GGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGRAVPDQLRVV 211 (269)
T ss_pred --CChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 1123333455665443 467655 4566778889999999998766544333
No 219
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=95.09 E-value=0.18 Score=53.90 Aligned_cols=71 Identities=17% Similarity=0.295 Sum_probs=48.9
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHHH---hcCCCccce-EeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhc
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLIE---ELSIPKSRL-VALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 749 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 749 (930)
++|++++||. |++|++..++.....+.. ..+.....+ ..+.+..+...++.+|++|+++...++...+..+
T Consensus 91 ~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 91 SPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQVDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCCCCEEEeccchHhHHhhc
Confidence 4789999996 889998877644443322 234433322 2234567889999999999999988887666544
No 220
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=95.00 E-value=0.15 Score=52.09 Aligned_cols=63 Identities=29% Similarity=0.293 Sum_probs=41.2
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHH---HhcCCCccceEeC-CCHHHHHHHHHcCCcEEEEccch
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRLVAL-GSPEEYAIALENRTVAAVVDERP 741 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~---~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~a~~~~~~ 741 (930)
+.|++++||. |++||+..++....++. +..++..+.+... .+..+...+|.+|++||.+...+
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~vDa~~~~~~ 149 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQVDAAILWYP 149 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTSSSEEEEEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCCCCEEEEccC
Confidence 4699999997 99999998765444332 3445544444332 23666777999999999984433
No 221
>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=94.95 E-value=0.63 Score=46.52 Aligned_cols=195 Identities=18% Similarity=0.168 Sum_probs=120.2
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
.+||||+.. .+. ..+-.+++..+.++.+- ++++... ++..+++..|.+|++|++++..
T Consensus 6 ~~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~P~-i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 63 (209)
T PF03466_consen 6 GTLRIGASP--SFA------------SSLLPPLLAEFRERHPN-IRIEIRE-------GDSDELIEALRSGELDLAITFG 63 (209)
T ss_dssp EEEEEEEEH--HHH------------HHTHHHHHHHHHHHSTT-EEEEEEE-------ESHHHHHHHHHTTSSSEEEESS
T ss_pred eEEEEEEEh--HHH------------HHHHHHHHHHHHHHCCC-cEEEEEe-------ccchhhhHHHhcccccEEEEEe
Confidence 568888874 111 23346778888887763 5666665 5678999999999999998744
Q ss_pred EEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccch
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 621 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 (930)
.. ....+. ..++....+++++++..+...
T Consensus 64 ~~---~~~~~~-~~~l~~~~~~~~~~~~~pl~~----------------------------------------------- 92 (209)
T PF03466_consen 64 PP---PPPGLE-SEPLGEEPLVLVVSPDHPLAQ----------------------------------------------- 92 (209)
T ss_dssp SS---SSTTEE-EEEEEEEEEEEEEETTSGGGT-----------------------------------------------
T ss_pred ec---cccccc-cccccceeeeeeeeccccccc-----------------------------------------------
Confidence 33 222233 467778888999887652110
Q ss_pred hhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEe-Cchh
Q 002368 622 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQV-GSFA 700 (930)
Q Consensus 622 ~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~-~s~~ 700 (930)
..++ +++||. +.++.... +...
T Consensus 93 ------------------------------------------------------~~~i-~~~dL~--~~~~i~~~~~~~~ 115 (209)
T PF03466_consen 93 ------------------------------------------------------KKPI-TLEDLA--DYPLILLSPGSPY 115 (209)
T ss_dssp ------------------------------------------------------TSSS-SGGGGT--TSEEEEESTTTSH
T ss_pred ------------------------------------------------------cccc-hhhhhh--hcccccccccccc
Confidence 0334 889996 56654443 4434
Q ss_pred HHHHHH---hcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCC-ccccCccEEEecCCCcch
Q 002368 701 ENYLIE---ELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQ-EFTKSGWGFAFPRDSPLA 776 (930)
Q Consensus 701 ~~~l~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~k~spl~ 776 (930)
...+.+ ..+.........++.+.....+.+|..-+++-......+.....-....+.+ .+. ..+.++.+++.+..
T Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~-~~~~l~~~~~~~~~ 194 (209)
T PF03466_consen 116 RDQLDRWLREHGFSPNIVIEVDSFESILSLVASGDGIAILPDSLAQDELESGELVFLPLPDPPLP-RPIYLVWRKDRPLS 194 (209)
T ss_dssp HHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHTTSEBEEEEHHHHHHHHHCTTEEEEEESSSTEE-EEEEEEEETTGTTH
T ss_pred ccccccccccccccccccccccchhhhccccccccceeecCcccccccccCCCEEEEECCCCCCc-eEEEEEEECCCCCC
Confidence 444432 2233334446678999999999988776666554433443222223234444 443 67888889987766
Q ss_pred hHHHHHHHhcc
Q 002368 777 IDMSTAILTLS 787 (930)
Q Consensus 777 ~~~n~~i~~l~ 787 (930)
..+...+..+.
T Consensus 195 ~~~~~~~~~l~ 205 (209)
T PF03466_consen 195 PAIQWFIDLLR 205 (209)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 66666555443
No 222
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=94.85 E-value=0.098 Score=57.15 Aligned_cols=60 Identities=27% Similarity=0.207 Sum_probs=40.8
Q ss_pred CCCCChHHhhhCCCeEEEEe-CchhH----HHHHHhcCCCccc--eEeCCCHHHHHHHHHcCCcEEEEcc
Q 002368 677 SPIKGIDTLMTSNDRVGYQV-GSFAE----NYLIEELSIPKSR--LVALGSPEEYAIALENRTVAAVVDE 739 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~-~s~~~----~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~a~~~~ 739 (930)
.++++++||. ++++++.. ++... .++ +..+..... .+.+.+..+...+|.+|++|+++..
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l-~~~G~~~~~~~~v~~~~~~~~~~al~~G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVL-KAAGLTYDDVKKVEYLGYAEAADALKDGKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHH-HHcCCCHHHccchhcCCHHHHHHHHHCCCccEEEEe
Confidence 4688999996 77777753 33222 223 334443222 3567788899999999999999977
No 223
>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=94.85 E-value=1.5 Score=42.74 Aligned_cols=70 Identities=21% Similarity=0.345 Sum_probs=46.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+..++++.+.++.+ .+++++.. .+..+++..+.+|++|++++.... ....++ ..++....+++++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecC
Confidence 345677777777764 35566554 446789999999999999874432 222333 445667778888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 55
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=94.80 E-value=1.7 Score=42.53 Aligned_cols=70 Identities=20% Similarity=0.190 Sum_probs=46.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..+++..+.+|++|+++.. .+.....+ ...+..+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~---~~~~~~~~-~~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVA---GPVEHPRL-EQEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEe---CCCCCCCc-EEEEeecCcEEEEecC
Confidence 455788888888775 24566554 557789999999999998853 12222222 2456667778887776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 54
No 225
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=94.72 E-value=2.4 Score=46.35 Aligned_cols=193 Identities=8% Similarity=-0.046 Sum_probs=107.5
Q ss_pred ceEEEeEEeec-----CCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-c
Q 002368 25 EVLNVGAIFSF-----GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-P 98 (930)
Q Consensus 25 ~~I~IG~~~~l-----~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiG-p 98 (930)
..-.||++.+. +..+-.....+++-++++ .|+.+.+. .|...+ ....+|+++|- |
T Consensus 62 ~~~~i~v~~~~~~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~~~-~~~~~~----------~~~~~vDgiI~~~ 122 (327)
T PRK10339 62 QHHILAIYSYQQELEINDPYYLAIRHGIETQCEK--------LGIELTNC-YEHSGL----------PDIKNVTGILIVG 122 (327)
T ss_pred cccEEEEEEccccccccCchHHHHHHHHHHHHHH--------CCCEEEEe-eccccc----------cccccCCEEEEeC
Confidence 34567777642 333333455666655554 25666543 232211 01346776663 2
Q ss_pred CChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecC--CcCcchH
Q 002368 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGV 176 (930)
Q Consensus 99 ~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~--~~g~~~~ 176 (930)
..+. .....+.+.++|++......+ ...+++ ...++...+..+++++...|.++++++..+. .......
T Consensus 123 ~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~~---V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~~~~~~~~R~ 193 (327)
T PRK10339 123 KPTP---ALRAAASALTDNICFIDFHEP---GSGYDA---VDIDLARISKEIIDFYINQGVNRIGFIGGEDEPGKADIRE 193 (327)
T ss_pred CCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCCE---EEECHHHHHHHHHHHHHHCCCCeEEEeCCccccchhhHHH
Confidence 2222 234455677899997643221 122333 4556666678888888888999999996433 2334456
Q ss_pred HHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC--CceEEEEEcchhhHHHHHHHHHHcCCCCCceE
Q 002368 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (930)
Q Consensus 177 ~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~--~~~viv~~~~~~~~~~~~~~a~~~g~~~~~~~ 249 (930)
..|.+++++.|+. .....+... ....+....+.++.+. .+++| ++.+...+..+++++++.|+..++-+
T Consensus 194 ~gf~~~~~~~g~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~~vP~di 264 (327)
T PRK10339 194 VAFAEYGRLKQVV-REEDIWRGG--FSSSSGYELAKQMLAREDYPKAL-FVASDSIAIGVLRAIHERGLNIPQDI 264 (327)
T ss_pred HHHHHHHHHcCCC-ChhheeecC--cChhHHHHHHHHHHhCCCCCCEE-EECCcHHHHHHHHHHHHcCCCCCCce
Confidence 7888888888761 111111111 1122333445555432 46664 44566778889999999998654433
No 226
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=94.61 E-value=2.1 Score=41.83 Aligned_cols=70 Identities=17% Similarity=0.306 Sum_probs=47.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..++.+.+.+|++|+++.... .....+. +.++.+..++++++.
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 455788888888765 35566554 45788999999999999986322 2222232 356777788888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 227
>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=94.35 E-value=2.2 Score=42.44 Aligned_cols=73 Identities=15% Similarity=0.202 Sum_probs=48.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... ++..+++..|.+|++|+++........-...+. +.++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEEEeC
Confidence 455788888988874 25566654 568899999999999999863321100012333 356777788888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 55
No 228
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold. The NAC is a LysR-type transcription regulator that activates expression of operons such as hut (histidine utilization) and ure (urea utilization), allowing use of non-preferred (poor) nitrogen sources, and represses expression of operons, such as glutamate dehydrogenase (gdh), allowing assimilation of the preferred nitrogen source. The expression of the nac gene is fully dependent on the nitrogen regulatory system (NTR) and the sigma54-containing RNA polymerase (sigma54-RNAP). In response to nitrogen starvation, NTR system activates the expression of nac, and NAC activates the expression of hut, ure, and put (proline utilization). NAC is not involved in the transcription of Sigma70-RNAP operons such as glnA, which directly respond by the NTR system, but activates the transcription of sigma70-RNAP dependent operons such as hut.
Probab=94.32 E-value=3.1 Score=40.93 Aligned_cols=70 Identities=19% Similarity=0.279 Sum_probs=46.5
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... .+-.++...|.+|++|+++... +.....+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLYG---PPPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEeC---CCCCCCe-eEEEeccccEEEEecC
Confidence 445678888888765 35565553 3467889999999999998522 2222222 3466777788888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 54
No 229
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=94.32 E-value=2.4 Score=41.67 Aligned_cols=70 Identities=16% Similarity=0.224 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... ++..+++.+|.+|++|+++..... ....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPV---DHPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCcceE-EEeecCccEEEEecC
Confidence 455678888888764 34455543 446788999999999998863322 122232 366777788888775
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 230
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=94.29 E-value=2.1 Score=46.22 Aligned_cols=83 Identities=13% Similarity=0.187 Sum_probs=55.5
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
..++|++... . ..++-..++..+.+..+ .+++.... ++.+++++.+.+|++|+++...
T Consensus 91 g~l~i~~~~~--~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (305)
T PRK11151 91 GPLHIGLIPT--V------------GPYLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILAL 148 (305)
T ss_pred ceEEEEecch--h------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEec
Confidence 5788888751 1 12344567777777655 35666654 4578999999999999998633
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
... ...+ .+.++....+++++++..
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 457888889999887655
No 231
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=94.27 E-value=3 Score=40.79 Aligned_cols=70 Identities=16% Similarity=0.249 Sum_probs=47.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+..++++.+.++.+ .+++.... ++..+++..|.+|++|+++..... ....+. ..++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 455788888888865 35566654 557889999999999999863222 112232 356677788888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 55
No 232
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=94.19 E-value=2.7 Score=41.27 Aligned_cols=69 Identities=17% Similarity=0.278 Sum_probs=46.9
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.++.+ .++++... ++..+++..+.+|++|+++... +.....+. ..++....+++++++.
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~ 81 (198)
T cd08421 14 FLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAG---NVDAAGLE-TRPYRTDRLVVVVPRD 81 (198)
T ss_pred hhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEec---CCCCCCcE-EEEeecCcEEEEeCCC
Confidence 44678888888764 35565554 5578899999999999988632 22223333 4667788888888765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 82 ~ 82 (198)
T cd08421 82 H 82 (198)
T ss_pred C
Confidence 4
No 233
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=94.10 E-value=2.3 Score=45.99 Aligned_cols=86 Identities=16% Similarity=0.187 Sum_probs=54.8
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
.++|||+... . ...+-.+++..+.++.+ .+++.+.. ++...++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~--~------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQT--T------------GTYLMPRLIGLFRQRYP-QINVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCc--c------------hHhHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 5799998851 1 12334677778877754 24455543 4578899999999999998632
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
....+....+ ...++....++++++...
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 1111111112 356777888888887765
No 234
>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=93.96 E-value=3.6 Score=40.34 Aligned_cols=71 Identities=15% Similarity=0.146 Sum_probs=48.4
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEe
Q 002368 488 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 488 ~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
..+-.+++..+.++.+ .++++... ++..+++..+.+|++|+++... +.....+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYD---LDLPEDI-AFEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcC---CCCCccc-ceeeeeccceEEEec
Confidence 3556788888888875 34555554 5678899999999999998632 1112223 246777778888877
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
...
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 654
No 235
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=93.95 E-value=2.5 Score=46.32 Aligned_cols=205 Identities=15% Similarity=0.039 Sum_probs=110.8
Q ss_pred CceEEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEec-CCC-ChHHHHHHHHHHHhcCcEEEEcc
Q 002368 24 PEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD-AKF-NGFLSIMGALQFMETDTLAIVGP 98 (930)
Q Consensus 24 ~~~I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D-~~~-~~~~a~~~a~~li~~~v~aiiGp 98 (930)
....+++++.+=. ....+....|++.+-++. |.+++....+ .+. +........+++.+++...|+|.
T Consensus 33 ~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~ 104 (345)
T COG1744 33 GKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL--------GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGT 104 (345)
T ss_pred ccceEEEEEecCCCCccchhHHHHHHHHHHHHHh--------CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEe
Confidence 3345555554332 233455566666555553 3455553333 222 35556666677888888888875
Q ss_pred CChhhHHHHHHhhhcC-CCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEE-ecCCcCcchH
Q 002368 99 QSAVMAHVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF-NDDDQGRNGV 176 (930)
Q Consensus 99 ~~S~~~~av~~~~~~~-~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~-~d~~~g~~~~ 176 (930)
.. ....++..++.++ ++.++-..+.-+.-. .-..|.||..-.....+.+.+...+ -++++.+. .+-+--....
T Consensus 105 gf-~~~d~~~~va~~~Pd~~F~iid~~~~~~~-Nv~s~~f~~~egayL~G~~AA~~sk---~~~vG~vgg~~~p~v~~f~ 179 (345)
T COG1744 105 GF-AFSDALEKVAAEYPDVKFVIIDGVVKKED-NVASYVFREYEGAYLAGVAAAKMSK---SGKVGFVGGMDIPEVNRFI 179 (345)
T ss_pred cc-chhhHHHHHHHHCCCCEEEEecCccCCCC-ceEEEEeccccHHHHHHHHHHHhhc---CCceeEEecccchhhHHHH
Confidence 44 4566677777776 444443222211111 2345778876554444444444444 23455544 2444445566
Q ss_pred HHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 177 ~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
..|..-.+..+-.+.....+...- .+...-......+.+.++|||+-++.+.... .+.+|++.|.
T Consensus 180 ~gF~~Gak~~np~i~v~v~~~gsf-~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g-v~~~A~~~~~ 244 (345)
T COG1744 180 NGFLAGAKSVNPDIKVKVVYVGSF-SDPAKGKEAANALIDQGADVIYPAAGGTGVG-VFQAAKELGA 244 (345)
T ss_pred HHHHHHHHhhCCCccEEEEEecCc-cChHHHHHHHHHHHhcCCCEEEecCCCCcch-HHHHHHHhCC
Confidence 677777776654443333332220 1222334477788889999999887765433 3337777774
No 236
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=93.74 E-value=5.8 Score=42.87 Aligned_cols=202 Identities=14% Similarity=0.072 Sum_probs=112.3
Q ss_pred EEEeEEeecC---CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEccCChh
Q 002368 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQSAV 102 (930)
Q Consensus 27 I~IG~~~~l~---~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aiiGp~~S~ 102 (930)
.+|+++.|-. ..+.+....|++-+.++. +| +++...+... ++.......+++.+++...||++. ..
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~-------~~--i~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g-~~ 71 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL-------DG--IEIIYVENVPETDADYEEAIRQLADQGYDLIIGHG-FE 71 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC-------TT--EEEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEES-GG
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc-------CC--ceEEEEecCCccHHHHHHHHHHHHHcCCCEEEEcc-HH
Confidence 4677777654 333445566666666662 13 4555555555 566777778888888999999844 44
Q ss_pred hHHHHHHhhhcC-CCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEE----ecCCcCcchHH
Q 002368 103 MAHVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF----NDDDQGRNGVT 177 (930)
Q Consensus 103 ~~~av~~~~~~~-~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~----~d~~~g~~~~~ 177 (930)
...++..++.++ ++-++...+..+.....-..+.||... ....+-.+|.++.+- .+++.+. .+.+--.....
T Consensus 72 ~~~~~~~vA~~yPd~~F~~~d~~~~~~~~Nv~~~~f~~~e-~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~ 148 (306)
T PF02608_consen 72 YSDALQEVAKEYPDTKFIIIDGYIDAPEPNVISITFREEE-ASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFIN 148 (306)
T ss_dssp GHHHHHHHHTC-TTSEEEEESS---ST-TTEEEEEE-HHH-HHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHH
T ss_pred HHHHHHHHHHHCCCCEEEEEecCcCCCCCcEEEEEccccc-hhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHH
Confidence 556777888887 566665544332221122344555433 223344444444443 4778777 34444456677
Q ss_pred HHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 178 ~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
.|..-.+..+-.+.....+..+ -.+...-...-..+-..++|||+..+.. ....++.++++.|.
T Consensus 149 gF~~Ga~~~np~i~v~~~~~gs-~~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 149 GFIAGAKYVNPDIKVNVSYTGS-FNDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHHHHTTTT-EEEEEE-SS-SS-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCceEEEEEcCC-cCchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 7888777665444433333322 1223344555566777999999986654 45568889999874
No 237
>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=93.68 E-value=4.6 Score=42.06 Aligned_cols=143 Identities=9% Similarity=0.003 Sum_probs=87.8
Q ss_pred HHHHHhcCcEEEE--ccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHH--cCC
Q 002368 84 ALQFMETDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGW 159 (930)
Q Consensus 84 a~~li~~~v~aii--Gp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~--~~w 159 (930)
..++++.+|+++| ++..+. ........+.++|++...-..+. ...+++ ...++..-+..+++.+.. .|.
T Consensus 45 ~~~~~~~~vdGvIi~~~~~~~--~~~~~~~~~~~~PvV~i~~~~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~ 117 (247)
T cd06276 45 IISNTKGKYSGYVVMPHFKNE--IQYFLLKKIPKEKLLILDHSIPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKY 117 (247)
T ss_pred HHHHHhcCCCEEEEecCCCCc--HHHHHHhccCCCCEEEEcCcCCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCC
Confidence 3344456666666 432222 11344555578999987543211 122333 445666667788888888 899
Q ss_pred cEEEEEEecC-CcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHH
Q 002368 160 GEVIAIFNDD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (930)
Q Consensus 160 ~~vaii~~d~-~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a 238 (930)
+++++|.... ..++...+.|.+++++.|+.... .. . ..+ ..+ .++++ |++.+...+..+++.+
T Consensus 118 ~~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~----~~~--~~~-----~~~~a-i~~~~d~~A~g~~~~l 181 (247)
T cd06276 118 KKLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D----YEN--REI-----EKGDL-YIILSDTDLVFLIKKA 181 (247)
T ss_pred CEEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c----cch--hhc-----cCCcE-EEEeCHHHHHHHHHHH
Confidence 9999997533 34556788999999999986432 11 1 011 001 12454 5666777888999999
Q ss_pred HHcCCCCCceE
Q 002368 239 QRLGMMDSGYV 249 (930)
Q Consensus 239 ~~~g~~~~~~~ 249 (930)
++.|+..++-+
T Consensus 182 ~~~g~~iP~di 192 (247)
T cd06276 182 RESGLLLGKDI 192 (247)
T ss_pred HHcCCcCCcee
Confidence 99998655433
No 238
>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=93.53 E-value=0.68 Score=47.65 Aligned_cols=93 Identities=9% Similarity=0.044 Sum_probs=73.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCC-----CCChhHHHHHHHHHhcCCceE
Q 002368 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVRMMEARV 221 (930)
Q Consensus 147 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~-----~~~~~d~~~~l~~l~~~~~~v 221 (930)
+.|+.+-++++|.+|++++. +|-....+.+.+.+++.|++|+....+.... ..+.+++...+.++...++|+
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 57888889999999999996 5777899999999999999998765444321 123455666666666788999
Q ss_pred EEEEcchhhHHHHHHHHHH-cC
Q 002368 222 IVVHGYSRTGLMVFDVAQR-LG 242 (930)
Q Consensus 222 iv~~~~~~~~~~~~~~a~~-~g 242 (930)
|++.|..-....++.++.+ +|
T Consensus 185 ifisCTnLrt~~vi~~lE~~lG 206 (239)
T TIGR02990 185 LFLSCTALRAATCAQRIEQAIG 206 (239)
T ss_pred EEEeCCCchhHHHHHHHHHHHC
Confidence 9999999888888888865 45
No 239
>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=93.52 E-value=2.9 Score=41.33 Aligned_cols=70 Identities=16% Similarity=0.160 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++.+++...|.+|++|+++..... ....+. +.|..+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGFF-QQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccce-EEEeecCceEEEEcC
Confidence 344678888888765 24555554 456788999999999999863221 122233 467788888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 240
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=93.52 E-value=2.8 Score=45.57 Aligned_cols=207 Identities=12% Similarity=0.059 Sum_probs=118.9
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
.++|+||+.. .. ...+-.+++..+.++.+ .+.+.... ++...++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTH--TQ------------ARYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEech--HH------------HHHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 4679999974 11 12334677888887754 34555554 557899999999999999853
Q ss_pred EEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccc
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 620 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 620 (930)
-.... . ..+ -..|+....++++++...+..
T Consensus 150 ~~~~~-~-~~l-~~~~l~~~~~~~v~~~~~pl~----------------------------------------------- 179 (313)
T PRK12684 150 EAIAD-Y-KEL-VSLPCYQWNHCVVVPPDHPLL----------------------------------------------- 179 (313)
T ss_pred cCCCC-C-CCc-eEEEeccceEEEEeCCCCccc-----------------------------------------------
Confidence 11111 1 122 246677777888877655210
Q ss_pred hhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCchh
Q 002368 621 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 700 (930)
Q Consensus 621 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s~~ 700 (930)
....-+++||.+.. -|.+..++..
T Consensus 180 -------------------------------------------------------~~~~i~~~dL~~~~-~i~~~~~~~~ 203 (313)
T PRK12684 180 -------------------------------------------------------ERKPLTLEDLAQYP-LITYDFAFAG 203 (313)
T ss_pred -------------------------------------------------------cCCCcCHHHHhcCC-cEecCCCCcH
Confidence 01234678886333 2444444433
Q ss_pred HHHHH---HhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC--CccccCccEEEecCCCcc
Q 002368 701 ENYLI---EELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSPL 775 (930)
Q Consensus 701 ~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl 775 (930)
...+. +..+.........++.+.....+..|.--+++... ...... ..++..+. .......+.++.+|+.++
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~Gv~~lp~~-~~~~~~--~~~l~~~~i~~~~~~~~~~l~~~~~~~~ 280 (313)
T PRK12684 204 RSKINKAFALRGLKPDIVLEAIDADVIKTYVELGLGVGIVADM-AFDPER--DRNLRAIDAGHLFGSSTTRLGLRRGAYL 280 (313)
T ss_pred HHHHHHHHHHcCCCCCeEEEeCCHHHHHHHHHhCCceEEeehh-hccccc--cCCeEEEECCCCCcceeEEEEEECCCcC
Confidence 33322 22344444456678899999999987655666543 232221 22444443 233344678899999877
Q ss_pred hhHHHHHHHhccccccHHHHHHhh
Q 002368 776 AIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 776 ~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
...+...+..+.+ -+..++.++-
T Consensus 281 ~~~~~~f~~~l~~-~~~~~~~~~~ 303 (313)
T PRK12684 281 RGYVYTFIELFAP-TLNRKLVEQA 303 (313)
T ss_pred CHHHHHHHHHHHH-HhCHHHHHHH
Confidence 7766666654443 2333444433
No 241
>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=93.49 E-value=4.9 Score=39.45 Aligned_cols=72 Identities=24% Similarity=0.269 Sum_probs=47.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..++...+.+|++|++++..... .....+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCC
Confidence 445677888888765 45566654 5578999999999999998632111 1112233 356667788888765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 54
No 242
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=93.33 E-value=6 Score=42.96 Aligned_cols=208 Identities=11% Similarity=0.094 Sum_probs=127.8
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
...||||+.. .+ ...+-.+++..+.++.+ .+.+.... ++..+++..+.+|++|+++..
T Consensus 92 ~g~lrIg~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~ 149 (316)
T PRK12679 92 SGVLTIATTH--TQ------------ARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIAS 149 (316)
T ss_pred CceEEEEech--Hh------------hhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEec
Confidence 3579999975 22 13445678888888765 24455543 557789999999999999863
Q ss_pred EEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccc
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 620 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 620 (930)
... .. ...+. +.++....+++++++..+...
T Consensus 150 ~~~-~~-~~~l~-~~~l~~~~~~~v~~~~hpl~~---------------------------------------------- 180 (316)
T PRK12679 150 ERL-SN-DPQLV-AFPWFRWHHSLLVPHDHPLTQ---------------------------------------------- 180 (316)
T ss_pred ccC-CC-CCCce-EEEccCCcEEEEecCCCcccc----------------------------------------------
Confidence 211 11 12233 357788888888876652110
Q ss_pred hhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCe-EEEEeCch
Q 002368 621 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR-VGYQVGSF 699 (930)
Q Consensus 621 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~-i~~~~~s~ 699 (930)
...-+++||. +.+ |....+..
T Consensus 181 --------------------------------------------------------~~~i~~~~L~--~~~~i~~~~~~~ 202 (316)
T PRK12679 181 --------------------------------------------------------ITPLTLESIA--KWPLITYRQGIT 202 (316)
T ss_pred --------------------------------------------------------CCCCCHHHHh--CCCeEEecCCCc
Confidence 1234778886 333 33333432
Q ss_pred ----hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC--CccccCccEEEecCCC
Q 002368 700 ----AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDS 773 (930)
Q Consensus 700 ----~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~s 773 (930)
...++ ...+.........++.+...+.+..|.--+++-... ... . +..++..+. .......+.++.+|+.
T Consensus 203 ~~~~~~~~~-~~~~~~~~~~~~~~s~~~~~~~v~~g~Gi~~lp~~~-~~~-~-~~~~L~~~~~~~~~~~~~~~l~~~~~~ 278 (316)
T PRK12679 203 GRSRIDDAF-ARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQS-SGE-Q-EESNLIRLDTRHLFDANTVWLGLKRGQ 278 (316)
T ss_pred HHHHHHHHH-HHcCCCceEEEEeccHHHHHHHHHcCCcEEEecccc-ccc-c-cCCcEEEEECcccCCCceEEEEEeCCc
Confidence 23334 233444344566788888888998876656665433 332 2 333455443 2333456788899998
Q ss_pred cchhHHHHHHHhccccccHHHHHHhhcc
Q 002368 774 PLAIDMSTAILTLSENGELQRIHDKWLR 801 (930)
Q Consensus 774 pl~~~~n~~i~~l~e~G~~~~~~~~~~~ 801 (930)
+....+...+.-+.+.--.+.+.++-+.
T Consensus 279 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 279 LQRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred hhhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 8888888888777666667777777665
No 243
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=93.33 E-value=0.24 Score=41.16 Aligned_cols=55 Identities=24% Similarity=0.447 Sum_probs=47.0
Q ss_pred cccchhhHHHHHHHhhccc--cCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeee
Q 002368 617 RKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILT 671 (930)
Q Consensus 617 ~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt 671 (930)
..+..+++|+++.++...| .-.|.+..+|++.+.+.++++.+.....+.+.+.++
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5578999999999998776 337889999999999999999999999999888764
No 244
>cd08415 PBP2_LysR_opines_like The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulators, OccR and NocR, involved in the catabolism of opines and that of LysR for lysine biosynthesis which clustered together in phylogenetic trees. Opines, such as octopine and nopaline, are low molecular weight compounds found in plant crown gall tumors that are produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. NocR and OccR belong to the family of LysR-type transcriptional regulators that positively regulates the catabolism of nopaline and octopine, respectively. Both nopaline and octopalin are arginine derivatives. In Agrobacterium tumefa
Probab=93.29 E-value=4.7 Score=39.40 Aligned_cols=71 Identities=13% Similarity=0.173 Sum_probs=48.4
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEe
Q 002368 488 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 488 ~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
..+..+++..+.+..+ .+++.... ++..++...+.+|++|+++..... . ...+ .+.|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~ 79 (196)
T cd08415 12 LSLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPL--D-HPGL-ESEPLASGRAVCVLP 79 (196)
T ss_pred ccccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCC--C-CCcc-eeeeecccceEEEEc
Confidence 3456788889988765 35566554 557889999999999999863211 1 1222 356777788888887
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
+..
T Consensus 80 ~~~ 82 (196)
T cd08415 80 PGH 82 (196)
T ss_pred CCC
Confidence 654
No 245
>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=93.19 E-value=3.3 Score=41.01 Aligned_cols=67 Identities=18% Similarity=0.277 Sum_probs=43.5
Q ss_pred eHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEeccC
Q 002368 491 CIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 491 ~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
-..++..+.++.+ .++++... ++. ++++.|.+|++|++++.-.. ....+. ..|+....++++++...
T Consensus 15 l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~h 81 (200)
T cd08462 15 LPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERF---MSDGHP-SEPLFEEEFVCVVWADN 81 (200)
T ss_pred HHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCC---CCCCce-eeeeeccceEEEEcCCC
Confidence 3567777777765 24555543 345 89999999999999863211 112233 34677788888887665
No 246
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=93.15 E-value=4.4 Score=43.48 Aligned_cols=83 Identities=11% Similarity=0.127 Sum_probs=56.2
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
.+++||++. .. ...+..+++..+.++.+ .+.+.... ++...++..+.+|++|+++...
T Consensus 91 ~~i~I~~~~--~~------------~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTP--TF------------TAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEecc--ch------------hhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 478998874 11 12345678888888765 45566554 5578899999999999998532
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
+.....+ .+.++.+..+++++++..
T Consensus 149 ---~~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 ---PVHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred ---CCCCcce-eEEEeeeccEEEEEcCCC
Confidence 2222233 347777888888887765
No 247
>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=93.11 E-value=5.6 Score=39.63 Aligned_cols=71 Identities=11% Similarity=0.202 Sum_probs=47.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++.... ++..+++..|.+|++|+++..... ....++ ..++.+..+++++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~-~~~l~~~~~~lv~~~ 81 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLH-LSPLFSDEIVCLMRA 81 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcE-EeEeecCceEEEEeC
Confidence 456788888888775 244555431 245789999999999999863211 112233 356777888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~h 83 (203)
T cd08463 82 DH 83 (203)
T ss_pred CC
Confidence 65
No 248
>cd08434 PBP2_GltC_like The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold. GltC, a member of the LysR family of bacterial transcriptional factors, activates the expression of gltA gene of glutamate synthase operon and is essential for cell growth in the absence of glutamate. Glutamate synthase is a heterodimeric protein that encoded by gltA and gltB, whose expression is subject to nutritional regulation. GltC also negatively auto-regulates its own expression. This substrate-binding domain has strong homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity,
Probab=93.10 E-value=5.4 Score=38.82 Aligned_cols=70 Identities=20% Similarity=0.328 Sum_probs=46.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-..++..+.++.+ .++++... ++..+++.++.+|++|+++... +.....+. ..++.+..+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSP---VPDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEcc---CCCCCCee-EEEeecceEEEEecC
Confidence 345677788888763 24455543 4577889999999999998632 22223333 356777788888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 54
No 249
>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=92.94 E-value=4 Score=40.12 Aligned_cols=70 Identities=21% Similarity=0.325 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... ++...+...+.+|++|+++... +.....+. ..++....++++++.
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 344577778877764 24455443 5678999999999999998632 22222232 467778888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 55
No 250
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=92.93 E-value=3.5 Score=45.07 Aligned_cols=85 Identities=15% Similarity=0.103 Sum_probs=55.0
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
..+|+||+.. .+. ..+-.+++..+.++.+ .+++.... ++..+++..+.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~~------------~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~ 149 (324)
T PRK12681 92 KGSLYIATTH--TQA------------RYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIAT 149 (324)
T ss_pred CCeEEEEech--hHH------------HHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 4689999975 111 2344667778877765 35666654 668899999999999999863
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
-. ......+. ..|+.....+++++...
T Consensus 150 ~~--~~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 EA--LHLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred Cc--ccCCCCeE-EEEeccceeEEEeCCCC
Confidence 11 11122233 35666677777776554
No 251
>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=92.76 E-value=8.3 Score=37.75 Aligned_cols=70 Identities=9% Similarity=0.092 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..+++..+.+|++|+++..... ....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecC
Confidence 344677888887764 34555553 456889999999999999863211 112232 466778888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 54
No 252
>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=92.62 E-value=2.9 Score=41.32 Aligned_cols=70 Identities=16% Similarity=0.288 Sum_probs=46.9
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEe
Q 002368 488 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 488 ~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
..+-.+++..+.++.+ .++++... ++. .++..+.+|++|++++.... ....+. ..|+.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~ 78 (200)
T cd08460 12 AAFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVR 78 (200)
T ss_pred HHHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEe
Confidence 3456778888888875 35565543 445 78899999999999863211 112233 46777888888887
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
...
T Consensus 79 ~~h 81 (200)
T cd08460 79 AGH 81 (200)
T ss_pred CCC
Confidence 655
No 253
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=92.42 E-value=6.4 Score=42.61 Aligned_cols=197 Identities=13% Similarity=0.085 Sum_probs=114.6
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
..+|+||+.. ... ..+-..+++.+.++.+ .+++.... +++++++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~~------------~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~ 149 (309)
T PRK12683 92 SGHLTVATTH--TQA------------RYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIAT 149 (309)
T ss_pred CceEEEEecc--chH------------HHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEec
Confidence 3679999974 111 1234567788877764 24555554 568999999999999998852
Q ss_pred EEEecCccceeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccc
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 620 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 620 (930)
... .....+.+ .|+....++++++...+..
T Consensus 150 ~~~--~~~~~l~~-~~l~~~~~~~v~~~~hpl~----------------------------------------------- 179 (309)
T PRK12683 150 EAL--DREPDLVS-FPYYSWHHVVVVPKGHPLT----------------------------------------------- 179 (309)
T ss_pred CCC--CCCCCceE-EEcccCeEEEEecCCCCcc-----------------------------------------------
Confidence 111 11223433 4677778888887655211
Q ss_pred hhhHHHHHHHhhccccCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCe-EEEEeCch
Q 002368 621 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR-VGYQVGSF 699 (930)
Q Consensus 621 ~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~-i~~~~~s~ 699 (930)
...--+++||. +.+ +....++.
T Consensus 180 -------------------------------------------------------~~~~~~~~~L~--~~~~i~~~~~~~ 202 (309)
T PRK12683 180 -------------------------------------------------------GRENLTLEAIA--EYPIITYDQGFT 202 (309)
T ss_pred -------------------------------------------------------cCCccCHHHHh--cCCeEeccCCCc
Confidence 01235678886 333 44444443
Q ss_pred hHHHHH---HhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC--CccccCccEEEecCCCc
Q 002368 700 AENYLI---EELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSP 774 (930)
Q Consensus 700 ~~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~sp 774 (930)
....+. ...+.........++.+...+.+..|.--+++... ..... ....+..+. +......++++.+|+.+
T Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~Gi~~lp~~-~~~~~--~~~~l~~~~~~~~~~~~~~~l~~~~~~~ 279 (309)
T PRK12683 203 GRSRIDQAFAEAGLVPDIVLTALDADVIKTYVELGMGVGIVAAM-AYDPQ--RDTGLVALDTDHLFEANTTRVGLRRGAY 279 (309)
T ss_pred HHHHHHHHHHHCCCCceeEEEeccHHHHHHHHHhCCCeEEeehh-hcccc--CCCceEEEeCCCCcccceEEEEEECCCc
Confidence 333222 23343434445677888888888887665666432 22221 123455443 23334567889999988
Q ss_pred chhHHHHHHHhcccc
Q 002368 775 LAIDMSTAILTLSEN 789 (930)
Q Consensus 775 l~~~~n~~i~~l~e~ 789 (930)
+.......+..+.+.
T Consensus 280 ~~~~~~~fi~~l~~~ 294 (309)
T PRK12683 280 LRGYAYRFIELFAPH 294 (309)
T ss_pred CCHHHHHHHHHHHhh
Confidence 777666666555443
No 254
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=92.37 E-value=9.8 Score=37.05 Aligned_cols=70 Identities=17% Similarity=0.243 Sum_probs=45.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+..+++..+.++.+ .++++... +....++.++.+|++|+++...... ...+ ...++....++++++.
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 24555554 4577899999999999998532211 1112 3466777788888775
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 54
No 255
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=92.23 E-value=0.6 Score=50.97 Aligned_cols=67 Identities=16% Similarity=0.233 Sum_probs=46.7
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHH---HhcCCCccce--EeCCCHHHHHHHHHcCCcEEEEccchhhHHH
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRL--VALGSPEEYAIALENRTVAAVVDERPYIDLF 746 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~---~~~~~~~~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~ 746 (930)
++|++++||. |++|++..++....++. +..+.....+ +.. ...+...++.+|.+||++...++....
T Consensus 112 ~~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~Al~~G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 112 KTISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNL-QPPAIIAAWQRGDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEEC-CcHHHHHHHHcCCcCEEEEcchHHHHH
Confidence 3699999996 99999987664443321 3445544443 333 467889999999999998877776444
No 256
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=92.22 E-value=13 Score=38.17 Aligned_cols=208 Identities=9% Similarity=0.028 Sum_probs=117.2
Q ss_pred eEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEe-cC-CCChHHHHHHHHHHHhc-CcEEEEcc-CCh
Q 002368 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMH-DA-KFNGFLSIMGALQFMET-DTLAIVGP-QSA 101 (930)
Q Consensus 26 ~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~-D~-~~~~~~a~~~a~~li~~-~v~aiiGp-~~S 101 (930)
..+||++.+-.+ .+....+|++..+++.-+. .|.-+++ |+ ...-.+.++....|.++ .+.|||=- .-+
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vp 73 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVP 73 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS-
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCc
Confidence 579999876543 3567778888888865222 5555555 33 34667778888888777 67777632 234
Q ss_pred hhHHHHHHhhh-cCCCcEEEeecCC-CCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEecCCcCcch----
Q 002368 102 VMAHVLSHLAN-ELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG---- 175 (930)
Q Consensus 102 ~~~~av~~~~~-~~~vp~is~~a~~-~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~---- 175 (930)
+.+.|.-.+=+ +-.|.+|+-.... |..-..... .-..+.....+..++...+.+|.+.++-++-...-+...
T Consensus 74 Gt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~R 151 (275)
T PF12683_consen 74 GTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARR 151 (275)
T ss_dssp --HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHH
T ss_pred chHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHH
Confidence 45555555544 3356677533222 111111112 333467777889999999999999999987554444333
Q ss_pred HHHHHHHHHhcCcEEEEEEecCCCCCCChhHH-----HHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCC
Q 002368 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDV-----RNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 176 ~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~-----~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~ 243 (930)
.+.++++.++.|++.+....-.+......... ..+-+.+++.+.|+-|.+++......+++++.+.|.
T Consensus 152 r~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 152 RDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCC
Confidence 45677788889999887655444311111111 122345667899999999999999999999999774
No 257
>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=92.11 E-value=7 Score=40.87 Aligned_cols=120 Identities=13% Similarity=0.058 Sum_probs=68.2
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHH----HHHhcCCC------------------c--cceEeCCCHHHHHHHHHcCC
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENY----LIEELSIP------------------K--SRLVALGSPEEYAIALENRT 732 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~----l~~~~~~~------------------~--~~~~~~~~~~~~~~~l~~g~ 732 (930)
+.+++++||. .|.+|++.++...... | ++.++. . -+++.+ ...+...++.+|.
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L-~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~g~ 182 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLL-QKQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDDPK 182 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHH-HHcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhccc
Confidence 6899999995 4889999876543332 3 332221 1 233333 4566778899999
Q ss_pred cEEEEccchhhHHHHhcC-cceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhh
Q 002368 733 VAAVVDERPYIDLFLSDH-CQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 733 ~~a~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
+|+.+...+++.-.-.+. .+-......-.++-..++++++.-=.+.+...+..++....-+.|.++|
T Consensus 183 vDaa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 183 VDLAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred ccEEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 999998877765432211 1111111111122234556655334566666666666655555555554
No 258
>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=92.02 E-value=0.6 Score=44.78 Aligned_cols=93 Identities=16% Similarity=0.203 Sum_probs=63.5
Q ss_pred HHHHHHcCCcEEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHH-HHhcCCceEEEEEcc
Q 002368 151 AEMVSYFGWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELV-KVRMMEARVIVVHGY 227 (930)
Q Consensus 151 ~~~l~~~~w~~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~-~l~~~~~~viv~~~~ 227 (930)
++++...|.++++++.. +..+.....+.|.+++++.|+........... ...+...... .++...||+||+ .+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii~-~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAIIC-SN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEEE-SS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEEE-cC
Confidence 46788899999999993 34555666789999999999986554444333 2333333332 244347887655 77
Q ss_pred hhhHHHHHHHHHHcCCCCCc
Q 002368 228 SRTGLMVFDVAQRLGMMDSG 247 (930)
Q Consensus 228 ~~~~~~~~~~a~~~g~~~~~ 247 (930)
...+..+++.+++.|+..++
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~ 96 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQ 96 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTT
T ss_pred HHHHHHHHHHHHHcCCcccc
Confidence 78899999999999986443
No 259
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein. The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains.
Probab=91.95 E-value=2.3 Score=43.20 Aligned_cols=73 Identities=8% Similarity=-0.065 Sum_probs=42.1
Q ss_pred eEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCc-cccCccEEEecCCCcchhHHHHHHHhccc
Q 002368 715 LVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQE-FTKSGWGFAFPRDSPLAIDMSTAILTLSE 788 (930)
Q Consensus 715 ~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~k~spl~~~~n~~i~~l~e 788 (930)
+....+..+..+.+.+|++++.+......... ........++.. .....+++++.|+++-.+.-.+.|..+..
T Consensus 132 ~~~~~~~~~~~~~~~~Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~s 205 (216)
T TIGR01256 132 LVYGEDVRQALQFVETGNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLKS 205 (216)
T ss_pred eeecCcHHHHHHHHHcCCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHHHHHcC
Confidence 34445667888899999999887654332211 122233333332 22335688999998765555555554443
No 260
>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=91.89 E-value=8 Score=37.99 Aligned_cols=69 Identities=13% Similarity=0.266 Sum_probs=45.3
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.++.+ .++++... ++..+++..+.+|++|+++.... .....+. ..++.+..++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~ 82 (200)
T cd08411 15 LLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALP---VDEPGLE-EEPLFDEPFLLAVPKD 82 (200)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEecc---CCCCCce-EEEeeccceEEEecCC
Confidence 55677888888764 34555553 55789999999999999985321 1112222 3456677778777665
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 83 ~ 83 (200)
T cd08411 83 H 83 (200)
T ss_pred C
Confidence 4
No 261
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=91.81 E-value=4.4 Score=43.74 Aligned_cols=84 Identities=17% Similarity=0.225 Sum_probs=51.9
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
..+|+||+.. ... ...+...++..+.++.+ .+++.+.. +...++...|.+|++|+++..
T Consensus 90 ~g~l~I~~~~--~~~-----------~~~~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~ 148 (305)
T PRK11233 90 SGQVSIGLAP--GTA-----------ASSLTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIY 148 (305)
T ss_pred CceEEEEccc--chh-----------hHHHHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEc
Confidence 3579998863 111 12333457888888763 34555543 456789999999999999852
Q ss_pred EEEecCccceeeecccccccceEEEEecc
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
-. .....+ ...|+.+..++++++..
T Consensus 149 ~~---~~~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 149 EH---SPVAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred CC---cCCCCc-EEEEEeeeeEEEEEcCc
Confidence 21 111222 34577778888777654
No 262
>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=91.80 E-value=13 Score=36.19 Aligned_cols=71 Identities=20% Similarity=0.287 Sum_probs=47.0
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.+..+ .+++.... ++..++..++.+|++|+++.... ...+...+. ..|+....+++++++.
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~~ 83 (201)
T cd08435 14 LLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARPG 83 (201)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeCC
Confidence 34677888888765 45566553 55788999999999999986321 111122333 4577788888888765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 84 ~ 84 (201)
T cd08435 84 H 84 (201)
T ss_pred C
Confidence 5
No 263
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=91.79 E-value=9.2 Score=40.78 Aligned_cols=83 Identities=18% Similarity=0.209 Sum_probs=52.8
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
..++||+.. +. ...+-.+++..+.++.+ .+++.... ++..+++..+.+|++|+++...
T Consensus 89 g~l~i~~~~--~~------------~~~~~~~~l~~~~~~~P-~i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~ 146 (290)
T PRK10837 89 GALRIYASS--TI------------GNYILPAMIARYRRDYP-QLPLELSV-------GNSQDVINAVLDFRVDIGLIEG 146 (290)
T ss_pred CeEEEEecc--hh------------HhhhhHHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHHhCCceEEEecC
Confidence 578999885 11 12344677788888764 24555543 4577899999999999998532
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
. .....+ ...++....++++++...
T Consensus 147 ~---~~~~~~-~~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 147 P---CHSPEL-ISEPWLEDELVVFAAPDS 171 (290)
T ss_pred C---CCCCce-eEEEeecceEEEEEcCCC
Confidence 1 111222 235666777888877555
No 264
>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=91.70 E-value=7.2 Score=38.24 Aligned_cols=70 Identities=17% Similarity=0.157 Sum_probs=45.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++...+...+.+|++|+++.... .....+. +.++....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPE---YAPDGLR-SRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCc---cCCccce-eeeeecCcEEEEEcC
Confidence 445678888888764 24455543 34567899999999999985321 1122232 566777888888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 265
>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=91.60 E-value=6.2 Score=38.80 Aligned_cols=70 Identities=16% Similarity=0.190 Sum_probs=47.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++++ .++++... ++...+..++.+|++|+++... +.....+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYV---PFRDPSF-KSELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEecc---cCCCCCc-eeeeecccceEEEEeC
Confidence 344677888888765 35566554 5678899999999999998621 1112223 2457778888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 65
No 266
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=91.39 E-value=2.5 Score=44.37 Aligned_cols=87 Identities=14% Similarity=0.121 Sum_probs=70.0
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHH
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av 107 (930)
+||++.+...+.-.....|+...++..| |+.++...+..+-.|+.++.+.+..|+++++++|.+.. + ...+
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 7999988876655667789999898887 45677777777888999999999999999999888766 2 2456
Q ss_pred HHhhhcCCCcEEEeec
Q 002368 108 SHLANELQVPLLSFTA 123 (930)
Q Consensus 108 ~~~~~~~~vp~is~~a 123 (930)
...+.+.++..|.+..
T Consensus 193 ~~aa~~~g~~~IG~d~ 208 (258)
T cd06353 193 IQAAEEKGVYAIGYVS 208 (258)
T ss_pred HHHHHHhCCEEEeecc
Confidence 6777888999998653
No 267
>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=91.26 E-value=10 Score=37.35 Aligned_cols=71 Identities=20% Similarity=0.173 Sum_probs=47.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.+.. +....+...+.+|++|+++..... .....+. +.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEAL--DDHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCC--CCCCCcE-EEEeeeeeEEEEecC
Confidence 445678888888875 34566554 557889999999999999852211 1112233 466777888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 55
No 268
>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=91.21 E-value=3.6 Score=40.11 Aligned_cols=100 Identities=9% Similarity=-0.017 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 002368 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (930)
Q Consensus 146 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv 223 (930)
....+.+.+...+ .++.++..+.+ ..+.+.+.+++. |+.|+....-+. +..+...+++.|++++||+|+
T Consensus 36 l~~~l~~~~~~~~-~~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~f----~~~~~~~i~~~I~~~~pdiv~ 106 (172)
T PF03808_consen 36 LFPDLLRRAEQRG-KRIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGYF----DEEEEEAIINRINASGPDIVF 106 (172)
T ss_pred HHHHHHHHHHHcC-CeEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCCC----ChhhHHHHHHHHHHcCCCEEE
Confidence 3455666555555 48888876653 566677777776 777775443222 367888999999999999999
Q ss_pred EEcchhhHHHHHHHHHHcCCCCCceEEEEeCccc
Q 002368 224 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (930)
Q Consensus 224 ~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~ 257 (930)
+.+..+....++...++.. ... +++..++.-
T Consensus 107 vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~~~ 137 (172)
T PF03808_consen 107 VGLGAPKQERWIARHRQRL--PAG-VIIGVGGAF 137 (172)
T ss_pred EECCCCHHHHHHHHHHHHC--CCC-EEEEECchh
Confidence 9988887778887777643 223 777776543
No 269
>cd08425 PBP2_CynR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold. CynR is a LysR-like transcriptional regulator of the cyn operon, which encodes genes that allow cyanate to be used as a sole source of nitrogen. The operon includes three genes in the following order: cynT (cyanate permease), cynS (cyanase), and cynX (a protein of unknown function). CynR negatively regulates its own expression independently of cyanate. CynR binds to DNA and induces bending of DNA in the presence or absence of cyanate, but the amount of bending is decreased by cyanate. The CynR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding
Probab=91.19 E-value=11 Score=36.83 Aligned_cols=69 Identities=12% Similarity=0.150 Sum_probs=46.6
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+...++..+.++.+ .+.++... ....++...+.+|++|+++... +.....+. ..++.+..++++++++
T Consensus 15 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~~ 82 (197)
T cd08425 15 LIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFA---PVRSPDID-AQPLFDERLALVVGAT 82 (197)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEec---CCCCCCcE-EEEeccccEEEEecCC
Confidence 44678888888765 45566654 4567899999999999998532 22222232 4667777888887765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 83 ~ 83 (197)
T cd08425 83 H 83 (197)
T ss_pred C
Confidence 5
No 270
>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=91.13 E-value=8 Score=41.54 Aligned_cols=86 Identities=16% Similarity=0.275 Sum_probs=55.9
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
.++|+||+.. .. ...+-.+++..+.++.+ .+++.... ++..+++.++.+|++|++++.
T Consensus 92 ~~~l~I~~~~--~~------------~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (300)
T TIGR02424 92 GPTVRIGALP--TV------------AARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGR 149 (300)
T ss_pred CceEEEeccc--HH------------HHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEe
Confidence 4679999874 11 12334667778887776 45666654 557889999999999999863
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
... ......+. ..|.....+++++++..
T Consensus 150 ~~~-~~~~~~~~-~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 150 LGA-PETMQGLS-FEHLYNEPVVFVVRAGH 177 (300)
T ss_pred cCC-ccccccee-eeeecCCceEEEEcCCC
Confidence 322 11122232 45677788888887654
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=91.09 E-value=17 Score=35.82 Aligned_cols=72 Identities=15% Similarity=0.142 Sum_probs=48.1
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEe
Q 002368 488 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 488 ~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
..+-.+++..+.++.+ .++++... ++..++...+.+|++|+++..-. ......+. +.++.+..++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~--~~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEA--LHDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEecc--ccccCCce-EeeeeeceEEEEEc
Confidence 4566788888888764 34555543 56788999999999999985211 11112233 46677788888877
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
...
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 655
No 272
>TIGR00035 asp_race aspartate racemase.
Probab=90.88 E-value=2.5 Score=43.45 Aligned_cols=87 Identities=13% Similarity=0.118 Sum_probs=53.9
Q ss_pred ChHHHHHH-HHHHHhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHH
Q 002368 76 NGFLSIMG-ALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV 154 (930)
Q Consensus 76 ~~~~a~~~-a~~li~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l 154 (930)
++...+.. +.+|.+.|+.+|+=|-.+.... +..+-+..++|+|+. .++.++.+
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 34444443 3444445899888766664443 455666678999862 23444555
Q ss_pred HHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEE
Q 002368 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (930)
Q Consensus 155 ~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~ 191 (930)
+..|.++|+++..... -....+++.+++.|++++
T Consensus 113 ~~~~~~~VgvLaT~~T---~~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 113 KEDGVKKAGLLGTKGT---MKDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHcCCCEEEEEecHHH---HHhHHHHHHHHHCCCEEE
Confidence 6668889999965432 223457788888887665
No 273
>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=90.81 E-value=11 Score=36.59 Aligned_cols=72 Identities=22% Similarity=0.307 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.+..+ .++++... ++.+++++.+.+|++|+++..-.. ......+ .+.++.+..+++++++
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 445678888888774 34565554 567899999999999999863211 1101223 2456777788888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 54
No 274
>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=90.76 E-value=0.93 Score=47.66 Aligned_cols=102 Identities=12% Similarity=0.067 Sum_probs=62.0
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHH-HhcCcceEE
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF-LSDHCQFSV 755 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~-~~~~~~l~~ 755 (930)
.+|++++||. |+++.+..++.....++ .++ ...+ ..+..|...+|++|.+|+.+.....+..+ +.+-.++..
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~~-~~G---a~~v-~~~~~e~~~aL~~G~vDg~~~~~~~~~~~~~~ev~~y~~ 198 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQFK-ALG---ANPE-PMAFSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYLS 198 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHHH-HcC---Cccc-ccCHHHHHHHHHcCCcccccCCHHHHhhcchhhhcchhe
Confidence 5799999995 99999887776677774 443 2233 55788999999999999998764433211 111122222
Q ss_pred eCCccccCccEEEecCCC--cchhHHHHHHHhc
Q 002368 756 RGQEFTKSGWGFAFPRDS--PLAIDMSTAILTL 786 (930)
Q Consensus 756 ~~~~~~~~~~~~~~~k~s--pl~~~~n~~i~~l 786 (930)
... .......+.+.++. -|-+....+|.+.
T Consensus 199 ~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 199 MTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred ecC-CcccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 221 22334456666652 2555555555444
No 275
>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=90.70 E-value=15 Score=35.66 Aligned_cols=72 Identities=14% Similarity=0.084 Sum_probs=47.0
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+...++..+.++.+ .+++.... ++..+++..+.+|++|++++...... +...+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 455778888888865 35566554 55788999999999999986322110 112222 356677778887765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 54
No 276
>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=90.65 E-value=12 Score=36.53 Aligned_cols=69 Identities=12% Similarity=0.159 Sum_probs=44.9
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-..++..+.++.+- +++.... ++..++...|.+|++|+++..-.. ....+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCC
Confidence 346778888888752 4555543 456789999999999999852211 112222 3566777777777655
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 4
No 277
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=90.63 E-value=5.4 Score=42.11 Aligned_cols=120 Identities=12% Similarity=0.098 Sum_probs=64.3
Q ss_pred CCCCChHHhhhCCCeEEEEeCchh-HH---HHHHhcCC--------------------CccceEeCCCHHHHHHHHHcCC
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFA-EN---YLIEELSI--------------------PKSRLVALGSPEEYAIALENRT 732 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~-~~---~l~~~~~~--------------------~~~~~~~~~~~~~~~~~l~~g~ 732 (930)
..|+|++||. .|.+|++...... .. +| ++.+. ..-++++. ...+....+.+|+
T Consensus 119 ~~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL-~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~g~ 195 (271)
T PRK11063 119 KKIKSLDELQ-DGSQVAVPNDPTNLGRSLLLL-QKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDDAQ 195 (271)
T ss_pred cCCCCHHHhc-CCCEEEecCCCccHHHHHHHH-HHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccccc
Confidence 5799999995 5889999863321 11 22 22111 12233433 5667888888999
Q ss_pred cEEEEccchhhHHHHhcC-cceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhh
Q 002368 733 VAAVVDERPYIDLFLSDH-CQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 733 ~~a~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
+|+.+...+++...-... .+-......-.++-..+++++..--.+.+.+.+.-++....-+.+.++|
T Consensus 196 vDaa~i~~~~a~~a~~~~~~~~l~~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 196 IALAVINTTYASQIGLTPAKDGIFVEDKDSPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred ccEEEEChHHHHHcCCCCCCCeeEECCCCCCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 999999888776532222 1211222111122234566665433344555554444444444455544
No 278
>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=90.27 E-value=2.4 Score=43.61 Aligned_cols=194 Identities=16% Similarity=0.071 Sum_probs=115.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcC-cccEEEecEEEecCcc---ceee--ecccccccce
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTG-VFDAAVGDIAIVTNRT---KAVD--FTQPYIESGL 562 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g-~~D~~~~~~~~t~~R~---~~vd--fs~p~~~~~~ 562 (930)
+..-++.+.+.++.++++++.+. .-..+...|..| ++|+.+.+-....++. ..+. -..|+..+.+
T Consensus 11 ~~~~~l~~~f~~~~g~~v~v~~~---------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~ 81 (230)
T PF13531_consen 11 PALEELAEAFEKQPGIKVEVSFG---------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSPL 81 (230)
T ss_dssp HHHHHHHHHHHHHHCEEEEEEEE---------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEEE
T ss_pred HHHHHHHHHHHhccCCeEEEEEC---------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCce
Confidence 34557888888888877666554 367788888877 6898876432111211 2333 5678888999
Q ss_pred EEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchhhHHHHHHHhhccccCCcccc
Q 002368 563 VVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAHRENTVST 642 (930)
Q Consensus 563 ~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~ 642 (930)
++++++..+
T Consensus 82 vl~~~~~~~----------------------------------------------------------------------- 90 (230)
T PF13531_consen 82 VLAVPKGNP----------------------------------------------------------------------- 90 (230)
T ss_dssp EEEEETTST-----------------------------------------------------------------------
T ss_pred EEEeccCcc-----------------------------------------------------------------------
Confidence 999988771
Q ss_pred hhHHHHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhhCCCeEEEEeCc------hhHHHHHHhc-----CCC
Q 002368 643 LGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGS------FAENYLIEEL-----SIP 711 (930)
Q Consensus 643 ~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~s~~~i~~~~~s------~~~~~l~~~~-----~~~ 711 (930)
..+++++||.+.+.+|++.+.. .....+.+.- ...
T Consensus 91 ----------------------------------~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~~~g~~~~~~~l 136 (230)
T PF13531_consen 91 ----------------------------------KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLAAAGGQELLDAL 136 (230)
T ss_dssp ----------------------------------TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHHHHTHCHHHHHH
T ss_pred ----------------------------------cccCCHHHHhhccCEEEecCcccChhhHHHHHHHHHcccHHHHHHH
Confidence 4678889998777788887621 2222332211 000
Q ss_pred ccceE-eCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcc--eEEeCCccc--cCccEEEecCCCcchhHHHHHHHhc
Q 002368 712 KSRLV-ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQ--FSVRGQEFT--KSGWGFAFPRDSPLAIDMSTAILTL 786 (930)
Q Consensus 712 ~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~--l~~~~~~~~--~~~~~~~~~k~spl~~~~n~~i~~l 786 (930)
..++. ..++..+....+.+|..++.+.....+.+. .+... +..+.+... ...+.+++.++++-.+.-...+..|
T Consensus 137 ~~~~~~~~~~~~~~~~~v~~g~~d~~~~~~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L 215 (230)
T PF13531_consen 137 QKNIVQYVPSTSQVLSAVASGEADAGIVYESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFL 215 (230)
T ss_dssp HHTEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHH
T ss_pred HHhCcccccchHHHHHHHHcCCCcceeeHHHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHH
Confidence 12333 456788999999999999998765555322 22223 334444444 2356778888887666666666655
Q ss_pred cccccHHHHHHh
Q 002368 787 SENGELQRIHDK 798 (930)
Q Consensus 787 ~e~G~~~~~~~~ 798 (930)
.... -+++..+
T Consensus 216 ~s~~-~q~~l~~ 226 (230)
T PF13531_consen 216 LSPE-GQQILAK 226 (230)
T ss_dssp TSHH-HHHHHHH
T ss_pred CCHH-HHHHHHH
Confidence 5433 4444443
No 279
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=90.27 E-value=9.9 Score=40.91 Aligned_cols=86 Identities=14% Similarity=0.177 Sum_probs=57.1
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
...|+||++.. . ...+-.+++..+.++.+ .+++.... ++..++...|.+|++|+++..
T Consensus 94 ~g~l~I~~~~~--~------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGAS--I------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEechH--H------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 46799999851 1 12345677888887766 45555553 557899999999999998862
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.... .....+. ..|+.+..+++++++..
T Consensus 152 ~~~~-~~~~~~~-~~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFT-FEKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-cccccee-EEEeccceEEEEEcCCC
Confidence 2111 1112343 36788888999887665
No 280
>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold. Cbl is a member of the LysR transcriptional regulators that comprise the largest family of prokaryotic transcription factor. Cbl shows high sequence similarity to CysB, the LysR-type transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the function of Cbl is required for expression of sulfate starvation-inducible (ssi) genes, coupled with the biosynthesis of cysteine from the organic sulfur sources (sulfonates). The ssi genes include the ssuEADCB and tauABCD operons encoding uptake systems for organosulfur compounds, aliphatic sulfonates, and taurine. The genes in these operons encode an ABC-type transport system required for uptake of aliphatic sulfonates and a desulfonati
Probab=90.26 E-value=16 Score=35.85 Aligned_cols=72 Identities=17% Similarity=0.188 Sum_probs=48.4
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEe
Q 002368 488 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 488 ~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
.++-.+++..+.++.+ .+.+.... ++...+++.+.+|++|+++..-.. .....+ .+.++....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~ 80 (198)
T cd08444 12 RYALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVP 80 (198)
T ss_pred hhhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEec
Confidence 3456788888888865 34555554 567789999999999999862111 111223 246777788888887
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
...
T Consensus 81 ~~h 83 (198)
T cd08444 81 VGH 83 (198)
T ss_pred CCC
Confidence 665
No 281
>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=90.11 E-value=14 Score=36.14 Aligned_cols=72 Identities=17% Similarity=0.152 Sum_probs=47.1
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEe--cCccceeeecccccccceEEEEe
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIV--TNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t--~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
+-.+++..+.++.+ .+++.... ++..++...+.+|++|+++...... ......+ .+.++.+..++++++
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~ 84 (200)
T cd08423 14 LLPPALAALRARHP-GLEVRLRE-------AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVLP 84 (200)
T ss_pred hhhHHHHHHHHhCC-CCeEEEEe-------CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEec
Confidence 45677888888865 35566654 4567899999999999998632110 1122223 356677888888887
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
...
T Consensus 85 ~~~ 87 (200)
T cd08423 85 ADH 87 (200)
T ss_pred CCC
Confidence 655
No 282
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=90.05 E-value=16 Score=40.00 Aligned_cols=85 Identities=16% Similarity=0.089 Sum_probs=57.2
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
.+.||||+... . ...+-.++++.+.++.+ .+.+.... ++..+++..|.+|++|+++..
T Consensus 92 ~g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~ 149 (327)
T PRK12680 92 QGQLTLTTTHT--Q------------ARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVS 149 (327)
T ss_pred ceEEEEEecch--h------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEe
Confidence 36799999851 1 12345678888888876 34566654 567899999999999999853
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
... ....... ..|+....++++++...
T Consensus 150 ~~~--~~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 150 TAG--GEPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred cCC--CCCCcce-EEEeeccceEEEEeCCC
Confidence 211 1111222 46788888888887655
No 283
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=89.96 E-value=16 Score=39.54 Aligned_cols=84 Identities=15% Similarity=0.178 Sum_probs=54.4
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
..|+||+.. .+ ...+-.+++..+.++.+ .+++.... ++.++++..+.+|++|++++.-
T Consensus 93 g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (309)
T PRK12682 93 GTLTIATTH--TQ------------ARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATE 150 (309)
T ss_pred CeEEEeeCc--hH------------HHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecC
Confidence 468998874 11 12344677788887764 24455543 5578899999999999998632
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.. .....++ +.|+....++++++...
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK12682 151 SL--ADDPDLA-TLPCYDWQHAVIVPPDH 176 (309)
T ss_pred cc--cCCCcce-EEEeeeeeEEEEecCCC
Confidence 11 1122333 35777888888887665
No 284
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=89.95 E-value=20 Score=34.83 Aligned_cols=69 Identities=16% Similarity=0.209 Sum_probs=45.8
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+..+++..+.++.+ .+++.... ++..++...+.+|++|+++..... ....+. ..++.+..++++++..
T Consensus 14 ~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~ 81 (197)
T cd08414 14 LLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPP---DPPGLA-SRPLLREPLVVALPAD 81 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCC---CCCCee-EEEEeeccEEEEecCC
Confidence 44677788887764 34555543 557889999999999999863221 122222 4667777888888765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 82 ~ 82 (197)
T cd08414 82 H 82 (197)
T ss_pred C
Confidence 4
No 285
>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=89.94 E-value=20 Score=34.96 Aligned_cols=71 Identities=11% Similarity=0.132 Sum_probs=47.9
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.++.+ .++++... ++...++..+.+|++|+++... ........++ ..++.+..++++++..
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~-~~~l~~~~~~~~~~~~ 83 (198)
T cd08437 14 YFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGS-LTPLENSALH-SKIIKTQHFMIIVSKD 83 (198)
T ss_pred HhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecC-CCCCCcccce-EEEeecceEEEEecCC
Confidence 44678888888876 45666654 5678999999999999998532 1111223333 4567778888887765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 84 h 84 (198)
T cd08437 84 H 84 (198)
T ss_pred C
Confidence 4
No 286
>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=89.91 E-value=20 Score=35.65 Aligned_cols=71 Identities=11% Similarity=0.145 Sum_probs=45.2
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..+++..|.+|++|+++........-...+ ...|+.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 445677888888764 35566654 67899999999999999885321111100111 2357777777777654
No 287
>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=89.91 E-value=8.2 Score=38.16 Aligned_cols=70 Identities=13% Similarity=0.164 Sum_probs=46.8
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
++-.+++..+.++.+ .++++... ++..++++.|.+|++|++++..... ...++. .+..+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 455678888877655 35565553 5688999999999999998632211 122333 45667788888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 54
No 288
>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=89.67 E-value=14 Score=36.06 Aligned_cols=70 Identities=13% Similarity=0.083 Sum_probs=45.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
++-..++..+.++.+ .++++... ++...++..+.+|++|+++.... .....+ ...++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVFG---ELPAWL-KREVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecCC---CCcccc-eeeeecccceEEEEeC
Confidence 445677888888764 35565553 45668889999999999985321 112222 2456777777777765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 44
No 289
>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=89.47 E-value=21 Score=34.56 Aligned_cols=70 Identities=11% Similarity=0.070 Sum_probs=47.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..++...+.+|++|+++... ......+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~---~~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHS---RRLPAGL-SARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeC---CCCCcCc-eEEEEecCcEEEEeeC
Confidence 455778888888774 35566554 5688999999999999987522 2222223 2456777788887765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 290
>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=89.40 E-value=17 Score=35.71 Aligned_cols=70 Identities=11% Similarity=0.137 Sum_probs=46.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..+++..|.+|++|+++... +.....+. ..+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRF---AVPPDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecC---CCCCccce-eEEeeeccEEEEEcC
Confidence 445678888888765 35566654 4566899999999999988532 11112233 356778888888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 54
No 291
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=89.37 E-value=12 Score=37.62 Aligned_cols=69 Identities=14% Similarity=0.154 Sum_probs=46.6
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+..+++..+.++.+ .+++.... .+..++.+.+.+|++|++++... .....+. ..|+....++++++..
T Consensus 14 ~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~ 81 (221)
T cd08469 14 LLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRKD 81 (221)
T ss_pred HHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeCC
Confidence 44677788877765 35565554 45778999999999999986321 2223333 4577778888888765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 82 ~ 82 (221)
T cd08469 82 H 82 (221)
T ss_pred C
Confidence 5
No 292
>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=89.31 E-value=23 Score=34.60 Aligned_cols=70 Identities=17% Similarity=0.215 Sum_probs=45.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... ++-.++...+.+|++|+++.... .....+. ..++.+..++++++.
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 455788888888875 34555554 34568889999999999986322 1122232 355667777777765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (196)
T cd08457 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 293
>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=89.29 E-value=19 Score=35.05 Aligned_cols=70 Identities=10% Similarity=0.107 Sum_probs=46.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+..+++..+.++.+ .++++... +....+++++.+|++|+++.... .....+. +.+.....++++++.
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 455688888888875 35566654 55778899999999999985221 1112222 456667778777765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 54
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=88.81 E-value=20 Score=35.30 Aligned_cols=70 Identities=23% Similarity=0.299 Sum_probs=46.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+..+++..+.++.+ .++++... ++..+++..+.+|++|++++.... ....+. +.++....++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRI---EDPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCC---CCCCce-eEEEEeccEEEEeeC
Confidence 456778888888765 35555554 457899999999999999853211 112232 446677788888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 54
No 295
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=88.81 E-value=19 Score=35.31 Aligned_cols=93 Identities=13% Similarity=0.026 Sum_probs=65.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCC-----CCChhHHHHHHHHHhcCCceEE
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVRMMEARVI 222 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~-----~~~~~d~~~~l~~l~~~~~~vi 222 (930)
.|+.+-++.++.+++.++. +|-....+.-.+.++++|.+|+....+-... .......-..-.++..-++|.|
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 5677778999999999996 5666778888999999999998765443220 0112233445556667889999
Q ss_pred EEEcchhhHHHHHHHHHH-cCC
Q 002368 223 VVHGYSRTGLMVFDVAQR-LGM 243 (930)
Q Consensus 223 v~~~~~~~~~~~~~~a~~-~g~ 243 (930)
|+.|..--...++....+ .|.
T Consensus 184 FiSCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 184 FISCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred EEEeeccccHHHHHHHHHHhCC
Confidence 998877666667666654 443
No 296
>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=88.73 E-value=25 Score=34.26 Aligned_cols=70 Identities=17% Similarity=0.264 Sum_probs=47.3
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+..++++.+.++.+ .++++... ++..++...+.+|++|+++...... ....+ .+.++.+..++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCC
Confidence 56778889988875 34555553 5578899999999999998632211 11222 34677778888888665
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 297
>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=88.36 E-value=7.6 Score=37.80 Aligned_cols=98 Identities=13% Similarity=-0.008 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 002368 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (930)
Q Consensus 146 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv 223 (930)
....+.+.+...+ .+|.++....+ ..+.+.+.+++. |++|+....-+.+ ..+-...+++|++++||+|+
T Consensus 34 l~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~~----~~~~~~i~~~I~~~~pdiv~ 104 (171)
T cd06533 34 LMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYFG----PEEEEEIIERINASGADILF 104 (171)
T ss_pred HHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCCC----hhhHHHHHHHHHHcCCCEEE
Confidence 3455555555444 78888876554 455556666665 7888874333333 44455589999999999999
Q ss_pred EEcchhhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 224 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 224 ~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
+.+..+....++...++.. +.-++++.++
T Consensus 105 vglG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 105 VGLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred EECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 9998888888887777644 2335666554
No 298
>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=88.19 E-value=26 Score=33.86 Aligned_cols=71 Identities=15% Similarity=0.187 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+.++... ++..++...+.+|++|+++..... .....+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceEEEEecC
Confidence 445677888888764 35566554 457789999999999999863221 1222232 356667777777765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 54
No 299
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=88.07 E-value=18 Score=39.16 Aligned_cols=85 Identities=19% Similarity=0.341 Sum_probs=55.5
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
.+|+||+... +. ..+-.+++..+.+..+ .+++.... ++..+++..|.+|++|+++...
T Consensus 97 ~~l~ig~~~~--~~------------~~~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 154 (312)
T PRK10341 97 VDVSFGFPSL--IG------------FTFMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTL 154 (312)
T ss_pred eEEEEEechH--Hh------------HhhHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecC
Confidence 4688888741 11 1234578888888765 35666665 5678999999999999998532
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
... .....+ ...|+.+..++++++...
T Consensus 155 ~~~-~~~~~l-~~~~l~~~~~~lv~~~~~ 181 (312)
T PRK10341 155 SNE-MKLQDL-HVEPLFESEFVLVASKSR 181 (312)
T ss_pred Ccc-cccCCe-eEEEEecccEEEEEcCCC
Confidence 111 111222 356777788888887654
No 300
>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=87.71 E-value=29 Score=33.89 Aligned_cols=70 Identities=13% Similarity=0.141 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++..++...+.+|++|+++..... . ...+ -+.++.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAG--D-YPGL-TTEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccC--C-CCCc-eEEEeccCceEEEecC
Confidence 344678888888876 35566554 456789999999999999863221 1 1222 2356777778888775
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 44
No 301
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=87.30 E-value=2.8 Score=46.84 Aligned_cols=88 Identities=10% Similarity=0.094 Sum_probs=66.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+|.+++.+++...-...+..+.+.+.|++.|+.+..-..+.++ .+.++....+..+++.++|+||-.+.
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~n--p~~~~v~~~~~~~~~~~~D~IiaiGG 97 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPN--PTTENVAAGLKLLKENNCDSVISLGG 97 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 4567778889999999998644444567889999999999886544445444 55788999999999999999997654
Q ss_pred h--hhHHHHHHH
Q 002368 228 S--RTGLMVFDV 237 (930)
Q Consensus 228 ~--~~~~~~~~~ 237 (930)
+ -|+.+.+..
T Consensus 98 GS~iD~AK~ia~ 109 (383)
T PRK09860 98 GSPHDCAKGIAL 109 (383)
T ss_pred chHHHHHHHHHH
Confidence 4 455655544
No 302
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=86.45 E-value=32 Score=37.16 Aligned_cols=87 Identities=14% Similarity=0.160 Sum_probs=54.8
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
..+|+||+... .+. ..+-.+++..+.++++- +++.... ++..++.+.|.+|++|++++-
T Consensus 91 ~g~l~Ig~~~~-~~~------------~~~l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (308)
T PRK10094 91 ERQVNIVINNL-LYN------------PQAVAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGV 149 (308)
T ss_pred CccEEEEeccc-ccC------------HHHHHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEec
Confidence 36799998631 011 12345788888887774 5666654 456788999999999998862
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.........+. ..++....++++++...
T Consensus 150 -~~~~~~~~~l~-~~~l~~~~~~~v~~~~h 177 (308)
T PRK10094 150 -TGTEALANTFS-LDPLGSVQWRFVMAADH 177 (308)
T ss_pred -ccCccccCCee-EEEecceeEEEEECCCC
Confidence 11111122232 45777778888886654
No 303
>PRK10200 putative racemase; Provisional
Probab=86.41 E-value=7.9 Score=39.76 Aligned_cols=88 Identities=11% Similarity=-0.004 Sum_probs=57.2
Q ss_pred CChHHHHHHHHHHHhc-CcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHH
Q 002368 75 FNGFLSIMGALQFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (930)
Q Consensus 75 ~~~~~a~~~a~~li~~-~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~ 153 (930)
.+|........+.+++ |+.+|+=|-.+..+. .-.+-+..++|+|+. .+++++.
T Consensus 58 ~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~ 111 (230)
T PRK10200 58 DKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRA 111 (230)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHH
Confidence 3566666655555544 999998877766555 456667778998862 2344445
Q ss_pred HHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc-CcEEE
Q 002368 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKIS 191 (930)
Q Consensus 154 l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~-g~~i~ 191 (930)
++..+-++|+++.... .-....+++.+++. |+++.
T Consensus 112 ~~~~~~~~VglLaT~~---Ti~s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 112 ITGAGMTRVALLGTRY---TMEQDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHHcCCCeEEEeccHH---HHHHhHHHHHHHHhcCCeEe
Confidence 5566788999997553 23345666776655 87764
No 304
>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=86.33 E-value=9.9 Score=37.81 Aligned_cols=102 Identities=15% Similarity=0.100 Sum_probs=65.2
Q ss_pred CCCCChHHhhhCCCeEE-EEeCchhHHHHHHhc---CCCccceE----eCCCHHHHHHHHHcCCcEEEEccchhhHHHHh
Q 002368 677 SPIKGIDTLMTSNDRVG-YQVGSFAENYLIEEL---SIPKSRLV----ALGSPEEYAIALENRTVAAVVDERPYIDLFLS 748 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~-~~~~s~~~~~l~~~~---~~~~~~~~----~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 748 (930)
..|++++||.+.+.++. -+.||-.+.+|...+ ++....+. ...+..+...++..|..|+-+.....+..+
T Consensus 81 ~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~AD~G~g~~~~A~~~-- 158 (193)
T PF12727_consen 81 KGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGKADAGIGIRAAAEEF-- 158 (193)
T ss_pred ccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCCCCEEeehHHHHHhh--
Confidence 57999999987777643 346887777775543 23333332 345778889999999999998765555321
Q ss_pred cCcceEEeCCccccCccEEEecCCCcchhHHHHHHH
Q 002368 749 DHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAIL 784 (930)
Q Consensus 749 ~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~ 784 (930)
..-+|..+. ...|-++++|..-..+.+...|.
T Consensus 159 ~gL~Fvpl~----~E~~dlv~~~~~~~~~~vq~ll~ 190 (193)
T PF12727_consen 159 YGLDFVPLA----EERYDLVIRREDLEDPAVQALLD 190 (193)
T ss_pred cCCCcEEcc----ccceEEEEEhhHcCCHHHHHHHH
Confidence 011333333 34567888887655555555543
No 305
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=85.98 E-value=22 Score=38.22 Aligned_cols=86 Identities=15% Similarity=0.115 Sum_probs=54.0
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
.+.++||+.. .+. ..+..+++..+.++.+ .+++.... ++..+++..+.+|++|++++.
T Consensus 91 ~g~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~ 148 (300)
T PRK11074 91 RGQLSIAVDN--IVR------------PDRTRQLIVDFYRHFD-DVELIIRQ-------EVFNGVWDALADGRVDIAIGA 148 (300)
T ss_pred CceEEEEEcC--ccc------------hhHHHHHHHHHHHhCC-CceEEEEe-------hhhhHHHHHHHCCCCCEEEec
Confidence 3689999875 221 2334577888887776 34455543 456789999999999999963
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
... ......+ -..++....+++++++..
T Consensus 149 ~~~-~~~~~~l-~~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 149 TRA-IPVGGRF-AFRDMGMLSWACVVSSDH 176 (300)
T ss_pred Ccc-CCccccc-ceeecccceEEEEEcCCC
Confidence 211 1111112 245567777888877655
No 306
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=85.97 E-value=4.4 Score=44.54 Aligned_cols=92 Identities=12% Similarity=0.072 Sum_probs=74.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
+.+.+.++.+|++++-||.+..-...+..+.+.+.|++.|+.+.....+.++ .+.+.....+..+++.++|.||-.+.
T Consensus 18 ~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalGG 95 (377)
T COG1454 18 KELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALGG 95 (377)
T ss_pred HHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5567778889999999999777777789999999999999887766666666 66888899999999999999998754
Q ss_pred h--hhHHHHHHHHHHc
Q 002368 228 S--RTGLMVFDVAQRL 241 (930)
Q Consensus 228 ~--~~~~~~~~~a~~~ 241 (930)
+ -|+.+.+....+.
T Consensus 96 GS~~D~AK~i~~~~~~ 111 (377)
T COG1454 96 GSVIDAAKAIALLAEN 111 (377)
T ss_pred ccHHHHHHHHHHHhhC
Confidence 4 5666666555553
No 307
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=85.76 E-value=28 Score=37.74 Aligned_cols=83 Identities=12% Similarity=0.141 Sum_probs=53.4
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
.+|+||+.. ... ..+-.+++..+.++.+ .+.++... +.-.++...|.+|++|+++..-
T Consensus 89 g~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~ 146 (317)
T PRK15421 89 TRLRIAIEC--HSC------------IQWLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSD 146 (317)
T ss_pred eeEEEEecc--cch------------HHHHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecC
Confidence 468998874 111 1234567778877754 34555543 4467889999999999998632
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
+.....+.+ .++....++++++...
T Consensus 147 ---~~~~~~~~~-~~l~~~~~~lv~~~~h 171 (317)
T PRK15421 147 ---ILPRSGLHY-SPMFDYEVRLVLAPDH 171 (317)
T ss_pred ---cccCCCceE-EEeccceEEEEEcCCC
Confidence 222233443 6777788888887665
No 308
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=85.66 E-value=6.9 Score=41.03 Aligned_cols=51 Identities=16% Similarity=0.193 Sum_probs=33.1
Q ss_pred EEEccCChHH-HHHHHHHHHH-----HcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEE
Q 002368 136 FVQTAPNDLY-LMSAIAEMVS-----YFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISY 192 (930)
Q Consensus 136 ~fr~~p~~~~-~~~ai~~~l~-----~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~ 192 (930)
+-|...++.+ -+..++.+++ .|+-.+++++| |.+..+.+.+.+++ |++.++
T Consensus 103 V~RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~-----GwDy~~~~~e~~k~-~~~p~~ 159 (337)
T COG2247 103 VKRIGGANRYETAEKVAKFFREDYPNAFKNVKVVVVY-----GWDYADALMELMKE-GIVPVI 159 (337)
T ss_pred EEEecCcchHHHHHHHHHHHHhhchhhhcCeEEEEEe-----ccccHHHHHHHHhc-CcceeE
Confidence 3455555544 3566777776 24444888887 44455588888988 888665
No 309
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=85.59 E-value=34 Score=36.94 Aligned_cols=83 Identities=13% Similarity=0.127 Sum_probs=50.9
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
..++||+... . ...+-.+++..+.+..+ .+++.... .+-.++...+.+|++|+++...
T Consensus 94 g~l~I~~~~~---~-----------~~~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~ 151 (309)
T PRK11013 94 GQLSIACLPV---F-----------SQSLLPGLCQPFLARYP-DVSLNIVP-------QESPLLEEWLSAQRHDLGLTET 151 (309)
T ss_pred CcEEEEEcHH---H-----------HHhhHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCCCEEEEcC
Confidence 4688888741 1 12345777888888764 35566554 4467788999999999998632
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.. ....+. ..++.....+++++...
T Consensus 152 ~~---~~~~~~-~~~l~~~~~~~~~~~~~ 176 (309)
T PRK11013 152 LH---TPAGTE-RTELLTLDEVCVLPAGH 176 (309)
T ss_pred CC---CCCCce-eeeecceeEEEEEcCCC
Confidence 21 111222 33555566667766554
No 310
>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=85.57 E-value=37 Score=32.97 Aligned_cols=72 Identities=18% Similarity=0.172 Sum_probs=47.4
Q ss_pred EEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEe
Q 002368 488 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 567 (930)
Q Consensus 488 ~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~ 567 (930)
..+-.+++..+.++.+ .++++... ++...++.++.+|++|+++..... .....+. ..++.+..++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~l~-~~~l~~~~~~~~~~ 80 (199)
T cd08430 12 YSFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPD--KLPARLA-FLPLATSPLVFIAP 80 (199)
T ss_pred eeeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCC--CCCcccE-EEeeccceEEEEEe
Confidence 3455778899999885 34566554 567889999999999999863211 1112232 35666777777776
Q ss_pred ccC
Q 002368 568 VRK 570 (930)
Q Consensus 568 ~~~ 570 (930)
...
T Consensus 81 ~~~ 83 (199)
T cd08430 81 NIA 83 (199)
T ss_pred CCc
Confidence 554
No 311
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=85.44 E-value=4 Score=45.81 Aligned_cols=88 Identities=11% Similarity=0.048 Sum_probs=64.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
+.+.+.++.+|.+++.++....-...+..+.+.+.|++.|+++.....+.++ .+.++....+..+++.++|+||-.+.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--P~~~~v~~~~~~~r~~~~D~IiavGG 115 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGE--PCITDVCAAVAQLRESGCDGVIAFGG 115 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 5567778889988888776544444567888999999999987644344444 55778889999999999999998766
Q ss_pred h--hhHHHHHHH
Q 002368 228 S--RTGLMVFDV 237 (930)
Q Consensus 228 ~--~~~~~~~~~ 237 (930)
+ -|..+.+..
T Consensus 116 GS~iD~AKaia~ 127 (395)
T PRK15454 116 GSVLDAAKAVAL 127 (395)
T ss_pred hHHHHHHHHHHH
Confidence 5 355544443
No 312
>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=85.34 E-value=1.2 Score=47.79 Aligned_cols=88 Identities=16% Similarity=0.208 Sum_probs=55.3
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHH-HhcCcceEE
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF-LSDHCQFSV 755 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~-~~~~~~l~~ 755 (930)
.+|++++||. |+++.+..+.....++ +.++. ..+.. ...|...+|++|.+|+........... +.+.+++..
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~-~~lGa---~pv~i-p~~evy~aLq~G~vDg~~~~~~~~~~~~~~ev~~y~~ 198 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFF-EALGA---SPVPI-PWSEVYQALQQGVVDGAENSASSIYSLGLYEVAKYFT 198 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHH-HHCTS---EEEE--TGGGHHHHHHTTSSSEEEEEHHHHHHTTGGGTSSEEE
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHH-HHcCC---eeecC-cHHHHHHHHhcCCcCeEecCHHHHHhcChhhhCCeeE
Confidence 6899999996 8889887666666666 45543 23333 556899999999999999876655222 223345444
Q ss_pred eCCccccCccEEEecCC
Q 002368 756 RGQEFTKSGWGFAFPRD 772 (930)
Q Consensus 756 ~~~~~~~~~~~~~~~k~ 772 (930)
... ....++.+++.++
T Consensus 199 ~~~-~~~~~~~~~~n~~ 214 (286)
T PF03480_consen 199 DTN-HGWSPYAVIMNKD 214 (286)
T ss_dssp EEE-EEEEEEEEEEEHH
T ss_pred eec-ccCcceEEEEcHH
Confidence 333 3344556666665
No 313
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=85.26 E-value=7.4 Score=43.35 Aligned_cols=90 Identities=12% Similarity=0.091 Sum_probs=67.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.+|.+++.+++....+..+..+.+.+.|++.|+++.....+.+. .+.+.+...+...+..++|.||-.+.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 90 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPN--PTEAAVEAGLAAYRAGGCDGVIAFGG 90 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567778888999999998655544457888999999999887544345544 56778999999999999999997654
Q ss_pred h--hhHHHHHHHHH
Q 002368 228 S--RTGLMVFDVAQ 239 (930)
Q Consensus 228 ~--~~~~~~~~~a~ 239 (930)
+ -|+.+++....
T Consensus 91 GSviD~aK~ia~~~ 104 (370)
T cd08192 91 GSALDLAKAVALMA 104 (370)
T ss_pred chHHHHHHHHHHHH
Confidence 4 56666665543
No 314
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=85.25 E-value=22 Score=35.33 Aligned_cols=107 Identities=19% Similarity=0.196 Sum_probs=65.7
Q ss_pred CCCCChHHhhhCCCeE-EEEeCchhHHHHHHh---cCCCccceEeC----CCHHHHHHHHHcCCcEEEEccchhhHHHHh
Q 002368 677 SPIKGIDTLMTSNDRV-GYQVGSFAENYLIEE---LSIPKSRLVAL----GSPEEYAIALENRTVAAVVDERPYIDLFLS 748 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i-~~~~~s~~~~~l~~~---~~~~~~~~~~~----~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 748 (930)
..|++++||.+.+.++ --.+||-.+..|.+. .+.....+.-| .+......++..|+.|+-+.-+..++.+
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~AD~GvGlr~~A~~~-- 164 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLRHAAEKY-- 164 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCCCCccccHHHHHHHc--
Confidence 5699999999666543 234677777766543 33333444433 3556677788899999999855544332
Q ss_pred cCcceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccc
Q 002368 749 DHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENG 790 (930)
Q Consensus 749 ~~~~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G 790 (930)
.-+|..+. ...|-|+.+|+.--.+.+...+..|...+
T Consensus 165 -gL~Fipl~----~E~YD~virke~~~~~~vr~fi~~L~s~~ 201 (223)
T COG1910 165 -GLDFIPLG----DEEYDFVIRKERLDKPVVRAFIKALKSEG 201 (223)
T ss_pred -CCceEEcc----cceEEEEEehhHccCHHHHHHHHHhcccc
Confidence 11444433 44677899998655555555555555433
No 315
>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=85.23 E-value=7.4 Score=43.41 Aligned_cols=90 Identities=14% Similarity=0.134 Sum_probs=67.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
+.+.+.++.+|-+++.+++....+..+..+.+.+.|++.|+++.....+.++ .+.+.....+..+++.++|+||-.+.
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 92 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVGG 92 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567778888989999998655544456788999999999877654455544 55788899999999999999997654
Q ss_pred h--hhHHHHHHHHH
Q 002368 228 S--RTGLMVFDVAQ 239 (930)
Q Consensus 228 ~--~~~~~~~~~a~ 239 (930)
+ -|+.+++....
T Consensus 93 GS~~D~aK~ia~~~ 106 (374)
T cd08189 93 GSVIDCAKAIAARA 106 (374)
T ss_pred ccHHHHHHHHHHHH
Confidence 4 56666655443
No 316
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=84.96 E-value=24 Score=36.93 Aligned_cols=177 Identities=16% Similarity=0.134 Sum_probs=109.7
Q ss_pred HHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCc-ccEEEecEEEecCc---c--ceeeecccccccceEEEE
Q 002368 493 DVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGV-FDAAVGDIAIVTNR---T--KAVDFTQPYIESGLVVVA 566 (930)
Q Consensus 493 dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~-~D~~~~~~~~t~~R---~--~~vdfs~p~~~~~~~~~v 566 (930)
++...+.++.|.++.+.+ +.-..+..++.+|. +|+.+..=...... . ..-+...+|....+++++
T Consensus 46 ~i~~~F~~~~~~~V~~~f---------~gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa~n~lvl~~ 116 (258)
T COG0725 46 EIAKQFEKETGVKVEVEF---------GGSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFAGNRLVLAV 116 (258)
T ss_pred HHHHHHHHHHCCeEEEEe---------cchHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEeeCCeEEEEE
Confidence 667777777787766665 34667888888886 88876533222211 1 123356778888899999
Q ss_pred eccCCCcCcceecccCchhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchhhHHHHHHHhhccccCCcccchhHH
Q 002368 567 PVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAHRENTVSTLGRV 646 (930)
Q Consensus 567 ~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~ 646 (930)
|+...
T Consensus 117 ~~~~~--------------------------------------------------------------------------- 121 (258)
T COG0725 117 PKGSK--------------------------------------------------------------------------- 121 (258)
T ss_pred eCCCc---------------------------------------------------------------------------
Confidence 88762
Q ss_pred HHHHHHHHHHHhhhhhhhhhheeeeeccccCCCCChHHhhh-CCCeEEEEe------CchhHHHHHHhcCCC---ccceE
Q 002368 647 VLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMT-SNDRVGYQV------GSFAENYLIEELSIP---KSRLV 716 (930)
Q Consensus 647 l~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~-s~~~i~~~~------~s~~~~~l~~~~~~~---~~~~~ 716 (930)
..+.++++|.+ .+.++++-+ |.+....|. ..+.. ..+++
T Consensus 122 ------------------------------~~~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l~-~~g~~~~~~~k~v 170 (258)
T COG0725 122 ------------------------------KKIESLEDLLERPDVRLAIGDPKTVPAGKYAKEALE-LLGLWYTLKDKLV 170 (258)
T ss_pred ------------------------------cCcccHHHHhcCcCcEEEecCCCCCCchHHHHHHHH-HhchhhhccccEE
Confidence 23334677765 355677653 566677663 33322 24677
Q ss_pred eCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCcc-ccCccEEEecCCCc---chhHHHHHHHh
Q 002368 717 ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEF-TKSGWGFAFPRDSP---LAIDMSTAILT 785 (930)
Q Consensus 717 ~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~k~sp---l~~~~n~~i~~ 785 (930)
...+.++.+..+..|+.|+.+.-...+...- +...+..+++.. .+..+.+++.+++. ....|-..+..
T Consensus 171 ~~~~v~~~l~~V~~G~ad~g~vy~sd~~~~~-~~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~s 242 (258)
T COG0725 171 LATNVRQALAYVETGEADAGFVYVSDALLSK-KVKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLLS 242 (258)
T ss_pred ecCcHHHHHHHHHcCCCCeEEEEEEhhhccC-CceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHhC
Confidence 7788889999999999998876554333221 122344444332 23557778888766 45666665543
No 317
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=84.67 E-value=18 Score=39.17 Aligned_cols=84 Identities=11% Similarity=0.133 Sum_probs=55.5
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
++.++||+.. +. ..++-.+++..+.++.+ .+.+.+.. ++...++..|.+|++|+++..
T Consensus 111 ~~~i~i~~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~ 168 (314)
T PRK09508 111 ERVFNLCICS--PL------------DIRLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISY 168 (314)
T ss_pred ccEEEEEech--hH------------HHHHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEec
Confidence 4678888863 11 12456788888888875 24566554 556889999999999999864
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.. .....+. ..++....++++++...
T Consensus 169 ~~---~~~~~l~-~~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 169 EE---FDRPEFT-SVPLFKDELVLVASKNH 194 (314)
T ss_pred CC---CCccccc-eeeeecCceEEEEcCCC
Confidence 32 1122233 24567778888887655
No 318
>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=84.43 E-value=7.9 Score=43.17 Aligned_cols=90 Identities=11% Similarity=0.112 Sum_probs=67.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
+.+.+.++.+|.+++.+++....+.....+.+.+.|++.|+++.....+... .+.+++...+..++..++|+||-.+.
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiGG 89 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVGG 89 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5567778888999999998655544477789999999999876543345444 55788999999999999999997655
Q ss_pred h--hhHHHHHHHHH
Q 002368 228 S--RTGLMVFDVAQ 239 (930)
Q Consensus 228 ~--~~~~~~~~~a~ 239 (930)
+ -|..+++....
T Consensus 90 Gs~~D~AK~va~~~ 103 (370)
T cd08551 90 GSVLDTAKAIALLA 103 (370)
T ss_pred chHHHHHHHHHHHH
Confidence 4 56666665443
No 319
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=84.25 E-value=21 Score=39.08 Aligned_cols=93 Identities=13% Similarity=0.033 Sum_probs=69.7
Q ss_pred eEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHH
Q 002368 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 26 ~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~ 105 (930)
.-+||.+..+..+.-.....|++..++.+|.+ .++...+..+=.||..+..++..|+++||++|.....+....
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~------i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g 234 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD------IKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGVG 234 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCCC------ccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcch
Confidence 56799998888777788899999999999954 677888888888999999999999999999999766665544
Q ss_pred HHHHhhhcCCCcEEEeecCC
Q 002368 106 VLSHLANELQVPLLSFTALD 125 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~ 125 (930)
.+- .+.+.+.=-|.+.+..
T Consensus 235 v~~-~A~~~~~~~iGvdsDQ 253 (345)
T COG1744 235 VFQ-AAKELGAYAIGVDSDQ 253 (345)
T ss_pred HHH-HHHHhCCCeEEEeccc
Confidence 421 2222332226654433
No 320
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=84.06 E-value=32 Score=36.82 Aligned_cols=86 Identities=16% Similarity=0.253 Sum_probs=52.2
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
..||||+.. .+ ..++-.+++..+.++.+ .+++.... ++...+...+.+|++|+++...
T Consensus 93 g~l~i~~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (296)
T PRK11062 93 LLFDVGVAD--AL------------SKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDC 150 (296)
T ss_pred eEEEEEecc--hh------------hHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 469999975 11 13556777778777654 35555543 5678999999999999988532
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.........+ ...|+....++++++.+.
T Consensus 151 ~~~~~~~~~l-~~~~l~~~~~~~~~~~~~ 178 (296)
T PRK11062 151 PVDSTQQEGL-FSKKLGECGVSFFCTNPL 178 (296)
T ss_pred CCccccccch-hhhhhhccCcceEecCCC
Confidence 1111111122 234666666666665443
No 321
>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=83.82 E-value=5.2 Score=45.26 Aligned_cols=88 Identities=9% Similarity=0.058 Sum_probs=66.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
+.+.++++.+|.+++.+++....+..+..+.+.+.|++.|+++..-..+.+. .+.+.....+..+++.++|+||-.+.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVGG 89 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5566778889999999998766555566799999999999887643344444 45778888899999999999998765
Q ss_pred h--hhHHHHHHH
Q 002368 228 S--RTGLMVFDV 237 (930)
Q Consensus 228 ~--~~~~~~~~~ 237 (930)
+ -|..+.+..
T Consensus 90 GSviD~AKaia~ 101 (414)
T cd08190 90 GSVIDTAKAANL 101 (414)
T ss_pred ccHHHHHHHHHH
Confidence 5 455555543
No 322
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=83.75 E-value=44 Score=36.21 Aligned_cols=82 Identities=15% Similarity=0.132 Sum_probs=54.3
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
..+|+||+.. .. ...+-..++..+.+..+ .++++.. ..++++..|.+|++|+++..
T Consensus 116 ~~~l~Ig~~~--~~------------~~~~l~~~l~~f~~~~P-~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~ 171 (317)
T PRK11482 116 QRTITIATTP--SV------------GALVMPVIYQAIKTHYP-QLLLRNI---------PISDAENQLSQFQTDLIIDT 171 (317)
T ss_pred CceEEEEecH--HH------------HHHHHHHHHHHHHHHCC-CCEEEEe---------cchhHHHHHHCCCcCEEEec
Confidence 3579999985 11 11345677788888776 3444432 35688999999999999864
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.. .....+. +.++....++++++...
T Consensus 172 ~~---~~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 172 HS---CSNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred cC---CCCCceE-EEEEecCcEEEEEeCCC
Confidence 32 2223344 35777888888887665
No 323
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=83.68 E-value=8.2 Score=42.29 Aligned_cols=73 Identities=21% Similarity=0.204 Sum_probs=50.9
Q ss_pred CCCCChHHhhhCCCeEEEEeCch-hHHHHH---HhcCCCccceE-eCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCc
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSF-AENYLI---EELSIPKSRLV-ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC 751 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~-~~~~l~---~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~ 751 (930)
.+|++++||. |++||+..++. ...++. ...+...+++. ..-.+.+...++..|.+||++...++......+..
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~~~~~~ 203 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAAEGEGG 203 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCCcceEEecCCchhhhhccCC
Confidence 6888999995 99999998874 333332 33444444432 23345588899999999999988888777665543
No 324
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=83.65 E-value=5.5 Score=44.58 Aligned_cols=88 Identities=13% Similarity=0.133 Sum_probs=64.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+|.+++.+++...-+-.+..+.+.+.|++.|+++.....+.++ .+.++....+..+++.++|+||-.+.
T Consensus 19 ~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 96 (382)
T PRK10624 19 GALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIGG 96 (382)
T ss_pred HHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5577778889999999998655444457888999999999876543344444 45778888889999999999997654
Q ss_pred h--hhHHHHHHH
Q 002368 228 S--RTGLMVFDV 237 (930)
Q Consensus 228 ~--~~~~~~~~~ 237 (930)
+ -|..+.+..
T Consensus 97 GS~iD~aK~ia~ 108 (382)
T PRK10624 97 GSPQDTCKAIGI 108 (382)
T ss_pred hHHHHHHHHHHH
Confidence 4 455555443
No 325
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=83.42 E-value=25 Score=37.15 Aligned_cols=120 Identities=9% Similarity=0.072 Sum_probs=65.1
Q ss_pred CCCCChHHhhhCCCeEEEEe--CchhHHHH-HHhc---------CC-----------CccceEeCCCHHHHHHHHHcCCc
Q 002368 677 SPIKGIDTLMTSNDRVGYQV--GSFAENYL-IEEL---------SI-----------PKSRLVALGSPEEYAIALENRTV 733 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~--~s~~~~~l-~~~~---------~~-----------~~~~~~~~~~~~~~~~~l~~g~~ 733 (930)
..|++++||. .|.+|++.+ +...+.++ .+.- +. .+-+++.. ...+...++.+|++
T Consensus 120 ~~iksl~DL~-~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve~-~~~q~~~al~dg~v 197 (272)
T PRK09861 120 KKIKTVAQIK-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMEL-EGAQLPRVLDDPKV 197 (272)
T ss_pred cCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEc-CHHHhHhhccCccc
Confidence 6799999995 688999987 33223322 1221 11 11222322 56678888888999
Q ss_pred EEEEccchhhHHHHhcCc--ceEEeCCccccCccEEEecCCCcchhHHHHHHHhccccccHHHHHHhh
Q 002368 734 AAVVDERPYIDLFLSDHC--QFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 734 ~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
|+++...+++.-- ...+ +-........++-..++++.+.-=.+.+...+..++....-+.|.++|
T Consensus 198 D~a~i~~~~~~~a-g~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 198 DVAIISTTYIQQT-GLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred CEEEEchhHHHHc-CCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 9998887776431 1111 111111111122234555555334566666666666555555555554
No 326
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=83.25 E-value=22 Score=35.64 Aligned_cols=86 Identities=16% Similarity=0.127 Sum_probs=60.1
Q ss_pred ChHHHHHHH-HHHHhcCcEEEEccCChhhHHHHHHh-hhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHH
Q 002368 76 NGFLSIMGA-LQFMETDTLAIVGPQSAVMAHVLSHL-ANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (930)
Q Consensus 76 ~~~~a~~~a-~~li~~~v~aiiGp~~S~~~~av~~~-~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~ 153 (930)
++...+..+ ..|-..|+..|+=|.. +++.+++- -+..+||+|+ ..++.++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~N--T~H~~~d~iq~~~~iPllh-------------------------IidaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPTN--TMHKVADDIQKAVGIPLLH-------------------------IIDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeCC--cHHHHHHHHHHhcCCCeeh-------------------------HHHHHHHH
Confidence 455554444 4444449999987554 46666654 4477999996 24677888
Q ss_pred HHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEE
Q 002368 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (930)
Q Consensus 154 l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~ 191 (930)
+++.|.++|+++..... -.....++.|+++|++++
T Consensus 112 ik~~g~kkvgLLgT~~T---m~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFT---MEQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccch---HHhHHHHHHHHHCCceEe
Confidence 88899999999986432 234567889999998876
No 327
>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=83.21 E-value=20 Score=34.99 Aligned_cols=135 Identities=16% Similarity=0.229 Sum_probs=78.4
Q ss_pred EEEEEecCCCChHHHHHHHHHH-HhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChH
Q 002368 66 LSITMHDAKFNGFLSIMGALQF-METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDL 144 (930)
Q Consensus 66 l~l~~~D~~~~~~~a~~~a~~l-i~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~ 144 (930)
+++.+.+. +-..++..+.++ ..+++.+||.-..+ + ..+-+..++|++... ++..
T Consensus 10 ~~i~v~~~--~~e~~v~~a~~~~~~~g~dViIsRG~t--a---~~lr~~~~iPVV~I~------------------~s~~ 64 (176)
T PF06506_consen 10 AEIDVIEA--SLEEAVEEARQLLESEGADVIISRGGT--A---ELLRKHVSIPVVEIP------------------ISGF 64 (176)
T ss_dssp SEEEEEE----HHHHHHHHHHHHTTTT-SEEEEEHHH--H---HHHHCC-SS-EEEE---------------------HH
T ss_pred ceEEEEEe--cHHHHHHHHHHhhHhcCCeEEEECCHH--H---HHHHHhCCCCEEEEC------------------CCHh
Confidence 34444443 567889999999 67799999973322 2 223344589998631 2222
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 002368 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (930)
Q Consensus 145 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~ 224 (930)
...+++.+.- .+ -++++++...+.. .....+.+.+ |.++.... +. +..++...+.+++..+.|+|+-
T Consensus 65 Dil~al~~a~-~~-~~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~-~~-----~~~e~~~~i~~~~~~G~~viVG 131 (176)
T PF06506_consen 65 DILRALAKAK-KY-GPKIAVVGYPNII--PGLESIEELL---GVDIKIYP-YD-----SEEEIEAAIKQAKAEGVDVIVG 131 (176)
T ss_dssp HHHHHHHHCC-CC-TSEEEEEEESS-S--CCHHHHHHHH---T-EEEEEE-ES-----SHHHHHHHHHHHHHTT--EEEE
T ss_pred HHHHHHHHHH-hc-CCcEEEEeccccc--HHHHHHHHHh---CCceEEEE-EC-----CHHHHHHHHHHHHHcCCcEEEC
Confidence 3334443322 23 3899999866544 2356666666 66665432 21 2779999999999999999876
Q ss_pred EcchhhHHHHHHHHHHcCCC
Q 002368 225 HGYSRTGLMVFDVAQRLGMM 244 (930)
Q Consensus 225 ~~~~~~~~~~~~~a~~~g~~ 244 (930)
.+. ..+.|++.|+.
T Consensus 132 g~~------~~~~A~~~gl~ 145 (176)
T PF06506_consen 132 GGV------VCRLARKLGLP 145 (176)
T ss_dssp SHH------HHHHHHHTTSE
T ss_pred CHH------HHHHHHHcCCc
Confidence 543 35677888874
No 328
>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=83.10 E-value=65 Score=33.83 Aligned_cols=69 Identities=16% Similarity=0.174 Sum_probs=45.7
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.++.+ .+++.... ++..+++..+.+|++|+++..-... ...+. ..|+....++++++..
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRLD-RVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCceE-EEEcCCceEEEEECCC
Confidence 44677778887765 24455543 4578899999999999998632221 12222 3667777888888765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 5
No 329
>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=83.06 E-value=5.8 Score=44.28 Aligned_cols=89 Identities=13% Similarity=0.117 Sum_probs=66.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.+|.+++.+++...-...+..+.+.+.|++.|+++.....+.+. .+.++....+..+++.++|+||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEAD--PPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888999999988655444557888999999999877544444444 56788999999999999999998765
Q ss_pred h--hhHHHHHHHH
Q 002368 228 S--RTGLMVFDVA 238 (930)
Q Consensus 228 ~--~~~~~~~~~a 238 (930)
+ -|+.+++...
T Consensus 93 Gs~iD~aK~ia~~ 105 (376)
T cd08193 93 GSSMDVAKLVAVL 105 (376)
T ss_pred chHHHHHHHHHHH
Confidence 5 4666555443
No 330
>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=82.44 E-value=52 Score=32.23 Aligned_cols=70 Identities=10% Similarity=0.096 Sum_probs=47.1
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++++ .++++... ++..+++..|.+|++|+++... ......++ +.++....++++++.
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~---~~~~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRF---FPRHPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecC---CCCCCceE-EEEEeeccEEEEecC
Confidence 445677888888764 35566554 5688999999999999998522 11112232 455667788888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 54
No 331
>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=82.40 E-value=7.3 Score=42.11 Aligned_cols=90 Identities=12% Similarity=0.009 Sum_probs=66.7
Q ss_pred EEEeEEe---ecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh
Q 002368 27 LNVGAIF---SFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (930)
Q Consensus 27 I~IG~~~---~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~ 103 (930)
=+||.+. ....+.-.....|+...++.+| |..++...+..+-.||.++.+.+..|+++|+++|.+ .....
T Consensus 127 ~~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~-~ag~~ 199 (306)
T PF02608_consen 127 GKVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFP-VAGGS 199 (306)
T ss_dssp TEEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEE-E-CCC
T ss_pred CcccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEE-CCCCC
Confidence 3677777 6766666778899999999998 567888888888889999999999999999999887 33455
Q ss_pred HHHHHHhhhcCCCc--EEEeec
Q 002368 104 AHVLSHLANELQVP--LLSFTA 123 (930)
Q Consensus 104 ~~av~~~~~~~~vp--~is~~a 123 (930)
...+.+.+.+.+.. .|....
T Consensus 200 ~~gv~~aa~e~g~~~~~IG~d~ 221 (306)
T PF02608_consen 200 GQGVIQAAKEAGVYGYVIGVDS 221 (306)
T ss_dssp HHHHHHHHHHHTHETEEEEEES
T ss_pred chHHHHHHHHcCCceEEEEecc
Confidence 66677788888887 776544
No 332
>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=82.22 E-value=6.9 Score=43.69 Aligned_cols=87 Identities=11% Similarity=0.058 Sum_probs=65.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.++.+++.+|+....+..+..+.+.+.|++.|+++.....+.++ .+.++....+..++..++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSE--PTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4556677778889999998655554457788999999999987654455555 56788999999999999999998765
Q ss_pred h--hhHHHHHH
Q 002368 228 S--RTGLMVFD 236 (930)
Q Consensus 228 ~--~~~~~~~~ 236 (930)
+ -|+.+.+.
T Consensus 90 GS~~D~AKaia 100 (375)
T cd08194 90 GSPIDTAKAIA 100 (375)
T ss_pred chHHHHHHHHH
Confidence 4 45555554
No 333
>cd08453 PBP2_IlvR The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold. The IlvR is an activator of the upstream and divergently transcribed ilvD gene, which encodes dihydroxy acid dehydratase that participates in isoleucine, leucine, and valine biosynthesis. As in the case of other members of the LysR family, the expression of ilvR gene is repressed in the presence of its own gene product. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport
Probab=82.00 E-value=52 Score=32.00 Aligned_cols=73 Identities=15% Similarity=0.145 Sum_probs=46.6
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... +...++...+.+|++|+++............+ -+.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEEC
Confidence 355678888887764 25566554 45778999999999999886221111011222 2566677788888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 55
No 334
>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=81.97 E-value=6.6 Score=43.89 Aligned_cols=88 Identities=15% Similarity=0.140 Sum_probs=64.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+|.+++.+++.....-.+..+.+.+.|++.|+++.....+.++ .+.++....+..+++.++|+||..+.
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiGG 95 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIGG 95 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888999999998655444457888999999999876544344444 55778888899999999999997765
Q ss_pred h--hhHHHHHHH
Q 002368 228 S--RTGLMVFDV 237 (930)
Q Consensus 228 ~--~~~~~~~~~ 237 (930)
+ -|+.+.+..
T Consensus 96 GSviD~aKaia~ 107 (379)
T TIGR02638 96 GSPIDTAKAIGI 107 (379)
T ss_pred hHHHHHHHHHHH
Confidence 4 455555443
No 335
>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=81.86 E-value=25 Score=34.34 Aligned_cols=86 Identities=13% Similarity=0.019 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEE
Q 002368 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (930)
Q Consensus 145 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~vi 222 (930)
..+..+.+.....+ .++.++.... +.++.+.+.+++. |++|+.. ... ...++-..++++|.+++||++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~----~v~~~~~~~l~~~yP~l~i~g~---~g~--f~~~~~~~i~~~I~~s~~dil 104 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKP----DVLQQLKVKLIKEYPKLKIVGA---FGP--LEPEERKAALAKIARSGAGIV 104 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCH----HHHHHHHHHHHHHCCCCEEEEE---CCC--CChHHHHHHHHHHHHcCCCEE
Confidence 44556666655556 6888887554 3566677777765 7888765 211 224556778999999999999
Q ss_pred EEEcchhhHHHHHHHHHH
Q 002368 223 VVHGYSRTGLMVFDVAQR 240 (930)
Q Consensus 223 v~~~~~~~~~~~~~~a~~ 240 (930)
++.+..+....++.+.++
T Consensus 105 ~VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 105 FVGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEEcCCcHhHHHHHHhHH
Confidence 999888777777766544
No 336
>PRK07475 hypothetical protein; Provisional
Probab=81.84 E-value=8.8 Score=39.83 Aligned_cols=83 Identities=14% Similarity=0.083 Sum_probs=51.6
Q ss_pred CChHHHHH-HHHHHHhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHH
Q 002368 75 FNGFLSIM-GALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (930)
Q Consensus 75 ~~~~~a~~-~a~~li~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~ 153 (930)
.++..... ++++|...|+.+|+.+- .........+.+..+||+++. +.+....
T Consensus 61 ~~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~s-------------------------s~~~v~~ 114 (245)
T PRK07475 61 PSLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVATS-------------------------SLLQVPL 114 (245)
T ss_pred ccHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEecc-------------------------HHHHHHH
Confidence 34544444 44555556999999855 334445556777789999851 1223334
Q ss_pred HHHc--CCcEEEEEEecCCcCcchHHHHHHHHHhcCcE
Q 002368 154 VSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCK 189 (930)
Q Consensus 154 l~~~--~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~ 189 (930)
++.. +.++|+++..+.. . ...+.+++.|++
T Consensus 115 l~~~~~~~~kIGILtt~~t---~---l~~~~l~~~Gi~ 146 (245)
T PRK07475 115 IQALLPAGQKVGILTADAS---S---LTPAHLLAVGVP 146 (245)
T ss_pred HHHhccCCCeEEEEeCCch---h---hhHHHHHhCCCC
Confidence 4443 3689999987654 2 235778888885
No 337
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=80.60 E-value=12 Score=39.58 Aligned_cols=97 Identities=12% Similarity=0.088 Sum_probs=75.9
Q ss_pred CCCCeEEEccCChHHHHHHH----HHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhH
Q 002368 131 LQYPFFVQTAPNDLYLMSAI----AEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETD 206 (930)
Q Consensus 131 ~~~~~~fr~~p~~~~~~~ai----~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d 206 (930)
+..+|-|-+.|+....++.+ +..++..|.|++.++.+.+.--....+...+.|++.|+.+..-....+. .+..+
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s 115 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGS 115 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--Cchhh
Confidence 44577787888777666543 3457889999999999777777778899999999999998665555555 56788
Q ss_pred HHHHHHHHhcCCceEEEEEcchh
Q 002368 207 VRNELVKVRMMEARVIVVHGYSR 229 (930)
Q Consensus 207 ~~~~l~~l~~~~~~viv~~~~~~ 229 (930)
+...|.=+|..+.|.++..+.+.
T Consensus 116 ~~~alefak~~~fDs~vaiGGGS 138 (465)
T KOG3857|consen 116 VTAALEFAKKKNFDSFVAIGGGS 138 (465)
T ss_pred HHHHHHHHHhcccceEEEEcCcc
Confidence 99999999999999998876553
No 338
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=80.22 E-value=4.3 Score=44.14 Aligned_cols=103 Identities=13% Similarity=0.093 Sum_probs=64.6
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhH----HHHhcCcc
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYID----LFLSDHCQ 752 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~----~~~~~~~~ 752 (930)
.||.+.+||. |.++-+.........+ +.++-....+ ...|.+.+|+.|-+|+.-.....+. |..++++
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~-~a~GA~P~pm----~f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky~- 228 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMF-KALGANPTPM----PFAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKYL- 228 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHH-HHcCCCCCCC----CHHHHHHHHHcCCcccccCCHHHHhhccHHHHhHHh-
Confidence 4999999996 9999999988878887 5565443333 6789999999999998876644432 1112221
Q ss_pred eEEeCCccccCccEEEecCCC--cchhHHHHHHHhccccc
Q 002368 753 FSVRGQEFTKSGWGFAFPRDS--PLAIDMSTAILTLSENG 790 (930)
Q Consensus 753 l~~~~~~~~~~~~~~~~~k~s--pl~~~~n~~i~~l~e~G 790 (930)
...+-. ..++.+.+.+.. -|-+...++|.+..+..
T Consensus 229 -t~tnH~--~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 229 -TLTNHI--YLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred -hhcccc--ccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 111111 223445555542 26666666666655543
No 339
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=80.04 E-value=16 Score=38.19 Aligned_cols=71 Identities=25% Similarity=0.201 Sum_probs=42.8
Q ss_pred eHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCc-ccEEEecEEEecCcc---cee-eec-ccccccceEE
Q 002368 491 CIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGV-FDAAVGDIAIVTNRT---KAV-DFT-QPYIESGLVV 564 (930)
Q Consensus 491 ~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~-~D~~~~~~~~t~~R~---~~v-dfs-~p~~~~~~~~ 564 (930)
.-++.+.+.++.|.++++.+- .-..+..++.+|. +|+.+.+-.-..++. ..+ ..+ .+|....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~~---------~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSFA---------SSSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEec---------ccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 345667777777866655542 2346778888877 999887532212222 122 121 3577788888
Q ss_pred EEeccC
Q 002368 565 VAPVRK 570 (930)
Q Consensus 565 ~v~~~~ 570 (930)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888765
No 340
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=79.90 E-value=6.7 Score=39.77 Aligned_cols=90 Identities=13% Similarity=0.133 Sum_probs=44.9
Q ss_pred CCCeEEEEeCchhHHHHHHhcCCCccc--eEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEe--CC-cc--
Q 002368 688 SNDRVGYQVGSFAENYLIEELSIPKSR--LVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVR--GQ-EF-- 760 (930)
Q Consensus 688 s~~~i~~~~~s~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~--~~-~~-- 760 (930)
.|.+||+-..|.-+..+.+.. ....+ ++.. +..++++++.+|.+||.+-+...+. .++.++... .. ..
T Consensus 113 dGmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Vei-~Y~q~~~~l~~g~IDA~IWN~d~i~---~~~~~l~~~~l~~~~~~~ 187 (232)
T PF14503_consen 113 DGMRVGIDPSSIDQKILTEAE-FEGKNVEFVEI-PYNQLLELLRSGEIDAAIWNYDEIE---DKNFGLKYVPLKDDPMSK 187 (232)
T ss_dssp ---EEEE-TT-HHHHHHHHHH-HTTS--EEEE---HHHHHHHHHHTS--EEEEE--HHC---CHHCTEEEEE--SSCHHH
T ss_pred eeeEeecCCCCccHHHHHHHH-hCCCceEEEEe-cHHHHHHHHHCCCccEEEECCcccc---cccCCeeEEeCCchHHHH
Confidence 488999999998888876543 22333 3332 6788999999999999997765211 111223332 21 11
Q ss_pred ccCccEEEecCCCc-chhHHHHH
Q 002368 761 TKSGWGFAFPRDSP-LAIDMSTA 782 (930)
Q Consensus 761 ~~~~~~~~~~k~sp-l~~~~n~~ 782 (930)
....-.++++|+.+ +...+++.
T Consensus 188 ~~seAVivi~~~~~~i~~ll~~~ 210 (232)
T PF14503_consen 188 DASEAVIVIRKDNEPIKALLRKL 210 (232)
T ss_dssp HTT-EEEEEETT-HHHHHHHHHH
T ss_pred hcCeeEEEEeCCCHHHHHHHHHh
Confidence 12345678888875 44444433
No 341
>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=79.75 E-value=34 Score=34.53 Aligned_cols=125 Identities=10% Similarity=0.072 Sum_probs=76.0
Q ss_pred HHHHhcCcEEEEccCChhhHHHHHHhh-hcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEE
Q 002368 85 LQFMETDTLAIVGPQSAVMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVI 163 (930)
Q Consensus 85 ~~li~~~v~aiiGp~~S~~~~av~~~~-~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~va 163 (930)
.+|.+.++++|+=+-+|. ...+..+- ...++|+++. .++..+-+.. +.++++
T Consensus 59 ~~l~~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~-------------------------~~a~~~~~~~-~~~ri~ 111 (216)
T PF01177_consen 59 EKLEKAGVDAIVIACNSA-HPFVDELRKERVGIPVVGI-------------------------VEAALEAAKA-GGKRIG 111 (216)
T ss_dssp HHHHHTTESEEEESSHHH-HHHHHHHHHHHHSSEEEES-------------------------HHHHHHHHHH-TSSEEE
T ss_pred HHHHhCCCCEEEEcCCch-hhhHHHHhhhcCceEEEec-------------------------cHHHHHHHHh-cCCEEE
Confidence 344445899988755443 23344444 6679998863 1233444555 889999
Q ss_pred EEEecCCcCcchHHHHHHHHHhc-Cc--EEEEEE--ecC----CCCCCChh---HHHHHHHHH-hcCCceEEEEEcchhh
Q 002368 164 AIFNDDDQGRNGVTALGDKLAEI-RC--KISYKS--ALP----PDQSVTET---DVRNELVKV-RMMEARVIVVHGYSRT 230 (930)
Q Consensus 164 ii~~d~~~g~~~~~~~~~~l~~~-g~--~i~~~~--~~~----~~~~~~~~---d~~~~l~~l-~~~~~~viv~~~~~~~ 230 (930)
++.. ++......+.+.+++. |+ +++... .+. .+ ..+.. .+...+.++ +..++|+|++.|..-.
T Consensus 112 vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~-~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~ 187 (216)
T PF01177_consen 112 VLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELG-DIPPEQIEILAEAARELIKEDGADAIILGCTHLP 187 (216)
T ss_dssp EEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTT-CTTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGG
T ss_pred EEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhh-cCCHHHHHHHHHHHHHHhccCCCCEEEECCCchH
Confidence 9985 4455677888888888 87 555422 111 22 01222 345555555 3789999999887744
Q ss_pred HH-HHHHHHHH
Q 002368 231 GL-MVFDVAQR 240 (930)
Q Consensus 231 ~~-~~~~~a~~ 240 (930)
.. .....+.+
T Consensus 188 ~~~~~~~~l~~ 198 (216)
T PF01177_consen 188 LLLGAIEALEE 198 (216)
T ss_dssp GGHHHHHHHHH
T ss_pred HHHHHHHhhcc
Confidence 33 55655554
No 342
>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=79.75 E-value=7.7 Score=43.18 Aligned_cols=89 Identities=17% Similarity=0.183 Sum_probs=68.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+| ++.+|+...-...+..+.+.+.|++.|+++.....+... .+.+++...+..++..++|+||..+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPN--PTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS---BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCC--CcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 44666777787 999998763333447899999999999998766666666 66899999999999999999998776
Q ss_pred h--hhHHHHHHHHHH
Q 002368 228 S--RTGLMVFDVAQR 240 (930)
Q Consensus 228 ~--~~~~~~~~~a~~ 240 (930)
+ -|+.+.+..+..
T Consensus 88 GS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 88 GSVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred CCcCcHHHHHHhhcc
Confidence 6 466666666555
No 343
>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=79.40 E-value=9.8 Score=42.50 Aligned_cols=88 Identities=13% Similarity=0.044 Sum_probs=63.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.+|.+++.+++.....-.+..+.+.+.+++.|+.+.....+..+ .+.++....+..+++.++|+||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 94 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVGG 94 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888999999998654444456788999999989876543334444 45777888899999999999998765
Q ss_pred h--hhHHHHHHH
Q 002368 228 S--RTGLMVFDV 237 (930)
Q Consensus 228 ~--~~~~~~~~~ 237 (930)
+ -|+.+.+..
T Consensus 95 GsviD~AK~ia~ 106 (377)
T cd08188 95 GSPIDCAKGIGI 106 (377)
T ss_pred chHHHHHHHHHH
Confidence 4 455554443
No 344
>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=79.24 E-value=64 Score=31.26 Aligned_cols=69 Identities=14% Similarity=0.144 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.++.+ .++++... +++..+...+.+|++|+++..... ....+ -+.++....++++++..
T Consensus 15 ~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~ 82 (198)
T cd08446 15 TVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPKS 82 (198)
T ss_pred HHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeCC
Confidence 45677888888775 35566554 568889999999999999853211 11222 24566777888887765
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 83 ~ 83 (198)
T cd08446 83 H 83 (198)
T ss_pred C
Confidence 5
No 345
>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=79.17 E-value=64 Score=31.24 Aligned_cols=100 Identities=11% Similarity=0.020 Sum_probs=52.6
Q ss_pred CCChHHhhhCCCe-EEEEeCchhH-HHHHHhcCCCc--cceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceE
Q 002368 679 IKGIDTLMTSNDR-VGYQVGSFAE-NYLIEELSIPK--SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS 754 (930)
Q Consensus 679 i~sl~dL~~s~~~-i~~~~~s~~~-~~l~~~~~~~~--~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~ 754 (930)
..+++||. +.+ |....++... .++....+... ......++.+.....+..|.--+++.+.. +.....+ ..+.
T Consensus 89 ~i~~~~L~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~G~Gi~~lp~~~-~~~~~~~-~~l~ 164 (195)
T cd08428 89 GLTREALL--KAPAVAFNRKDDLHQSFLQQHFGLPPGSYPCHYVPSSEAFVDLAAQGLAYGMIPELQ-IEPELAS-GELI 164 (195)
T ss_pred CCCHHHHh--cCcEEEEcCCCchhHHHHHHHhccCCCCceEEEECCHHHHHHHHHhCCeeEeccHHH-HHHHhcC-CCEE
Confidence 35678886 444 3333343222 33333222221 23355788888888888877656655433 3322222 2344
Q ss_pred EeCCccccCccEEEecCCCcchhHHHHHH
Q 002368 755 VRGQEFTKSGWGFAFPRDSPLAIDMSTAI 783 (930)
Q Consensus 755 ~~~~~~~~~~~~~~~~k~spl~~~~n~~i 783 (930)
.+.+. ....++++.+|+.+........+
T Consensus 165 ~l~~~-~~~~~~l~~~~~~~~s~~~~~~~ 192 (195)
T cd08428 165 DLAPG-HLLRVTLYWHRWNLESGLMKRLS 192 (195)
T ss_pred EccCc-ccccceEEEecccccCHHHHHhh
Confidence 44332 24567788888866555554443
No 346
>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=79.16 E-value=63 Score=31.18 Aligned_cols=70 Identities=19% Similarity=0.248 Sum_probs=46.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.++++.+.++.+ .++++... ++..+++..+.+|++|+++..... . ...+. +.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEI--Q-SDGID-YQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCC--C-CCCcE-EEEEEccceEEEecC
Confidence 455778888888766 34566554 457789999999999999853211 1 12232 456677788888776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 347
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=78.80 E-value=71 Score=34.00 Aligned_cols=82 Identities=20% Similarity=0.218 Sum_probs=56.0
Q ss_pred ceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEE
Q 002368 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIA 542 (930)
Q Consensus 463 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~ 542 (930)
.|+||+.. ... ..+..+++..+.++.+ .+.+.... .+..+++..+.+|++|+++....
T Consensus 91 ~l~Ig~~~--~~~------------~~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~ 148 (296)
T PRK09906 91 QLTIGFVP--SAE------------VNLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHP 148 (296)
T ss_pred cEEEEEec--chh------------hhHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCC
Confidence 38998875 111 2344677788888765 35566654 45788999999999999986332
Q ss_pred EecCccceeeecccccccceEEEEeccC
Q 002368 543 IVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 543 ~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
. ....++ +.|+....+++++++..
T Consensus 149 ~---~~~~l~-~~~l~~~~~~~v~~~~~ 172 (296)
T PRK09906 149 V---YSDEID-YLELLDEPLVVVLPVDH 172 (296)
T ss_pred C---CCCCce-EEEEecccEEEEecCCC
Confidence 2 223344 36888889999988665
No 348
>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=78.56 E-value=67 Score=31.10 Aligned_cols=72 Identities=11% Similarity=0.181 Sum_probs=46.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
++-.+++..+.++.+ .+++.... +...++...+.+|++|+++..... ......+ -+.++....+++++++
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 455778888888874 24555543 446788999999999999863211 0011222 2456777778888876
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 54
No 349
>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=78.33 E-value=11 Score=42.24 Aligned_cols=88 Identities=11% Similarity=0.078 Sum_probs=64.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCc-CcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~-g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
..+.+.++.+| +++.+|+....+ ..+..+.+.+.|++.|+++..-..+.++ .+.++....+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPN--PTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 44666777777 899999865542 4567889999999999887544445544 5578888888999999999999765
Q ss_pred ch--hhHHHHHHHH
Q 002368 227 YS--RTGLMVFDVA 238 (930)
Q Consensus 227 ~~--~~~~~~~~~a 238 (930)
.+ -|+.+.+...
T Consensus 92 GGS~iD~aK~ia~~ 105 (380)
T cd08185 92 GGSSMDTAKAIAFM 105 (380)
T ss_pred CccHHHHHHHHHHH
Confidence 44 4666655443
No 350
>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=78.16 E-value=71 Score=31.18 Aligned_cols=70 Identities=11% Similarity=0.118 Sum_probs=44.4
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... ++-++++.++.+|++|+++..... . ...+. +.++.+..++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~-~--~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYP-Y--QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCC-C--CCCeE-EEEeeccceEEEeCC
Confidence 345677778877654 35566554 457789999999999998863211 1 12232 346666777776654
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 43
No 351
>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=78.06 E-value=5.8 Score=41.38 Aligned_cols=78 Identities=9% Similarity=0.058 Sum_probs=60.5
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEE-cchhhHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH-GYSRTGLMVFDVA 238 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~-~~~~~~~~~~~~a 238 (930)
|+++.. +++|.......+++++++.|.++... .+.. .+.......++++.+.++|.|++. ..+.....+++++
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 455553 56688888999999999999998765 2222 346667788888888999999987 4556778999999
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99886
No 352
>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=78.00 E-value=51 Score=36.18 Aligned_cols=174 Identities=14% Similarity=0.127 Sum_probs=87.5
Q ss_pred CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHHHHHHhhhcCCC
Q 002368 37 TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQV 116 (930)
Q Consensus 37 ~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~av~~~~~~~~v 116 (930)
...|.....+.+++ +.| .+.+++.|.-.....+..+..++-+.. .+ --|.--..-..+.+.+.+.+|
T Consensus 6 Gf~gD~~~a~~~l~-----~~g------~~d~l~~d~LaE~tma~~~~~~~~~p~-~g-Y~~~~~~~L~~~L~~~~~~gI 72 (362)
T PF07287_consen 6 GFWGDRPDAAVRLA-----RGG------DVDYLVGDYLAERTMAILARAKRKDPT-KG-YAPDFVRDLRPLLPAAAEKGI 72 (362)
T ss_pred ccccCcHHHHHHHH-----hcC------CCCEEEEecHHHHHHHHHHHHHhhCCC-CC-chHHHHHHHHHHHHHHHhCCC
Confidence 34455555555555 122 457778887766555555534432211 10 011111233455677788899
Q ss_pred cEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCc-EEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEe
Q 002368 117 PLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSA 195 (930)
Q Consensus 117 p~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~-~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~ 195 (930)
|+|+-++.. +....++.+.+++++.|.+ ||++|+.|+. .+.+.+.+++ |..+..-..
T Consensus 73 kvI~NaGg~----------------np~~~a~~v~eia~e~Gl~lkvA~V~gDd~-----~~~v~~~~~~-g~~~~~l~~ 130 (362)
T PF07287_consen 73 KVITNAGGL----------------NPAGCADIVREIARELGLSLKVAVVYGDDL-----KDEVKELLAE-GETIRPLDT 130 (362)
T ss_pred CEEEeCCCC----------------CHHHHHHHHHHHHHhcCCCeeEEEEECccc-----hHhHHHHHhC-CCCCccCCC
Confidence 999743321 1122677888888888765 8999987764 4445444442 221111000
Q ss_pred cCCCCC-------CC-hhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHHcCCCCC
Q 002368 196 LPPDQS-------VT-ETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (930)
Q Consensus 196 ~~~~~~-------~~-~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~~g~~~~ 246 (930)
-++-.. .+ ---..+++..|+ .++||||..=..+.+.-+--.+.+.|+...
T Consensus 131 ~~~l~~~~~~~~~a~aylGa~pI~~AL~-~GADIVI~GR~~D~Al~~a~~~~~~GW~~~ 188 (362)
T PF07287_consen 131 GPPLSEWDDRIVSANAYLGAEPIVEALE-AGADIVITGRVADPALFAAPAIHEFGWSED 188 (362)
T ss_pred CCCcchhccccceEEEecChHHHHHHHH-cCCCEEEeCcccchHHHHhHHHHHcCCCcc
Confidence 000000 00 001234445554 679987765444444444455557776533
No 353
>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=77.87 E-value=9.6 Score=42.55 Aligned_cols=87 Identities=15% Similarity=0.181 Sum_probs=63.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+|.+++.+++....+-....+.+.+.|++.|+++.....+.+. .+.+.....++.+++.++|+||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 94 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIGG 94 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888888988887544433467888999999999876544344444 55778889999999999999997765
Q ss_pred h--hhHHHHHH
Q 002368 228 S--RTGLMVFD 236 (930)
Q Consensus 228 ~--~~~~~~~~ 236 (930)
+ -|+.+.+.
T Consensus 95 GS~iD~aK~ia 105 (377)
T cd08176 95 GSPHDCAKAIG 105 (377)
T ss_pred cHHHHHHHHHH
Confidence 5 45555544
No 354
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=77.17 E-value=97 Score=32.23 Aligned_cols=83 Identities=17% Similarity=0.135 Sum_probs=52.8
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
..++||++.. . ...+..+++..+.++.+ .+++.... ++..+++..+.+|++|+++...
T Consensus 67 ~~l~I~~~~~--~------------~~~~~~~~l~~~~~~~p-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~ 124 (269)
T PRK11716 67 GELSLFCSVT--A------------AYSHLPPILDRFRAEHP-LVEIKLTT-------GDAADAVEKVQSGEADLAIAAK 124 (269)
T ss_pred ceEEEEecch--H------------HHHHHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHHCCCccEEEEec
Confidence 5688888751 1 12345678888888765 24555554 5577999999999999998532
Q ss_pred EEecCccceeeecccccccceEEEEecc
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
.. .....+. ..++....++++++..
T Consensus 125 ~~--~~~~~~~-~~~l~~~~~~~v~~~~ 149 (269)
T PRK11716 125 PE--TLPASVA-FSPIDEIPLVLIAPAL 149 (269)
T ss_pred CC--CCCcceE-EEEcccceEEEEEcCC
Confidence 11 1112232 3566777777777654
No 355
>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=77.16 E-value=23 Score=39.75 Aligned_cols=89 Identities=11% Similarity=0.157 Sum_probs=61.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.+| +++.+|+....+.....+.+.+.|++.|+++..-..+.+. ....+....+...++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPD--LPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44667788888 8998888544444477888999999999886543333322 34566777788888899999998765
Q ss_pred h--hhHHHHHHHHH
Q 002368 228 S--RTGLMVFDVAQ 239 (930)
Q Consensus 228 ~--~~~~~~~~~a~ 239 (930)
+ -|+.+++....
T Consensus 89 GS~iD~aK~ia~~~ 102 (386)
T cd08191 89 GSCIDLAKIAGLLL 102 (386)
T ss_pred chHHHHHHHHHHHH
Confidence 5 46666655443
No 356
>PRK10537 voltage-gated potassium channel; Provisional
Probab=76.59 E-value=5.8 Score=44.24 Aligned_cols=56 Identities=20% Similarity=0.275 Sum_probs=42.8
Q ss_pred CCcccchhhHHHHHHHhhccc--cCCcccchhHHHHHHHHHHHHHhhhhhhhhhheee
Q 002368 615 PPRKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSSYTASLTSIL 670 (930)
Q Consensus 615 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~L 670 (930)
+...++.+++|+++.++...+ .-.|.+..+|++.+++.++++.+..+..+.++..+
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345679999999999887665 33788999999999999999877665555555433
No 357
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=76.52 E-value=28 Score=36.01 Aligned_cols=86 Identities=13% Similarity=0.045 Sum_probs=58.0
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc-CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 002368 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (930)
Q Consensus 146 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~-g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~ 224 (930)
.+..+.+.....| .+|.++..+.+ .++.+.+.+++. |+.|+....=. .+.++...++++|.+++||++++
T Consensus 93 l~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~Gy----f~~~e~~~i~~~I~~s~~dil~V 163 (243)
T PRK03692 93 LWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQDGY----FTPEQRQALFERIHASGAKIVTV 163 (243)
T ss_pred HHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeCCC----CCHHHHHHHHHHHHhcCCCEEEE
Confidence 4455666665566 78888875543 455566665443 78877543211 12455677899999999999999
Q ss_pred EcchhhHHHHHHHHHH
Q 002368 225 HGYSRTGLMVFDVAQR 240 (930)
Q Consensus 225 ~~~~~~~~~~~~~a~~ 240 (930)
.+..+..-.++...++
T Consensus 164 glG~PkQE~~~~~~~~ 179 (243)
T PRK03692 164 AMGSPKQEIFMRDCRL 179 (243)
T ss_pred ECCCcHHHHHHHHHHH
Confidence 9888777777766655
No 358
>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=76.38 E-value=14 Score=40.97 Aligned_cols=86 Identities=7% Similarity=0.107 Sum_probs=62.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcC-cchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g-~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
..+.++++.+| +++.+++....+- .+..+.+.+.|++.|+++.....+.++ .+.++....++.+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEEN--PSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566777788 8988887655433 345688999999999887644445444 5578899999999999999999876
Q ss_pred ch--hhHHHHHH
Q 002368 227 YS--RTGLMVFD 236 (930)
Q Consensus 227 ~~--~~~~~~~~ 236 (930)
.+ -|+.+.+.
T Consensus 92 GGSviD~aK~ia 103 (357)
T cd08181 92 GGSPLDAAKAIA 103 (357)
T ss_pred CchHHHHHHHHH
Confidence 55 45555443
No 359
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=75.93 E-value=1.1e+02 Score=32.36 Aligned_cols=85 Identities=15% Similarity=0.181 Sum_probs=54.0
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
+.++||+... + ...+..+++..+.++.+ .+.+.... .+-++++.++.+|++|+++...
T Consensus 97 ~~l~I~~~~~--~------------~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 154 (294)
T PRK09986 97 GRIEIGIVGT--A------------LWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM 154 (294)
T ss_pred ceEEEEEehH--H------------hHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 5799998751 1 12334667778887766 34555543 4467889999999999988521
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
. .......+. +.|+....+++++++..
T Consensus 155 ~-~~~~~~~l~-~~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 A-DLEPNPGFT-SRRLHESAFAVAVPEEH 181 (294)
T ss_pred C-ccCCCCCeE-EEEeecccEEEEEcCCC
Confidence 1 011223344 36667788888887765
No 360
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=75.85 E-value=53 Score=34.73 Aligned_cols=122 Identities=21% Similarity=0.207 Sum_probs=74.1
Q ss_pred CCCCChHHhhhC------CCeEEEE-eCch---hHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHH
Q 002368 677 SPIKGIDTLMTS------NDRVGYQ-VGSF---AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF 746 (930)
Q Consensus 677 ~~i~sl~dL~~s------~~~i~~~-~~s~---~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~ 746 (930)
.+++|++||++- ..++|.. .|+. ....+.+..+.. .+.++|+...+.+.+|..|.+|+.+.......-+
T Consensus 88 sp~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G~~~~~~allgG~vd~~~~~~~~~~~~ 166 (274)
T PF03401_consen 88 SPYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDGGAEALTALLGGHVDAAFGSPGEALPY 166 (274)
T ss_dssp SS-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHTTSSSEEEEEHHHHHHH
T ss_pred CccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCCccHHHHHHhCCeeeEEeecHHHHHHH
Confidence 578899998641 2356654 2332 334455566654 4678999999999999999999998775544433
Q ss_pred Hhc-Cc---------------ceEEeCCc----c-ccCccEEEecCCCc--chhHHHHHHHhccccccHHHHHHhh
Q 002368 747 LSD-HC---------------QFSVRGQE----F-TKSGWGFAFPRDSP--LAIDMSTAILTLSENGELQRIHDKW 799 (930)
Q Consensus 747 ~~~-~~---------------~l~~~~~~----~-~~~~~~~~~~k~sp--l~~~~n~~i~~l~e~G~~~~~~~~~ 799 (930)
++. .- +.-.+.|. + .....+++.|||-| .++.+..++.+..++-.+++..++.
T Consensus 167 ~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~~ 242 (274)
T PF03401_consen 167 VEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEKM 242 (274)
T ss_dssp HHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHHH
T ss_pred HhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHHC
Confidence 332 11 11111111 1 11134788999988 9999999999999998777665553
No 361
>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=75.84 E-value=23 Score=39.36 Aligned_cols=86 Identities=10% Similarity=0.133 Sum_probs=62.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+|.+++.+|+....+ ..+.+.+.+++.|+.+.....+.++ .+.+.....+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPN--PDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 456677888888999999865544 5577888888888776544444444 45778888888999999999997655
Q ss_pred h--hhHHHHHHHH
Q 002368 228 S--RTGLMVFDVA 238 (930)
Q Consensus 228 ~--~~~~~~~~~a 238 (930)
+ -|+.+++...
T Consensus 87 Gs~~D~aK~ia~~ 99 (367)
T cd08182 87 GSVLDTAKALAAL 99 (367)
T ss_pred cHHHHHHHHHHHH
Confidence 4 5666666554
No 362
>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=75.64 E-value=11 Score=41.71 Aligned_cols=84 Identities=12% Similarity=0.107 Sum_probs=61.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.++ +++.+++....+. ...+.+.+.|++.|+.+.+. .+... .+.++....++.+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGE--CTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCc--CCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 44666777776 8998888544443 77888999999999987643 35544 55788888999999999999998765
Q ss_pred h--hhHHHHHH
Q 002368 228 S--RTGLMVFD 236 (930)
Q Consensus 228 ~--~~~~~~~~ 236 (930)
+ -|..+++.
T Consensus 87 GS~iD~aK~ia 97 (351)
T cd08170 87 GKTLDTAKAVA 97 (351)
T ss_pred chhhHHHHHHH
Confidence 5 35555444
No 363
>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=75.60 E-value=73 Score=30.75 Aligned_cols=71 Identities=14% Similarity=0.103 Sum_probs=45.9
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .++++... ++.++++.++.+|++|+++..... .....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNK-ATRIRLSE-------EVLGGTWDALASGRADLVIGATGE--LPPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCC-CCceEEEE-------eccchHHHHHhCCCCCEEEEecCC--CCCCce-EEEecccceEEEEEcC
Confidence 455788888988875 24555554 446688999999999999852111 111122 2456666777777776
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 82 ~h 83 (195)
T cd08431 82 NH 83 (195)
T ss_pred CC
Confidence 54
No 364
>PLN02245 ATP phosphoribosyl transferase
Probab=74.57 E-value=32 Score=37.99 Aligned_cols=92 Identities=11% Similarity=0.001 Sum_probs=56.8
Q ss_pred CCCChHHhhh-------CCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcC
Q 002368 678 PIKGIDTLMT-------SNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH 750 (930)
Q Consensus 678 ~i~sl~dL~~-------s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~ 750 (930)
.+++++||.. ..++|+...-...+.||. +.++....++.....-|. +..-|-.|++++-.....-+.+
T Consensus 178 ~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff~-~~Gv~~v~Iv~l~GAvE~--AP~lGlADaIvDIVsTGtTLra-- 252 (403)
T PLN02245 178 NINSLKELAQMPQWTEERPLRVVTGFTYLGPKFMK-DNGFKHVTFSTADGALEA--APAMGIADAILDLVSSGTTLRE-- 252 (403)
T ss_pred ccCCHHHhcccccccccCceEEEeCCHHHHHHHHH-HcCCCeEEEEECcCceec--ccccCchhhhcchhccHHHHHH--
Confidence 5788888862 116888888888899994 456644566655544443 3344677777776555444433
Q ss_pred cceEEeC-CccccCccEEEecCCCc
Q 002368 751 CQFSVRG-QEFTKSGWGFAFPRDSP 774 (930)
Q Consensus 751 ~~l~~~~-~~~~~~~~~~~~~k~sp 774 (930)
.+|.+++ +.+....-.++..|++.
T Consensus 253 NgLk~i~~~~Il~S~A~LIan~~sl 277 (403)
T PLN02245 253 NNLKEIEGGVVLESQAVLVASRRAL 277 (403)
T ss_pred CCCEEccCceEEEEEEEEEEecchh
Confidence 3578885 44445555666677654
No 365
>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=74.11 E-value=26 Score=38.39 Aligned_cols=101 Identities=14% Similarity=0.177 Sum_probs=67.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+|.+++.+|+....+- ...+.+.+.+++. +++.......+. .+.++....+..+++.++|+||..+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPN--PTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 3456677778889999998544433 7778888899876 655433333333 45778888999999999999997665
Q ss_pred h--hhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 228 S--RTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 228 ~--~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
+ -|..+++......| ..++-|-|..
T Consensus 88 Gs~~D~aK~ia~~~~~~---~p~i~iPTt~ 114 (332)
T cd07766 88 GSTLDTAKAVAALLNRG---LPIIIVPTTA 114 (332)
T ss_pred chHHHHHHHHHHHhcCC---CCEEEEeCCC
Confidence 4 45665655544324 3455555543
No 366
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=73.33 E-value=1.1e+02 Score=35.32 Aligned_cols=141 Identities=11% Similarity=0.163 Sum_probs=76.9
Q ss_pred EEccCChhhHHHHHHhhh-cCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEEec-CCcC
Q 002368 95 IVGPQSAVMAHVLSHLAN-ELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-DDQG 172 (930)
Q Consensus 95 iiGp~~S~~~~av~~~~~-~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~~d-~~~g 172 (930)
|+||.+...-.++..+.+ ...+=+|.++- .-++|. +.....+...++.....-+++.|+|.. +...
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnT 265 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWRD--NPTQIVELYLKWAADYQEDRITIFYDTMSNNT 265 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEeC--CHHHHHHHHHHHhhccCcCcEEEEEECCccHH
Confidence 789998876666666654 33444554322 234563 222222333333444345789999843 3333
Q ss_pred cchHHHHHHHHHhc--CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch------hhHHHHHHHHHHcCCC
Q 002368 173 RNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS------RTGLMVFDVAQRLGMM 244 (930)
Q Consensus 173 ~~~~~~~~~~l~~~--g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~------~~~~~~~~~a~~~g~~ 244 (930)
+..++.+.+.+++. |+++... .+. ..+...++..+. ++|.|++.+.. +....++.......+.
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~-~v~------~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~ 336 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIF-NVA------RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFR 336 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEE-ECC------CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcC
Confidence 56788999999877 4454422 222 223444445543 56777776433 3455566666666555
Q ss_pred CCceEEEEeCcc
Q 002368 245 DSGYVWIATTWL 256 (930)
Q Consensus 245 ~~~~~~i~~~~~ 256 (930)
++....+++.+|
T Consensus 337 gK~~~vFGSygw 348 (479)
T PRK05452 337 NKRASAFGSHGW 348 (479)
T ss_pred CCEEEEEECCCc
Confidence 544445555444
No 367
>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=73.33 E-value=28 Score=38.91 Aligned_cols=89 Identities=13% Similarity=0.137 Sum_probs=63.1
Q ss_pred HHHHHHHHHc---CCcEEEEEEecCCcC-cchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 002368 148 SAIAEMVSYF---GWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (930)
Q Consensus 148 ~ai~~~l~~~---~w~~vaii~~d~~~g-~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv 223 (930)
+.+.++++.+ |.+++.+++....+. .+..+.+.+.|++.|+++..-..+.++ .+.+++...+..+++.++|+||
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPN--PTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCEEE
Confidence 4456667776 789999888544433 345788999999999876544344444 5578888999999999999999
Q ss_pred EEcch--hhHHHHHHHH
Q 002368 224 VHGYS--RTGLMVFDVA 238 (930)
Q Consensus 224 ~~~~~--~~~~~~~~~a 238 (930)
..+.+ -|..+++...
T Consensus 90 aiGGGS~iD~aK~ia~~ 106 (383)
T cd08186 90 AIGGGSPIDSAKSAAIL 106 (383)
T ss_pred EeCCccHHHHHHHHHHH
Confidence 76544 5666665543
No 368
>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=72.93 E-value=17 Score=40.78 Aligned_cols=87 Identities=11% Similarity=0.152 Sum_probs=61.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCc-CcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~-g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
+.+.+.++.++ +++.+|.....+ ..+..+.+.+.|++.|+++.....+.++ .+.++....+..+++.++|+||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPN--PRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 44566677775 898888754333 2356788999999999887644444444 4577888899999999999999766
Q ss_pred ch--hhHHHHHHH
Q 002368 227 YS--RTGLMVFDV 237 (930)
Q Consensus 227 ~~--~~~~~~~~~ 237 (930)
.+ -|+.+++..
T Consensus 95 GGS~iD~aK~ia~ 107 (382)
T cd08187 95 GGSVIDSAKAIAA 107 (382)
T ss_pred ChHHHHHHHHHHh
Confidence 54 455555433
No 369
>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=71.75 E-value=50 Score=31.79 Aligned_cols=98 Identities=7% Similarity=-0.063 Sum_probs=49.5
Q ss_pred ChHHhhhCCCeEEEEeCchhHHHHHHhc---CCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceE-Ee
Q 002368 681 GIDTLMTSNDRVGYQVGSFAENYLIEEL---SIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS-VR 756 (930)
Q Consensus 681 sl~dL~~s~~~i~~~~~s~~~~~l~~~~---~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~-~~ 756 (930)
+++||.+... +....+......+.+.. +.........++.+...+.+..|..-+++-+.. +....... .+. ..
T Consensus 87 ~~~~l~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~~-~~~~~~~~-~l~~~~ 163 (194)
T cd08432 87 SPADLARHTL-LHDATRPEAWQWWLWAAGVADVDARRGPRFDDSSLALQAAVAGLGVALAPRAL-VADDLAAG-RLVRPF 163 (194)
T ss_pred CHHHhhcCce-EEecCcccccHHHHhcCCeeccccCCeEEECCHHHHHHHHHhCCCeEEeeHHH-hhhhhcCC-ceEecc
Confidence 7888873322 33333222233332211 222233456788888989998877666665543 33332222 232 22
Q ss_pred CC-ccccCccEEEecCCCcchhHHHH
Q 002368 757 GQ-EFTKSGWGFAFPRDSPLAIDMST 781 (930)
Q Consensus 757 ~~-~~~~~~~~~~~~k~spl~~~~n~ 781 (930)
.. ......+.++.+|+.+.......
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 189 (194)
T cd08432 164 DLPLPSGGAYYLVYPPGRAESPAVAA 189 (194)
T ss_pred ccccCCCCCEEEEeccccccchHHHH
Confidence 22 22345677788887655444433
No 370
>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=71.67 E-value=1e+02 Score=29.92 Aligned_cols=69 Identities=12% Similarity=0.164 Sum_probs=45.8
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 490 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 490 ~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
+-.+++..+.++.+ .++++... ++..++...|.+|++|+++.. .......+. +.++.+..++++++..
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~---~~~~~~~~~-~~~l~~~~~~lv~~~~ 81 (197)
T cd08452 14 FLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLH---PPIQHTALH-IETVQSSPCVLALPKQ 81 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEee---CCCCCCCee-EEEeeeccEEEEEeCC
Confidence 44677888888765 35565554 567889999999999999852 122222333 3566677777777764
Q ss_pred C
Q 002368 570 K 570 (930)
Q Consensus 570 ~ 570 (930)
.
T Consensus 82 h 82 (197)
T cd08452 82 H 82 (197)
T ss_pred C
Confidence 4
No 371
>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=71.43 E-value=18 Score=39.90 Aligned_cols=87 Identities=16% Similarity=0.106 Sum_probs=61.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++.....+... .+.++.....+..++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGE--STYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCC--CCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 44566677777 898888765444 345778888899889877544445544 45777888888888899999998765
Q ss_pred h--hhHHHHHHHH
Q 002368 228 S--RTGLMVFDVA 238 (930)
Q Consensus 228 ~--~~~~~~~~~a 238 (930)
+ -|..+++...
T Consensus 88 Gs~~D~aK~ia~~ 100 (345)
T cd08171 88 GKAIDTVKVLADK 100 (345)
T ss_pred cHHHHHHHHHHHH
Confidence 5 4555555443
No 372
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=71.39 E-value=46 Score=33.81 Aligned_cols=93 Identities=13% Similarity=0.115 Sum_probs=54.5
Q ss_pred CCCCChHHhhh--------CC--CeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHH
Q 002368 677 SPIKGIDTLMT--------SN--DRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF 746 (930)
Q Consensus 677 ~~i~sl~dL~~--------s~--~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~ 746 (930)
..+++++||.. .| .+|+...-...+.||. +.+.....++.....-|. +-.-|-.|++++-.....-+
T Consensus 109 ~~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~-~~Gv~~~~Iv~l~GsvEl--aP~~GlAD~IvDivsTG~TL 185 (228)
T PRK13583 109 IDVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLS-QKGVQDYRIVESLGATEG--APANGSAEIIVDITSTGETL 185 (228)
T ss_pred cccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHH-HcCCceeEEEECCCceec--ccccCcchhhhhhhchhHHH
Confidence 35667777751 12 5788887788899995 445543355554433333 23336677777755554443
Q ss_pred HhcCcceEEeC-CccccCccEEEecCCCc
Q 002368 747 LSDHCQFSVRG-QEFTKSGWGFAFPRDSP 774 (930)
Q Consensus 747 ~~~~~~l~~~~-~~~~~~~~~~~~~k~sp 774 (930)
.+ .+|.+++ +.+....-.++..+.|.
T Consensus 186 r~--NgL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 186 RA--NHLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred HH--CCCEEecCceEEEEEEEEEEecccc
Confidence 32 3578886 34445555666777764
No 373
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=69.78 E-value=31 Score=33.30 Aligned_cols=120 Identities=14% Similarity=0.127 Sum_probs=69.4
Q ss_pred HHHHhc--CcEEEEccCChh---hHHHHHHhhhcCCCcEEEeecCCCCCCCCC-CCeEEEccCChHHHHHHHHHHHHHcC
Q 002368 85 LQFMET--DTLAIVGPQSAV---MAHVLSHLANELQVPLLSFTALDPTLSPLQ-YPFFVQTAPNDLYLMSAIAEMVSYFG 158 (930)
Q Consensus 85 ~~li~~--~v~aiiGp~~S~---~~~av~~~~~~~~vp~is~~a~~~~ls~~~-~~~~fr~~p~~~~~~~ai~~~l~~~~ 158 (930)
.+++.+ +.+.++|..... ....+.+++++.++|+++...+...+.+++ .|. ......+..++..-+
T Consensus 28 a~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~~--------~~~lg~lg~~~~~p~ 99 (171)
T PRK00945 28 AMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDAK--------YINLHELTNYLKDPN 99 (171)
T ss_pred HHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCCccCC--------cccHHHHHhhccCch
Confidence 344444 899999987754 667789999999999998655555555422 122 222344555555433
Q ss_pred Cc---------EEEEEEecCCcCcchHHHHHHHHHhcCcE-EEEEEecCCCC-----CCChhHHHHHHHHHh
Q 002368 159 WG---------EVIAIFNDDDQGRNGVTALGDKLAEIRCK-ISYKSALPPDQ-----SVTETDVRNELVKVR 215 (930)
Q Consensus 159 w~---------~vaii~~d~~~g~~~~~~~~~~l~~~g~~-i~~~~~~~~~~-----~~~~~d~~~~l~~l~ 215 (930)
|. -|.++..+.+|.......++.... ++ |.....|.++. ....+++...|+++.
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 33 445555677766666665554433 32 33334444432 124566667777654
No 374
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=69.76 E-value=27 Score=36.23 Aligned_cols=100 Identities=16% Similarity=0.243 Sum_probs=57.6
Q ss_pred HHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 002368 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (930)
Q Consensus 149 ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~ 228 (930)
.+.++++.++.+++.+|...+.| ....+.+.+.++..|+++......... .+..+......+++..++|+|+-.+.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 35667888888999999876654 334578888899999988743322222 335667777777777889998888777
Q ss_pred hhHHHHHHH-HHHcCCCCCceEEEEeCc
Q 002368 229 RTGLMVFDV-AQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 229 ~~~~~~~~~-a~~~g~~~~~~~~i~~~~ 255 (930)
. ...+.|- |.+.| ..|+-+.|..
T Consensus 86 ~-i~D~~K~~A~~~~---~p~isVPTa~ 109 (250)
T PF13685_consen 86 T-IIDIAKYAAFELG---IPFISVPTAA 109 (250)
T ss_dssp H-HHHHHHHHHHHHT-----EEEEES--
T ss_pred H-HHHHHHHHHHhcC---CCEEEecccc
Confidence 4 2333332 34445 3566666653
No 375
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=69.52 E-value=1.1e+02 Score=32.72 Aligned_cols=82 Identities=12% Similarity=0.072 Sum_probs=52.2
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecE
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 541 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~ 541 (930)
.+|+||+.. ... ..+...++..+.++. .++++... +.-...+..+.+|++|+++..-
T Consensus 90 g~l~I~~~~--~~~------------~~~l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~ 146 (294)
T PRK03635 90 LTLSIAVNA--DSL------------ATWFLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTE 146 (294)
T ss_pred eEEEEeecc--hhH------------HHHHHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEecc
Confidence 568999974 111 112345667777664 45566654 4456889999999999997532
Q ss_pred EEecCccceeeecccccccceEEEEeccC
Q 002368 542 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 542 ~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
+.....+ .+.++.+..++++++...
T Consensus 147 ---~~~~~~l-~~~~l~~~~~~lv~~~~~ 171 (294)
T PRK03635 147 ---PQPVQGC-RVDPLGAMRYLAVASPAF 171 (294)
T ss_pred ---CCCCCCc-eeeecccceEEEEEcchH
Confidence 1222222 467788888888887543
No 376
>PRK00865 glutamate racemase; Provisional
Probab=69.31 E-value=51 Score=34.57 Aligned_cols=38 Identities=16% Similarity=0.172 Sum_probs=28.1
Q ss_pred HHHHHHhcCcEEEEccCChhhHHHHHHhhhcCCCcEEE
Q 002368 83 GALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (930)
Q Consensus 83 ~a~~li~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is 120 (930)
.+..|.+.|+.+|+=+-.+..+.++-.+-+..++|+|+
T Consensus 59 ~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 59 IVEFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 33444455899998877777766777777788999996
No 377
>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=69.28 E-value=19 Score=37.75 Aligned_cols=77 Identities=5% Similarity=0.026 Sum_probs=55.6
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~-~~~~~~~~~~a 238 (930)
|+++.. +++|.......+.+++++.|.++.... .. .+.......+..+.+.++|.|++... .......++.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~ 76 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYD---AG--GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRA 76 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHH
Confidence 566665 577888889999999999999987632 12 22445567777777789999999753 33345677888
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
++.|+
T Consensus 77 ~~~~i 81 (273)
T cd06305 77 LDAGI 81 (273)
T ss_pred HHcCC
Confidence 88775
No 378
>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=69.23 E-value=51 Score=31.62 Aligned_cols=116 Identities=13% Similarity=0.155 Sum_probs=62.8
Q ss_pred CcEEEEccCCh--hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCcE-------
Q 002368 91 DTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGE------- 161 (930)
Q Consensus 91 ~v~aiiGp~~S--~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~------- 161 (930)
+++.++|+... .....+..+++..++|+++.......+.+.. .+ ..| .....+..++.+-+|.-
T Consensus 29 RPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kg--v~--~~~---~~lg~~g~~~~~p~~e~~~g~g~~ 101 (162)
T TIGR00315 29 RPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAG--IE--SEE---MNLHEITQFLADPSWEGFDGEGNY 101 (162)
T ss_pred CcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCC--ee--cCC---CCHHHHHHhccCchhhhccCCCCc
Confidence 89999998764 7778889999999999997543333333322 11 112 12235555555544443
Q ss_pred --EEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCC-----CCChhHHHHHHHHHh
Q 002368 162 --VIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVR 215 (930)
Q Consensus 162 --vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~-----~~~~~d~~~~l~~l~ 215 (930)
+.++..+..++......++... .=-.|.....|.++. ....+++...|+++.
T Consensus 102 DlvlfvG~~~y~~~~~ls~lk~f~--~~~~i~l~~~y~pnA~~Sf~n~~~~~~~~~l~~~~ 160 (162)
T TIGR00315 102 DLVLFLGIIYYYLSQMLSSLKHFS--HIVTIAIDKYYQPNADYSFPNLSKDEYLDYLRKLL 160 (162)
T ss_pred CEEEEeCCcchHHHHHHHHHHhhc--CcEEEEecCCCCCCCceeccccCHHHHHHHHHHHh
Confidence 3444455554444555554333 112233344444432 123555666666654
No 379
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=69.00 E-value=24 Score=37.78 Aligned_cols=78 Identities=28% Similarity=0.193 Sum_probs=46.3
Q ss_pred CCCCChHHhhhCCCeEEEEe-Cc----hhHHHHHHhcCCCccceEe--CCCHHHHHHHHHcCCcEEEEccchh---hHHH
Q 002368 677 SPIKGIDTLMTSNDRVGYQV-GS----FAENYLIEELSIPKSRLVA--LGSPEEYAIALENRTVAAVVDERPY---IDLF 746 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~-~s----~~~~~l~~~~~~~~~~~~~--~~~~~~~~~~l~~g~~~a~~~~~~~---~~~~ 746 (930)
..|++++||. |++|.+-. || ..+..| +.+++....+.. .-...+..+++++|.+||.+.-... .-..
T Consensus 127 ~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il-~a~Gi~~~~~~~~~~~~~a~~~~~l~~g~iDA~~~~~G~p~~ai~e 203 (321)
T COG2358 127 AGIKTIADLK--GKRVAIGPPGSGTEATARQIL-EALGITYDDYELDLGLGDAESADALKNGTIDAAFYVAGVPNPAISE 203 (321)
T ss_pred CCcceehhcC--CCEEeecCCCCccHHHHHHHH-HHcCCCCcchhhhhhcCchhhHHHhhCCcccEEEEecCCCCccHHH
Confidence 4799999996 99987753 33 233333 455555443321 1133445788999999998764221 2233
Q ss_pred HhcCcceEEeC
Q 002368 747 LSDHCQFSVRG 757 (930)
Q Consensus 747 ~~~~~~l~~~~ 757 (930)
+...|++.+++
T Consensus 204 l~~~~~i~lv~ 214 (321)
T COG2358 204 LATTCDIVLVP 214 (321)
T ss_pred HHhhCCeEEEe
Confidence 44566666665
No 380
>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=68.52 E-value=1.6e+02 Score=31.10 Aligned_cols=64 Identities=13% Similarity=0.074 Sum_probs=41.1
Q ss_pred HHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEecc
Q 002368 493 DVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 569 (930)
Q Consensus 493 dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~~ 569 (930)
.++..+.++.+ +++.... ++-..+++.|.+|++|+++.... .....+. +.++.+..++++++++
T Consensus 107 ~~l~~~~~~~~--i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQEG--VLLDLVV-------EDQDHTAELLRSGEVLGAVTTQA---KPVQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCCC--ceEEEEe-------CcchhHHHHHhCCCceEEEecCC---CCCCCce-EEecCCceEEEEECch
Confidence 45666666643 5555543 44567889999999999986322 1122333 4677788888887654
No 381
>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=67.49 E-value=19 Score=37.27 Aligned_cols=76 Identities=12% Similarity=0.072 Sum_probs=56.4
Q ss_pred EEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
++++..+ ++|.....+.+++++++.|+++... ..+ .+.......++++.+.++|++++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLC---NSD--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEE---cCC--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 5666654 8888889999999999999887753 222 22455667788888889999999776655555 77787
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7775
No 382
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=67.28 E-value=45 Score=40.21 Aligned_cols=67 Identities=19% Similarity=0.242 Sum_probs=48.4
Q ss_pred cCCcEEEEEEecCCc---------Cc---chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 002368 157 FGWGEVIAIFNDDDQ---------GR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (930)
Q Consensus 157 ~~w~~vaii~~d~~~---------g~---~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~ 224 (930)
+..-+|+++...++- |+ .....+...+++.|.++.....++.+ ...+...+.++.+ ++|+||.
T Consensus 184 ~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~Dd----~~~i~~~l~~~~~-~~D~iIt 258 (633)
T PRK14498 184 YKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVPDD----EEELEAALRKALK-ECDLVLL 258 (633)
T ss_pred ecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeCCC----HHHHHHHHHHHHh-cCCEEEE
Confidence 445588888765441 22 34567888899999998877777655 7778888888764 7999998
Q ss_pred Ecch
Q 002368 225 HGYS 228 (930)
Q Consensus 225 ~~~~ 228 (930)
.+..
T Consensus 259 tGG~ 262 (633)
T PRK14498 259 SGGT 262 (633)
T ss_pred CCCC
Confidence 6543
No 383
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=66.79 E-value=23 Score=39.43 Aligned_cols=84 Identities=8% Similarity=0.095 Sum_probs=60.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++.+. .++.. .+.+.....++.+++.++|+||-.+.
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~e--p~~~~v~~~~~~~~~~~~d~IIavGG 93 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGE--CSDNEIDRLVAIAEENGCDVVIGIGG 93 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44666778888 899888854444 346788888899889887543 34544 45678888889999999999998765
Q ss_pred h--hhHHHHHH
Q 002368 228 S--RTGLMVFD 236 (930)
Q Consensus 228 ~--~~~~~~~~ 236 (930)
+ -|..+++.
T Consensus 94 Gsv~D~aK~iA 104 (366)
T PRK09423 94 GKTLDTAKAVA 104 (366)
T ss_pred hHHHHHHHHHH
Confidence 5 45555554
No 384
>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=66.65 E-value=46 Score=37.07 Aligned_cols=84 Identities=10% Similarity=0.097 Sum_probs=60.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.+.++.++ +++.|++..... ..+.+.+.|++.|+++.... +... .+.+++...+..+++.++|+||-.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGE--PSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCC--cCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 34666677775 899888854443 67788899999998765432 3334 55778888999999999999998765
Q ss_pred h--hhHHHHHHHH
Q 002368 228 S--RTGLMVFDVA 238 (930)
Q Consensus 228 ~--~~~~~~~~~a 238 (930)
+ -|+.+++...
T Consensus 85 GS~~D~aK~ia~~ 97 (374)
T cd08183 85 GSVIDAGKAIAAL 97 (374)
T ss_pred chHHHHHHHHHHH
Confidence 5 4666665443
No 385
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=66.59 E-value=7.1 Score=48.67 Aligned_cols=54 Identities=17% Similarity=0.366 Sum_probs=46.9
Q ss_pred cchhhHHHHHHHhhccc--cCCcccchhHHHHHHHHHHHHHhhhhhhhhhheeeee
Q 002368 619 QIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTV 672 (930)
Q Consensus 619 ~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~Yta~L~s~Lt~ 672 (930)
+...++|+++.++..-| .-.|.+...|++.++|+++++++.++..+++++++..
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35668999999998766 3379999999999999999999999999999998754
No 386
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=66.51 E-value=1.8e+02 Score=30.83 Aligned_cols=102 Identities=10% Similarity=0.032 Sum_probs=53.8
Q ss_pred CChHHhhhCCCe-EEEEeCch-hHHHHHHhcCCC--ccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEE
Q 002368 680 KGIDTLMTSNDR-VGYQVGSF-AENYLIEELSIP--KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSV 755 (930)
Q Consensus 680 ~sl~dL~~s~~~-i~~~~~s~-~~~~l~~~~~~~--~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~ 755 (930)
-+++||. +.+ |.+..+.. ...++....+.. .......++.......+..|.-.+++.... +..... ...+..
T Consensus 180 v~~~~l~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~~-~~~~~~-~~~l~~ 255 (294)
T PRK13348 180 LTRHSAL--KAPAVAFNRKDTLQDSFLEQLFGLPVGAYPRHYVPSTHAHLAAIRHGLGYGMVPELL-IGPLLA-AGRLVD 255 (294)
T ss_pred CCHHHHc--CCCEEEecCCchHHHHHHHHHHhccccccceEEeCcHHHHHHHHHcCCeeEeCCHHH-HHHHHh-cCeeee
Confidence 4678886 444 33433432 334443322211 122345678888888888877655554443 332222 234444
Q ss_pred eCCccccCccEEEecCCCcchhHHHHHHHhc
Q 002368 756 RGQEFTKSGWGFAFPRDSPLAIDMSTAILTL 786 (930)
Q Consensus 756 ~~~~~~~~~~~~~~~k~spl~~~~n~~i~~l 786 (930)
+.... ...++++.+|+.+........+..+
T Consensus 256 l~~~~-~~~~~l~~~~~~~~~~~~~~~~~~i 285 (294)
T PRK13348 256 LAPGH-PVDVALYWHHWEVESPTMEALSQRV 285 (294)
T ss_pred cCCCC-CCCceeEEeeccccChHHHHHHHHH
Confidence 44332 4567788888876655555544443
No 387
>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=66.26 E-value=21 Score=37.45 Aligned_cols=79 Identities=11% Similarity=0.039 Sum_probs=55.6
Q ss_pred EEEEEEec---CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHH
Q 002368 161 EVIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFD 236 (930)
Q Consensus 161 ~vaii~~d---~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~ 236 (930)
+|+++..+ ++|.....+.+.+++++.|..+.....-. .+.......++++...++|.+++..... .....++
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 46677643 57888889999999999999887542211 1245566778888888999999876433 3345677
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
.+++.|+
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777664
No 388
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=65.43 E-value=1.9e+02 Score=30.69 Aligned_cols=161 Identities=17% Similarity=0.197 Sum_probs=101.2
Q ss_pred eEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhHH
Q 002368 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (930)
Q Consensus 26 ~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~~ 105 (930)
.=.|+.+|.-++. .-+-+++.|+-+. +|..+-+--.|++-.-.+.+..+-+.+++=+++|.-=..+- .
T Consensus 44 gk~laliFeK~ST---RTR~SFeva~~ql-------Gg~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~~--~ 111 (310)
T COG0078 44 GKNLALIFEKTST---RTRVSFEVAATQL-------GGHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFSH--E 111 (310)
T ss_pred CceEEEEecCCCc---hhhhhHHHHHHHc-------CCCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEecccH--H
Confidence 4568889888763 4578899998885 45666666667665555556666666676566666433332 2
Q ss_pred HHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHH---HHcC---CcEEEEEEecCCcCcchHHHH
Q 002368 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WGEVIAIFNDDDQGRNGVTAL 179 (930)
Q Consensus 106 av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l---~~~~---w~~vaii~~d~~~g~~~~~~~ 179 (930)
.+-.+|+..+||+|. .|++...| .+++|+++ +++| -++++.+. |. .+....+
T Consensus 112 ~ve~lA~~s~VPViN------gLtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vG--Dg--NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVIN------GLTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVG--DG--NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEc------ccccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEc--Cc--chHHHHH
Confidence 678899999999995 35554444 35666663 4555 35555554 32 7788888
Q ss_pred HHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHH-hcCCceEEE
Q 002368 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKV-RMMEARVIV 223 (930)
Q Consensus 180 ~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l-~~~~~~viv 223 (930)
-......|..+....+-... . ..++....+++ +++++.+.+
T Consensus 170 ~~~~a~~G~dv~ia~Pk~~~--p-~~~~~~~a~~~a~~~g~~i~~ 211 (310)
T COG0078 170 LLAAAKLGMDVRIATPKGYE--P-DPEVVEKAKENAKESGGKITL 211 (310)
T ss_pred HHHHHHhCCeEEEECCCcCC--c-CHHHHHHHHHHHHhcCCeEEE
Confidence 88889999987754322222 2 34454555543 334444443
No 389
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=65.17 E-value=11 Score=42.42 Aligned_cols=89 Identities=13% Similarity=0.197 Sum_probs=69.7
Q ss_pred hhHHHHHHHHHHHHHHhhhheeeccCCCCCCCCcccchhhHHHHHHHhhccc--cCCcccchhHHHHHHHHHHHHHhhhh
Q 002368 584 PLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSS 661 (930)
Q Consensus 584 ~~vW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~l~~~w~~~~lil~~~ 661 (930)
..+|..-++.+++.++++|+.|.....+-.+....+.-+++|+...++...| ...|....+|++...+-++++-+-+.
T Consensus 234 iTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFAL 313 (654)
T KOG1419|consen 234 ITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFAL 313 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhc
Confidence 3578889999999999999999885544444445568899999999998775 55899999999999888888776666
Q ss_pred hhhhhheeeee
Q 002368 662 YTASLTSILTV 672 (930)
Q Consensus 662 Yta~L~s~Lt~ 672 (930)
=.+.|-|-++.
T Consensus 314 PAGILGSGfAL 324 (654)
T KOG1419|consen 314 PAGILGSGFAL 324 (654)
T ss_pred ccccccchhhh
Confidence 66666665554
No 390
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=65.11 E-value=28 Score=38.17 Aligned_cols=82 Identities=12% Similarity=0.067 Sum_probs=59.8
Q ss_pred CCcEEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHH
Q 002368 158 GWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMV 234 (930)
Q Consensus 158 ~w~~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~ 234 (930)
.-++++++.. +++|.......+.++.++.|+++.... +.. .+...-...++.+.+.++|.|++.... ......
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 4468888874 578888888999999999999887532 222 223334467888888999999997543 444678
Q ss_pred HHHHHHcCC
Q 002368 235 FDVAQRLGM 243 (930)
Q Consensus 235 ~~~a~~~g~ 243 (930)
++++++.|.
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 899998885
No 391
>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=65.06 E-value=21 Score=36.92 Aligned_cols=78 Identities=8% Similarity=0.080 Sum_probs=55.5
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a 238 (930)
+++++.+. .+|.......+++++++.|+++.... .. .+.+.....++++.+.++|.+|+..........+..+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~---~~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLAN---SQ--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 36777754 77888889999999999998876542 22 2245667778888888999999876554443356677
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
.+.|.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66664
No 392
>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=64.49 E-value=23 Score=37.14 Aligned_cols=78 Identities=9% Similarity=0.054 Sum_probs=56.6
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHh-cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFD 236 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~-~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~ 236 (930)
+|+++.++ ++|.......+.+++++ .|.++..... . .+.......++++.+.++|.+++..... ....++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA---K--NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC---C--CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 46777754 77888888999999999 8998886432 1 2355666788888888999999865443 3456777
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
++.+.|+
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777665
No 393
>PRK10991 fucI L-fucose isomerase; Provisional
Probab=64.01 E-value=2.6e+02 Score=32.58 Aligned_cols=128 Identities=9% Similarity=-0.028 Sum_probs=75.5
Q ss_pred CCcEEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEE-ccCC-hhhHHHHHHhhhcCCCcEEEeecCCCCCC---------
Q 002368 62 GGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIV-GPQS-AVMAHVLSHLANELQVPLLSFTALDPTLS--------- 129 (930)
Q Consensus 62 ~g~~l~l~~~D~~~-~~~~a~~~a~~li~~~v~aii-Gp~~-S~~~~av~~~~~~~~vp~is~~a~~~~ls--------- 129 (930)
.|..++.++.|+.- ++..|...+.++-.++|.++| .+.| ...+..+ ....++|.+-++..+|.-.
T Consensus 47 ~g~~ve~viad~~I~~~~eA~~~aekFk~e~Vd~~I~vt~cw~fG~Et~---d~~~~~PvllWg~~dperPGav~L~A~l 123 (588)
T PRK10991 47 CGEPVECVIADTCIGGVAEAAACEEKFSSENVGLTITVTPCWCYGSETI---DMDPTRPKAIWGFNGTERPGAVYLAAAL 123 (588)
T ss_pred CCCeEEEEeCccccCCHHHHHHHHHHHhhcCCCEEEEecCcccchhHHH---hcCCCCCEEEeCCCCCCCCcHHHHHHHH
Confidence 36889999999875 888899999999888999888 6555 3333333 2237899998877664321
Q ss_pred ----CCCCCeEEEcc-----CChH----HHHH------HHHHHHHHcCCcEEEEEEecCCcCcchHHHHH-HHHHhcCcE
Q 002368 130 ----PLQYPFFVQTA-----PNDL----YLMS------AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG-DKLAEIRCK 189 (930)
Q Consensus 130 ----~~~~~~~fr~~-----p~~~----~~~~------ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~-~~l~~~g~~ 189 (930)
..+.|++.-.. ++|. ...+ ..+..++.++-+++..|..- +.|-.....=. ...+..|++
T Consensus 124 aa~~Q~Gip~~~IyGh~vqd~dd~~i~~dv~ekLl~FaRAa~aV~~LRg~syl~IG~r-pmGf~ts~vne~~l~~~fGI~ 202 (588)
T PRK10991 124 AAHSQKGIPAFSIYGHDVQDADDTSIPADVEEKLLRFARAGLAVASMKGKSYLSIGGV-SMGIAGSIVDHNFFESYLGMR 202 (588)
T ss_pred HHHHhcCCCeEEEeCCCccccccccchHHHHHHHHHHHHHHHHHHHhcCCeEEEECCc-cCCccccccCHHHHHHHhCCE
Confidence 23446554442 2222 1222 22333555777888888743 22222221111 223445888
Q ss_pred EEEE
Q 002368 190 ISYK 193 (930)
Q Consensus 190 i~~~ 193 (930)
+...
T Consensus 203 ve~V 206 (588)
T PRK10991 203 VEAV 206 (588)
T ss_pred EEEe
Confidence 7753
No 394
>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=63.79 E-value=25 Score=36.96 Aligned_cols=80 Identities=10% Similarity=0.015 Sum_probs=54.8
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a 238 (930)
+|+++..+ ++|.......+.+++++.|.++.....-. . .+.......++.+.+.++|.|++.....+....++++
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 36777754 67777888899999999999887642211 1 1234455678888889999999876544433256777
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
++.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77775
No 395
>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=63.40 E-value=76 Score=31.11 Aligned_cols=128 Identities=15% Similarity=0.153 Sum_probs=65.3
Q ss_pred CcEEEEccCChhhHHHHHHhhhcCC--CcE-EEeecCCCCCCC-CCCCeEEEccCChHHHHHHHHHHHHHcCCcEEEEEE
Q 002368 91 DTLAIVGPQSAVMAHVLSHLANELQ--VPL-LSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 166 (930)
Q Consensus 91 ~v~aiiGp~~S~~~~av~~~~~~~~--vp~-is~~a~~~~ls~-~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~~vaii~ 166 (930)
++.+++||.+|+-...+..+++... +.. ++++.-.|.-.+ .+-.|.|-+. +.+-+.++.-..=...- |
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs~-------~~f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVSK-------EEFERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE--H-------HHHHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEee-------chhhhhhccccEEEEee-e
Confidence 6789999999998877777777653 433 333333333333 3446766521 12222232222112222 4
Q ss_pred ecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHHH
Q 002368 167 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQR 240 (930)
Q Consensus 167 ~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~~ 240 (930)
.++-||.. .+.+.+.+++...++... .+ .-+.+++....+.++++..+.....+-+..++
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 56677754 577777777766665532 11 12455555455555544433333334444444
No 396
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=63.21 E-value=34 Score=37.35 Aligned_cols=63 Identities=16% Similarity=0.171 Sum_probs=44.0
Q ss_pred cCCCcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcc-cEEEEeCCCCCCCCCHHHHHHHHHcCcccE
Q 002368 458 PNNGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAV-PYKFIPYGDGHKNPTYSELINQITTGVFDA 536 (930)
Q Consensus 458 ~~~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~-~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~ 536 (930)
|.+|+++++++.. |.. .-+.-.+++.+.+.+||++ ++... +-.-+...|.+|++|+
T Consensus 25 ~~~~~~V~~~~~~---W~~-----------~~~~t~v~~~iLe~~GY~V~e~~~~---------~~~~~~~ala~GdiDv 81 (331)
T PRK11119 25 PGKGITVQPAQST---IAE-----------ETFQTLLVSRALEKLGYDVNKPKEV---------DYNVFYTSIANGDATF 81 (331)
T ss_pred CCCCeEEEEeecC---ccH-----------HHHHHHHHHHHHHHcCCceeeeccc---------CcHHHHHHHHcCCCeE
Confidence 4578999999883 431 1233567888888899876 55432 2467788999999999
Q ss_pred EEecEEE
Q 002368 537 AVGDIAI 543 (930)
Q Consensus 537 ~~~~~~~ 543 (930)
.......
T Consensus 82 ~~~~W~P 88 (331)
T PRK11119 82 TAVNWFP 88 (331)
T ss_pred ehhhccc
Confidence 8765543
No 397
>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=62.92 E-value=80 Score=28.08 Aligned_cols=85 Identities=14% Similarity=0.157 Sum_probs=48.5
Q ss_pred HHHHcCCcEEEEEEecCC-cCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhH
Q 002368 153 MVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG 231 (930)
Q Consensus 153 ~l~~~~w~~vaii~~d~~-~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~ 231 (930)
-++..|.|.|.-+-.|.+ -++...+.+.+..++.|+..++. ++..+ ..+.+++....+.+......|++.|.++.-+
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~i-Pv~~~-~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHI-PVDGG-AITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE-----TT-T--HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEe-ecCCC-CCCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 355689999999987754 35667778899999999997753 33333 1456667666666665554577777777776
Q ss_pred HHHHHHHH
Q 002368 232 LMVFDVAQ 239 (930)
Q Consensus 232 ~~~~~~a~ 239 (930)
..+...++
T Consensus 100 ~~l~~l~~ 107 (110)
T PF04273_consen 100 SALWALAQ 107 (110)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 66654443
No 398
>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=62.14 E-value=58 Score=29.52 Aligned_cols=68 Identities=15% Similarity=0.144 Sum_probs=43.8
Q ss_pred cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHHHHHHcCC
Q 002368 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQRLGM 243 (930)
Q Consensus 168 d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~----~~~~~~~~~a~~~g~ 243 (930)
..+.-.-+...+...++..|.++.+-.... .....+..+.+.+||+|.+++.. ..+..++++.++.|.
T Consensus 8 ~gd~H~lG~~~~~~~l~~~G~~vi~lG~~v--------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 8 GLDGHDRGAKVIARALRDAGFEVIYTGLRQ--------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred CCChhHHHHHHHHHHHHHCCCEEEECCCCC--------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 333334456677778888899887643222 22345666667889999998644 455666777777665
No 399
>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=61.70 E-value=33 Score=35.69 Aligned_cols=77 Identities=5% Similarity=0.015 Sum_probs=54.0
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.. +++|.......+.+++++.|..+..... . .+.......++++.+.++|.+++..........++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---D--YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---C--CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 456664 4677778889999999999999876432 1 22455567788888889999998643333334778888
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 8775
No 400
>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=61.67 E-value=35 Score=37.67 Aligned_cols=84 Identities=18% Similarity=0.166 Sum_probs=57.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.+| +++.+|+....+ +...+.+.+.|++.|+.+.... +... .+.+.....++.+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44667778888 888888754433 2556788888988887654332 4433 34677888888888899999997665
Q ss_pred h--hhHHHHHH
Q 002368 228 S--RTGLMVFD 236 (930)
Q Consensus 228 ~--~~~~~~~~ 236 (930)
+ -|..+++.
T Consensus 87 Gs~~D~aK~ia 97 (349)
T cd08550 87 GKTLDTAKAVA 97 (349)
T ss_pred cHHHHHHHHHH
Confidence 4 45555543
No 401
>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=61.67 E-value=93 Score=34.35 Aligned_cols=102 Identities=15% Similarity=0.109 Sum_probs=66.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCC-CCCChhHHHHHHHHHhcCCce---EEE
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEAR---VIV 223 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~-~~~~~~d~~~~l~~l~~~~~~---viv 223 (930)
..+.++++.++.+++.++++...+ ....+.+.+.+++.|+++... .++.+ ...+.+.+...+..+++.++| +|+
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 335566777788899988865544 346678889999888865322 23322 113467788888899888888 777
Q ss_pred EEcch--hhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 224 VHGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 224 ~~~~~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
..+.+ -|...++......| ..++.|-|.
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 76544 56666665443334 356666654
No 402
>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=60.95 E-value=44 Score=32.22 Aligned_cols=67 Identities=9% Similarity=-0.056 Sum_probs=37.5
Q ss_pred ceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCC--ccccCccEEEecCCCcchhHHHHH
Q 002368 714 RLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQ--EFTKSGWGFAFPRDSPLAIDMSTA 782 (930)
Q Consensus 714 ~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~k~spl~~~~n~~ 782 (930)
.....++.+..++.+..|.--+++.+.. +...... ..+..+.. ......++++.+|+.+....+...
T Consensus 125 ~~~~~~~~~~~~~~v~~g~gi~~~p~~~-~~~~~~~-~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 193 (197)
T cd08422 125 GRLVVNDGEALRAAALAGLGIALLPDFL-VAEDLAS-GRLVRVLPDWRPPPLPIYAVYPSRRHLPAKVRAF 193 (197)
T ss_pred ccEEEccHHHHHHHHHcCCcEEEecHHH-HhhhccC-CeEEEecCcccCCCceEEEEEcccccCCHHHHHH
Confidence 3456788888889999877656665432 3222222 22333321 223456778888776555444443
No 403
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=60.81 E-value=1e+02 Score=32.12 Aligned_cols=40 Identities=13% Similarity=0.114 Sum_probs=31.2
Q ss_pred HHHHHHH-hcCcEEEEccCChhhHHHHHHhhhcCCCcEEEe
Q 002368 82 MGALQFM-ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (930)
Q Consensus 82 ~~a~~li-~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~ 121 (930)
+.+..|. +.|+.+|+=|-.+..+.+...+-+..++|+|+.
T Consensus 51 ~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~i 91 (251)
T TIGR00067 51 ELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGV 91 (251)
T ss_pred HHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEee
Confidence 4445555 558999998888887778888888889999973
No 404
>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=60.46 E-value=1.1e+02 Score=31.69 Aligned_cols=127 Identities=11% Similarity=0.011 Sum_probs=72.2
Q ss_pred ceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhhH
Q 002368 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (930)
Q Consensus 25 ~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~~ 104 (930)
+.-+||.+.+........-..|+.-|+++.+ + ..+.......+..+...+...+.++++.+..+|+... ...+
T Consensus 119 g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~----~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~-d~~A 191 (260)
T cd06304 119 KTGKVGFVGGMPIPEVNRFINGFAAGAKSVN----P--DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAA-GGTG 191 (260)
T ss_pred cCCceEEEeccccHHHHHHHHHHHHHHHHhC----C--CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcC-CCCc
Confidence 3456777754322223334567777776643 1 2333333333434456677788888877678887744 4455
Q ss_pred HHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcCCc
Q 002368 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWG 160 (930)
Q Consensus 105 ~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~w~ 160 (930)
..+...+.+.+|-++++..+. ......|-+-....+....+..+++.+..-.|+
T Consensus 192 ~gv~~al~~~gv~vigfD~~~--~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~ 245 (260)
T cd06304 192 PGVIQAAKEAGVYAIGVDSDQ--SALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWK 245 (260)
T ss_pred hHHHHHHHHcCCEEEeecCch--hhhcCccEEEEEEeccHHHHHHHHHHHHcCCCC
Confidence 556666666777777765532 222223555555556666666666666555554
No 405
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=59.83 E-value=2.4e+02 Score=30.04 Aligned_cols=40 Identities=13% Similarity=0.106 Sum_probs=30.7
Q ss_pred HHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 492 IDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 492 ~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
-.|+..+.+.+|+++++. . .+-.-+...|.+|++|+.+..
T Consensus 24 ~~i~~~iLE~~Gy~Ve~~--~-------~~~~~~~~al~~GdiD~~~e~ 63 (290)
T TIGR03414 24 TALASVLLEGLGYQPKVT--L-------LSVPVTYAGLKDGDLDVFLGN 63 (290)
T ss_pred HHHHHHHHHHcCCcceeE--E-------ccHHHHHHHHHcCCceEeccc
Confidence 567777888889987764 2 345677889999999998764
No 406
>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=59.83 E-value=31 Score=36.35 Aligned_cols=78 Identities=8% Similarity=-0.026 Sum_probs=54.3
Q ss_pred EEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHH
Q 002368 161 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 237 (930)
Q Consensus 161 ~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~~~ 237 (930)
+|+++.. .++|.......+.+++++.|.++..... . .+...-...+..+...++|.|++.....+ ....++.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~ 75 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---Q--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAA 75 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHH
Confidence 3566664 3677778889999999999998865322 1 12444556788888899999998754332 2456777
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+.+.|.
T Consensus 76 ~~~~~i 81 (282)
T cd06318 76 AKAAGV 81 (282)
T ss_pred HHHCCC
Confidence 777665
No 407
>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=59.57 E-value=1.4e+02 Score=27.86 Aligned_cols=95 Identities=11% Similarity=0.020 Sum_probs=57.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecC--CCCCCChhHH-HHHHHHHhcCCceEEEE
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALP--PDQSVTETDV-RNELVKVRMMEARVIVV 224 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~--~~~~~~~~d~-~~~l~~l~~~~~~viv~ 224 (930)
..+.+.+...+-....-+|.+.... .....+.++++..|.++....... ......+..+ ...+..+...+.|.+++
T Consensus 27 ~~l~~~~~~~~~~~~~r~y~~~~~~-~~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivL 105 (149)
T cd06167 27 RKLLEFLRDGGEIVLARAYGNWTSP-ERQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVL 105 (149)
T ss_pred HHHHHHHHhCCeEEEEEEEEecCCc-hhHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEE
Confidence 3344444443323333444333211 467889999999999988665431 1100112222 33344444457899999
Q ss_pred EcchhhHHHHHHHHHHcCC
Q 002368 225 HGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 225 ~~~~~~~~~~~~~a~~~g~ 243 (930)
.+...+....++.+++.|.
T Consensus 106 vSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 106 VSGDSDFVPLVERLRELGK 124 (149)
T ss_pred EECCccHHHHHHHHHHcCC
Confidence 9999999999999999874
No 408
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=59.18 E-value=1.5e+02 Score=31.48 Aligned_cols=102 Identities=5% Similarity=-0.072 Sum_probs=51.7
Q ss_pred CCChHHhhhCCCeE-EEEeCchhHHHHHHhcCCC---ccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceE
Q 002368 679 IKGIDTLMTSNDRV-GYQVGSFAENYLIEELSIP---KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS 754 (930)
Q Consensus 679 i~sl~dL~~s~~~i-~~~~~s~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~ 754 (930)
.-+++||. +.++ ....+.....++.+ .+.. ......+++.+.....+..|..-+++... ..........-..
T Consensus 180 ~i~~~dL~--~~p~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~-~~~~~~~~~~l~~ 255 (297)
T PRK11139 180 LKTPEDLA--RHTLLHDDSREDWRAWFRA-AGLDDLNVQQGPIFSHSSMALQAAIHGQGVALGNRV-LAQPEIEAGRLVC 255 (297)
T ss_pred CCCHHHhh--cCceEeecCcccHHHHHHH-hCCCCcCcccceeeCCHHHHHHHHHhCCCeEecchh-hhHHHHHCCceec
Confidence 35788886 4443 33333334555533 3331 11234567888788888877765665543 3332222222112
Q ss_pred EeCCcc-ccCccEEEecCCCcchhHHHHHHH
Q 002368 755 VRGQEF-TKSGWGFAFPRDSPLAIDMSTAIL 784 (930)
Q Consensus 755 ~~~~~~-~~~~~~~~~~k~spl~~~~n~~i~ 784 (930)
.+.+.. ....+.++.+|+.+....+...+.
T Consensus 256 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~ 286 (297)
T PRK11139 256 PFDTVLPSPNAFYLVCPDSQAELPKVAAFRQ 286 (297)
T ss_pred ccccCcCCCccEEEEeccccccChhHHHHHH
Confidence 222222 234678888887665555554443
No 409
>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=58.74 E-value=55 Score=36.85 Aligned_cols=79 Identities=15% Similarity=0.070 Sum_probs=57.6
Q ss_pred cCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch--hhHHHH
Q 002368 157 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLMV 234 (930)
Q Consensus 157 ~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~--~~~~~~ 234 (930)
.+.+++.+|+.......+..+.+.+.|++.|+++.....+.++ .+.+.....+..+++.++|+||-.+.+ -|..++
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~ 96 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPD--PSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKI 96 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 4668988888544444457888999999999887644445545 557788888999999999999976544 566666
Q ss_pred HHH
Q 002368 235 FDV 237 (930)
Q Consensus 235 ~~~ 237 (930)
+..
T Consensus 97 iA~ 99 (398)
T cd08178 97 MWL 99 (398)
T ss_pred HHH
Confidence 654
No 410
>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=58.41 E-value=37 Score=35.22 Aligned_cols=78 Identities=6% Similarity=-0.013 Sum_probs=54.2
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDV 237 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~~ 237 (930)
+|++|.++ +.|.....+.+.+++++.|+++.....- .+.......++++...+.|.|++..... .....+..
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ-----NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777754 6788888999999999999887654221 1244556778888888999998875443 33346677
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+++.+.
T Consensus 76 l~~~~i 81 (267)
T cd01536 76 ANAAGI 81 (267)
T ss_pred HHHCCC
Confidence 776554
No 411
>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=57.79 E-value=34 Score=36.49 Aligned_cols=79 Identities=8% Similarity=0.148 Sum_probs=53.0
Q ss_pred EEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHH
Q 002368 161 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 237 (930)
Q Consensus 161 ~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~~~ 237 (930)
||++|.. +++|-......+.+++++.|..+.... ... .+.......+.++...++|.|++...... ....+++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 4666664 355666778888999999999886331 222 22444556777777789999888654322 3567888
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 888775
No 412
>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=57.71 E-value=41 Score=35.09 Aligned_cols=78 Identities=4% Similarity=-0.007 Sum_probs=52.3
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.+ +++|.......+.+++++.|.++....... . ........++.+.+.+.|.+++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS-G---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC-C---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 456664 477888899999999999998887543221 1 1234556666777788999888644322345667777
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 7664
No 413
>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=57.58 E-value=37 Score=35.59 Aligned_cols=80 Identities=10% Similarity=0.068 Sum_probs=54.4
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 237 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~~~ 237 (930)
||+++.++ ++|-......+.+++++.|.++.....-.. .+.......+.++...+.|.+|+.....+ ....+..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46777654 677778889999999999998876432111 12445566777888889999998654433 2456677
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+.+.|+
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 776664
No 414
>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=57.40 E-value=53 Score=34.25 Aligned_cols=75 Identities=11% Similarity=0.034 Sum_probs=51.4
Q ss_pred EEEEEec-----CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 002368 162 VIAIFND-----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (930)
Q Consensus 162 vaii~~d-----~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~ 236 (930)
|+++.++ ++|.....+.+.+++++.|.++.... .... .......+..+.+.++|.|++.....+. .+.
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~-~~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKF-VSDE----DEEEFELPSFLEDGKVDGIILLGGISTE--YIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEe-CCCC----hHHHHHHHHHHHHCCCCEEEEeCCCChH--HHH
Confidence 5666655 77888888999999999999887543 2222 3344455666777899999987654432 367
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
.+.+.|.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 7777664
No 415
>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=57.40 E-value=32 Score=36.50 Aligned_cols=77 Identities=12% Similarity=0.036 Sum_probs=54.5
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~~~~ 237 (930)
+|++|..+ ++|.....+.+.+++++.|..+...... + .......++++...++|.|++.... ......+++
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 6677888899999999999887643211 2 3445567788888999999987543 334567888
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+++.|.
T Consensus 75 ~~~~~i 80 (289)
T cd01540 75 AKAYNM 80 (289)
T ss_pred HHhCCC
Confidence 888775
No 416
>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=57.29 E-value=42 Score=35.00 Aligned_cols=77 Identities=8% Similarity=0.009 Sum_probs=54.2
Q ss_pred EEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHHH
Q 002368 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVA 238 (930)
Q Consensus 162 vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~~a 238 (930)
|+++..+ ++|.....+.+.+++++.|.++.... .. .+.......+.++.+.++|.+++..... .....++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~---~~--~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSI---AN--QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4566654 67778888999999999998886532 11 1244566778888888999999965433 335567788
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
++.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77775
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=57.17 E-value=40 Score=36.08 Aligned_cols=78 Identities=9% Similarity=-0.017 Sum_probs=54.4
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~~~~a 238 (930)
|+++.. +++|-......+.+++++.|.++....... .+.......++.+...++|.|++.... ......++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~----~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT----ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC----CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 555553 467777888999999999999876432111 224556677888888899999987543 3345677888
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
++.|+
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 87775
No 418
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=56.66 E-value=1e+02 Score=34.03 Aligned_cols=102 Identities=12% Similarity=0.086 Sum_probs=65.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCC-CCCChhHHHHHHHHHhcCCc---eEEE
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEA---RVIV 223 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~-~~~~~~d~~~~l~~l~~~~~---~viv 223 (930)
..+.+.++.++.+++.+++.... .....+.+.+.+++.|+.+... .++.. ...+.+.+...++.+++.++ |+||
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~II 97 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVV-VLPDGEQYKSLETLEKIYDALLEAGLDRSDTLI 97 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEE
Confidence 44666677778899999985444 3457788888898888876521 12221 11346778888888887665 9888
Q ss_pred EEcch--hhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 224 VHGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 224 ~~~~~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
..+.+ -|+..++......|. .++-|-|.
T Consensus 98 avGGGsv~D~aK~iA~~~~~gi---p~i~IPTT 127 (358)
T PRK00002 98 ALGGGVIGDLAGFAAATYMRGI---RFIQVPTT 127 (358)
T ss_pred EEcCcHHHHHHHHHHHHhcCCC---CEEEcCch
Confidence 76655 566666654444443 44555554
No 419
>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=56.62 E-value=45 Score=34.69 Aligned_cols=77 Identities=10% Similarity=0.012 Sum_probs=54.0
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.. .++|.......+.+++++.|.++... ... .+...-...++++.+.++|.+++..........++++.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLA---NSG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEe---cCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 566664 46777788889999999999887543 212 22444567788888889999998765444445777887
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7775
No 420
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=55.81 E-value=49 Score=36.47 Aligned_cols=87 Identities=11% Similarity=0.158 Sum_probs=57.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
..+.++++.++.+++.+|+....+. ...+.+.+.+++.|+++............+.+.....+..+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~-~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYA-AAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHH-HHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 4466777888889998887433332 2357888899999986643322222112446677777888877 8999997655
Q ss_pred h--hhHHHHHH
Q 002368 228 S--RTGLMVFD 236 (930)
Q Consensus 228 ~--~~~~~~~~ 236 (930)
+ -|..+++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 4 45565554
No 421
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=55.41 E-value=44 Score=32.69 Aligned_cols=28 Identities=32% Similarity=0.536 Sum_probs=25.8
Q ss_pred EEEEccCChhhHHHHHHhhhcCCCcEEE
Q 002368 93 LAIVGPQSAVMAHVLSHLANELQVPLLS 120 (930)
Q Consensus 93 ~aiiGp~~S~~~~av~~~~~~~~vp~is 120 (930)
+.|+||..|+=+-.+..+++.+++|+|+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hls 30 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLD 30 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence 5799999999988889999999999997
No 422
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=54.86 E-value=1.6e+02 Score=27.66 Aligned_cols=124 Identities=13% Similarity=0.128 Sum_probs=77.7
Q ss_pred HHHHHHhc--CcEEEEccCCh--hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcC
Q 002368 83 GALQFMET--DTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG 158 (930)
Q Consensus 83 ~a~~li~~--~v~aiiGp~~S--~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~ 158 (930)
.+..++.+ +...|+||..- ..-.-+..+.++.++|++..+++...+.+.+- -+......++..++++-.
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~i-------~~~~~~lh~it~~l~Dp~ 99 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRGI-------GSEYINLHAITQYLTDPN 99 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchhhcchhhccc-------ccchhHHHHHHHHhcCCC
Confidence 34455554 89999999876 34455778999999999987666665555332 245556778888888854
Q ss_pred Cc---------EEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCC-----CCChhHHHHHHHHHh
Q 002368 159 WG---------EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVR 215 (930)
Q Consensus 159 w~---------~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~-----~~~~~d~~~~l~~l~ 215 (930)
|. -|.++..-..|.......++... .=.+|.....|.++. ....+++-..|+++-
T Consensus 100 w~G~dg~g~yDlviflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 100 WPGFDGNGNYDLVIFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCCcCCCCCcceEEEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 44 46666666666666666665554 222344455555442 124556666666653
No 423
>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=54.52 E-value=2e+02 Score=27.50 Aligned_cols=70 Identities=19% Similarity=0.240 Sum_probs=45.7
Q ss_pred EEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEEEecCccceeeecccccccceEEEEec
Q 002368 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 568 (930)
Q Consensus 489 G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~~t~~R~~~vdfs~p~~~~~~~~~v~~ 568 (930)
.+-.+++..+.++.+ .+++.... ++..++...+.+|++|+++... +.....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (198)
T cd08447 13 SFLPRLLAAARAALP-DVDLVLRE-------MVTTDQIEALESGRIDLGLLRP---PFARPGL-ETRPLVREPLVAAVPA 80 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCceEEEecC---CCCCCCe-eEEEeecCceEEEecC
Confidence 445678888888765 24555543 5678999999999999998521 1112222 2356667777777765
Q ss_pred cC
Q 002368 569 RK 570 (930)
Q Consensus 569 ~~ 570 (930)
..
T Consensus 81 ~~ 82 (198)
T cd08447 81 GH 82 (198)
T ss_pred CC
Confidence 44
No 424
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=54.39 E-value=2.2e+02 Score=29.97 Aligned_cols=88 Identities=13% Similarity=0.140 Sum_probs=53.5
Q ss_pred CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCCh-hhHHHHHHhhhcCC
Q 002368 37 TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAHVLSHLANELQ 115 (930)
Q Consensus 37 ~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S-~~~~av~~~~~~~~ 115 (930)
+..|+.-..++.-.+.+|| |..+++.+ +..-++. ...+++..+.+.||-...+ ..-.++...+.+.+
T Consensus 79 ~~vG~~Kve~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~ 146 (268)
T PRK15116 79 DNVGLAKAEVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNK 146 (268)
T ss_pred hhcChHHHHHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcC
Confidence 3446555566666777776 44555543 3332322 2345555578888877666 45566888999999
Q ss_pred CcEEEeecCCCCCCCCCCCeEEEcc
Q 002368 116 VPLLSFTALDPTLSPLQYPFFVQTA 140 (930)
Q Consensus 116 vp~is~~a~~~~ls~~~~~~~fr~~ 140 (930)
+|+|+.++....+ -|.-+++.
T Consensus 147 ip~I~~gGag~k~----dp~~~~~~ 167 (268)
T PRK15116 147 IPLVTTGGAGGQI----DPTQIQVV 167 (268)
T ss_pred CCEEEECCcccCC----CCCeEEEE
Confidence 9999865554333 24445443
No 425
>cd08481 PBP2_GcdR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold. GcdR is involved in the glutaconate/glutarate-specific activation of the Pg promoter driving expression of a glutaryl-CoA dehydrogenase-encoding gene (gcdH). The GcdH protein is essential for the anaerobic catabolism of many aromatic compounds and some alicyclic and dicarboxylic acids. The structural topology of this substrate-binding domain is most similar to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplas
Probab=54.21 E-value=1.4e+02 Score=28.59 Aligned_cols=65 Identities=11% Similarity=0.022 Sum_probs=36.5
Q ss_pred EeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC--CccccCccEEEecCCCcchhHHHHH
Q 002368 716 VALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSPLAIDMSTA 782 (930)
Q Consensus 716 ~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~n~~ 782 (930)
..+++.+...+.+.+|.--+++.......+ .. ...+.... +......++++.+|+.+....+...
T Consensus 124 ~~~~~~~~~~~~v~~g~Gi~~~p~~~~~~~-~~-~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 190 (194)
T cd08481 124 MRFEQFSMLAQAAVAGLGVALLPRFLIEEE-LA-RGRLVVPFNLPLTSDKAYYLVYPEDKAESPPVQAF 190 (194)
T ss_pred eEeccHHHHHHHHHhCCCeEEecHHHHHHH-HH-CCCEEeecCccccCCCeEEEEeCcccccCHHHHHH
Confidence 445788888888888777666665433322 22 22333222 2222346778888876655544443
No 426
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=53.96 E-value=3e+02 Score=29.35 Aligned_cols=175 Identities=13% Similarity=0.057 Sum_probs=90.3
Q ss_pred EEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEc--cC--Chh
Q 002368 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVG--PQ--SAV 102 (930)
Q Consensus 28 ~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~-~v~aiiG--p~--~S~ 102 (930)
+++++.-=+......+.+.-.-+.+++ |.+.+++..+...+.........+|=++ .|++|+= |. .-.
T Consensus 33 ~Laii~vg~d~as~~Yv~~k~k~~~~~--------Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id 104 (295)
T PRK14174 33 GLTVIIVGEDPASQVYVRNKAKSCKEI--------GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQID 104 (295)
T ss_pred eEEEEEeCCChHHHHHHHHHHHHHHHc--------CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCC
Confidence 444444333333344555555555554 5666776666666666555555555444 5676662 22 112
Q ss_pred hHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHHHHHcC----CcEEEEEEecCCcCcchHHH
Q 002368 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG----WGEVIAIFNDDDQGRNGVTA 178 (930)
Q Consensus 103 ~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~l~~~~----w~~vaii~~d~~~g~~~~~~ 178 (930)
.......+.-...|==+++......+.....+.| .|- -+.++.+++++++ -|+++||....--|+..+..
T Consensus 105 ~~~i~~~I~p~KDVDGl~~~n~g~l~~~~~~~~~---~Pc---Tp~ail~ll~~y~i~l~Gk~vvViGrS~iVG~Pla~l 178 (295)
T PRK14174 105 EFAVTLAIDPAKDVDGFHPENLGRLVMGHLDKCF---VSC---TPYGILELLGRYNIETKGKHCVVVGRSNIVGKPMANL 178 (295)
T ss_pred HHHHHhcCCccccccccChhhHHHHhcCCCCCCc---CCC---CHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHH
Confidence 2212222222222222221111000000000111 122 2478899999876 58999999888889888888
Q ss_pred HHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch
Q 002368 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (930)
Q Consensus 179 ~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~ 228 (930)
|.+.++..|.+|..... . +.++... + .++|++|.....
T Consensus 179 L~~~~~~~~atVt~~hs---~----t~~l~~~---~--~~ADIvI~Avg~ 216 (295)
T PRK14174 179 MLQKLKESNCTVTICHS---A----TKDIPSY---T--RQADILIAAIGK 216 (295)
T ss_pred HHhccccCCCEEEEEeC---C----chhHHHH---H--HhCCEEEEecCc
Confidence 87766667776654321 1 2333222 2 358999987733
No 427
>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=53.66 E-value=41 Score=34.47 Aligned_cols=78 Identities=12% Similarity=0.075 Sum_probs=55.6
Q ss_pred EEEEEEec---CCcCcchHHHHHHHHHh--cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHH
Q 002368 161 EVIAIFND---DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (930)
Q Consensus 161 ~vaii~~d---~~~g~~~~~~~~~~l~~--~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~ 235 (930)
+|+++.++ +.|+....+.+.+++++ .++++.... .. .+..+....+.++...++|+++..........+.
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 36677753 57788888999999999 777766432 22 2245677778888888999999887766555577
Q ss_pred HHHHHcCC
Q 002368 236 DVAQRLGM 243 (930)
Q Consensus 236 ~~a~~~g~ 243 (930)
..+.+.|.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77777664
No 428
>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=53.57 E-value=54 Score=34.28 Aligned_cols=80 Identities=10% Similarity=0.038 Sum_probs=53.3
Q ss_pred EEEEEEe--cCCcCcchHHHHHHHHHhc---CcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHH
Q 002368 161 EVIAIFN--DDDQGRNGVTALGDKLAEI---RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMV 234 (930)
Q Consensus 161 ~vaii~~--d~~~g~~~~~~~~~~l~~~---g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~ 234 (930)
||+++.. +++|-....+.+.+++++. |.++..... +.. .+.+.....++++...++|.||+...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 4566653 4567777888999999998 874322221 222 23556778888888899999999765433 3446
Q ss_pred HHHHHHcCC
Q 002368 235 FDVAQRLGM 243 (930)
Q Consensus 235 ~~~a~~~g~ 243 (930)
+..+++.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 777777664
No 429
>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=53.04 E-value=35 Score=38.10 Aligned_cols=80 Identities=11% Similarity=0.051 Sum_probs=56.3
Q ss_pred HcCCcEEEEEEecCCcC-cchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch--hhHH
Q 002368 156 YFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGL 232 (930)
Q Consensus 156 ~~~w~~vaii~~d~~~g-~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~--~~~~ 232 (930)
.++.+++.+|+....+- .+..+.+.+.|++.|+++..-..+.++ .+.+.....+..+++.++|+||-.+.+ -|+.
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~A 97 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGGSPIDAA 97 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHH
Confidence 34458888887544332 356688999999999887544344444 557788899999999999999987655 4555
Q ss_pred HHHHH
Q 002368 233 MVFDV 237 (930)
Q Consensus 233 ~~~~~ 237 (930)
+.+..
T Consensus 98 K~ia~ 102 (375)
T cd08179 98 KAMWI 102 (375)
T ss_pred HHHHH
Confidence 55543
No 430
>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=52.81 E-value=64 Score=33.49 Aligned_cols=76 Identities=12% Similarity=0.033 Sum_probs=54.5
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.+ +++|-......+.+++++.|..+..... . .+.......+..+.+.+.|.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---D--ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 566665 4677788889999999999998875432 1 124555677888888999999987544333 3478888
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 8775
No 431
>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=52.49 E-value=62 Score=34.36 Aligned_cols=77 Identities=9% Similarity=0.098 Sum_probs=55.8
Q ss_pred EEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHH
Q 002368 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (930)
Q Consensus 162 vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~-~~~~~~~~~~a 238 (930)
|+++..+ ++|-......+.+++++.|..+..... . .+.......++++.+.++|.|++... .......++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNA---N--GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 5677753 677778889999999999999776432 1 22455667788888899999998754 33446778888
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 88774
No 432
>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=52.31 E-value=35 Score=37.45 Aligned_cols=98 Identities=13% Similarity=0.078 Sum_probs=63.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
+.+.+.++.+|.+++.+++....+-. ..+.+.+.+++.+..+ + ..+.+. .+.+.....+..+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 86 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMH--TPVEVTEAAVAAAREAGADGIVAIGG 86 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 55677888899999998885544433 6667778887765432 2 223333 44677888888888899999998765
Q ss_pred h--hhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 228 S--RTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 228 ~--~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
+ -|..+++.... + ..++-|-|..
T Consensus 87 Gs~iD~aK~ia~~~--~---~p~i~IPTta 111 (337)
T cd08177 87 GSTIDLAKAIALRT--G---LPIIAIPTTL 111 (337)
T ss_pred cHHHHHHHHHHHHh--c---CCEEEEcCCc
Confidence 5 45555554332 2 3455555543
No 433
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=52.02 E-value=74 Score=32.21 Aligned_cols=105 Identities=15% Similarity=0.130 Sum_probs=63.7
Q ss_pred CCCCChHHhhhCCCeEEEEeCchhHHHHH---HhcCCCccceEeCC-CHHHHHHHHHcCCcEEEEccchhhHHHHhcCcc
Q 002368 677 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRLVALG-SPEEYAIALENRTVAAVVDERPYIDLFLSDHCQ 752 (930)
Q Consensus 677 ~~i~sl~dL~~s~~~i~~~~~s~~~~~l~---~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~ 752 (930)
+.|...+||+ |++|++.--|+.+.-|. ++-+++..++..++ .+.+...+-++|.+|+.....+.+.-+.....-
T Consensus 120 sgI~kpeDL~--GK~iavPFvSTtHysLLaaLkhw~idp~~V~IlNl~Pp~IaAAwqRGDIDgAyVW~PAl~el~ksGkV 197 (334)
T COG4521 120 SGIEKPEDLI--GKRIAVPFVSTTHYSLLAALKHWGIDPGQVEILNLQPPAIAAAWQRGDIDGAYVWAPALSELKKSGKV 197 (334)
T ss_pred CCcCChHHhc--cCeeccceeehhHHHHHHHHHHcCCCccceeEeccCCHHHHHHHHcCCCCceeeccHhHHHHhhcCcE
Confidence 5899999998 99999886665444332 23445545443333 567788888999999988887777665443221
Q ss_pred e---EEeCCccccCccEEEecCCC----c-chhHHHHHH
Q 002368 753 F---SVRGQEFTKSGWGFAFPRDS----P-LAIDMSTAI 783 (930)
Q Consensus 753 l---~~~~~~~~~~~~~~~~~k~s----p-l~~~~n~~i 783 (930)
+ ..++..-.+..-+++++|++ | ....|-+..
T Consensus 198 ltDs~qvgqwgaPTfdvwVvrkdfAekhPe~v~aFakv~ 236 (334)
T COG4521 198 LTDSEQVGQWGAPTFDVWVVRKDFAEKHPEVVAAFAKVA 236 (334)
T ss_pred eccHHHhhccCCCceeeEEeehHhhHhChHHHHHHHHHH
Confidence 1 11222222333467777774 3 444444443
No 434
>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=52.01 E-value=40 Score=33.40 Aligned_cols=71 Identities=18% Similarity=0.185 Sum_probs=52.9
Q ss_pred HHHHHhcCCCCCCCcEEEEEE-ecCCCChHHHHHHHHHHHhc----CcEEEEccCChhhHHHHHHhhhcCCCcEEEe
Q 002368 50 AQDDINSDPRVLGGRKLSITM-HDAKFNGFLSIMGALQFMET----DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (930)
Q Consensus 50 Ave~iN~~ggil~g~~l~l~~-~D~~~~~~~a~~~a~~li~~----~v~aiiGp~~S~~~~av~~~~~~~~vp~is~ 121 (930)
-.+.+|+.+.++||--|.... .|.+.+|......+..+.+. ++++|+|+-..+...+. .++...++|++-.
T Consensus 4 l~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la~-~lA~~Lg~p~v~v 79 (191)
T TIGR01744 4 LKQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPAI-MTGLKLGVPVVFA 79 (191)
T ss_pred HHHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHHH-HHHHHHCCCEEEE
Confidence 357899999999988887754 46666887766666666554 79999998888775543 4577789998863
No 435
>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=51.98 E-value=47 Score=35.07 Aligned_cols=81 Identities=9% Similarity=0.083 Sum_probs=52.7
Q ss_pred EEEEEEec---CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHH
Q 002368 161 EVIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (930)
Q Consensus 161 ~vaii~~d---~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~ 237 (930)
+|++|..+ ++|.....+.+.+++++.|..+......+.. ..+.......++++.+.++|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 36777764 4677778889999999999887654221111 0123445567778888999999987543333455666
Q ss_pred HHHcC
Q 002368 238 AQRLG 242 (930)
Q Consensus 238 a~~~g 242 (930)
+.+.+
T Consensus 80 l~~~~ 84 (280)
T cd06303 80 VLASG 84 (280)
T ss_pred HHhCC
Confidence 66655
No 436
>PRK09701 D-allose transporter subunit; Provisional
Probab=51.86 E-value=64 Score=34.80 Aligned_cols=84 Identities=11% Similarity=0.079 Sum_probs=58.3
Q ss_pred cCCcEEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHH
Q 002368 157 FGWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLM 233 (930)
Q Consensus 157 ~~w~~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~ 233 (930)
+.-.+|+++.. +++|.....+.+.+++++.|..+..... +.. .+...-...++.+.+.++|.|++..... ....
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 98 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSE--GDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVM 98 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 45679999985 4778888899999999999988765321 111 1234556677888888999999876443 2334
Q ss_pred HHHHHHHcCC
Q 002368 234 VFDVAQRLGM 243 (930)
Q Consensus 234 ~~~~a~~~g~ 243 (930)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4666777675
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=51.71 E-value=1.5e+02 Score=26.36 Aligned_cols=69 Identities=9% Similarity=0.031 Sum_probs=36.8
Q ss_pred EEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc-ch---hhHHHHHHHHH
Q 002368 164 AIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YS---RTGLMVFDVAQ 239 (930)
Q Consensus 164 ii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~-~~---~~~~~~~~~a~ 239 (930)
+.....++-.-+...+...+++.|.++..-.. . .+.....+.+++.+||+|.+.+ .. .....+.+.++
T Consensus 5 ~~~~~~~~~~lGl~~la~~l~~~G~~v~~~d~---~-----~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k 76 (121)
T PF02310_consen 5 LACVPGEVHPLGLLYLAAYLRKAGHEVDILDA---N-----VPPEELVEALRAERPDVVGISVSMTPNLPEAKRLARAIK 76 (121)
T ss_dssp EEEBTTSSTSHHHHHHHHHHHHTTBEEEEEES---S-----B-HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHH
T ss_pred EEeeCCcchhHHHHHHHHHHHHCCCeEEEECC---C-----CCHHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHH
Confidence 33333444445566777777777777664321 1 1124455566667778777765 33 34444444444
Q ss_pred H
Q 002368 240 R 240 (930)
Q Consensus 240 ~ 240 (930)
+
T Consensus 77 ~ 77 (121)
T PF02310_consen 77 E 77 (121)
T ss_dssp T
T ss_pred h
Confidence 4
No 438
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=51.33 E-value=3.1e+02 Score=28.72 Aligned_cols=84 Identities=13% Similarity=0.055 Sum_probs=56.2
Q ss_pred CcceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEec
Q 002368 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 540 (930)
Q Consensus 461 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~ 540 (930)
+..++||+.. . ....+-.+++..+.++.+ .+++.... +...+++..|.+|++|+++..
T Consensus 88 ~~~l~Ig~~~--~------------~~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~ 145 (275)
T PRK03601 88 HNELSIGASA--S------------LWECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITT 145 (275)
T ss_pred CceEEEeccH--H------------HHHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEc
Confidence 3578999874 1 112445677888877655 24565554 567899999999999999964
Q ss_pred EEEecCccceeeecccccccceEEEEeccC
Q 002368 541 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 541 ~~~t~~R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
... .. ..+ ...|+....++++++...
T Consensus 146 ~~~--~~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 146 EAP--KM-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCC--cc-CCc-cEEEecceeEEEEecCch
Confidence 322 21 223 355778888888887654
No 439
>PF14981 FAM165: FAM165 family
Probab=50.98 E-value=32 Score=24.48 Aligned_cols=33 Identities=18% Similarity=0.232 Sum_probs=27.3
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 002368 819 IQSFRGLFLICGIACFLALLAYFCLMLRQFKKY 851 (930)
Q Consensus 819 l~~~~g~f~il~~g~~lallvf~~e~~~~~~~~ 851 (930)
++++--++||+..-.++.++.|..--+|++++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567778899999988888899988888887655
No 440
>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=49.92 E-value=44 Score=36.53 Aligned_cols=80 Identities=11% Similarity=0.049 Sum_probs=53.6
Q ss_pred HHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch--hhHH
Q 002368 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGL 232 (930)
Q Consensus 155 ~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~--~~~~ 232 (930)
..++.+++.+|+...-+-.+..+.+.+.+++. +.+.....+.++ .+.+.....+..+++.++|+||-.+.+ -|..
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~a 94 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAA 94 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 44556899988854444444678888888876 554333334433 457778888899999999999976544 4555
Q ss_pred HHHHH
Q 002368 233 MVFDV 237 (930)
Q Consensus 233 ~~~~~ 237 (930)
+.+..
T Consensus 95 Ka~a~ 99 (332)
T cd08180 95 KAIIY 99 (332)
T ss_pred HHHHH
Confidence 55433
No 441
>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=49.87 E-value=1.6e+02 Score=30.23 Aligned_cols=116 Identities=13% Similarity=0.109 Sum_probs=64.9
Q ss_pred CCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHHHHHHHHhcCcEEEEccCChhh-HHHHHHhhhcCC
Q 002368 37 TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM-AHVLSHLANELQ 115 (930)
Q Consensus 37 ~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~~a~~li~~~v~aiiGp~~S~~-~~av~~~~~~~~ 115 (930)
+..|+.-..++.-.+.++| |..+++.+ +..-++. ...+++..+.+.||....+.. -..+...+.+.+
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 4557666677777778887 44555543 3332322 344566666888887655544 445778899999
Q ss_pred CcEEEeecCCCCCCCCCCCeEEEccCChHHH----HHHHHHHHHHcCCc-EEEEEEec
Q 002368 116 VPLLSFTALDPTLSPLQYPFFVQTAPNDLYL----MSAIAEMVSYFGWG-EVIAIFND 168 (930)
Q Consensus 116 vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~----~~ai~~~l~~~~w~-~vaii~~d 168 (930)
+|+|+..+....+ .|.-+|...-.... ++.+-+.+++.|.+ .+-++|++
T Consensus 128 ip~I~s~g~g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~ 181 (231)
T cd00755 128 IPVISSMGAGGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYST 181 (231)
T ss_pred CCEEEEeCCcCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCC
Confidence 9999865544333 24445544322222 23333334444443 45566644
No 442
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=49.84 E-value=2.9e+02 Score=27.93 Aligned_cols=92 Identities=16% Similarity=0.073 Sum_probs=56.8
Q ss_pred CCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeCCccccCccEE
Q 002368 688 SNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGF 767 (930)
Q Consensus 688 s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 767 (930)
.+++|+...-...+.||.+ .+.. ..++.....-|. +-..|-.|++++-.....-+.++ +|.++...+. ..-.+
T Consensus 114 ~~~rIATkYp~it~~yf~~-~gv~-~~iv~l~GsvE~--aP~~GlAD~IvDivsTG~TLr~N--gL~~ie~Il~-s~A~L 186 (215)
T PRK01686 114 PRLRVATKYPNIARRYFAE-KGEQ-VEIIKLYGSVEL--APLVGLADAIVDIVETGNTLRAN--GLVEVEEIMD-ISARL 186 (215)
T ss_pred CCCEEEeCCHHHHHHHHHH-cCCe-EEEEECcCceee--ccccCCccEEEEeecChHHHHHC--cCEEeeEEEe-eEEEE
Confidence 4678998888888999954 4554 555555544443 23347788998877666555444 4666654443 44456
Q ss_pred EecCCCc--chhHHHHHHHhc
Q 002368 768 AFPRDSP--LAIDMSTAILTL 786 (930)
Q Consensus 768 ~~~k~sp--l~~~~n~~i~~l 786 (930)
...+.|. -.+.++..+.++
T Consensus 187 I~n~~s~~~k~~~i~~l~~~l 207 (215)
T PRK01686 187 IVNRASLKLKREEIRPLIEKL 207 (215)
T ss_pred EEecccchhhHHHHHHHHHHH
Confidence 6677765 224555555544
No 443
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=49.73 E-value=89 Score=34.08 Aligned_cols=80 Identities=11% Similarity=0.058 Sum_probs=56.3
Q ss_pred CcEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 002368 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (930)
Q Consensus 159 w~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~ 236 (930)
-+.++++..+ ++|.......+.+++++.|..+.... .. .+.......++.+.+.++|.||+..........+.
T Consensus 64 ~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 138 (342)
T PRK10014 64 SGVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQ---GG--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLRE 138 (342)
T ss_pred CCEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEe---CC--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHH
Confidence 3578888864 67778888899999999998765431 11 12445567788888889999998754433345677
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
.+++.|.
T Consensus 139 ~l~~~~i 145 (342)
T PRK10014 139 MAEEKGI 145 (342)
T ss_pred HHhhcCC
Confidence 7777664
No 444
>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=49.65 E-value=1.6e+02 Score=30.55 Aligned_cols=100 Identities=13% Similarity=0.206 Sum_probs=58.9
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHH---hcCcEEE-EEEecCCCCCCChhHHHHHHHHHhcCCc
Q 002368 144 LYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA---EIRCKIS-YKSALPPDQSVTETDVRNELVKVRMMEA 219 (930)
Q Consensus 144 ~~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~---~~g~~i~-~~~~~~~~~~~~~~d~~~~l~~l~~~~~ 219 (930)
....++.-++++.||-..|.-++--+.|....-..+.+.+. ...++.. ....+| -..+.++++|+.+|
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 34455666667778765555555556677776666666655 3455533 333333 34567889998888
Q ss_pred eEEEEEcchh--------------------hHHHHHHHHHHcCCCCCceEEEEe
Q 002368 220 RVIVVHGYSR--------------------TGLMVFDVAQRLGMMDSGYVWIAT 253 (930)
Q Consensus 220 ~viv~~~~~~--------------------~~~~~~~~a~~~g~~~~~~~~i~~ 253 (930)
|++.+.+.+. .+..+...|+++| .+.++.+.-
T Consensus 88 DIl~ia~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mG--AktFVh~sf 139 (275)
T PF12683_consen 88 DILLIAGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMG--AKTFVHYSF 139 (275)
T ss_dssp TSEEEESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT---S-EEEEEE
T ss_pred CeEEEcCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcC--CceEEEEec
Confidence 8888877653 5667788899988 566777643
No 445
>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=49.59 E-value=21 Score=32.16 Aligned_cols=86 Identities=15% Similarity=0.067 Sum_probs=47.1
Q ss_pred cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHh--cCCceEEEEEcchhhHHHHHHH
Q 002368 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR--MMEARVIVVHGYSRTGLMVFDV 237 (930)
Q Consensus 160 ~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~--~~~~~viv~~~~~~~~~~~~~~ 237 (930)
|++|++...+.-++- ...+.+.+.+.|.+|... .+. ...-+=......+. -..+|.++++..+.....++++
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 578888755443333 334444555578776532 222 11100011223333 3688999999999999999999
Q ss_pred HHHcCCCCCceEEEEeC
Q 002368 238 AQRLGMMDSGYVWIATT 254 (930)
Q Consensus 238 a~~~g~~~~~~~~i~~~ 254 (930)
+.++| .+.+|+.++
T Consensus 75 ~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 75 AAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcC---CCEEEEEcc
Confidence 99988 467898877
No 446
>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=49.20 E-value=82 Score=32.81 Aligned_cols=76 Identities=4% Similarity=-0.058 Sum_probs=52.6
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.. +++|.......+.+++++.|..+..... . . +.+.-...++.+.+.++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~-~-~---~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG-H-H---SAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC-C-C---chHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 455553 5778888899999999999998875332 1 1 23445577888888899999997643222 2377777
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 7664
No 447
>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=48.68 E-value=78 Score=33.02 Aligned_cols=77 Identities=9% Similarity=0.036 Sum_probs=53.9
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.. +++|-......+.+.+++.|..+...... .+.......++.+.+.+.|.+++.....+...++++++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANSL-----NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 566664 46777888899999999999987754321 12445566778888889999998654334445677777
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 7664
No 448
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=48.55 E-value=77 Score=32.70 Aligned_cols=87 Identities=10% Similarity=-0.003 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHc--CCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEE
Q 002368 146 LMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (930)
Q Consensus 146 ~~~ai~~~l~~~--~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv 223 (930)
.++.+++.+... .-++|.++. |....+.+.+.|++.|..+.....|... ....+-......+++.+.|+|+
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 467777776542 456777776 3445678999999999988766655432 1112223445566667788877
Q ss_pred EEcchhhHHHHHHHHHH
Q 002368 224 VHGYSRTGLMVFDVAQR 240 (930)
Q Consensus 224 ~~~~~~~~~~~~~~a~~ 240 (930)
+.. +..+..|++....
T Consensus 176 f~S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 176 LYS-RVAARRFFALMRL 191 (240)
T ss_pred EeC-HHHHHHHHHHHhh
Confidence 765 4567778777654
No 449
>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=48.54 E-value=64 Score=33.77 Aligned_cols=80 Identities=6% Similarity=0.037 Sum_probs=53.0
Q ss_pred EEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHH
Q 002368 161 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (930)
Q Consensus 161 ~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~~~~ 237 (930)
+++++.. +++|-....+.+.+++++.|..+.....-... +...-...+.++...++|.+++.... ......++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~---~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSEG---DQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCCC---CHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 3566664 46777788899999999999987754322211 23444567788888899998876543 323455677
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+++.|.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 777664
No 450
>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=48.52 E-value=97 Score=29.36 Aligned_cols=63 Identities=19% Similarity=0.266 Sum_probs=43.6
Q ss_pred EEEEEEecCCc--Cc---chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcc
Q 002368 161 EVIAIFNDDDQ--GR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGY 227 (930)
Q Consensus 161 ~vaii~~d~~~--g~---~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~viv~~~~ 227 (930)
++++|...++- |+ .....+.+.+++.|.++.....++.+ .+++...+++..+ .++|+|+..+.
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 56776654422 22 23457888899999998887777755 7778888877654 37899988643
No 451
>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=48.43 E-value=1.1e+02 Score=29.47 Aligned_cols=65 Identities=14% Similarity=0.167 Sum_probs=46.1
Q ss_pred CcEEEEEEecCCcCc---chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc-CCceEEEEEcc
Q 002368 159 WGEVIAIFNDDDQGR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGY 227 (930)
Q Consensus 159 w~~vaii~~d~~~g~---~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~-~~~~viv~~~~ 227 (930)
..++++|...|+-+. .....+...+++.|.++.....++.+ .+.+...+.++.+ .+.|+|+..+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd----~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD----IYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 357788765543222 23457888899999998887777755 7788888888753 57899998643
No 452
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=48.42 E-value=85 Score=33.97 Aligned_cols=80 Identities=9% Similarity=-0.007 Sum_probs=53.6
Q ss_pred CcEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 002368 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (930)
Q Consensus 159 w~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~ 236 (930)
-+.|+++..+ ++|.......+.+++++.|..+...... . +...-...+..+...+.|.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~--~---~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD--D---QPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC--C---CHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 4578888753 5677777889999999999988764321 1 1333445677777888999998654322234566
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
++.+.|+
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 7766664
No 453
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=48.34 E-value=73 Score=34.93 Aligned_cols=81 Identities=9% Similarity=-0.038 Sum_probs=55.8
Q ss_pred CcEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHH
Q 002368 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVF 235 (930)
Q Consensus 159 w~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~~ 235 (930)
-+.|+++..+ ++|.....+.+.+++++.|..+.....-.. .+.......++.+.+.++|.|++.... ......+
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 4788888855 677777888999999999998876532211 123445567888888899999987644 3333455
Q ss_pred HHHHHcCC
Q 002368 236 DVAQRLGM 243 (930)
Q Consensus 236 ~~a~~~g~ 243 (930)
++++.|.
T Consensus 123 -~~~~~gi 129 (343)
T PRK10936 123 -ELQAANI 129 (343)
T ss_pred -HHHHCCC
Confidence 6777664
No 454
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=48.26 E-value=38 Score=35.07 Aligned_cols=47 Identities=17% Similarity=0.221 Sum_probs=33.7
Q ss_pred ceEEEeEEeecCCCcchHHHHHHHHHHHHHhcCCCCCCCcEEEEEEecCCCChHHHHH
Q 002368 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (930)
Q Consensus 25 ~~I~IG~~~~l~~~~G~~~~~a~~lAve~iN~~ggil~g~~l~l~~~D~~~~~~~a~~ 82 (930)
.+|+||+. ..+.+......++-+.++ .|.+|+++.+.+-..|..|+.
T Consensus 29 ~~I~vg~~---~~p~a~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGAT---PGPHAEILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeec---CCchHHHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 58999985 233334444466666665 378999999999888888875
No 455
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=47.92 E-value=69 Score=33.44 Aligned_cols=77 Identities=9% Similarity=-0.015 Sum_probs=53.7
Q ss_pred EEEEEe---cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHHHH
Q 002368 162 VIAIFN---DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDV 237 (930)
Q Consensus 162 vaii~~---d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~~~ 237 (930)
|++|.+ +++|.....+.+.+++++.|..+..... . .+.+.....++.+...++|.+++..... .....+++
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---N--GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---C--cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 456653 4678888899999999999998875421 1 2244555667778788999998875433 23456777
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
+++.|.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777665
No 456
>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=47.66 E-value=64 Score=34.49 Aligned_cols=77 Identities=9% Similarity=0.050 Sum_probs=50.9
Q ss_pred EEEEe--cCCcCcchHHHHHHHHHhcCc-EEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hhHHHHHHHH
Q 002368 163 IAIFN--DDDQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (930)
Q Consensus 163 aii~~--d~~~g~~~~~~~~~~l~~~g~-~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~~~~~~~~a 238 (930)
+++.. +++|.....+.+.+++++.|. .+.+...-. .+.......++.+.+.++|.|++.... ......++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~~~~----~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~ 77 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTGPTG----TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKA 77 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEECCCC----CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHH
Confidence 34443 467777788899999999994 443321111 124455677888888899999987543 3445677888
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
++.|.
T Consensus 78 ~~~gi 82 (302)
T TIGR02637 78 MKRGI 82 (302)
T ss_pred HHCCC
Confidence 88775
No 457
>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=47.64 E-value=23 Score=32.91 Aligned_cols=58 Identities=19% Similarity=0.284 Sum_probs=41.4
Q ss_pred HHHHHHHhc--CcEEEEccCCh--hhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEcc
Q 002368 82 MGALQFMET--DTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTA 140 (930)
Q Consensus 82 ~~a~~li~~--~v~aiiGp~~S--~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~ 140 (930)
+++.+++.+ ++++++|.... .....+..++++.++|+++....- ..-+..+|++.-..
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~k-g~i~~~hp~~~G~~ 63 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMGK-GVIPEDHPLFLGYL 63 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGT-TSSTTTSTTEEEES
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCccc-cccCCCCchhcccC
Confidence 345566655 89999998777 888999999999999998754443 33344567777643
No 458
>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=47.61 E-value=79 Score=32.66 Aligned_cols=76 Identities=11% Similarity=0.016 Sum_probs=52.0
Q ss_pred EEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++..+ ++|.....+.+.+++++.|.++..... . .+.+.....++++...++|.+++...... ..++..++
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 5566653 566677889999999999998865322 1 12455567788888899999999765422 34556666
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (259)
T cd01542 76 KLNV 79 (259)
T ss_pred cCCC
Confidence 6553
No 459
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=47.54 E-value=99 Score=32.57 Aligned_cols=79 Identities=14% Similarity=0.142 Sum_probs=55.3
Q ss_pred cEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHH
Q 002368 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFD 236 (930)
Q Consensus 160 ~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~~ 236 (930)
|+|+++..+ ++|-......+.+++++.|..+..... . .+.+.-...+..+...++|.||+.....+ ....++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---R--GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 467888764 667778889999999999988765421 1 22455567888888899999999754322 234566
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
.+++.|.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6777664
No 460
>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=47.50 E-value=98 Score=33.81 Aligned_cols=98 Identities=9% Similarity=0.156 Sum_probs=61.8
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEE-ecCCCCCCChhHHHHHHHHHhcCCceEEEEE
Q 002368 148 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKS-ALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (930)
Q Consensus 148 ~ai~~~l~~~~w-~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~-~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~ 225 (930)
..+.++++.++. +++.+|+....+.. ..+.+.+.|++.|+++.... ..... .+.+.+...+..+++ ++|+||..
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~--p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLI--PDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCC--CCHHHHHHHHHHhhc-CCCEEEEE
Confidence 345666777775 78888886554333 24788888988887654211 12222 346778888888887 99999987
Q ss_pred cch--hhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 226 GYS--RTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 226 ~~~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
+.+ -|...++.. ..| ..++-|-|.
T Consensus 88 GGGsv~D~aK~iA~--~~g---ip~I~VPTT 113 (332)
T cd08549 88 GSGTIIDLVKFVSF--KVG---KPFISVPTA 113 (332)
T ss_pred CCcHHHHHHHHHHH--HcC---CCEEEeCCC
Confidence 654 566666652 234 345555554
No 461
>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=47.48 E-value=1.3e+02 Score=29.96 Aligned_cols=87 Identities=13% Similarity=0.069 Sum_probs=54.9
Q ss_pred cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc----hhhHHHHH
Q 002368 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY----SRTGLMVF 235 (930)
Q Consensus 160 ~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~----~~~~~~~~ 235 (930)
.+|.+....++.-.-+..-+...++..|.++.+-- . +......++.+++.+||+|.+.+. ......++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG---~-----~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i 156 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG---R-----DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIN 156 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC---C-----CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHH
Confidence 35655555555555666777778888888877521 1 122344566666788888887543 25667778
Q ss_pred HHHHHcCCCCCceEEEEeC
Q 002368 236 DVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~ 254 (930)
++.++.|....-.+++++.
T Consensus 157 ~~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 157 DKLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHHHcCCCCCCEEEEECh
Confidence 8888877654445555544
No 462
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=47.20 E-value=2.9e+02 Score=32.40 Aligned_cols=136 Identities=18% Similarity=0.225 Sum_probs=80.9
Q ss_pred EEEEEecCCCChHHHHHHHHH-HHhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChH
Q 002368 66 LSITMHDAKFNGFLSIMGALQ-FMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDL 144 (930)
Q Consensus 66 l~l~~~D~~~~~~~a~~~a~~-li~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~ 144 (930)
.++.+.+ ..-..++..+.+ +..+++++||.-.+++. -+-+...||+|....+ ..
T Consensus 40 ~~~~~~~--~~~~~~v~~~~~~~~~~~~dviIsrG~ta~-----~i~~~~~iPVv~i~~s------------------~~ 94 (538)
T PRK15424 40 ANITPIQ--LGFEKAVTYIRKRLATERCDAIIAAGSNGA-----YLKSRLSVPVILIKPS------------------GF 94 (538)
T ss_pred ceEEehh--hhHHHHHHHHHHHHhhCCCcEEEECchHHH-----HHHhhCCCCEEEecCC------------------Hh
Confidence 3444434 345677777754 55669999997554422 2233467999864221 12
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEE
Q 002368 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (930)
Q Consensus 145 ~~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~ 224 (930)
...+++. ..+.++ .++++|.-.+. ....+.+.+.+ ++++...... +.+|....+.++++.+.++||-
T Consensus 95 Dil~al~-~a~~~~-~~iavv~~~~~--~~~~~~~~~~l---~~~i~~~~~~------~~~e~~~~v~~lk~~G~~~vvG 161 (538)
T PRK15424 95 DVMQALA-RARKLT-SSIGVVTYQET--IPALVAFQKTF---NLRIEQRSYV------TEEDARGQINELKANGIEAVVG 161 (538)
T ss_pred HHHHHHH-HHHhcC-CcEEEEecCcc--cHHHHHHHHHh---CCceEEEEec------CHHHHHHHHHHHHHCCCCEEEc
Confidence 2334443 234454 56777764332 13455555555 5666543322 2679999999999999999884
Q ss_pred EcchhhHHHHHHHHHHcCCCC
Q 002368 225 HGYSRTGLMVFDVAQRLGMMD 245 (930)
Q Consensus 225 ~~~~~~~~~~~~~a~~~g~~~ 245 (930)
.+. ....|.++|+.+
T Consensus 162 ~~~------~~~~A~~~g~~g 176 (538)
T PRK15424 162 AGL------ITDLAEEAGMTG 176 (538)
T ss_pred Cch------HHHHHHHhCCce
Confidence 432 356788888854
No 463
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=46.83 E-value=81 Score=33.55 Aligned_cols=80 Identities=1% Similarity=0.009 Sum_probs=56.1
Q ss_pred CcEEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh-hHHHHH
Q 002368 159 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVF 235 (930)
Q Consensus 159 w~~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~-~~~~~~ 235 (930)
-+.++++.+ +++|-......+.+++++.|+.+..... . .+.......++++...++|.+++..... .....+
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 4677788889999999999998875321 1 1244556677888878899888765443 334567
Q ss_pred HHHHHcCC
Q 002368 236 DVAQRLGM 243 (930)
Q Consensus 236 ~~a~~~g~ 243 (930)
+.+++.|.
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 77777664
No 464
>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=46.71 E-value=65 Score=33.43 Aligned_cols=77 Identities=6% Similarity=0.032 Sum_probs=53.5
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVA 238 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~~~a 238 (930)
|++|.. +++|.......+.+++++.|..+... +.. .+..+....+.++...++|.+++...... ....++++
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 455554 57788888999999999999888653 222 23555667888888889999888643332 24567777
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
++.|.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 77664
No 465
>PLN02428 lipoic acid synthase
Probab=46.50 E-value=1.5e+02 Score=32.53 Aligned_cols=107 Identities=18% Similarity=0.210 Sum_probs=63.1
Q ss_pred CChHHHHHHHHHHHHHcCCcEEEEEEec----CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc
Q 002368 141 PNDLYLMSAIAEMVSYFGWGEVIAIFND----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM 216 (930)
Q Consensus 141 p~~~~~~~ai~~~l~~~~w~~vaii~~d----~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~ 216 (930)
+.+......+++.+...|.+.+.++..+ .+.|......+.+++++....+......+.. ..+ ...|.+|++
T Consensus 129 ~~d~~Ep~~vA~~v~~~Glk~vvltSg~rddl~D~ga~~~~elir~Ir~~~P~i~Ie~L~pdf----~~d-~elL~~L~e 203 (349)
T PLN02428 129 PPDPDEPENVAEAIASWGVDYVVLTSVDRDDLPDGGSGHFAETVRRLKQLKPEILVEALVPDF----RGD-LGAVETVAT 203 (349)
T ss_pred CCChhhHHHHHHHHHHcCCCEEEEEEcCCCCCCcccHHHHHHHHHHHHHhCCCcEEEEeCccc----cCC-HHHHHHHHH
Confidence 3344444567777888999998887764 2444445555666666654333333333322 112 557889999
Q ss_pred CCceEEEEE---------------cchhhHHHHHHHHHHc--CCCCCceEEEE
Q 002368 217 MEARVIVVH---------------GYSRTGLMVFDVAQRL--GMMDSGYVWIA 252 (930)
Q Consensus 217 ~~~~viv~~---------------~~~~~~~~~~~~a~~~--g~~~~~~~~i~ 252 (930)
+++|++-.. ...++...+++.+++. |+...-+..++
T Consensus 204 AG~d~i~hnlETv~rL~~~Ir~~~~sye~~Le~L~~ak~~~pGi~tkSg~MvG 256 (349)
T PLN02428 204 SGLDVFAHNIETVERLQRIVRDPRAGYKQSLDVLKHAKESKPGLLTKTSIMLG 256 (349)
T ss_pred cCCCEEccCccCcHHHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeEEEeEEEe
Confidence 999885432 1234566778888887 76543333333
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=46.40 E-value=1.9e+02 Score=25.85 Aligned_cols=67 Identities=13% Similarity=0.093 Sum_probs=40.0
Q ss_pred cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch----hhHHHHHHHHHHcC
Q 002368 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQRLG 242 (930)
Q Consensus 168 d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~----~~~~~~~~~a~~~g 242 (930)
..+.-.-+...+...++..|.++.+-. .. ......+..+.+.+||+|.+.+.. ..+..++++.++.+
T Consensus 8 ~~e~H~lG~~~~~~~l~~~G~~V~~lg---~~-----~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 8 GGDGHDIGKNIVARALRDAGFEVIDLG---VD-----VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CCchhhHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 334444456677778888888875422 11 122344555666788888887642 45566666777654
No 467
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=46.04 E-value=19 Score=26.55 Aligned_cols=28 Identities=21% Similarity=0.529 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHhhhheeeccCCCC
Q 002368 585 LMWAVTGVFFLVVGTVVWILEHRLNDEF 612 (930)
Q Consensus 585 ~vW~~~~~~~~~~~~~~~~~~~~~~~~~ 612 (930)
++|.++..+.+++++++|.+..+..+.+
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k~~f 39 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRKKAF 39 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcchhH
Confidence 6899999999999999999976654433
No 468
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=45.89 E-value=98 Score=28.52 Aligned_cols=60 Identities=22% Similarity=0.325 Sum_probs=41.0
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHHHHHH
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQ 239 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~-~~~~~~~~~~a~ 239 (930)
....+.+.+++.|.++.+....+.+ ...+...+.++.+. +|+|+..+. +.....+..++-
T Consensus 20 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~i~~~~~~-~DlvittGG~g~g~~D~t~~ai 80 (133)
T cd00758 20 NGPALEALLEDLGCEVIYAGVVPDD----ADSIRAALIEASRE-ADLVLTTGGTGVGRRDVTPEAL 80 (133)
T ss_pred hHHHHHHHHHHCCCEEEEeeecCCC----HHHHHHHHHHHHhc-CCEEEECCCCCCCCCcchHHHH
Confidence 4567888899999998876666655 77788888887654 899998643 333333444433
No 469
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=45.80 E-value=1.4e+02 Score=29.19 Aligned_cols=74 Identities=16% Similarity=0.174 Sum_probs=48.4
Q ss_pred CCCChHHhhhCCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC
Q 002368 678 PIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG 757 (930)
Q Consensus 678 ~i~sl~dL~~s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~ 757 (930)
++++.+||. +++|+.......+.||. +.+++ ..++.....-|. +-..|-.|++++-.....-+.++ +|.++.
T Consensus 100 ~~~~~~~l~--~~rIATkyp~i~~~~f~-~~Gi~-v~ii~l~GsvE~--aP~~GlaD~IvDiv~TG~TL~~N--gL~~ie 171 (182)
T TIGR00070 100 DISSVEDLK--GKRIATKYPNLARRYFE-KKGID-VEIIKLNGSVEL--APLLGLADAIVDIVSTGTTLREN--GLRIIE 171 (182)
T ss_pred CCCChHHhC--CCEEEECCHHHHHHHHH-HcCCe-EEEEECcceeec--ccCCCceeEEEEEeCCHHHHHHC--CCEEee
Confidence 567888885 88999988888999994 45553 455555444333 23358889998876666655443 355554
Q ss_pred Cc
Q 002368 758 QE 759 (930)
Q Consensus 758 ~~ 759 (930)
+.
T Consensus 172 ~i 173 (182)
T TIGR00070 172 VI 173 (182)
T ss_pred EE
Confidence 33
No 470
>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=45.43 E-value=93 Score=32.32 Aligned_cols=76 Identities=14% Similarity=0.115 Sum_probs=52.4
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|+++.+ +++|.......+.+++++.|..+... ... .+.......++++.+.+.|.+++...... ...++.++
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSG--YDLDREYAQARKLLERGVDGLALIGLDHS-PALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHH
Confidence 566665 46777888899999999999988753 222 23455667788888888999888654322 34556666
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 6664
No 471
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=45.33 E-value=1e+02 Score=33.68 Aligned_cols=80 Identities=13% Similarity=0.087 Sum_probs=58.7
Q ss_pred CcEEEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHH
Q 002368 159 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVF 235 (930)
Q Consensus 159 w~~vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~ 235 (930)
-.+|+++.. +++|.......+.+++++.|..+.... .. .+.......++.+.+.++|.+++...... ....+
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~---~~--~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l 99 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQS---AN--GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVI 99 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHH
Confidence 467787774 588899999999999999999987642 12 23556677888888899999999765432 34566
Q ss_pred HHHHHcCC
Q 002368 236 DVAQRLGM 243 (930)
Q Consensus 236 ~~a~~~g~ 243 (930)
+.+.+.|.
T Consensus 100 ~~~~~~~i 107 (330)
T PRK10355 100 KEAKQEGI 107 (330)
T ss_pred HHHHHCCC
Confidence 77777664
No 472
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=45.05 E-value=4.1e+02 Score=28.30 Aligned_cols=95 Identities=13% Similarity=0.118 Sum_probs=59.1
Q ss_pred cEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEc--c---CC---hHHHHHHHHHHHHHcC-----
Q 002368 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQT--A---PN---DLYLMSAIAEMVSYFG----- 158 (930)
Q Consensus 92 v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~--~---p~---~~~~~~ai~~~l~~~~----- 158 (930)
+.-++||-..+....++.++.+.++=++..+...+. ..-.||.|+ . |. ....-.++.++.+.+|
T Consensus 11 iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~---~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~i 87 (289)
T PRK13010 11 VLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDD---ESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWAI 87 (289)
T ss_pred EEEEECCCCCCcHHHHHHHHHHCCCCEEeccccccc---ccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEEE
Confidence 788999999999999999999999988875554211 222466662 2 22 2333445555555543
Q ss_pred -----CcEEEEEEecCCcCcchHHHHHHHHHhcC--cEEEE
Q 002368 159 -----WGEVIAIFNDDDQGRNGVTALGDKLAEIR--CKISY 192 (930)
Q Consensus 159 -----w~~vaii~~d~~~g~~~~~~~~~~l~~~g--~~i~~ 192 (930)
.++++++.+.. | ...+++.++.++.. .+|+.
T Consensus 88 ~~~~~~~kiavl~Sg~--g-~nl~al~~~~~~~~l~~~i~~ 125 (289)
T PRK13010 88 HPDGQRPKVVIMVSKF--D-HCLNDLLYRWRMGELDMDIVG 125 (289)
T ss_pred ecCCCCeEEEEEEeCC--C-ccHHHHHHHHHCCCCCcEEEE
Confidence 56888888655 2 23455555555433 34443
No 473
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=44.69 E-value=98 Score=32.01 Aligned_cols=101 Identities=11% Similarity=-0.032 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhc--CcEEEEEE-ecCCCCCCChhHHHHHHHHHhcCCceEE
Q 002368 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKS-ALPPDQSVTETDVRNELVKVRMMEARVI 222 (930)
Q Consensus 146 ~~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~--g~~i~~~~-~~~~~~~~~~~d~~~~l~~l~~~~~~vi 222 (930)
...++.+.+... -++|.++.... +.++.....+++. |..|+... .|-.. +++ .+++++|++++||++
T Consensus 96 l~~~Ll~~a~~~-~~~vfllGgkp----~V~~~a~~~l~~~~p~l~ivg~h~GYf~~----~e~-~~i~~~I~~s~pdil 165 (253)
T COG1922 96 LVEALLKRAAEE-GKRVFLLGGKP----GVAEQAAAKLRAKYPGLKIVGSHDGYFDP----EEE-EAIVERIAASGPDIL 165 (253)
T ss_pred HHHHHHHHhCcc-CceEEEecCCH----HHHHHHHHHHHHHCCCceEEEecCCCCCh----hhH-HHHHHHHHhcCCCEE
Confidence 345555555444 36777776443 3455555556554 45666543 22211 333 689999999999999
Q ss_pred EEEcchhhHHHHHHHHHHcCCCCCceEEEEeCccccc
Q 002368 223 VVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (930)
Q Consensus 223 v~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~ 259 (930)
++.+..+-...++.+-++. + +.-++++.++.-+.
T Consensus 166 ~VgmG~P~QE~wi~~~~~~-~--~~~v~igVGg~fDv 199 (253)
T COG1922 166 LVGMGVPRQEIWIARNRQQ-L--PVAVAIGVGGSFDV 199 (253)
T ss_pred EEeCCCchhHHHHHHhHHh-c--CCceEEeccceEEE
Confidence 9998887777777776653 2 23367776654433
No 474
>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=44.61 E-value=1.1e+02 Score=31.78 Aligned_cols=77 Identities=8% Similarity=0.035 Sum_probs=50.3
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|++|.+ +++|.......+.+++++.|..+.....- . .........++.+.+.++|.+++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~--~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSMLA--E--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeCC--C--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 456654 45677788999999999999887654221 1 1134556678888888899999865543333 334455
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 77 ~~~i 80 (264)
T cd01574 77 PADV 80 (264)
T ss_pred hcCC
Confidence 5553
No 475
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=44.61 E-value=60 Score=33.53 Aligned_cols=87 Identities=16% Similarity=0.086 Sum_probs=67.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEE--
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH-- 225 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~-- 225 (930)
..+++..+++|..-+.++. |..|-++..+.++..-+...+.|--+..+.. .-++...+..++|+|.+.
T Consensus 69 ~~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFiiD---------~yQI~~Ar~~GADavLLI~~ 138 (254)
T COG0134 69 VEIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFIID---------PYQIYEARAAGADAVLLIVA 138 (254)
T ss_pred HHHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCCC---------HHHHHHHHHcCcccHHHHHH
Confidence 3477777888988888887 6778889999998888888888765544432 236778888999998875
Q ss_pred -cchhhHHHHHHHHHHcCCC
Q 002368 226 -GYSRTGLMVFDVAQRLGMM 244 (930)
Q Consensus 226 -~~~~~~~~~~~~a~~~g~~ 244 (930)
........++..|+++||.
T Consensus 139 ~L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 139 ALDDEQLEELVDRAHELGME 158 (254)
T ss_pred hcCHHHHHHHHHHHHHcCCe
Confidence 3446689999999999995
No 476
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. 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. 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 ne
Probab=44.58 E-value=1.8e+02 Score=32.02 Aligned_cols=101 Identities=12% Similarity=0.036 Sum_probs=61.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHh-cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCC---ceEEE
Q 002368 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMME---ARVIV 223 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~-~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~---~~viv 223 (930)
..+.++++.++.+++.++.+...+ +...+.+.+.+++ .++.+..-...... .+.+.+...+..+++.+ .|+||
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~-~~~~~~v~~~L~~~~~~~~~~~~~~e~~--k~~~~v~~~~~~~~~~~~~r~d~II 88 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA-DLIAHYIAEYLSKILPVHILVIEGGEEY--KTFETVTRILERAIALGANRRTAIV 88 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhhcCceEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 345566777788899888754433 3566778888876 56654322222222 34667777778887644 89999
Q ss_pred EEcch--hhHHHHHHHHHHcCCCCCceEEEEeC
Q 002368 224 VHGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 254 (930)
Q Consensus 224 ~~~~~--~~~~~~~~~a~~~g~~~~~~~~i~~~ 254 (930)
..+.+ -|...++......|+ .++-|-|.
T Consensus 89 aiGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 118 (344)
T cd08169 89 AVGGGATGDVAGFVASTLFRGI---AFIRVPTT 118 (344)
T ss_pred EECCcHHHHHHHHHHHHhccCC---cEEEecCC
Confidence 77654 566666655443343 45555554
No 477
>PRK07377 hypothetical protein; Provisional
Probab=44.48 E-value=47 Score=32.02 Aligned_cols=61 Identities=18% Similarity=0.220 Sum_probs=44.2
Q ss_pred cceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEe
Q 002368 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 539 (930)
Q Consensus 462 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~ 539 (930)
..+|+|+... .++ .+...+-.++.++.+.++++.+ .+++++ .+-..+.+.+.+|++|++.+
T Consensus 75 ~~~Rlgv~~~--------~~~-~~~~~~~l~~~l~~~~~~y~~r--lElv~y------~~~~~l~~aL~~~eVh~~c~ 135 (184)
T PRK07377 75 LVMRLGVLEI--------ETE-TSSVFDQLIDQLRTILDKYHLR--LELVVY------PDLQALEQALRDKEVHAICL 135 (184)
T ss_pred cEEEEEEEec--------ccc-ccccHHHHHHHHHHHHHHhCce--eeEEec------CCHHHHHHHHhcCCccEEec
Confidence 5689998752 011 2234455778889999999966 555554 56889999999999998876
No 478
>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=44.38 E-value=82 Score=32.94 Aligned_cols=77 Identities=6% Similarity=-0.013 Sum_probs=52.2
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhh-HHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVA 238 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~-~~~~~~~a 238 (930)
++++.. +++|-......+.+.+++.|.++... ... .+...-...++++.+.++|.|++.....+ ....+..+
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 566664 47777788899999999999888643 211 12344456777887889999987654333 34567777
Q ss_pred HHcCC
Q 002368 239 QRLGM 243 (930)
Q Consensus 239 ~~~g~ 243 (930)
.+.|.
T Consensus 77 ~~~~i 81 (277)
T cd06319 77 AQAKI 81 (277)
T ss_pred HHCCC
Confidence 77664
No 479
>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=44.16 E-value=57 Score=34.59 Aligned_cols=77 Identities=6% Similarity=-0.012 Sum_probs=55.2
Q ss_pred cEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHH
Q 002368 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (930)
Q Consensus 160 ~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~ 237 (930)
+.+++|.++ ++|....+..+.+++++.|..+.....-. ..+-...++.+.+.+.|-+|+.+...+-..+. .
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~------~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~-~ 74 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD------DEEKEEYIELLLQRRVDGIILASSENDDEELR-R 74 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT------THHHHHHHHHHHHTTSSEEEEESSSCTCHHHH-H
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC------chHHHHHHHHHHhcCCCEEEEecccCChHHHH-H
Confidence 468888865 78888899999999999999987543322 22333888999999999999997666533343 4
Q ss_pred HHHcCC
Q 002368 238 AQRLGM 243 (930)
Q Consensus 238 a~~~g~ 243 (930)
..+.|+
T Consensus 75 ~~~~~i 80 (279)
T PF00532_consen 75 LIKSGI 80 (279)
T ss_dssp HHHTTS
T ss_pred HHHcCC
Confidence 444354
No 480
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=44.15 E-value=1.1e+02 Score=33.50 Aligned_cols=85 Identities=9% Similarity=-0.017 Sum_probs=55.1
Q ss_pred HHHHHHHHHcCC--cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcC---CceEE
Q 002368 148 SAIAEMVSYFGW--GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVI 222 (930)
Q Consensus 148 ~ai~~~l~~~~w--~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vi 222 (930)
..+.++++.+|. +++.+++ |...-+ +.+.+.|++.|+.+.....+.++ .+.++....++..++. ++|+|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~n--Pt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEE--PKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCC--cCHHHHHHHHHHHHhhCCCCCCEE
Confidence 456666777763 5566666 432211 56778888888875544445555 5577788888888877 89999
Q ss_pred EEEcch--hhHHHHHHHH
Q 002368 223 VVHGYS--RTGLMVFDVA 238 (930)
Q Consensus 223 v~~~~~--~~~~~~~~~a 238 (930)
|-.+.+ -|+.+.+...
T Consensus 86 IaiGGGS~iD~AKaia~~ 103 (347)
T cd08184 86 VGIGGGSTLDVAKAVSNM 103 (347)
T ss_pred EEeCCcHHHHHHHHHHHH
Confidence 976654 4555555433
No 481
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=43.98 E-value=1.1e+02 Score=28.61 Aligned_cols=47 Identities=28% Similarity=0.335 Sum_probs=37.1
Q ss_pred hHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 175 ~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
....+.+.+++.|.++.....++.+ .+++...+.++.+ ++|+||..+
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~-~~DliIttG 74 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVPDD----PEEIREILRKAVD-EADVVLTTG 74 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecCCC----HHHHHHHHHHHHh-CCCEEEECC
Confidence 3568888999999998887777755 7778888887754 789999864
No 482
>PRK13054 lipid kinase; Reviewed
Probab=43.78 E-value=2.1e+02 Score=30.73 Aligned_cols=76 Identities=13% Similarity=0.111 Sum_probs=49.5
Q ss_pred cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 160 ~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
+++.+|+....-+......+.+.+.+.|.++.....-. ..+...+.+++...+.|+|++.+.......++..+.
T Consensus 4 ~~~~~i~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~------~~~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~ 77 (300)
T PRK13054 4 PKSLLILNGKSAGNEELREAVGLLREEGHTLHVRVTWE------KGDAARYVEEALALGVATVIAGGGDGTINEVATALA 77 (300)
T ss_pred ceEEEEECCCccchHHHHHHHHHHHHcCCEEEEEEecC------CCcHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHH
Confidence 67788886443233445566777888888755432222 234555666666677899999888877888887776
Q ss_pred Hc
Q 002368 240 RL 241 (930)
Q Consensus 240 ~~ 241 (930)
+.
T Consensus 78 ~~ 79 (300)
T PRK13054 78 QL 79 (300)
T ss_pred hh
Confidence 43
No 483
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=43.76 E-value=33 Score=30.98 Aligned_cols=29 Identities=7% Similarity=-0.071 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 002368 824 GLFLICGIACFLALLAYFCLMLRQFKKYS 852 (930)
Q Consensus 824 g~f~il~~g~~lallvf~~e~~~~~~~~~ 852 (930)
-+.+++|+.+++.++++++-++.+|++++
T Consensus 66 i~~Ii~gv~aGvIg~Illi~y~irR~~Kk 94 (122)
T PF01102_consen 66 IIGIIFGVMAGVIGIILLISYCIRRLRKK 94 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHS--
T ss_pred eeehhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34556666666655555555554444444
No 484
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=43.63 E-value=1.3e+02 Score=32.52 Aligned_cols=78 Identities=19% Similarity=0.191 Sum_probs=54.1
Q ss_pred cCCcEEEEEEecCCc--Cc---chHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcch-hh
Q 002368 157 FGWGEVIAIFNDDDQ--GR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RT 230 (930)
Q Consensus 157 ~~w~~vaii~~d~~~--g~---~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~-~~ 230 (930)
+.-.+++++...++- |+ .....+...+++.|.++.....++.+ .+.+...+.++.+.++|+|+..+.. .+
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd----~~~I~~ai~~~~~~g~DlIItTGGtsvg 232 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHD----EAAIAAAIAEALEAGAELLILTGGASVD 232 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCC----HHHHHHHHHHHhcCCCCEEEEeCCcccC
Confidence 445688998865532 22 23567888899999999887777765 7888888888876678999986433 33
Q ss_pred HHHHHHHH
Q 002368 231 GLMVFDVA 238 (930)
Q Consensus 231 ~~~~~~~a 238 (930)
-..+..++
T Consensus 233 ~~D~tp~A 240 (312)
T cd03522 233 PDDVTPAA 240 (312)
T ss_pred CcchHHHH
Confidence 33444444
No 485
>PHA03239 envelope glycoprotein M; Provisional
Probab=43.44 E-value=39 Score=37.57 Aligned_cols=18 Identities=17% Similarity=0.243 Sum_probs=12.4
Q ss_pred ccccccchhhhhhccccc
Q 002368 909 SARINRDISQEREQYNNE 926 (930)
Q Consensus 909 ~~~~~~~~~~~~~~~~~~ 926 (930)
+..--++|--+|++||.+
T Consensus 405 ~~~~~~~~~~~~~~~~~~ 422 (429)
T PHA03239 405 ADDPRDNIPFERRSREGD 422 (429)
T ss_pred cCCccccCchhhccccCc
Confidence 344445677789999876
No 486
>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=43.13 E-value=1.1e+02 Score=31.96 Aligned_cols=77 Identities=12% Similarity=-0.003 Sum_probs=49.9
Q ss_pred CcEEEEEEe---------cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchh
Q 002368 159 WGEVIAIFN---------DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR 229 (930)
Q Consensus 159 w~~vaii~~---------d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~ 229 (930)
.+.|++|.+ +++|.....+.+.+.+++.|+.+.... ... . +.....+.+.+.++|.|++.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~--~~~----~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSF--VSS----P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEe--CCc----h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 467888885 344666677889999999999876532 111 1 233444556667899998865432
Q ss_pred hHHHHHHHHHHcCC
Q 002368 230 TGLMVFDVAQRLGM 243 (930)
Q Consensus 230 ~~~~~~~~a~~~g~ 243 (930)
. ...++++.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 244777777775
No 487
>PF01634 HisG: ATP phosphoribosyltransferase; InterPro: IPR013820 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. ATP phosphoribosyltransferase is found in two distinct forms: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity []. This entry represents the catalytic region of this enzyme. The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined [, ]. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplasmic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; GO: 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1VE4_A 2VD3_B 1NH7_A 1NH8_A 1Z7N_G 1Z7M_E 1O64_A 1O63_A 1USY_F 1Q1K_A ....
Probab=42.94 E-value=43 Score=32.12 Aligned_cols=101 Identities=16% Similarity=0.152 Sum_probs=58.8
Q ss_pred CCCChHHhhhCCCeEEEEeCchhHHHHHHhcCCCccceEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC
Q 002368 678 PIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG 757 (930)
Q Consensus 678 ~i~sl~dL~~s~~~i~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~ 757 (930)
.+.+++||.+ +.+|+...-...+.||.+ .+.+ .+++.....-|.. ...|-.|++++-.....-+.++ +|.+++
T Consensus 57 ~~~~~~~l~~-~~rIATkyp~l~~~yf~~-~g~~-~~ii~l~GsvE~a--p~~glAD~IvDiv~TG~TLr~N--gL~~i~ 129 (163)
T PF01634_consen 57 PYKSVEDLKA-GLRIATKYPNLTRRYFAE-KGIN-VEIIKLSGSVELA--PPLGLADAIVDIVETGTTLRAN--GLKEIE 129 (163)
T ss_dssp CGCCGGGGSS-TEEEEES-HHHHHHHHHH-CT-E-EEEEE-SS-TTHH--HHTTSSSEEEEEESSSHHHHHT--TEEEEE
T ss_pred CCCCHHHhcc-CCEEEECCHHHHHHHHHH-cCCc-EEEEEccCCcccc--CCCCCCCEEEEeccCcHHHHHC--CCEEeE
Confidence 3678888853 778998888888999954 4433 4555544433332 3457789999877766555444 466775
Q ss_pred CccccCccEEEecCCCc--chhHHHHHHHhc
Q 002368 758 QEFTKSGWGFAFPRDSP--LAIDMSTAILTL 786 (930)
Q Consensus 758 ~~~~~~~~~~~~~k~sp--l~~~~n~~i~~l 786 (930)
..+. ....+...|.+- -.+.++..+.+|
T Consensus 130 ~i~~-s~a~LI~n~~~~~~k~~~i~~l~~~l 159 (163)
T PF01634_consen 130 TILE-SSARLIANKASLKEKEEKIDELVTRL 159 (163)
T ss_dssp EEEE-EEEEEEEEHHHHHHCHHHHHHHHHHH
T ss_pred EEEE-EEEEEEEcCccchhhHHHHHHHHHHH
Confidence 4443 444555555543 223345544444
No 488
>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=42.79 E-value=2.3e+02 Score=27.07 Aligned_cols=67 Identities=13% Similarity=-0.022 Sum_probs=38.6
Q ss_pred eEeCCCHHHHHHHHHcCCcEEEEccchhhHHHHhcCcceEEeC--CccccCccEEEecCCCcchhHHHHHH
Q 002368 715 LVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSPLAIDMSTAI 783 (930)
Q Consensus 715 ~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~~n~~i 783 (930)
....++.+..++.+..|.--+++.+ ..+..... ...+..+. .......+.++.+|+..........+
T Consensus 128 ~~~~~~~~~~~~~v~~g~gi~~~p~-~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (199)
T cd08475 128 RLQFDDGEAIADAALAGLGIAQLPT-WLVADHLQ-RGELVEVLPELAPEGLPIHAVWPRTRHLPPKVRAAV 196 (199)
T ss_pred cEEECCHHHHHHHHHhCCCEEeeeH-HHHHhHhh-cCcEEEecCCCcCCCccEEEEeCCcccCCHHHHHHH
Confidence 4557888889999998776566554 33333222 22343332 22234567788888766555544443
No 489
>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=42.70 E-value=1.5e+02 Score=32.10 Aligned_cols=80 Identities=8% Similarity=0.043 Sum_probs=54.4
Q ss_pred CcEEEEEEec--CCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHH
Q 002368 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (930)
Q Consensus 159 w~~vaii~~d--~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~ 236 (930)
-+.|+++..+ ++|.......+.+++++.|..+..... ... .......+..+...+.|.+|+..........+.
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~-~~~----~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 134 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS-DDN----PDQEKVVIENLLARQVDALIVASCMPPEDAYYQ 134 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC-CCC----HHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHH
Confidence 4578888753 667778889999999999999875432 112 334456777888888999888654321234566
Q ss_pred HHHHcCC
Q 002368 237 VAQRLGM 243 (930)
Q Consensus 237 ~a~~~g~ 243 (930)
++.+.|.
T Consensus 135 ~l~~~~i 141 (327)
T TIGR02417 135 KLQNEGL 141 (327)
T ss_pred HHHhcCC
Confidence 6666564
No 490
>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=42.56 E-value=3.1e+02 Score=28.63 Aligned_cols=20 Identities=20% Similarity=0.399 Sum_probs=11.9
Q ss_pred HHHHHHHHHcCCcEEEEEEec
Q 002368 148 SAIAEMVSYFGWGEVIAIFND 168 (930)
Q Consensus 148 ~ai~~~l~~~~w~~vaii~~d 168 (930)
..++++++++|. .+++++.+
T Consensus 110 ~~~~~l~~~~~~-~vV~m~~~ 129 (258)
T cd00423 110 PEMAPLAAEYGA-PVVLMHMD 129 (258)
T ss_pred hHHHHHHHHcCC-CEEEECcC
Confidence 456677777775 45555543
No 491
>PRK10216 DNA-binding transcriptional regulator YidZ; Provisional
Probab=42.50 E-value=4.6e+02 Score=28.14 Aligned_cols=84 Identities=11% Similarity=0.024 Sum_probs=49.5
Q ss_pred ceEEEecCcccccccEEeecCcceEEEEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCCHHHHHHHHHcCcccEEEecEE
Q 002368 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIA 542 (930)
Q Consensus 463 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dll~~l~~~ln~~~~~~~~~~~~~~~n~~~~~l~~~l~~g~~D~~~~~~~ 542 (930)
.++||+.. .+ ...+-.+++..+.+..+ .+++.... ++. +....+.+|++|+++..-.
T Consensus 98 ~l~I~~~~--~~------------~~~~~~~~l~~f~~~~P-~v~v~i~~-------~~~-~~~~~l~~g~~D~~i~~~~ 154 (319)
T PRK10216 98 KFELAAES--PL------------MMIMLNALSKRIYQRYP-QATIKLRN-------WDY-DSLDAITRGEVDIGFTGRE 154 (319)
T ss_pred EEEEEecc--hh------------HHHHHHHHHHHHHHHCC-CCEEEEEe-------CCc-chHHHHhcCCccEEEecCC
Confidence 68888874 11 12345677888887665 24555543 222 3689999999999886321
Q ss_pred EecC-------ccceeeecccccccceEEEEeccC
Q 002368 543 IVTN-------RTKAVDFTQPYIESGLVVVAPVRK 570 (930)
Q Consensus 543 ~t~~-------R~~~vdfs~p~~~~~~~~~v~~~~ 570 (930)
.... +...+ -+.++.....++++++..
T Consensus 155 ~~~~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~~h 188 (319)
T PRK10216 155 SHPRSRELLSLLPLAI-DFEVLFSDLPCVWLRKDH 188 (319)
T ss_pred CCcccccccccccccc-ceeeeeecceEEEEeCCC
Confidence 1100 01112 245555677788887655
No 492
>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=42.43 E-value=2.2e+02 Score=28.90 Aligned_cols=74 Identities=15% Similarity=0.129 Sum_probs=54.1
Q ss_pred CcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc--chhhHHHHHH
Q 002368 159 WGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG--YSRTGLMVFD 236 (930)
Q Consensus 159 w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~--~~~~~~~~~~ 236 (930)
-.++++|.+..+ ..+...+.++..+..+.+...-|.. .+.+++...-+++++.++|+|++.| +......+++
T Consensus 125 ~~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~--~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~ 198 (221)
T PF07302_consen 125 GHQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYE--GDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQ 198 (221)
T ss_pred CCeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHH
Confidence 379999998764 4455566677776666665555553 3488899999999999999999975 4566666666
Q ss_pred HH
Q 002368 237 VA 238 (930)
Q Consensus 237 ~a 238 (930)
++
T Consensus 199 ~~ 200 (221)
T PF07302_consen 199 RA 200 (221)
T ss_pred HH
Confidence 55
No 493
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=42.32 E-value=3.9e+02 Score=31.30 Aligned_cols=129 Identities=17% Similarity=0.218 Sum_probs=78.3
Q ss_pred CChHHHHHHHHH-HHhcCcEEEEccCChhhHHHHHHhhhcCCCcEEEeecCCCCCCCCCCCeEEEccCChHHHHHHHHHH
Q 002368 75 FNGFLSIMGALQ-FMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (930)
Q Consensus 75 ~~~~~a~~~a~~-li~~~v~aiiGp~~S~~~~av~~~~~~~~vp~is~~a~~~~ls~~~~~~~fr~~p~~~~~~~ai~~~ 153 (930)
++-..++..+.+ +..+++++||.-..+ +.- +-+...+|+|...-+ .....+++. .
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~t--a~~---i~~~~~iPVv~i~~s------------------~~Dil~al~-~ 92 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGSN--GAY---LKSRLSLPVIVIKPT------------------GFDVMQALA-R 92 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECchH--HHH---HHHhCCCCEEEecCC------------------hhhHHHHHH-H
Confidence 455777888855 556699999975443 222 223457999864221 112334432 3
Q ss_pred HHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHH
Q 002368 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLM 233 (930)
Q Consensus 154 l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~ 233 (930)
.+.++ .++++|.-.+. ...++.+.+.+ ++++...... +.+|....+.++++.+.++||-.+ .
T Consensus 93 a~~~~-~~ia~vg~~~~--~~~~~~~~~ll---~~~i~~~~~~------~~~e~~~~~~~l~~~G~~~viG~~------~ 154 (526)
T TIGR02329 93 ARRIA-SSIGVVTHQDT--PPALRRFQAAF---NLDIVQRSYV------TEEDARSCVNDLRARGIGAVVGAG------L 154 (526)
T ss_pred HHhcC-CcEEEEecCcc--cHHHHHHHHHh---CCceEEEEec------CHHHHHHHHHHHHHCCCCEEECCh------H
Confidence 34554 56777764332 23455555555 5555543222 267999999999999999988433 2
Q ss_pred HHHHHHHcCCCC
Q 002368 234 VFDVAQRLGMMD 245 (930)
Q Consensus 234 ~~~~a~~~g~~~ 245 (930)
....|++.||.+
T Consensus 155 ~~~~A~~~gl~~ 166 (526)
T TIGR02329 155 ITDLAEQAGLHG 166 (526)
T ss_pred HHHHHHHcCCce
Confidence 356788999853
No 494
>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=42.29 E-value=1.1e+02 Score=33.45 Aligned_cols=96 Identities=15% Similarity=0.131 Sum_probs=62.0
Q ss_pred HHHHHHHH-cCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc
Q 002368 149 AIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (930)
Q Consensus 149 ai~~~l~~-~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~ 227 (930)
.+.++++. .+.+++.+++....+ +...+.+.+.+++.| .+... +.+. .+.+.+...+..+++.++|+||..+.
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 35566663 567899888854433 356778888898888 54322 2233 45788888899999899999997765
Q ss_pred h--hhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 228 S--RTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 228 ~--~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
+ -|...++.. ..| ..++-|.|..
T Consensus 88 Gs~~D~aK~~a~--~~~---~p~i~iPTT~ 112 (339)
T cd08173 88 GRVIDVAKVAAY--KLG---IPFISVPTAA 112 (339)
T ss_pred chHHHHHHHHHH--hcC---CCEEEecCcc
Confidence 4 455555542 223 3455555543
No 495
>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=42.14 E-value=99 Score=33.11 Aligned_cols=78 Identities=9% Similarity=0.072 Sum_probs=53.2
Q ss_pred EEEEEEec--CCcCcchHHHHHHHHHh--cCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcc-hhhHHHHH
Q 002368 161 EVIAIFND--DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVF 235 (930)
Q Consensus 161 ~vaii~~d--~~~g~~~~~~~~~~l~~--~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~-~~~~~~~~ 235 (930)
+|+++..+ ++|-......+.+++++ .|.++.... .. .+...-...++++.+.++|.|++... +......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AK--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 35666643 56777778889999998 777766432 22 22445567788888899999888643 33345677
Q ss_pred HHHHHcCC
Q 002368 236 DVAQRLGM 243 (930)
Q Consensus 236 ~~a~~~g~ 243 (930)
+++++.|+
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 88887775
No 496
>PRK09219 xanthine phosphoribosyltransferase; Validated
Probab=41.91 E-value=66 Score=31.84 Aligned_cols=71 Identities=20% Similarity=0.194 Sum_probs=51.5
Q ss_pred HHHHHhcCCCCCCCcEEEEE-EecCCCChHHHHHHHHHHHhc----CcEEEEccCChhhHHHHHHhhhcCCCcEEEe
Q 002368 50 AQDDINSDPRVLGGRKLSIT-MHDAKFNGFLSIMGALQFMET----DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (930)
Q Consensus 50 Ave~iN~~ggil~g~~l~l~-~~D~~~~~~~a~~~a~~li~~----~v~aiiGp~~S~~~~av~~~~~~~~vp~is~ 121 (930)
-.+.||+.+-+|+|.=|.+. ..+.+.+|......+..+.+. ++++|+|+-..+... ...++...++|++-.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~l~~i~~~la~~~~~~~~D~Ivg~e~~Gipl-A~~lA~~Lg~p~v~v 79 (189)
T PRK09219 4 LEERILKDGKVLSGNILKVDSFLNHQVDPKLMNEIGKEFARRFKDEGITKILTIEASGIAP-AVMAALALGVPVVFA 79 (189)
T ss_pred HHHHHhcCCEEcCCCEEEEhhhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHH-HHHHHHHHCCCEEEE
Confidence 36889999998888766664 446777887766555555443 799999988877544 345777889999854
No 497
>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=41.86 E-value=99 Score=32.15 Aligned_cols=76 Identities=9% Similarity=0.077 Sum_probs=52.5
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
++++.. +++|.......+.+.+++.|.++...... .+.......++.+.+.++|.+++....... ..++.+.
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 47888899999999999999988654222 123445567888888899988876543332 3467777
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (270)
T cd06296 76 RTGI 79 (270)
T ss_pred cCCC
Confidence 6664
No 498
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=41.78 E-value=1.5e+02 Score=32.69 Aligned_cols=97 Identities=13% Similarity=0.164 Sum_probs=62.8
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEc
Q 002368 148 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (930)
Q Consensus 148 ~ai~~~l~~~~w-~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~ 226 (930)
..+.++++.++. +++.+|.....+.. ..+.+.+.+++.| .+... +.+. .+.+.+...++++++.++|+||..+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~~-~~~~l~~~l~~~~-~~~~~--~~~~--~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKKI-AGDRVEENLEDAG-DVEVV--IVDE--ATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHHH-HHHHHHHHHHhcC-CeeEE--eCCC--CCHHHHHHHHHHhhccCCCEEEEeC
Confidence 445667777775 78888886554432 4567888888777 54322 3333 4577888889999988999999766
Q ss_pred ch--hhHHHHHHHHHHcCCCCCceEEEEeCc
Q 002368 227 YS--RTGLMVFDVAQRLGMMDSGYVWIATTW 255 (930)
Q Consensus 227 ~~--~~~~~~~~~a~~~g~~~~~~~~i~~~~ 255 (930)
.+ -|...++. ...| ..++-|-|..
T Consensus 96 GGsv~D~ak~vA--~~rg---ip~I~IPTT~ 121 (350)
T PRK00843 96 GGKVIDVAKLAA--YRLG---IPFISVPTAA 121 (350)
T ss_pred CchHHHHHHHHH--HhcC---CCEEEeCCCc
Confidence 54 56666654 2234 3455555543
No 499
>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=41.42 E-value=1e+02 Score=31.84 Aligned_cols=76 Identities=9% Similarity=0.099 Sum_probs=51.5
Q ss_pred EEEEEe--cCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhcCCceEEEEEcchhhHHHHHHHHH
Q 002368 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (930)
Q Consensus 162 vaii~~--d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~~~~~viv~~~~~~~~~~~~~~a~ 239 (930)
|++|.. ++.|-....+.+.+++++.|.++..... . .+..+....++++...++|.|++...... ...++.+.
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 466664 3566777888999999999988765322 1 12445667888888889999998764432 34555666
Q ss_pred HcCC
Q 002368 240 RLGM 243 (930)
Q Consensus 240 ~~g~ 243 (930)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd01575 76 AAGI 79 (268)
T ss_pred hcCC
Confidence 6664
No 500
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=41.20 E-value=2.9e+02 Score=26.44 Aligned_cols=85 Identities=14% Similarity=0.171 Sum_probs=0.0
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcCcchHHHHHHHHHhcCcEEEEEEecCCCCCCChhHHHHHHHHHhc---CCceEEE
Q 002368 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIV 223 (930)
Q Consensus 147 ~~ai~~~l~~~~w~~vaii~~d~~~g~~~~~~~~~~l~~~g~~i~~~~~~~~~~~~~~~d~~~~l~~l~~---~~~~viv 223 (930)
.+.+.+.+..+|-=.+.-+|.+- |... .|.+.+...|.+.. +..+ +.|+.-.+.-+.- .+.|.++
T Consensus 43 ~~~i~~~ls~~G~i~~~R~Y~~a-~a~~---~l~~~l~~~Gf~pv----~~kG----~~Dv~laIDame~~~~~~iD~~v 110 (160)
T TIGR00288 43 LDEIREILSEYGDIKIGKVLLNQ-YASD---KLIEAVVNQGFEPI----IVAG----DVDVRMAVEAMELIYNPNIDAVA 110 (160)
T ss_pred HHHHHHHHHhcCCeEEEEEEech-hccH---HHHHHHHHCCceEE----EecC----cccHHHHHHHHHHhccCCCCEEE
Q ss_pred EEcchhhHHHHHHHHHHcCC
Q 002368 224 VHGYSRTGLMVFDVAQRLGM 243 (930)
Q Consensus 224 ~~~~~~~~~~~~~~a~~~g~ 243 (930)
+.+...+...++..+++.|.
T Consensus 111 LvSgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 111 LVTRDADFLPVINKAKENGK 130 (160)
T ss_pred EEeccHhHHHHHHHHHHCCC
Done!